Query 032224
Match_columns 145
No_of_seqs 304 out of 1396
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 11:14:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032224.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032224hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0004 Ubiquitin/40S ribosoma 100.0 7.9E-48 1.7E-52 272.8 7.4 144 1-144 1-144 (156)
2 PF01599 Ribosomal_S27: Riboso 100.0 9.9E-30 2.1E-34 147.4 2.3 44 101-144 1-44 (47)
3 COG1998 RPS31 Ribosomal protei 99.9 6.3E-24 1.4E-28 122.9 2.7 43 99-144 1-43 (51)
4 cd01793 Fubi Fubi ubiquitin-li 99.9 1.5E-22 3.3E-27 129.7 9.0 74 1-76 1-74 (74)
5 PTZ00044 ubiquitin; Provisiona 99.9 4.4E-22 9.6E-27 127.8 9.5 76 1-76 1-76 (76)
6 cd01807 GDX_N ubiquitin-like d 99.9 8.2E-22 1.8E-26 126.3 8.9 73 1-73 1-73 (74)
7 cd01803 Ubiquitin Ubiquitin. U 99.9 1.5E-21 3.3E-26 124.9 9.3 76 1-76 1-76 (76)
8 cd01802 AN1_N ubiquitin-like d 99.9 1.1E-21 2.4E-26 133.3 9.1 76 1-76 28-103 (103)
9 cd01806 Nedd8 Nebb8-like ubiq 99.9 3.7E-21 8.1E-26 123.1 9.7 76 1-76 1-76 (76)
10 cd01810 ISG15_repeat2 ISG15 ub 99.9 3.5E-21 7.6E-26 123.4 8.5 74 3-76 1-74 (74)
11 cd01804 midnolin_N Ubiquitin-l 99.8 6.7E-21 1.5E-25 123.4 8.6 75 1-76 2-76 (78)
12 cd01797 NIRF_N amino-terminal 99.8 1.2E-20 2.6E-25 122.2 8.9 74 1-74 1-76 (78)
13 cd01791 Ubl5 UBL5 ubiquitin-li 99.8 2.2E-20 4.8E-25 119.5 8.0 71 1-71 2-72 (73)
14 cd01805 RAD23_N Ubiquitin-like 99.8 8.5E-20 1.8E-24 117.4 9.4 72 1-72 1-74 (77)
15 cd01800 SF3a120_C Ubiquitin-li 99.8 8E-20 1.7E-24 117.7 7.8 72 8-79 5-76 (76)
16 cd01809 Scythe_N Ubiquitin-lik 99.8 1.8E-19 3.9E-24 114.2 8.8 72 1-72 1-72 (72)
17 cd01794 DC_UbP_C dendritic cel 99.8 1.2E-19 2.7E-24 115.2 7.7 69 3-71 1-69 (70)
18 cd01798 parkin_N amino-termina 99.8 1.6E-19 3.4E-24 114.4 7.6 70 3-72 1-70 (70)
19 cd01792 ISG15_repeat1 ISG15 ub 99.8 3E-19 6.5E-24 116.1 8.0 73 1-73 3-77 (80)
20 cd01808 hPLIC_N Ubiquitin-like 99.8 1E-18 2.2E-23 111.0 8.2 71 1-72 1-71 (71)
21 PF00240 ubiquitin: Ubiquitin 99.8 1.3E-18 2.8E-23 109.5 8.0 68 6-73 1-68 (69)
22 KOG0003 Ubiquitin/60s ribosoma 99.8 5.4E-20 1.2E-24 123.3 0.6 77 1-77 1-77 (128)
23 cd01796 DDI1_N DNA damage indu 99.7 4.7E-18 1E-22 108.1 7.4 68 3-70 1-70 (71)
24 cd01763 Sumo Small ubiquitin-r 99.7 1.8E-17 3.8E-22 109.4 9.5 76 1-76 12-87 (87)
25 cd01812 BAG1_N Ubiquitin-like 99.7 1.2E-17 2.6E-22 105.6 7.7 70 1-71 1-70 (71)
26 cd01790 Herp_N Homocysteine-re 99.7 1.9E-17 4.1E-22 107.0 7.2 71 1-71 2-78 (79)
27 cd01813 UBP_N UBP ubiquitin pr 99.7 5.5E-17 1.2E-21 104.0 7.9 69 1-70 1-72 (74)
28 KOG0005 Ubiquitin-like protein 99.7 3.9E-17 8.5E-22 98.6 4.7 70 1-70 1-70 (70)
29 smart00213 UBQ Ubiquitin homol 99.7 2.8E-16 6.1E-21 96.8 7.5 64 1-65 1-64 (64)
30 cd01814 NTGP5 Ubiquitin-like N 99.6 3E-16 6.4E-21 106.8 6.0 91 2-92 6-110 (113)
31 TIGR00601 rad23 UV excision re 99.6 1.8E-15 3.8E-20 123.3 8.9 72 1-72 1-75 (378)
32 cd01799 Hoil1_N Ubiquitin-like 99.6 4.9E-15 1.1E-19 95.2 7.3 64 7-71 9-74 (75)
33 cd01815 BMSC_UbP_N Ubiquitin-l 99.5 8.4E-15 1.8E-19 93.6 4.7 56 16-71 15-74 (75)
34 cd01769 UBL Ubiquitin-like dom 99.5 3.5E-14 7.6E-19 88.5 7.5 67 5-71 2-68 (69)
35 PRK00432 30S ribosomal protein 99.5 7.9E-15 1.7E-19 86.9 3.4 43 99-145 2-44 (50)
36 PF11976 Rad60-SLD: Ubiquitin- 99.5 1.5E-13 3.2E-18 87.1 7.5 71 1-71 1-72 (72)
37 cd01795 USP48_C USP ubiquitin- 99.5 1.5E-13 3.2E-18 91.5 6.5 61 12-72 16-77 (107)
38 KOG0010 Ubiquitin-like protein 99.5 9.1E-14 2E-18 114.6 6.3 74 1-75 16-89 (493)
39 KOG0011 Nucleotide excision re 99.4 1.1E-12 2.3E-17 103.7 7.3 74 1-74 1-76 (340)
40 cd01789 Alp11_N Ubiquitin-like 99.3 1.1E-11 2.3E-16 81.3 8.4 70 2-71 3-80 (84)
41 PF14560 Ubiquitin_2: Ubiquiti 99.2 4.2E-11 9.2E-16 78.7 7.8 70 2-71 3-82 (87)
42 PF13881 Rad60-SLD_2: Ubiquiti 99.2 2.1E-10 4.5E-15 78.9 9.8 77 2-78 4-94 (111)
43 PLN02560 enoyl-CoA reductase 99.2 6.1E-11 1.3E-15 94.6 7.9 73 1-75 1-84 (308)
44 cd01788 ElonginB Ubiquitin-lik 99.2 1.1E-10 2.3E-15 79.6 7.6 77 1-77 1-85 (119)
45 KOG0001 Ubiquitin and ubiquiti 99.2 3.5E-10 7.6E-15 70.1 9.0 73 3-75 2-74 (75)
46 cd01801 Tsc13_N Ubiquitin-like 99.0 1.4E-09 3.1E-14 69.9 6.6 68 2-69 2-74 (77)
47 KOG4248 Ubiquitin-like protein 98.9 1.6E-09 3.4E-14 96.0 6.3 72 2-74 4-75 (1143)
48 PF11543 UN_NPL4: Nuclear pore 98.9 4E-09 8.7E-14 68.4 6.3 69 1-70 5-78 (80)
49 cd00196 UBQ Ubiquitin-like pro 98.8 3.8E-08 8.1E-13 58.0 7.5 66 6-71 3-68 (69)
50 cd01811 OASL_repeat1 2'-5' oli 98.6 4.9E-07 1.1E-11 57.2 7.4 70 1-71 1-75 (80)
51 KOG1769 Ubiquitin-like protein 98.5 1.2E-06 2.6E-11 58.4 8.7 76 2-77 22-97 (99)
52 KOG0006 E3 ubiquitin-protein l 98.5 2.8E-07 6E-12 73.2 5.9 73 1-73 1-77 (446)
53 KOG3493 Ubiquitin-like protein 98.4 1.3E-07 2.8E-12 58.2 2.2 69 2-70 3-71 (73)
54 KOG1872 Ubiquitin-specific pro 98.4 8.5E-07 1.8E-11 73.5 6.6 73 3-76 6-79 (473)
55 PF13019 Telomere_Sde2: Telome 98.4 3.6E-06 7.9E-11 61.2 8.7 78 1-78 1-90 (162)
56 KOG4495 RNA polymerase II tran 98.3 1.3E-06 2.8E-11 57.9 4.1 62 1-62 1-65 (110)
57 PF08817 YukD: WXG100 protein 98.1 1.3E-05 2.7E-10 51.7 6.9 68 2-69 4-78 (79)
58 PF00789 UBX: UBX domain; Int 98.0 0.00012 2.7E-09 47.1 9.0 68 2-69 8-80 (82)
59 PF11470 TUG-UBL1: GLUT4 regul 97.9 5.7E-05 1.2E-09 47.0 6.7 63 7-69 3-65 (65)
60 smart00166 UBX Domain present 97.8 0.0002 4.4E-09 46.0 7.8 68 2-69 6-78 (80)
61 COG5227 SMT3 Ubiquitin-like pr 97.7 3.6E-05 7.7E-10 50.6 3.5 76 2-77 26-101 (103)
62 PF10302 DUF2407: DUF2407 ubiq 97.7 0.0001 2.2E-09 49.4 5.5 58 2-59 2-64 (97)
63 cd01772 SAKS1_UBX SAKS1-like U 97.6 0.00062 1.3E-08 43.8 8.1 67 2-69 6-77 (79)
64 cd01770 p47_UBX p47-like ubiqu 97.5 0.00089 1.9E-08 43.2 7.6 65 2-66 6-74 (79)
65 cd01767 UBX UBX (ubiquitin reg 97.5 0.0011 2.4E-08 42.2 7.8 66 2-69 4-74 (77)
66 cd01773 Faf1_like1_UBX Faf1 ik 97.4 0.0018 3.9E-08 42.1 8.2 69 2-71 7-80 (82)
67 KOG1639 Steroid reductase requ 97.4 0.00041 9E-09 53.7 5.5 73 1-75 1-80 (297)
68 COG5417 Uncharacterized small 97.4 0.0016 3.5E-08 41.3 7.2 64 6-69 12-80 (81)
69 KOG0013 Uncharacterized conser 97.3 0.00056 1.2E-08 51.6 5.3 65 9-73 155-219 (231)
70 cd01771 Faf1_UBX Faf1 UBX doma 97.3 0.0031 6.7E-08 40.8 7.8 68 2-70 6-78 (80)
71 cd01774 Faf1_like2_UBX Faf1 ik 97.2 0.0044 9.5E-08 40.5 8.1 68 2-70 6-83 (85)
72 KOG3206 Alpha-tubulin folding 96.9 0.003 6.4E-08 47.7 6.1 73 2-74 3-83 (234)
73 PRK06437 hypothetical protein; 96.8 0.017 3.7E-07 35.9 7.9 63 5-76 5-67 (67)
74 PRK06488 sulfur carrier protei 96.6 0.019 4.1E-07 35.3 7.3 65 1-76 1-65 (65)
75 PRK08364 sulfur carrier protei 96.3 0.047 1E-06 34.1 7.6 56 12-76 15-70 (70)
76 PF15044 CLU_N: Mitochondrial 96.3 0.0072 1.6E-07 38.7 3.9 56 17-72 1-58 (76)
77 PLN02799 Molybdopterin synthas 96.3 0.02 4.4E-07 36.6 6.0 71 1-76 2-82 (82)
78 KOG4583 Membrane-associated ER 96.2 0.0022 4.8E-08 51.6 1.6 61 2-62 11-75 (391)
79 cd00754 MoaD Ubiquitin domain 96.2 0.027 5.9E-07 35.6 6.3 60 12-76 17-80 (80)
80 PF12754 Blt1: Cell-cycle cont 96.2 0.0013 2.8E-08 52.4 0.0 77 2-78 80-183 (309)
81 cd06406 PB1_P67 A PB1 domain i 96.1 0.028 6.1E-07 36.3 6.0 38 12-49 12-49 (80)
82 PF09379 FERM_N: FERM N-termin 96.1 0.091 2E-06 33.1 8.4 67 5-71 1-74 (80)
83 cd06409 PB1_MUG70 The MUG70 pr 96.0 0.03 6.4E-07 36.7 5.9 44 2-45 2-48 (86)
84 PF14836 Ubiquitin_3: Ubiquiti 96.0 0.069 1.5E-06 35.1 7.4 65 11-76 14-84 (88)
85 PF11620 GABP-alpha: GA-bindin 95.7 0.059 1.3E-06 35.2 6.2 63 12-74 4-66 (88)
86 PRK05863 sulfur carrier protei 95.7 0.072 1.6E-06 32.8 6.3 65 1-76 1-65 (65)
87 KOG0012 DNA damage inducible p 95.5 0.024 5.3E-07 46.1 4.7 70 1-70 1-74 (380)
88 PF10790 DUF2604: Protein of U 95.5 0.1 2.2E-06 32.4 6.2 65 9-73 4-72 (76)
89 cd06407 PB1_NLP A PB1 domain i 95.5 0.091 2E-06 34.1 6.5 46 1-47 1-47 (82)
90 PRK08053 sulfur carrier protei 95.4 0.2 4.4E-06 30.8 7.8 66 1-76 1-66 (66)
91 PRK05659 sulfur carrier protei 95.4 0.18 3.9E-06 30.8 7.5 66 1-76 1-66 (66)
92 TIGR01682 moaD molybdopterin c 95.1 0.18 3.9E-06 32.1 7.0 60 12-76 17-80 (80)
93 cd00565 ThiS ThiaminS ubiquiti 95.0 0.12 2.6E-06 31.6 5.9 57 15-76 9-65 (65)
94 TIGR01687 moaD_arch MoaD famil 95.0 0.16 3.4E-06 32.8 6.6 61 12-76 17-88 (88)
95 PRK06944 sulfur carrier protei 94.9 0.37 8E-06 29.2 7.7 65 1-76 1-65 (65)
96 COG5100 NPL4 Nuclear pore prot 94.9 0.15 3.3E-06 42.4 7.5 72 1-73 1-80 (571)
97 PF02597 ThiS: ThiS family; I 94.9 0.14 3.1E-06 31.8 6.0 63 12-76 13-77 (77)
98 PRK07696 sulfur carrier protei 94.6 0.45 9.8E-06 29.4 7.6 66 1-76 1-67 (67)
99 PF14453 ThiS-like: ThiS-like 94.6 0.16 3.4E-06 30.7 5.3 55 1-71 1-55 (57)
100 PRK06083 sulfur carrier protei 94.5 0.35 7.6E-06 31.5 7.2 61 9-76 24-84 (84)
101 TIGR01683 thiS thiamine biosyn 94.4 0.26 5.5E-06 30.1 6.1 61 9-76 4-64 (64)
102 smart00666 PB1 PB1 domain. Pho 94.0 0.33 7E-06 30.7 6.3 44 3-47 4-47 (81)
103 PRK07440 hypothetical protein; 94.0 0.57 1.2E-05 29.3 7.3 61 9-76 10-70 (70)
104 smart00295 B41 Band 4.1 homolo 93.0 1.6 3.5E-05 31.9 9.5 71 2-72 5-83 (207)
105 cd06408 PB1_NoxR The PB1 domai 93.0 0.63 1.4E-05 30.5 6.4 46 9-57 10-55 (86)
106 TIGR02958 sec_mycoba_snm4 secr 92.9 0.63 1.4E-05 39.3 7.9 70 2-72 4-80 (452)
107 COG2104 ThiS Sulfur transfer p 91.8 1.8 3.9E-05 27.0 7.1 58 14-76 11-68 (68)
108 KOG2689 Predicted ubiquitin re 91.8 0.62 1.3E-05 36.8 6.0 68 2-69 212-284 (290)
109 KOG2086 Protein tyrosine phosp 91.5 0.42 9E-06 39.4 5.0 65 2-66 307-375 (380)
110 smart00455 RBD Raf-like Ras-bi 90.9 1.1 2.5E-05 28.0 5.6 49 3-51 2-52 (70)
111 PRK11840 bifunctional sulfur c 90.8 1.5 3.3E-05 35.5 7.5 68 1-78 1-68 (326)
112 PF00564 PB1: PB1 domain; Int 90.8 1.2 2.6E-05 28.1 5.8 44 3-47 4-48 (84)
113 cd05992 PB1 The PB1 domain is 90.4 1.4 3.1E-05 27.5 5.9 45 2-47 2-47 (81)
114 cd01760 RBD Ubiquitin-like dom 90.2 1.3 2.8E-05 28.0 5.4 44 3-46 2-45 (72)
115 cd06411 PB1_p51 The PB1 domain 89.9 0.81 1.8E-05 29.4 4.3 36 12-47 8-43 (78)
116 cd06398 PB1_Joka2 The PB1 doma 89.9 1.5 3.2E-05 28.9 5.8 65 9-73 8-88 (91)
117 PRK11130 moaD molybdopterin sy 89.0 2.9 6.3E-05 26.5 6.6 57 15-76 19-81 (81)
118 KOG0009 Ubiquitin-like/40S rib 89.0 0.16 3.4E-06 30.7 0.5 27 77-103 8-34 (62)
119 PF02196 RBD: Raf-like Ras-bin 88.9 4 8.7E-05 25.5 8.0 55 3-57 3-59 (71)
120 PTZ00380 microtubule-associate 88.8 0.49 1.1E-05 32.9 3.0 58 15-72 45-105 (121)
121 cd06396 PB1_NBR1 The PB1 domai 88.5 1.9 4.1E-05 27.9 5.3 36 8-45 7-44 (81)
122 COG5272 UBI4 Ubiquitin [Posttr 88.4 0.085 1.8E-06 31.7 -1.0 43 79-122 3-45 (57)
123 PF14732 UAE_UbL: Ubiquitin/SU 87.0 1.5 3.3E-05 28.6 4.3 54 15-70 2-67 (87)
124 PF10209 DUF2340: Uncharacteri 86.7 1.4 3.1E-05 30.6 4.2 56 16-71 21-107 (122)
125 cd06410 PB1_UP2 Uncharacterize 86.0 3.9 8.5E-05 27.3 6.0 39 6-45 18-56 (97)
126 PF02017 CIDE-N: CIDE-N domain 86.0 3.3 7.2E-05 26.6 5.4 49 21-72 21-71 (78)
127 PF08825 E2_bind: E2 binding d 85.9 2 4.4E-05 27.9 4.4 56 15-71 1-70 (84)
128 PF14451 Ub-Mut7C: Mut7-C ubiq 85.3 5.2 0.00011 25.8 6.1 53 10-71 22-75 (81)
129 KOG4250 TANK binding protein k 85.2 2.4 5.3E-05 37.7 5.8 44 9-52 323-368 (732)
130 PF14533 USP7_C2: Ubiquitin-sp 85.2 4.1 9E-05 30.8 6.5 48 12-59 35-90 (213)
131 cd01766 Ufm1 Urm1-like ubiquit 83.9 6.8 0.00015 24.9 5.9 61 14-74 19-80 (82)
132 KOG2982 Uncharacterized conser 83.7 1.8 3.9E-05 35.2 4.1 57 14-70 351-415 (418)
133 cd01764 Urm1 Urm1-like ubuitin 83.5 2.6 5.7E-05 27.8 4.2 60 15-76 23-94 (94)
134 PF08337 Plexin_cytopl: Plexin 83.2 4.8 0.0001 34.9 6.7 64 11-74 202-291 (539)
135 cd01787 GRB7_RA RA (RAS-associ 83.0 5.9 0.00013 25.9 5.6 54 3-56 5-65 (85)
136 PRK01777 hypothetical protein; 82.5 12 0.00025 24.9 7.7 69 1-78 4-82 (95)
137 PF02991 Atg8: Autophagy prote 81.0 3.7 8E-05 27.8 4.3 58 15-72 37-98 (104)
138 PF00276 Ribosomal_L23: Riboso 79.6 5.8 0.00013 26.0 4.8 38 11-48 21-59 (91)
139 PF11706 zf-CGNR: CGNR zinc fi 79.6 0.94 2E-05 25.9 0.9 23 119-142 3-27 (44)
140 KOG2507 Ubiquitin regulatory p 78.9 4.2 9.1E-05 34.3 4.7 74 2-75 316-394 (506)
141 PRK09336 30S ribosomal protein 78.6 0.95 2.1E-05 26.5 0.7 23 75-97 5-27 (50)
142 smart00144 PI3K_rbd PI3-kinase 78.4 18 0.00038 24.4 7.9 63 11-73 29-105 (108)
143 KOG4572 Predicted DNA-binding 78.4 3.4 7.5E-05 37.6 4.3 62 9-70 3-68 (1424)
144 PF11069 DUF2870: Protein of u 78.0 3.8 8.2E-05 27.5 3.5 38 42-79 3-41 (98)
145 cd01768 RA RA (Ras-associating 77.7 13 0.00029 23.5 6.0 35 10-44 12-48 (87)
146 PF00788 RA: Ras association ( 77.2 15 0.00033 23.1 6.4 40 4-43 6-51 (93)
147 cd01777 SNX27_RA Ubiquitin dom 76.8 8.2 0.00018 25.3 4.8 40 2-41 3-42 (87)
148 cd06397 PB1_UP1 Uncharacterize 76.6 13 0.00028 24.1 5.5 43 2-45 2-44 (82)
149 cd01611 GABARAP Ubiquitin doma 76.4 5.5 0.00012 27.3 4.1 57 15-72 45-106 (112)
150 PF14533 USP7_C2: Ubiquitin-sp 76.3 2.8 6.1E-05 31.8 2.9 30 10-39 132-161 (213)
151 cd01818 TIAM1_RBD Ubiquitin do 76.2 12 0.00026 23.9 5.2 37 5-41 4-40 (77)
152 PF04758 Ribosomal_S30: Riboso 75.8 0.5 1.1E-05 28.7 -1.1 26 74-99 3-28 (59)
153 KOG0007 Splicing factor 3a, su 75.4 1.4 3E-05 35.9 1.0 49 8-56 290-339 (341)
154 PTZ00467 40S ribosomal protein 74.1 0.86 1.9E-05 28.2 -0.3 27 74-100 5-31 (66)
155 smart00266 CAD Domains present 73.8 9.5 0.00021 24.2 4.4 48 21-71 19-68 (74)
156 PF12436 USP7_ICP0_bdg: ICP0-b 73.5 4 8.6E-05 31.7 3.2 73 2-74 70-154 (249)
157 PF03671 Ufm1: Ubiquitin fold 73.3 21 0.00045 22.6 6.2 59 12-70 16-76 (76)
158 PF08783 DWNN: DWNN domain; I 72.2 16 0.00035 23.1 5.2 33 4-36 2-36 (74)
159 PRK05738 rplW 50S ribosomal pr 70.9 13 0.00028 24.5 4.7 33 10-42 20-52 (92)
160 cd01615 CIDE_N CIDE_N domain, 70.7 12 0.00026 24.0 4.3 48 21-71 21-70 (78)
161 PF09469 Cobl: Cordon-bleu ubi 70.6 7.7 0.00017 24.9 3.4 35 29-63 2-39 (79)
162 PF06234 TmoB: Toluene-4-monoo 70.2 27 0.00059 22.8 6.6 60 12-71 16-83 (85)
163 PF12436 USP7_ICP0_bdg: ICP0-b 70.0 14 0.00031 28.6 5.6 35 10-44 189-223 (249)
164 cd06539 CIDE_N_A CIDE_N domain 69.4 16 0.00034 23.5 4.6 39 21-59 21-61 (78)
165 smart00314 RA Ras association 68.2 28 0.0006 22.1 6.3 35 10-44 15-51 (90)
166 TIGR03636 L23_arch archaeal ri 68.2 16 0.00035 23.3 4.6 33 11-43 15-47 (77)
167 PF10407 Cytokin_check_N: Cdc1 67.9 28 0.00061 22.0 5.7 60 12-72 4-70 (73)
168 PF02192 PI3K_p85B: PI3-kinase 67.8 8.7 0.00019 24.6 3.3 22 13-34 2-23 (78)
169 KOG2561 Adaptor protein NUB1, 66.7 1.9 4.2E-05 36.5 0.1 59 14-72 53-111 (568)
170 cd01775 CYR1_RA Ubiquitin doma 65.7 38 0.00082 22.7 6.1 31 8-38 10-40 (97)
171 smart00154 ZnF_AN1 AN1-like Zi 65.1 4 8.8E-05 22.5 1.2 24 118-144 12-37 (39)
172 PRK14548 50S ribosomal protein 64.9 21 0.00045 23.2 4.7 34 10-43 21-54 (84)
173 PRK05978 hypothetical protein; 64.8 3.8 8.2E-05 29.5 1.3 15 117-133 32-46 (148)
174 cd01612 APG12_C Ubiquitin-like 64.4 14 0.00031 24.0 3.9 59 14-72 19-81 (87)
175 COG0089 RplW Ribosomal protein 64.2 19 0.00041 23.9 4.5 34 10-43 21-54 (94)
176 PRK09710 lar restriction allev 64.0 6.6 0.00014 24.2 2.1 21 118-140 6-26 (64)
177 cd01817 RGS12_RBD Ubiquitin do 63.8 35 0.00075 21.6 7.7 47 5-51 4-52 (73)
178 PF00794 PI3K_rbd: PI3-kinase 63.6 40 0.00087 22.3 7.2 71 2-72 18-102 (106)
179 cd06536 CIDE_N_ICAD CIDE_N dom 63.0 20 0.00043 23.1 4.2 48 21-71 21-72 (80)
180 KOG3439 Protein conjugation fa 62.3 30 0.00066 23.7 5.2 38 13-50 47-84 (116)
181 PF14803 Nudix_N_2: Nudix N-te 62.2 4.6 9.9E-05 21.7 1.0 6 137-142 21-26 (34)
182 PF09151 DUF1936: Domain of un 61.0 4.6 9.9E-05 21.3 0.8 12 120-133 3-14 (36)
183 smart00143 PI3K_p85B PI3-kinas 60.5 12 0.00027 24.0 2.9 22 13-34 2-23 (78)
184 PF11834 DUF3354: Domain of un 60.5 21 0.00045 22.3 3.9 43 21-69 26-68 (69)
185 cd06538 CIDE_N_FSP27 CIDE_N do 59.7 25 0.00054 22.6 4.3 48 21-71 21-69 (79)
186 KOG1364 Predicted ubiquitin re 58.7 11 0.00023 31.0 3.0 65 2-66 279-349 (356)
187 PF01428 zf-AN1: AN1-like Zinc 58.5 6 0.00013 22.1 1.1 25 117-144 12-38 (43)
188 KOG4598 Putative ubiquitin-spe 58.1 14 0.00029 33.5 3.7 58 12-71 878-941 (1203)
189 cd01776 Rin1_RA Ubiquitin doma 58.1 39 0.00085 22.0 4.9 42 12-53 15-61 (87)
190 CHL00030 rpl23 ribosomal prote 58.0 28 0.00061 23.0 4.4 32 10-41 19-50 (93)
191 cd06537 CIDE_N_B CIDE_N domain 57.7 32 0.00069 22.2 4.5 39 21-59 21-60 (81)
192 cd06404 PB1_aPKC PB1 domain is 56.5 44 0.00095 21.7 5.0 37 9-45 8-45 (83)
193 smart00661 RPOL9 RNA polymeras 56.1 6.9 0.00015 22.3 1.2 7 138-144 20-26 (52)
194 PF14847 Ras_bdg_2: Ras-bindin 55.5 52 0.0011 22.2 5.5 36 3-38 3-38 (105)
195 cd01782 AF6_RA_repeat1 Ubiquit 55.1 66 0.0014 22.0 6.0 37 1-37 24-62 (112)
196 PF13248 zf-ribbon_3: zinc-rib 53.5 6.9 0.00015 19.4 0.7 9 118-128 2-10 (26)
197 PRK12280 rplW 50S ribosomal pr 50.0 39 0.00085 24.6 4.5 38 10-47 22-60 (158)
198 PF01485 IBR: IBR domain; Int 49.7 11 0.00024 22.0 1.4 25 119-143 19-45 (64)
199 COG5349 Uncharacterized protei 48.8 8.2 0.00018 26.9 0.8 12 117-130 20-31 (126)
200 COG1977 MoaD Molybdopterin con 45.8 19 0.00042 23.0 2.2 55 18-76 25-84 (84)
201 PF09138 Urm1: Urm1 (Ubiquitin 45.8 42 0.00091 22.4 3.8 64 11-76 18-96 (96)
202 KOG2660 Locus-specific chromos 44.9 18 0.00039 29.4 2.3 47 13-59 166-214 (331)
203 PHA00626 hypothetical protein 44.7 17 0.00038 21.8 1.6 6 121-128 3-8 (59)
204 PF03931 Skp1_POZ: Skp1 family 44.6 19 0.00041 21.5 1.8 31 1-31 1-31 (62)
205 KOG3483 Uncharacterized conser 44.4 84 0.0018 20.2 5.3 62 15-76 31-93 (94)
206 PF04126 Cyclophil_like: Cyclo 44.3 22 0.00048 24.4 2.4 29 1-30 1-29 (120)
207 PF01376 Enterotoxin_b: Heat-l 43.8 39 0.00083 22.0 3.2 31 3-33 38-68 (102)
208 PF03658 Ub-RnfH: RnfH family 43.3 91 0.002 20.2 5.5 72 1-77 1-78 (84)
209 smart00647 IBR In Between Ring 41.3 24 0.00053 20.5 2.0 16 118-133 18-33 (64)
210 PF09358 UBA_e1_C: Ubiquitin-a 40.6 43 0.00094 23.2 3.4 25 15-39 37-61 (125)
211 KOG4146 Ubiquitin-like protein 39.8 1.1E+02 0.0025 20.3 5.3 57 19-76 34-101 (101)
212 PTZ00191 60S ribosomal protein 38.5 78 0.0017 22.7 4.5 33 10-42 82-114 (145)
213 KOG3391 Transcriptional co-rep 38.1 27 0.00059 24.9 2.0 27 49-75 113-139 (151)
214 COG4919 Ribosomal protein S30 37.8 19 0.00042 20.9 1.0 24 75-98 5-28 (54)
215 PF11816 DUF3337: Domain of un 36.6 1.2E+02 0.0027 24.4 5.9 59 15-73 252-328 (331)
216 PF13453 zf-TFIIB: Transcripti 35.5 22 0.00047 19.4 1.0 12 119-133 20-31 (41)
217 PF02505 MCR_D: Methyl-coenzym 35.4 1E+02 0.0022 22.3 4.7 44 12-59 76-120 (153)
218 COG3582 Predicted nucleic acid 35.3 65 0.0014 23.6 3.7 32 102-136 94-125 (162)
219 COG3813 Uncharacterized protei 35.3 13 0.00029 23.6 0.1 16 115-133 38-53 (84)
220 COG1327 Predicted transcriptio 33.7 14 0.00029 26.8 -0.0 21 110-133 20-40 (156)
221 COG3809 Uncharacterized protei 33.4 23 0.0005 22.8 1.0 11 119-132 22-32 (88)
222 PF02824 TGS: TGS domain; Int 32.9 1.1E+02 0.0023 18.1 6.8 59 3-70 1-59 (60)
223 PF08299 Bac_DnaA_C: Bacterial 32.6 21 0.00046 22.0 0.7 20 22-41 1-20 (70)
224 TIGR00244 transcriptional regu 32.5 31 0.00067 24.8 1.6 21 110-133 20-40 (147)
225 PF13699 DUF4157: Domain of un 32.0 96 0.0021 19.6 3.7 46 24-69 4-49 (79)
226 PF10787 YfmQ: Uncharacterised 31.6 44 0.00096 23.9 2.3 56 16-71 20-88 (149)
227 TIGR03260 met_CoM_red_D methyl 31.5 1.3E+02 0.0028 21.8 4.6 43 13-59 76-118 (150)
228 PF06677 Auto_anti-p27: Sjogre 31.4 43 0.00093 18.7 1.8 25 117-144 16-40 (41)
229 KOG3173 Predicted Zn-finger pr 31.2 23 0.00049 26.0 0.8 17 125-142 123-141 (167)
230 PF13180 PDZ_2: PDZ domain; PD 31.0 90 0.002 19.2 3.5 55 11-73 15-71 (82)
231 cd04482 RPA2_OBF_like RPA2_OBF 30.6 1.5E+02 0.0033 19.1 6.0 46 59-127 46-91 (91)
232 COG1198 PriA Primosomal protei 30.5 34 0.00073 31.0 1.9 21 120-144 446-471 (730)
233 PF08154 NLE: NLE (NUC135) dom 29.3 1.3E+02 0.0029 18.0 5.8 40 13-52 18-59 (65)
234 PF08271 TF_Zn_Ribbon: TFIIB z 29.3 46 0.001 18.3 1.7 13 120-134 2-14 (43)
235 PF03119 DNA_ligase_ZBD: NAD-d 29.1 36 0.00079 17.2 1.1 20 120-141 1-20 (28)
236 cd06535 CIDE_N_CAD CIDE_N doma 29.1 1.3E+02 0.0028 19.2 3.9 31 21-51 21-53 (77)
237 PRK00420 hypothetical protein; 28.8 38 0.00081 23.3 1.5 25 117-144 22-46 (112)
238 COG5131 URM1 Ubiquitin-like pr 28.7 1.8E+02 0.0039 19.3 6.3 67 10-76 17-96 (96)
239 TIGR02098 MJ0042_CXXC MJ0042 f 28.4 41 0.00089 17.8 1.4 11 120-133 27-37 (38)
240 smart00760 Bac_DnaA_C Bacteria 28.3 36 0.00079 20.1 1.2 20 22-41 1-20 (60)
241 PF06906 DUF1272: Protein of u 28.0 28 0.0006 20.9 0.6 14 116-132 39-52 (57)
242 PF14369 zf-RING_3: zinc-finge 28.0 32 0.0007 18.4 0.9 10 120-132 23-32 (35)
243 PF11305 DUF3107: Protein of u 27.7 1.7E+02 0.0036 18.6 5.1 34 1-35 1-34 (74)
244 PF03147 FDX-ACB: Ferredoxin-f 27.6 1.1E+02 0.0024 19.6 3.6 39 12-50 9-49 (94)
245 COG2080 CoxS Aerobic-type carb 27.4 94 0.002 22.6 3.4 27 1-28 2-28 (156)
246 PHA02637 TNF-alpha-receptor-li 27.0 46 0.00099 23.4 1.7 15 119-135 42-56 (127)
247 PF01666 DX: DX module; Inter 26.5 1.5E+02 0.0033 18.7 3.9 42 99-141 29-72 (76)
248 PF01187 MIF: Macrophage migra 26.0 82 0.0018 21.1 2.8 24 23-46 76-99 (114)
249 KOG1654 Microtubule-associated 25.5 94 0.002 21.4 2.9 42 15-56 49-91 (116)
250 COG1545 Predicted nucleic-acid 25.3 43 0.00094 23.6 1.4 34 104-145 17-50 (140)
251 KOG4147 Uncharacterized conser 25.0 59 0.0013 22.3 1.9 22 49-70 89-111 (127)
252 PF04135 Nop10p: Nucleolar RNA 25.0 1.2E+02 0.0026 17.9 3.0 25 111-138 10-34 (53)
253 PRK13130 H/ACA RNA-protein com 24.8 39 0.00084 20.2 0.9 20 116-138 15-34 (56)
254 PF12143 PPO1_KFDV: Protein of 24.8 68 0.0015 22.5 2.3 27 51-77 92-118 (130)
255 PF07929 PRiA4_ORF3: Plasmid p 24.7 2.5E+02 0.0054 20.2 5.4 40 2-41 6-48 (179)
256 PRK14810 formamidopyrimidine-D 24.3 65 0.0014 25.3 2.3 24 119-144 245-270 (272)
257 PF13439 Glyco_transf_4: Glyco 24.0 87 0.0019 21.1 2.7 27 24-51 148-174 (177)
258 PF12760 Zn_Tnp_IS1595: Transp 24.0 61 0.0013 18.1 1.6 22 120-144 20-43 (46)
259 PRK11347 antitoxin ChpS; Provi 23.4 68 0.0015 20.6 1.9 18 55-72 20-37 (83)
260 TIGR02008 fdx_plant ferredoxin 23.4 1.7E+02 0.0036 18.9 3.9 26 2-27 4-29 (97)
261 PRK00464 nrdR transcriptional 23.4 50 0.0011 23.9 1.4 19 112-133 22-40 (154)
262 KOG4842 Protein involved in si 23.3 27 0.00058 27.6 -0.0 64 9-72 11-98 (278)
263 PF14807 AP4E_app_platf: Adapt 23.2 2.4E+02 0.0053 18.9 4.8 55 18-73 28-86 (104)
264 PF13085 Fer2_3: 2Fe-2S iron-s 23.0 1.1E+02 0.0024 20.8 3.0 23 12-34 20-42 (110)
265 PRK13552 frdB fumarate reducta 22.5 1.4E+02 0.0031 22.9 3.9 24 11-34 24-47 (239)
266 cd01666 TGS_DRG_C TGS_DRG_C: 22.5 2.1E+02 0.0045 17.9 5.9 64 2-70 3-74 (75)
267 PLN02294 cytochrome c oxidase 22.5 1E+02 0.0022 22.8 2.9 24 103-134 131-154 (174)
268 PF01282 Ribosomal_S24e: Ribos 22.1 1.7E+02 0.0036 18.8 3.6 25 19-43 11-35 (84)
269 PF14787 zf-CCHC_5: GAG-polypr 21.9 43 0.00093 18.2 0.6 10 119-130 3-12 (36)
270 TIGR00824 EIIA-man PTS system, 21.6 2.6E+02 0.0057 18.7 4.7 33 11-43 29-62 (116)
271 PF09269 DUF1967: Domain of un 21.6 55 0.0012 20.2 1.1 16 54-69 47-62 (69)
272 PRK14811 formamidopyrimidine-D 21.5 78 0.0017 24.8 2.2 24 119-144 236-261 (269)
273 cd02413 40S_S3_KH K homology R 21.1 2.3E+02 0.005 17.9 5.0 24 20-43 49-72 (81)
274 PRK02220 4-oxalocrotonate taut 20.8 1.8E+02 0.004 16.6 3.9 31 15-45 6-43 (61)
275 COG2029 Uncharacterized conser 20.6 38 0.00083 25.0 0.3 28 42-69 12-39 (189)
276 KOG2013 SMT3/SUMO-activating c 20.4 1.8E+02 0.0039 25.4 4.3 55 13-69 445-508 (603)
277 PLN02593 adrenodoxin-like ferr 20.0 2.4E+02 0.0053 19.1 4.2 27 1-27 1-27 (117)
No 1
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.9e-48 Score=272.85 Aligned_cols=144 Identities=86% Similarity=1.276 Sum_probs=142.6
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcccc
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKKR 80 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k~ 80 (145)
|+|+|+.+.++++.+++.+++||..+|+.|+..+|||+++|+|+|.|++|+|..+|+||+|+..+||+++++++||+++|
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~kkr 80 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGAKKR 80 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCcccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccCCcccccccceeeeeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224 81 KKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV 144 (145)
Q Consensus 81 ~k~~~~~pk~~k~~~kk~k~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~ 144 (145)
+++.|++|++++|.++++++++++||++|++|+|++++++||++.||+|||||.|+||+|||+|
T Consensus 81 kkk~~~~pk~~~~~~kk~~l~~~~y~kvd~ngkiq~l~~~~~~~~~~~~v~~a~~~~r~y~gkc 144 (156)
T KOG0004|consen 81 KKKSYTTPKKIKSKHKKVSLAVLKYYKVDENGKVQRLRRECPNPACGAGVFMASHADRHYCGKC 144 (156)
T ss_pred cccccccccccCCCccccccCCccceeeccCcchhhhhhhcCCcccccceeccccccccccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999997
No 2
>PF01599 Ribosomal_S27: Ribosomal protein S27a; InterPro: IPR002906 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesized as a C-terminal extension of ubiquitin (CEP) (IPR000626 from INTERPRO). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis []. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2K4X_A 3U5C_f 3U5G_f 2XZN_9 2XZM_9.
Probab=99.95 E-value=9.9e-30 Score=147.39 Aligned_cols=44 Identities=68% Similarity=1.278 Sum_probs=37.2
Q ss_pred eeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224 101 AVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV 144 (145)
Q Consensus 101 ~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~ 144 (145)
|||+||+||++|+|+|++++|||++||+|||||+|+||+|||||
T Consensus 1 AvlkyYkvd~~Gkv~r~rk~CP~~~CG~GvFMA~H~dR~~CGKC 44 (47)
T PF01599_consen 1 AVLKYYKVDENGKVKRLRKECPSPRCGAGVFMAEHKDRHYCGKC 44 (47)
T ss_dssp S----CEEETTTEEEESSEE-TSTTTTSSSEEEE-SSEEEETTT
T ss_pred CcceEEEECCCCcEEEhhhcCCCcccCCceEeeecCCCccCCCc
Confidence 68999999999999999999999999999999999999999998
No 3
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=6.3e-24 Score=122.86 Aligned_cols=43 Identities=51% Similarity=0.962 Sum_probs=40.4
Q ss_pred eeeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCC
Q 032224 99 KLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFV 144 (145)
Q Consensus 99 k~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~ 144 (145)
++++++||+|+ +++|.|+++.|| +||+|+|||.|.|||+||||
T Consensus 1 ~~~~~~yY~v~-~~kv~rk~~~CP--rCG~gvfmA~H~dR~~CGkC 43 (51)
T COG1998 1 KMAVLKYYEVD-DEKVKRKNRFCP--RCGPGVFMADHKDRWACGKC 43 (51)
T ss_pred CccceeEEEEc-CCcEEEccccCC--CCCCcchhhhcCceeEeccc
Confidence 36889999999 678999999999 99999999999999999998
No 4
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.88 E-value=1.5e-22 Score=129.70 Aligned_cols=74 Identities=41% Similarity=0.621 Sum_probs=71.6
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+||. ++++.++|++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|+|+++++|+++++++||
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 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG 74 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence 8999997 4789999999999999999999999999999999999999999999999999999999999999997
No 5
>PTZ00044 ubiquitin; Provisional
Probab=99.88 E-value=4.4e-22 Score=127.85 Aligned_cols=76 Identities=50% Similarity=0.822 Sum_probs=74.6
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+++++++|+++++++||
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 8999999999999999999999999999999999999999999999999999999999999999999999999886
No 6
>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=99.87 E-value=8.2e-22 Score=126.27 Aligned_cols=73 Identities=36% Similarity=0.653 Sum_probs=71.3
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~ 73 (145)
|+|+|+..+|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|++++++
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 8999999999999999999999999999999999999999999999999999999999999999999999875
No 7
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.87 E-value=1.5e-21 Score=124.92 Aligned_cols=76 Identities=96% Similarity=1.322 Sum_probs=74.5
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+++++++|++.++++||
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 8999999999999999999999999999999999999999999999999999999999999999999999999987
No 8
>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=99.87 E-value=1.1e-21 Score=133.25 Aligned_cols=76 Identities=51% Similarity=0.763 Sum_probs=74.6
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+|+.++|+++.++|++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+++++++||
T Consensus 28 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 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG 103 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999999987
No 9
>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=99.86 E-value=3.7e-21 Score=123.13 Aligned_cols=76 Identities=55% Similarity=0.965 Sum_probs=74.3
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|++++|++|+++++++||
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 8999999999999999999999999999999999999999999999999999999999999999999999999886
No 10
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.85 E-value=3.5e-21 Score=123.36 Aligned_cols=74 Identities=32% Similarity=0.618 Sum_probs=72.1
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+++.|+++.+++++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|||+++++|++++++.||
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 68999999999999999999999999999999999999999999999999999999999999999999999886
No 11
>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=99.85 E-value=6.7e-21 Score=123.36 Aligned_cols=75 Identities=25% Similarity=0.491 Sum_probs=73.0
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+|++..|+.+.+++++++||++||++|++..++|+++|+|+|+|+.|+|+ +|++|||+++++|+++..+.||
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~ 76 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAG 76 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeecccc
Confidence 89999999999999999999999999999999999999999999999999999 9999999999999999999887
No 12
>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=99.84 E-value=1.2e-20 Score=122.19 Aligned_cols=74 Identities=36% Similarity=0.634 Sum_probs=70.9
Q ss_pred CEEEEEeCCCCE-EEEE-EcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224 1 MQIFVKTLTGKT-ITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (145)
Q Consensus 1 M~I~Vk~~~g~~-~~l~-V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~ 74 (145)
|+|+|++.+|++ +.++ +++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|++++++.
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~ 76 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD 76 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 899999999997 7895 8999999999999999999999999999999999999999999999999999999875
No 13
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.83 E-value=2.2e-20 Score=119.50 Aligned_cols=71 Identities=24% Similarity=0.378 Sum_probs=68.6
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
|+|+|+++.|+.+.+++++++||++||++|++..|+|+++|+|+|+|+.|+|+.+|++|||++|++|||..
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 78999999999999999999999999999999999999999999999999999999999999999999864
No 14
>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=99.82 E-value=8.5e-20 Score=117.39 Aligned_cols=72 Identities=39% Similarity=0.725 Sum_probs=70.1
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCC--CcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI--PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gi--p~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
|+|+|++.+|+++.+++++++||++||++|++.+|+ |+++|+|+|+|+.|+|+.+|++|||++|++|+++++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~ 74 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVS 74 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEe
Confidence 899999999999999999999999999999999999 999999999999999999999999999999999876
No 15
>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=99.81 E-value=8e-20 Score=117.68 Aligned_cols=72 Identities=35% Similarity=0.676 Sum_probs=68.7
Q ss_pred CCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCccc
Q 032224 8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAKK 79 (145)
Q Consensus 8 ~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~k 79 (145)
++|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|+|+++++|+|+++++||++|
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~~~ 76 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGRKK 76 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCcCC
Confidence 478999999999999999999999999999999999999999999999999999999999999999998753
No 16
>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=99.81 E-value=1.8e-19 Score=114.15 Aligned_cols=72 Identities=44% Similarity=0.704 Sum_probs=69.7
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
|+|+|+.++|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++||+++|++|+++.+
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVKR 72 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEeC
Confidence 899999999999999999999999999999999999999999999999999999999999999999998763
No 17
>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=99.81 E-value=1.2e-19 Score=115.16 Aligned_cols=69 Identities=36% Similarity=0.587 Sum_probs=66.3
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
+.|+.++|+++.+++++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|+|+++++|||++
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 357889999999999999999999999999999999999999999999999999999999999999986
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=99.80 E-value=1.6e-19 Score=114.43 Aligned_cols=70 Identities=39% Similarity=0.733 Sum_probs=67.4
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
|+|++.+|+++.+++++++||++||++|++.+|+|+++|+|+|+|++|+|+.+|++|||+++++|+++.|
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 6899999999999999999999999999999999999999999999999999999999999999999864
No 19
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.80 E-value=3e-19 Score=116.07 Aligned_cols=73 Identities=32% Similarity=0.431 Sum_probs=70.3
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceee--eeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL--IFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L--~~~G~~L~d~~tL~~~gi~~~sti~l~~~~ 73 (145)
|+|+|+..+|+++.+++++++||++||++|++..|+|+++|+| +|+|+.|+|+.+|++|||++|++|+++++-
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 7899999999999999999999999999999999999999999 899999999999999999999999999873
No 20
>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=99.78 E-value=1e-18 Score=110.98 Aligned_cols=71 Identities=34% Similarity=0.489 Sum_probs=67.3
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
|+|+|++.+|+ ..+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||+++++|+++++
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 68999999997 589999999999999999999999999999999999999999999999999999999874
No 21
>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=99.78 E-value=1.3e-18 Score=109.51 Aligned_cols=68 Identities=56% Similarity=0.962 Sum_probs=65.1
Q ss_pred EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (145)
Q Consensus 6 k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~ 73 (145)
|+++|+++.++|++++||.+||++|++.+++|++.|+|+|+|+.|+|+.+|++|||.++++|++++++
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~ 68 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKP 68 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESS
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEec
Confidence 56789999999999999999999999999999999999999999999999999999999999998864
No 22
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=5.4e-20 Score=123.32 Aligned_cols=77 Identities=97% Similarity=1.316 Sum_probs=75.4
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA 77 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~ 77 (145)
|+++++.+.|++++++++|++||..+|+.|....|||++.|+|+|+|++|+|..||++|||+..+||+++++++||-
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~ 77 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGI 77 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCC
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999994
No 23
>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=99.75 E-value=4.7e-18 Score=108.09 Aligned_cols=68 Identities=35% Similarity=0.543 Sum_probs=64.1
Q ss_pred EEEEeC-CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCC-CccccccccCCCEEEEE
Q 032224 3 IFVKTL-TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDG-RTLADYNIQKESTLHLV 70 (145)
Q Consensus 3 I~Vk~~-~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~-~tL~~~gi~~~sti~l~ 70 (145)
|+|++. +|+++.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+ .+|++|||+++++|+|.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 578999 899999999999999999999999999999999999999999987 68999999999999874
No 24
>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=99.74 E-value=1.8e-17 Score=109.40 Aligned_cols=76 Identities=18% Similarity=0.467 Sum_probs=74.2
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+|++.+|+.+.+.|.+++|+..|++++++..|+|+++|+|+|+|+.|+++.|+++|+++++++|++++++.||
T Consensus 12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~GG 87 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTGG 87 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEecccC
Confidence 6899999999999999999999999999999999999999999999999999999999999999999999999997
No 25
>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=99.74 E-value=1.2e-17 Score=105.55 Aligned_cols=70 Identities=29% Similarity=0.469 Sum_probs=66.5
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
|+|+|+.. |+.+.+++++++||++||++|++.+|+|+++|+|+|+|+.|+|+.+|++|||++|++|+++.
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 68999986 88999999999999999999999999999999999999999999999999999999998864
No 26
>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=99.72 E-value=1.9e-17 Score=107.04 Aligned_cols=71 Identities=25% Similarity=0.282 Sum_probs=63.5
Q ss_pred CEEEEEeCCCCE--EEEEEcCCCcHHHHHHHHHHHhC--CCcCceeeeeCCeeccCCCcccccc--ccCCCEEEEEE
Q 032224 1 MQIFVKTLTGKT--ITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYN--IQKESTLHLVL 71 (145)
Q Consensus 1 M~I~Vk~~~g~~--~~l~V~~~~TV~~LK~~I~~~~g--ip~~~q~L~~~G~~L~d~~tL~~~g--i~~~sti~l~~ 71 (145)
|.|+||+++++. +.+++++++||.+||++|++..+ .|+++|+|+|+|+.|+|+.+|++|. +.++.+|||+.
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 579999999998 45555899999999999999874 5579999999999999999999996 99999999985
No 27
>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=99.71 E-value=5.5e-17 Score=104.02 Aligned_cols=69 Identities=23% Similarity=0.427 Sum_probs=65.0
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee---CCeeccCCCccccccccCCCEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQLEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~---~G~~L~d~~tL~~~gi~~~sti~l~ 70 (145)
|.|.|+. +|+++.++|++++||++||++|++.+|+|+++|+|+| .|+.|+|+.+|++|+|++|+.|+|+
T Consensus 1 ~~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 1 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence 6788886 6889999999999999999999999999999999996 8999999999999999999999886
No 28
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.69 E-value=3.9e-17 Score=98.58 Aligned_cols=70 Identities=54% Similarity=0.911 Sum_probs=67.8
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~ 70 (145)
|.|.|++++|+.+.++++|+++|..+|+.|++..||||.+|+|+|.|+++.|+.+-++|.+.-||.+|++
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHlv 70 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHLV 70 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEeeC
Confidence 7899999999999999999999999999999999999999999999999999999999999999999874
No 29
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.67 E-value=2.8e-16 Score=96.77 Aligned_cols=64 Identities=61% Similarity=0.864 Sum_probs=61.3
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKES 65 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~s 65 (145)
|+|+|+..+ ..+.++|++++||++||++|+..+|+|+++|+|+|+|+.|+|+.+|++|||++|+
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 899999998 7899999999999999999999999999999999999999999999999999875
No 30
>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=99.65 E-value=3e-16 Score=106.85 Aligned_cols=91 Identities=25% Similarity=0.317 Sum_probs=77.8
Q ss_pred EEEEEeCCCCE-EEEEEcCCCcHHHHHHHHHHHh-----CCC--cCceeeeeCCeeccCCCcccccc------ccCCCEE
Q 032224 2 QIFVKTLTGKT-ITLEVESSDTIDNVKAKIQDKE-----GIP--PDQQRLIFAGKQLEDGRTLADYN------IQKESTL 67 (145)
Q Consensus 2 ~I~Vk~~~g~~-~~l~V~~~~TV~~LK~~I~~~~-----gip--~~~q~L~~~G~~L~d~~tL~~~g------i~~~sti 67 (145)
.|.+|..+|.. =++.+++++||++||++|++.. ++| +++|+|+|+|++|+|+.||++|+ +....|+
T Consensus 6 e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~Tm 85 (113)
T cd01814 6 EIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITM 85 (113)
T ss_pred EEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEE
Confidence 57788888875 4678899999999999999555 455 99999999999999999999999 6777999
Q ss_pred EEEEEecCCccccccccccCCcccc
Q 032224 68 HLVLRLRGGAKKRKKKTYTKPKKIK 92 (145)
Q Consensus 68 ~l~~~~~gg~~k~~k~~~~~pk~~k 92 (145)
||++++....++.+|+....|+...
T Consensus 86 Hvvlr~~~~~~~~~k~~~~~~~~~~ 110 (113)
T cd01814 86 HVVVQPPLADKKTEKKVDKAPKAVI 110 (113)
T ss_pred EEEecCCCCCccccccccCCcccCC
Confidence 9999999888887787777777653
No 31
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.62 E-value=1.8e-15 Score=123.32 Aligned_cols=72 Identities=31% Similarity=0.618 Sum_probs=69.9
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC---CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG---IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g---ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
|+|+||+++|+++.|+|++++||.+||++|+...| +|+++|+|+|+|++|+|+.+|++|+|+++++|++++.
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~ 75 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVS 75 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEec
Confidence 89999999999999999999999999999999998 9999999999999999999999999999999998875
No 32
>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=99.59 E-value=4.9e-15 Score=95.18 Aligned_cols=64 Identities=30% Similarity=0.372 Sum_probs=58.4
Q ss_pred eCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeecc-CCCcccccccc-CCCEEEEEE
Q 032224 7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQ-KESTLHLVL 71 (145)
Q Consensus 7 ~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~-d~~tL~~~gi~-~~sti~l~~ 71 (145)
...|.++.++|++++||++||++|++.+|+|+++|+| |+|+.|. |+.+|++||++ +|++++|.+
T Consensus 9 ~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 9 QSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred ccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 3467899999999999999999999999999999999 9999885 77999999998 889999864
No 33
>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=99.54 E-value=8.4e-15 Score=93.61 Aligned_cols=56 Identities=32% Similarity=0.555 Sum_probs=50.2
Q ss_pred EEc-CCCcHHHHHHHHHHHh--CCC-cCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 16 EVE-SSDTIDNVKAKIQDKE--GIP-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 16 ~V~-~~~TV~~LK~~I~~~~--gip-~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
+|+ .++||.+||++|++.. +++ +++|+|+|.|+.|+|+.+|++|||+++++||++.
T Consensus 15 ~~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 15 DVSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred CcCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 344 4789999999999995 575 8999999999999999999999999999999874
No 34
>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=99.54 E-value=3.5e-14 Score=88.47 Aligned_cols=67 Identities=67% Similarity=0.992 Sum_probs=63.5
Q ss_pred EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
|+..+|+.+.+++++++||.+||++|+..+|+|+++|+|+|+|+.|+|+.+|++|++.++++|++..
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 6777899999999999999999999999999999999999999999999999999999999998864
No 35
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=99.52 E-value=7.9e-15 Score=86.93 Aligned_cols=43 Identities=51% Similarity=0.969 Sum_probs=40.1
Q ss_pred eeeeeeeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCCC
Q 032224 99 KLAVLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP 145 (145)
Q Consensus 99 k~~v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~~ 145 (145)
++++++||+|+ +++|.++++.|| +||++ |||.|.+|++||+|.
T Consensus 2 ~~~~~~~y~v~-~~~v~~~~~fCP--~Cg~~-~m~~~~~r~~C~~Cg 44 (50)
T PRK00432 2 KMAKREYYEVD-GGKVKRKNKFCP--RCGSG-FMAEHLDRWHCGKCG 44 (50)
T ss_pred CcceeeeEEEC-CCEEEEccCcCc--CCCcc-hheccCCcEECCCcC
Confidence 68999999998 669999999999 89999 999999999999984
No 36
>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=99.49 E-value=1.5e-13 Score=87.11 Aligned_cols=71 Identities=34% Similarity=0.633 Sum_probs=66.0
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-CceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
|+|+|+..+|+.+.+.|.+++++..|.+.+++..++|+ +.++|+|+|+.|+++.|++++|+.+|++|+|++
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 68999999999999999999999999999999999999 999999999999999999999999999999874
No 37
>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=99.47 E-value=1.5e-13 Score=91.45 Aligned_cols=61 Identities=28% Similarity=0.335 Sum_probs=56.9
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeecc-CCCccccccccCCCEEEEEEE
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLE-DGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~-d~~tL~~~gi~~~sti~l~~~ 72 (145)
...++|++++||.+||.+|.+.+++||++|+|+++|+.|. |..||++|||.++++|.|.+.
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llid 77 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKAD 77 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEec
Confidence 4678999999999999999999999999999999999885 568999999999999999875
No 38
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.46 E-value=9.1e-14 Score=114.63 Aligned_cols=74 Identities=36% Similarity=0.577 Sum_probs=69.4
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 75 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g 75 (145)
+.|+||+.++ .+.|.|..+.||.+||+.|...+++++++++|+|.|++|.|+.+|..|||++|.||||+++..-
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~~ 89 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQP 89 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccCC
Confidence 4688998876 8999999999999999999999999999999999999999999999999999999999998553
No 39
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=99.38 E-value=1.1e-12 Score=103.68 Aligned_cols=74 Identities=38% Similarity=0.657 Sum_probs=70.7
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC--CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g--ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~ 74 (145)
|+|+||++.+++|++++.|++||.++|..|+...| +|++.|+|+|+|+.|.|+.++.+|+|.++.-|.|++.-.
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~ 76 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD 76 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence 89999999999999999999999999999999999 999999999999999999999999999999998888643
No 40
>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=99.33 E-value=1.1e-11 Score=81.28 Aligned_cols=70 Identities=21% Similarity=0.379 Sum_probs=58.8
Q ss_pred EEEEEeCC-CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCe-----ec-cCCCccccccccCCCEEEEEE
Q 032224 2 QIFVKTLT-GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK-----QL-EDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 2 ~I~Vk~~~-g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~-----~L-~d~~tL~~~gi~~~sti~l~~ 71 (145)
.|+|.... ....+..+++++||++||++++..+|+||+.|+|. |.|. .| +|+.+|++||+++|++|||+-
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD 80 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID 80 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence 46666543 33456679999999999999999999999999995 7887 45 677899999999999999874
No 41
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=99.25 E-value=4.2e-11 Score=78.73 Aligned_cols=70 Identities=27% Similarity=0.538 Sum_probs=57.7
Q ss_pred EEEEEeCCC--CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC----Ce---ec-cCCCccccccccCCCEEEEEE
Q 032224 2 QIFVKTLTG--KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA----GK---QL-EDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 2 ~I~Vk~~~g--~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~----G~---~L-~d~~tL~~~gi~~~sti~l~~ 71 (145)
.|+|.+... ...+..+++++||++||++|+..+|+|++.|+|.+. +. .+ +|+.+|++||+.+|.+|+|.-
T Consensus 3 ~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~D 82 (87)
T PF14560_consen 3 KLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVVD 82 (87)
T ss_dssp EEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEEE
T ss_pred EEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEEe
Confidence 577777654 488899999999999999999999999999999865 21 23 578999999999999999874
No 42
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=99.20 E-value=2.1e-10 Score=78.87 Aligned_cols=77 Identities=29% Similarity=0.466 Sum_probs=57.7
Q ss_pred EEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhC-------CCcCceeeeeCCeeccCCCccccccccCCC------EE
Q 032224 2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEG-------IPPDQQRLIFAGKQLEDGRTLADYNIQKES------TL 67 (145)
Q Consensus 2 ~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~g-------ip~~~q~L~~~G~~L~d~~tL~~~gi~~~s------ti 67 (145)
.|.++..+|. .-++.+++++||++||+.|...+. ..++.++|+|.|+.|+|+.+|+++.+..++ ++
T Consensus 4 ~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vm 83 (111)
T PF13881_consen 4 ELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVM 83 (111)
T ss_dssp EEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEE
T ss_pred EEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEE
Confidence 5677777999 788999999999999999987652 234679999999999999999999987766 57
Q ss_pred EEEEEecCCcc
Q 032224 68 HLVLRLRGGAK 78 (145)
Q Consensus 68 ~l~~~~~gg~~ 78 (145)
||++++.....
T Consensus 84 Hlvvrp~~~~~ 94 (111)
T PF13881_consen 84 HLVVRPNAPEP 94 (111)
T ss_dssp EEEE-SSSSSS
T ss_pred EEEecCCCCCc
Confidence 88887665443
No 43
>PLN02560 enoyl-CoA reductase
Probab=99.20 E-value=6.1e-11 Score=94.58 Aligned_cols=73 Identities=32% Similarity=0.544 Sum_probs=63.6
Q ss_pred CEEEEEeCCCCEE---EEEEcCCCcHHHHHHHHHHHhCC-CcCceeeeeC---C----eeccCCCccccccccCCCEEEE
Q 032224 1 MQIFVKTLTGKTI---TLEVESSDTIDNVKAKIQDKEGI-PPDQQRLIFA---G----KQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 1 M~I~Vk~~~g~~~---~l~V~~~~TV~~LK~~I~~~~gi-p~~~q~L~~~---G----~~L~d~~tL~~~gi~~~sti~l 69 (145)
|+|+|+..+|+.+ ++++++++||+|||++|++..++ ++++|+|.+. | ..|+|+.+|+++|++++++|+
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy- 79 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVV- 79 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEE-
Confidence 8999998889886 79999999999999999999986 8999999973 3 378999999999999999865
Q ss_pred EEEecC
Q 032224 70 VLRLRG 75 (145)
Q Consensus 70 ~~~~~g 75 (145)
++.+|
T Consensus 80 -~kDLG 84 (308)
T PLN02560 80 -FKDLG 84 (308)
T ss_pred -EEeCC
Confidence 45555
No 44
>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=99.19 E-value=1.1e-10 Score=79.57 Aligned_cols=77 Identities=30% Similarity=0.437 Sum_probs=66.3
Q ss_pred CEEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccc-------cCCCEEEEEEE
Q 032224 1 MQIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI-------QKESTLHLVLR 72 (145)
Q Consensus 1 M~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi-------~~~sti~l~~~ 72 (145)
|.+|++....+ ++.++..++.||.+||+.|+.....||++|+|+-.+..|+|+++|++||+ ++.++|-|.++
T Consensus 1 MdvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r 80 (119)
T cd01788 1 MDVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR 80 (119)
T ss_pred CceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence 66777766555 68889999999999999999999999999999977789999999999999 66888888887
Q ss_pred ecCCc
Q 032224 73 LRGGA 77 (145)
Q Consensus 73 ~~gg~ 77 (145)
...|.
T Consensus 81 ~~d~~ 85 (119)
T cd01788 81 SSDDT 85 (119)
T ss_pred cCCCC
Confidence 54443
No 45
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=99.17 E-value=3.5e-10 Score=70.10 Aligned_cols=73 Identities=84% Similarity=1.145 Sum_probs=68.4
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecC
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRG 75 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~g 75 (145)
+++....|+++.+.+.+..++..+|.+|+...++|++.|++.+.|+.|+|+.+|.+|+|..++++++..++.+
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~~ 74 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLRG 74 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecCC
Confidence 5677788999999999999999999999999999999999999999999999999999999999999988653
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=99.00 E-value=1.4e-09 Score=69.89 Aligned_cols=68 Identities=26% Similarity=0.318 Sum_probs=53.9
Q ss_pred EEEEEeCC-CCEEEEEE-cCCCcHHHHHHHHHHHhC-CCcCceeee--eCCeeccCCCccccccccCCCEEEE
Q 032224 2 QIFVKTLT-GKTITLEV-ESSDTIDNVKAKIQDKEG-IPPDQQRLI--FAGKQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 2 ~I~Vk~~~-g~~~~l~V-~~~~TV~~LK~~I~~~~g-ip~~~q~L~--~~G~~L~d~~tL~~~gi~~~sti~l 69 (145)
+|.++..+ .....+++ +++.||.+||+.|+...+ +++++|+|. +.|+.|.|+.+|+++|+.+|++|++
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 45665554 33222333 588999999999999876 578999885 8899999999999999999999876
No 47
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=1.6e-09 Score=96.00 Aligned_cols=72 Identities=35% Similarity=0.607 Sum_probs=68.9
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~ 74 (145)
.|+||+++.++.+|.|...+||.+||+.|.+..+|+.+.|||+|.|+.|.|++++.+|+| +|-+|||+-|+.
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverpp 75 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPP 75 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCC
Confidence 478999999999999999999999999999999999999999999999999999999999 999999998854
No 48
>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=98.92 E-value=4e-09 Score=68.44 Aligned_cols=69 Identities=29% Similarity=0.434 Sum_probs=43.5
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC---eec--cCCCccccccccCCCEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG---KQL--EDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G---~~L--~d~~tL~~~gi~~~sti~l~ 70 (145)
|-|.|++.+| ++.|++++++|+.+|+++|++..++|.+.|.|..+. ..| .++.+|+++||+.|+.|+|.
T Consensus 5 milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 5677887765 778899999999999999999999999999886432 244 46789999999999999874
No 49
>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=98.81 E-value=3.8e-08 Score=58.02 Aligned_cols=66 Identities=45% Similarity=0.659 Sum_probs=59.9
Q ss_pred EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 6 k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
+..++....+.+++++|+.+|++.|.+..|++++.+.|+++|..+.+...+.++++.++++|++..
T Consensus 3 ~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 3 KLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred EecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 344678889999999999999999999999999999999999999999888899999999998764
No 50
>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=98.56 E-value=4.9e-07 Score=57.23 Aligned_cols=70 Identities=29% Similarity=0.407 Sum_probs=60.2
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC---C--eeccCCCccccccccCCCEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA---G--KQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~---G--~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
+||+|+...+..+.+.|+|..+|..||++|....+++- .|+|.|. | +.|.+..+|++|||-..-.|-|+-
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~lle 75 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLLE 75 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEEe
Confidence 58999998888999999999999999999999999976 8999983 3 367899999999997776666553
No 51
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=98.51 E-value=1.2e-06 Score=58.43 Aligned_cols=76 Identities=17% Similarity=0.427 Sum_probs=69.6
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA 77 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~ 77 (145)
+|.|...++.+..+.|..++++..|+....++.|++.+.++++|+|+.+.+..|-++++..+++.|.++....||.
T Consensus 22 ~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG~ 97 (99)
T KOG1769|consen 22 NLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGGF 97 (99)
T ss_pred EEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccCC
Confidence 4556665677888999999999999999999999999999999999999999999999999999999999988885
No 52
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=98.49 E-value=2.8e-07 Score=73.19 Aligned_cols=73 Identities=34% Similarity=0.636 Sum_probs=62.5
Q ss_pred CEEEEEeC-CC--CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE-EEe
Q 032224 1 MQIFVKTL-TG--KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV-LRL 73 (145)
Q Consensus 1 M~I~Vk~~-~g--~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~-~~~ 73 (145)
|.++|+.. .| ..++|+|+.+.+|.+||+.++.+.|+|+++.+++|.|+.|.|+.++..+.+..-+.+|++ +|+
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~~lRP 77 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRP 77 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhhccCc
Confidence 66777654 12 358899999999999999999999999999999999999999999998888777787776 554
No 53
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=98.43 E-value=1.3e-07 Score=58.24 Aligned_cols=69 Identities=26% Similarity=0.398 Sum_probs=61.6
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~ 70 (145)
++.+...-|+...+...+++||+|+|..|+..+|..++.+.|--.+..+.|.-+|++|.|.+|..+.+.
T Consensus 3 ev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lely 71 (73)
T KOG3493|consen 3 EVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELY 71 (73)
T ss_pred eehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEe
Confidence 566666778999999999999999999999999999998888877778999999999999999888765
No 54
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=8.5e-07 Score=73.45 Aligned_cols=73 Identities=25% Similarity=0.448 Sum_probs=65.0
Q ss_pred EEEEeCCCCEEEEE-EcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 3 IFVKTLTGKTITLE-VESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 3 I~Vk~~~g~~~~l~-V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|.|+ ..|+.+.++ ++.++|+..||+++...+|+||++|++++.|..+.|+-.+..++|+++.+|+++-....+
T Consensus 6 v~VK-W~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmGt~e~~ 79 (473)
T KOG1872|consen 6 VIVK-WGGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMGTAEAG 79 (473)
T ss_pred Eeee-ecCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeecccccc
Confidence 5665 468899987 999999999999999999999999999999999999988999999999999988654433
No 55
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=98.36 E-value=3.6e-06 Score=61.16 Aligned_cols=78 Identities=29% Similarity=0.503 Sum_probs=60.9
Q ss_pred CEEEEEeCCC----CEEEEEEcCCCcHHHHHHHHHHHhCCCcCce-eeee-CCeec--cCCCccccccccCC----CEEE
Q 032224 1 MQIFVKTLTG----KTITLEVESSDTIDNVKAKIQDKEGIPPDQQ-RLIF-AGKQL--EDGRTLADYNIQKE----STLH 68 (145)
Q Consensus 1 M~I~Vk~~~g----~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q-~L~~-~G~~L--~d~~tL~~~gi~~~----sti~ 68 (145)
|+|+|.+++| .++.+.+++++||++|+..|.+..++++..| .|.+ .+..| .++..++++.-.+. -++.
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 7899999999 5888999999999999999999999998874 4444 34444 45566666654333 3789
Q ss_pred EEEEecCCcc
Q 032224 69 LVLRLRGGAK 78 (145)
Q Consensus 69 l~~~~~gg~~ 78 (145)
|.+++.||+-
T Consensus 81 l~~rl~GGKG 90 (162)
T PF13019_consen 81 LSLRLRGGKG 90 (162)
T ss_pred EEEeccCCCc
Confidence 9999999976
No 56
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=98.27 E-value=1.3e-06 Score=57.91 Aligned_cols=62 Identities=29% Similarity=0.435 Sum_probs=51.5
Q ss_pred CEEEEEeCCC-CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee-CC-eeccCCCcccccccc
Q 032224 1 MQIFVKTLTG-KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AG-KQLEDGRTLADYNIQ 62 (145)
Q Consensus 1 M~I~Vk~~~g-~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~-~G-~~L~d~~tL~~~gi~ 62 (145)
|.++++.... .++.++..++.||.+||..++....-|++.|+|+. +. +.|+|..+|+++|..
T Consensus 1 ~~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 1 MDVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred CceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhcccc
Confidence 4566655433 46888999999999999999999999999999986 44 578999999999763
No 57
>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=98.15 E-value=1.3e-05 Score=51.67 Aligned_cols=68 Identities=24% Similarity=0.405 Sum_probs=49.3
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC------ceeee-eCCeeccCCCccccccccCCCEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD------QQRLI-FAGKQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~------~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l 69 (145)
.|+|...+|+.+.+.++.+.+|.+|...|.+..+.+.. ...|. -+|..|+++.+|+++||.+|+.+.+
T Consensus 4 rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 4 RVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 46666545688999999999999999999998876432 24666 6889999999999999999999976
No 58
>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=97.97 E-value=0.00012 Score=47.05 Aligned_cols=68 Identities=24% Similarity=0.361 Sum_probs=57.4
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCc-eeee--eCCeeccCC--CccccccccCCCEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLI--FAGKQLEDG--RTLADYNIQKESTLHL 69 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~--~~G~~L~d~--~tL~~~gi~~~sti~l 69 (145)
.|.||.++|+.+...+.+++||.+|.+-|......+... ..|+ |-.+.+.++ .+|++.|+.+.++|+|
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred EEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 588999999999999999999999999999887766654 6675 666777543 7999999999999876
No 59
>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=97.94 E-value=5.7e-05 Score=47.05 Aligned_cols=63 Identities=19% Similarity=0.252 Sum_probs=47.0
Q ss_pred eCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEE
Q 032224 7 TLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 7 ~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l 69 (145)
..+++.+.+.+.|++++.++-++..+.+++++++-.|.|+++.|+-+.++.-.|+.+|+.+.+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 457889999999999999999999999999999999999999999999999999999999875
No 60
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.80 E-value=0.0002 Score=46.01 Aligned_cols=68 Identities=22% Similarity=0.260 Sum_probs=55.7
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeeccC---CCccccccccCCCEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL 69 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~d---~~tL~~~gi~~~sti~l 69 (145)
.|.||.++|+.+...+.+++||.+|.+.|....+.......|+ |-.+.+.+ +.+|.+.|+.+.++|.|
T Consensus 6 ~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 6 RLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 5889999999999999999999999999976666666666775 56667753 47999999988888765
No 61
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=97.74 E-value=3.6e-05 Score=50.57 Aligned_cols=76 Identities=18% Similarity=0.385 Sum_probs=68.2
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCc
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGA 77 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~ 77 (145)
.+.|...+|.++.+.|-.++|...|....+.+.|-..++.|++|+|..++-++|-.+++..+++.|.++....||+
T Consensus 26 nLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG~ 101 (103)
T COG5227 26 NLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGGA 101 (103)
T ss_pred ceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcCc
Confidence 3455556788899999999999999999999999999999999999999999999999999999998887777775
No 62
>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=97.71 E-value=0.0001 Score=49.45 Aligned_cols=58 Identities=21% Similarity=0.352 Sum_probs=45.1
Q ss_pred EEEEEeCCC-CEEEEEEc--CCCcHHHHHHHHHHHhC--CCcCceeeeeCCeeccCCCccccc
Q 032224 2 QIFVKTLTG-KTITLEVE--SSDTIDNVKAKIQDKEG--IPPDQQRLIFAGKQLEDGRTLADY 59 (145)
Q Consensus 2 ~I~Vk~~~g-~~~~l~V~--~~~TV~~LK~~I~~~~g--ip~~~q~L~~~G~~L~d~~tL~~~ 59 (145)
.|.|+..++ ..+.++++ .+.||..||+.|.+... ..-.+++|+|+|+.|.|+..|+..
T Consensus 2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~ 64 (97)
T PF10302_consen 2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSE 64 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhh
Confidence 367777663 34677777 78999999999999883 333578999999999998877654
No 63
>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=97.63 E-value=0.00062 Score=43.81 Aligned_cols=67 Identities=16% Similarity=0.324 Sum_probs=54.3
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeeccC---CCccccccccCCCEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHL 69 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~d---~~tL~~~gi~~~sti~l 69 (145)
.|.||.++|+.+...++.++|+++|.+.|....+.+ ....|+ |-.+.+.+ +.+|.+.|+.+.++|.|
T Consensus 6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 578999999999999999999999999998765433 445565 66677753 48999999999888876
No 64
>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=97.51 E-value=0.00089 Score=43.16 Aligned_cols=65 Identities=22% Similarity=0.287 Sum_probs=51.3
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCC-cCceeee--eCCeecc-CCCccccccccCCCE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIP-PDQQRLI--FAGKQLE-DGRTLADYNIQKEST 66 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip-~~~q~L~--~~G~~L~-d~~tL~~~gi~~~st 66 (145)
.|.||.++|+.+...+..++||++|.+-|....+-+ .....|. |-.+.|. ++.||.|.|+.+.+.
T Consensus 6 ~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v 74 (79)
T cd01770 6 SIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVI 74 (79)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEE
Confidence 588999999999999999999999999999865432 2445665 6677774 478999999986433
No 65
>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=97.48 E-value=0.0011 Score=42.17 Aligned_cols=66 Identities=15% Similarity=0.265 Sum_probs=51.0
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeecc---CCCccccccccCCCEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHL 69 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~---d~~tL~~~gi~~~sti~l 69 (145)
.|.||.++|+.+...++.++||++|.+-|.....- .....|+ |-.+.+. .+.+|.+.|+.+ +++.+
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~-s~~~~ 74 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVN-EVVFQ 74 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCcc-ceEEE
Confidence 58899999999999999999999999999876433 4445565 5556664 478999999984 44433
No 66
>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=97.43 E-value=0.0018 Score=42.13 Aligned_cols=69 Identities=16% Similarity=0.328 Sum_probs=58.3
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec---cCCCccccccccCCCEEEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL---EDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L---~d~~tL~~~gi~~~sti~l~~ 71 (145)
+|.||.++|+...-.+..++++++|-..+.. .|.+++...|+ |--+.+ +.+.+|.+.|+.+.++|.|.-
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq~ 80 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQE 80 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEec
Confidence 5889999999999999999999999999988 57788888887 555555 335899999999999988754
No 67
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=97.38 E-value=0.00041 Score=53.68 Aligned_cols=73 Identities=29% Similarity=0.388 Sum_probs=54.4
Q ss_pred CEEEEEeCCCC-EEE-EEEcCCCcHHHHHHHHHHHh-CCCcCceee----eeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224 1 MQIFVKTLTGK-TIT-LEVESSDTIDNVKAKIQDKE-GIPPDQQRL----IFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (145)
Q Consensus 1 M~I~Vk~~~g~-~~~-l~V~~~~TV~~LK~~I~~~~-gip~~~q~L----~~~G~~L~d~~tL~~~gi~~~sti~l~~~~ 73 (145)
|.|++.+.++. ... .+.+...|+.|++..|.... .+.+..+++ .-+|++|-|+.+|++|++.++++|. ++.
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~--vKD 78 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIY--VKD 78 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEE--Eec
Confidence 78999887663 333 67778899999998887654 566644433 3579999999999999998886654 565
Q ss_pred cC
Q 032224 74 RG 75 (145)
Q Consensus 74 ~g 75 (145)
+|
T Consensus 79 LG 80 (297)
T KOG1639|consen 79 LG 80 (297)
T ss_pred cC
Confidence 55
No 68
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.37 E-value=0.0016 Score=41.32 Aligned_cols=64 Identities=19% Similarity=0.254 Sum_probs=54.4
Q ss_pred EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-----CceeeeeCCeeccCCCccccccccCCCEEEE
Q 032224 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-----DQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 6 k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-----~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l 69 (145)
+..+|.++.+.++.-.++..|-..+.+...+.. ..+++.-.++.|.++..|.+|+|.+|+.+.+
T Consensus 12 t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 12 TNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 556789999999999999999988887765432 3468888999999999999999999999875
No 69
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.30 E-value=0.00056 Score=51.64 Aligned_cols=65 Identities=28% Similarity=0.431 Sum_probs=58.0
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEe
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~ 73 (145)
.++.+.+.++.-+|+.++|.++.+..++.+-.|+++|+|..|-|...|.+++|..|+...|.+..
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviV 219 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIV 219 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEEe
Confidence 45678889999999999999999999999999999999999999999999999999776655543
No 70
>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=97.25 E-value=0.0031 Score=40.77 Aligned_cols=68 Identities=21% Similarity=0.329 Sum_probs=56.8
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeecc---CCCccccccccCCCEEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLE---DGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~---d~~tL~~~gi~~~sti~l~ 70 (145)
+|.||.++|+.+.-.+..++++++|-.-|... |.++...+|+ |--+.+. .+.+|.+.|+....+|.|-
T Consensus 6 ~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 6 KLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 68899999999999999999999999999875 7777778886 5556663 3579999999998888764
No 71
>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=97.19 E-value=0.0044 Score=40.51 Aligned_cols=68 Identities=12% Similarity=0.177 Sum_probs=54.6
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC--Ceecc--------CCCccccccccCCCEEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA--GKQLE--------DGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~--G~~L~--------d~~tL~~~gi~~~sti~l~ 70 (145)
+|.||.++|+.+.-.+..++||++|.+-|.. .+..++...|+.+ -+.+. .+.||.+.||.+.++|.|.
T Consensus 6 ~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V~ 83 (85)
T cd01774 6 KIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFVQ 83 (85)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEEe
Confidence 6889999999999999999999999999965 3455677778743 36664 3679999999988887664
No 72
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=96.92 E-value=0.003 Score=47.72 Aligned_cols=73 Identities=15% Similarity=0.273 Sum_probs=55.7
Q ss_pred EEEEEeCCCC-EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCC-----eecc-CCCccccccccCCCEEEEEEEe
Q 032224 2 QIFVKTLTGK-TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAG-----KQLE-DGRTLADYNIQKESTLHLVLRL 73 (145)
Q Consensus 2 ~I~Vk~~~g~-~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G-----~~L~-d~~tL~~~gi~~~sti~l~~~~ 73 (145)
.|.|.+.... .....+++++||.+||.+++-.+|.+++.+.|. |+| ..|+ ++..|..|+..+|-.||++-..
T Consensus 3 ~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD~~ 82 (234)
T KOG3206|consen 3 RVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVIDSN 82 (234)
T ss_pred EEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEecC
Confidence 3555443222 245678899999999999999999999999887 655 2454 5688999999999999987554
Q ss_pred c
Q 032224 74 R 74 (145)
Q Consensus 74 ~ 74 (145)
.
T Consensus 83 ~ 83 (234)
T KOG3206|consen 83 A 83 (234)
T ss_pred c
Confidence 3
No 73
>PRK06437 hypothetical protein; Provisional
Probab=96.78 E-value=0.017 Score=35.92 Aligned_cols=63 Identities=19% Similarity=0.398 Sum_probs=47.0
Q ss_pred EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+-.+++...++++...||++|-+++ +++++..-+..+|..+. .+.-+++|+.|.++--..||
T Consensus 5 ~~v~g~~~~~~~i~~~~tv~dLL~~L----gi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG 67 (67)
T PRK06437 5 IRVKGHINKTIEIDHELTVNDIIKDL----GLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG 67 (67)
T ss_pred EEecCCcceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence 33334566788888899999988664 78888888889999997 44556789999876544443
No 74
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=96.63 E-value=0.019 Score=35.25 Aligned_cols=65 Identities=18% Similarity=0.398 Sum_probs=45.2
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+| +|+.+.+ + ..|+.+|.+.+ +++++...+-.|+..+.. ...++.-+++|+.|.++--..||
T Consensus 1 m~i~~---Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~~-~~~~~~~L~dgD~Ieiv~~V~GG 65 (65)
T PRK06488 1 MKLFV---NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVHK-EARAQFVLHEGDRIEILSPMQGG 65 (65)
T ss_pred CEEEE---CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcCH-HHcCccccCCCCEEEEEEeccCC
Confidence 66776 4676666 3 46899998765 566666667789988863 22445667889999887655554
No 75
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=96.28 E-value=0.047 Score=34.14 Aligned_cols=56 Identities=13% Similarity=0.238 Sum_probs=42.8
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
...+++++..||.+|-+++ ++++....+..||..+.. +.-+++|+.|.++--..||
T Consensus 15 ~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii~~V~GG 70 (70)
T PRK08364 15 EKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVIPVVSGG 70 (70)
T ss_pred ceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEEccccCC
Confidence 5678888899999998776 677777777799998854 4456789999877655554
No 76
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=96.28 E-value=0.0072 Score=38.65 Aligned_cols=56 Identities=23% Similarity=0.331 Sum_probs=45.4
Q ss_pred EcCCCcHHHHHHHHHHHhC-CCcCceeeeeCCeeccCCCccccc-cccCCCEEEEEEE
Q 032224 17 VESSDTIDNVKAKIQDKEG-IPPDQQRLIFAGKQLEDGRTLADY-NIQKESTLHLVLR 72 (145)
Q Consensus 17 V~~~~TV~~LK~~I~~~~g-ip~~~q~L~~~G~~L~d~~tL~~~-gi~~~sti~l~~~ 72 (145)
|+++++|.|+++.+..... ..-....|.++|..|+|...|+++ |+.++++|.|+..
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~ 58 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEE 58 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEec
Confidence 5688999999999987654 334567888999999998888887 4888999988754
No 77
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=96.26 E-value=0.02 Score=36.64 Aligned_cols=71 Identities=18% Similarity=0.268 Sum_probs=48.1
Q ss_pred CEEEEEeCC------C-CEEEEEEcCCCcHHHHHHHHHHHhC-CCc--CceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224 1 MQIFVKTLT------G-KTITLEVESSDTIDNVKAKIQDKEG-IPP--DQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 1 M~I~Vk~~~------g-~~~~l~V~~~~TV~~LK~~I~~~~g-ip~--~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~ 70 (145)
|+|.|+... | ....++++...||.+|.+.+..... +.. ....+..||+...++ .-+++|++|.+.
T Consensus 2 m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~-----~~l~dgDeVai~ 76 (82)
T PLN02799 2 VEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTES-----AALKDGDELAII 76 (82)
T ss_pred eEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCC-----cCcCCCCEEEEe
Confidence 677777653 4 4577888889999999999976641 111 122455788876543 346789999887
Q ss_pred EEecCC
Q 032224 71 LRLRGG 76 (145)
Q Consensus 71 ~~~~gg 76 (145)
....||
T Consensus 77 PpvsGG 82 (82)
T PLN02799 77 PPISGG 82 (82)
T ss_pred CCCCCC
Confidence 666665
No 78
>KOG4583 consensus Membrane-associated ER protein involved in stress response (contains ubiquitin-like domain) [Posttranslational modification, protein turnover, chaperones]
Probab=96.25 E-value=0.0022 Score=51.62 Aligned_cols=61 Identities=21% Similarity=0.355 Sum_probs=47.5
Q ss_pred EEEEEeCCCC--EEEEEEcCCCcHHHHHHHHHHHhCCC--cCceeeeeCCeeccCCCcccccccc
Q 032224 2 QIFVKTLTGK--TITLEVESSDTIDNVKAKIQDKEGIP--PDQQRLIFAGKQLEDGRTLADYNIQ 62 (145)
Q Consensus 2 ~I~Vk~~~g~--~~~l~V~~~~TV~~LK~~I~~~~gip--~~~q~L~~~G~~L~d~~tL~~~gi~ 62 (145)
.++|++.+.+ .+.|..+..+||++||..++..+--. +.+|||+|.|+.|.|...|.|.=++
T Consensus 11 ~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~lrk 75 (391)
T KOG4583|consen 11 TLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDWLRK 75 (391)
T ss_pred EEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHHHHH
Confidence 4677777655 45667778899999999999876322 2579999999999999988887543
No 79
>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=96.19 E-value=0.027 Score=35.55 Aligned_cols=60 Identities=13% Similarity=0.228 Sum_probs=44.9
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCC----CcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGI----PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gi----p~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
...++++...||.+|.+.+....+- ......+..||+.... +.-+.+|+.|.++....||
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~-----~~~l~~gD~v~i~ppv~GG 80 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRL-----DTPLKDGDEVAIIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCC-----CcccCCCCEEEEeCCCCCC
Confidence 4667888889999999999887532 2345567789988873 4457789999988776665
No 80
>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=96.18 E-value=0.0013 Score=52.43 Aligned_cols=77 Identities=19% Similarity=0.434 Sum_probs=0.0
Q ss_pred EEEEEeCCCCEEEEEEc---C--CCcHHHHHHHHHH----------HhCCCcCcee-----eeeCCeeccCCCccccccc
Q 032224 2 QIFVKTLTGKTITLEVE---S--SDTIDNVKAKIQD----------KEGIPPDQQR-----LIFAGKQLEDGRTLADYNI 61 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~---~--~~TV~~LK~~I~~----------~~gip~~~q~-----L~~~G~~L~d~~tL~~~gi 61 (145)
.|+++.+....+.+.++ + +.||.+||..+++ .+++|.+.++ |+|+-+++.|..+|.+..-
T Consensus 80 tV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~e~l~ 159 (309)
T PF12754_consen 80 TVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLAEVLA 159 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHHHHHh
Confidence 34555554444444332 3 6899999999999 8899999888 9999999999888887754
Q ss_pred c-------CCCEEEEEEEecCCcc
Q 032224 62 Q-------KESTLHLVLRLRGGAK 78 (145)
Q Consensus 62 ~-------~~sti~l~~~~~gg~~ 78 (145)
. .+.++.+.+...||+.
T Consensus 160 ~~~~~l~~~~~~vE~gvMVlGGa~ 183 (309)
T PF12754_consen 160 DSESRLLSGGKEVEFGVMVLGGAA 183 (309)
T ss_dssp ------------------------
T ss_pred cccchhccCCceEEEEEEEECCcc
Confidence 3 4678888888888875
No 81
>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=96.11 E-value=0.028 Score=36.30 Aligned_cols=38 Identities=18% Similarity=0.344 Sum_probs=35.3
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCee
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ 49 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~ 49 (145)
++.|+|++..+.++|.++|.++.++|++...|.|....
T Consensus 12 tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~ 49 (80)
T cd06406 12 TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSEA 49 (80)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCC
Confidence 88999999999999999999999999999999997653
No 82
>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=96.10 E-value=0.091 Score=33.12 Aligned_cols=67 Identities=24% Similarity=0.345 Sum_probs=49.7
Q ss_pred EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-Cceeeee----CC--eeccCCCccccccccCCCEEEEEE
Q 032224 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIF----AG--KQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~----~G--~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
|+.++|....+++++++|+.+|-++|.+..++.. +-.-|.+ +| .-|+.+.+|.+..........+.+
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~f 74 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYF 74 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEE
Confidence 5678999999999999999999999999999864 3456666 23 246788888888776334433333
No 83
>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=96.03 E-value=0.03 Score=36.73 Aligned_cols=44 Identities=14% Similarity=0.278 Sum_probs=38.1
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc---Cceeeee
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP---DQQRLIF 45 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~---~~q~L~~ 45 (145)
.+.++.+.|+++.+.+.+++.+.+|++.|.++.|+.. +...|.|
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 3567888999999999999999999999999999886 3566666
No 84
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=95.97 E-value=0.069 Score=35.14 Aligned_cols=65 Identities=20% Similarity=0.243 Sum_probs=46.1
Q ss_pred CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee----CC-eecc-CCCccccccccCCCEEEEEEEecCC
Q 032224 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF----AG-KQLE-DGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 11 ~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~----~G-~~L~-d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
..++..++..+||+.+...+.+.+.| ..+.||.- ++ ..|. .+.||.+.||.+|.+|.+-.+...|
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn~DG 84 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERNEDG 84 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--TTS
T ss_pred cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeeccCC
Confidence 36778899999999999999999999 66678863 22 2564 4579999999999999988876554
No 85
>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=95.73 E-value=0.059 Score=35.17 Aligned_cols=63 Identities=19% Similarity=0.346 Sum_probs=45.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~ 74 (145)
.+...++-..+++.||..++.+.++.-+.-.++..+..|+++.+|-+-+++-..++.+.+...
T Consensus 4 vI~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi~ 66 (88)
T PF11620_consen 4 VIMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQIK 66 (88)
T ss_dssp EEEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEEE
T ss_pred eEEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEEE
Confidence 345567778899999999999999998888888888889999999999999888888887643
No 86
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=95.67 E-value=0.072 Score=32.78 Aligned_cols=65 Identities=18% Similarity=0.296 Sum_probs=45.5
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+| +|+.+. +++..|+.+|-+. .++++...-+..++..+..+.- +.+ +++|+.|.++--..||
T Consensus 1 m~i~v---NG~~~~--~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~-~~~-L~~gD~ieIv~~VgGG 65 (65)
T PRK05863 1 MIVVV---NEEQVE--VDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDW-ATK-LRDGARLEVVTAVQGG 65 (65)
T ss_pred CEEEE---CCEEEE--cCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHh-hhh-cCCCCEEEEEeeccCC
Confidence 66766 466544 4567888888765 4788888888999997754322 234 8899999977555444
No 87
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=95.53 E-value=0.024 Score=46.10 Aligned_cols=70 Identities=21% Similarity=0.323 Sum_probs=58.9
Q ss_pred CEEEEEeC--CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccC--CCccccccccCCCEEEEE
Q 032224 1 MQIFVKTL--TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLED--GRTLADYNIQKESTLHLV 70 (145)
Q Consensus 1 M~I~Vk~~--~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d--~~tL~~~gi~~~sti~l~ 70 (145)
|.++|-.. ....+.++|..+..+..|+..++...|++.+..-|+|+++++.+ ...|.++|+.+++++.+-
T Consensus 1 M~~tvs~~l~~~~~~~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr 74 (380)
T KOG0012|consen 1 MSLTVSVALNFEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALR 74 (380)
T ss_pred CeEEEEEEecceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEecc
Confidence 55555443 45678899999999999999999999999999999999999965 478999999999887654
No 88
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=95.47 E-value=0.1 Score=32.38 Aligned_cols=65 Identities=23% Similarity=0.473 Sum_probs=52.2
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHh---CCCcCceeee-eCCeeccCCCccccccccCCCEEEEEEEe
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKE---GIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRL 73 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~---gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~~ 73 (145)
+|+...++..++..+--..+.--+.. |-|++...|- -+|..|+-+..++|||+.++.++.+.++.
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsLKA 72 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSLKA 72 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEeec
Confidence 68888899888888877777665554 4677776665 57889999999999999999999888763
No 89
>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=95.46 E-value=0.091 Score=34.06 Aligned_cols=46 Identities=11% Similarity=0.154 Sum_probs=36.6
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc-CceeeeeCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP-DQQRLIFAG 47 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~-~~q~L~~~G 47 (145)
|.|.+. .+|..+.+.++++++..+|++.|..++++.. ....|.|-.
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~D 47 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLD 47 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEEC
Confidence 445553 3677899999999999999999999999875 567777744
No 90
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=95.43 E-value=0.2 Score=30.79 Aligned_cols=66 Identities=15% Similarity=0.256 Sum_probs=44.5
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+| +|+.+ +++...||.+|-+.+ +++.....+-.|+..+..+ ..++.-+++|+.|.++--..||
T Consensus 1 m~i~v---Ng~~~--~~~~~~tl~~ll~~l----~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~~v~GG 66 (66)
T PRK08053 1 MQILF---NDQPM--QCAAGQTVHELLEQL----NQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQVIAGG 66 (66)
T ss_pred CEEEE---CCeEE--EcCCCCCHHHHHHHc----CCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEEEccCC
Confidence 67777 45554 446678999988764 5555567777899988522 1334457889999887655554
No 91
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=95.41 E-value=0.18 Score=30.75 Aligned_cols=66 Identities=20% Similarity=0.387 Sum_probs=45.8
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+| +|+. ++++...||.+|-+. .++++...-+..+|..+.-+. ..+.-+++|+.|.++--..||
T Consensus 1 m~i~v---NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~~vgGG 66 (66)
T PRK05659 1 MNIQL---NGEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVHALGGG 66 (66)
T ss_pred CEEEE---CCeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEEEecCC
Confidence 66666 4664 456677898888765 578888888889998775332 234456789999987655554
No 92
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=95.10 E-value=0.18 Score=32.06 Aligned_cols=60 Identities=17% Similarity=0.294 Sum_probs=43.9
Q ss_pred EEEEEEcCC-CcHHHHHHHHHHHhC-C-C-cCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 12 TITLEVESS-DTIDNVKAKIQDKEG-I-P-PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 12 ~~~l~V~~~-~TV~~LK~~I~~~~g-i-p-~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
...++++.+ .||.+|.+.+.+... + . .....+..|++...+ +.-|++|++|.++....||
T Consensus 17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~PpvsGG 80 (80)
T TIGR01682 17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeCCCCCC
Confidence 457888877 899999999988763 1 1 123456678887765 4566789999988776665
No 93
>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=95.05 E-value=0.12 Score=31.61 Aligned_cols=57 Identities=21% Similarity=0.399 Sum_probs=41.7
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
++++...||.+|.+++ +++++...+..+|+.+..+. .++.-|++|++|.++--..||
T Consensus 9 ~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~~-~~~~~L~~gD~V~ii~~v~GG 65 (65)
T cd00565 9 REVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRSE-WASTPLQDGDRIEIVTAVGGG 65 (65)
T ss_pred EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence 4556778999998775 46777888889999885432 234457889999987666665
No 94
>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=94.97 E-value=0.16 Score=32.82 Aligned_cols=61 Identities=11% Similarity=0.273 Sum_probs=43.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCC------C-----cCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGI------P-----PDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gi------p-----~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
...++++ ..||.+|.+.+.+...- . .....+..||+....+.. .-+++|++|.++....||
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 5677776 89999999999877631 0 123566678887764431 467889999988777776
No 95
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=94.87 E-value=0.37 Score=29.21 Aligned_cols=65 Identities=20% Similarity=0.253 Sum_probs=42.5
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+|. |+. +++++..||.+|-+.+. ++ ....+..+|..+..+. -.+.-+++|++|.++-...||
T Consensus 1 m~i~vN---g~~--~~~~~~~tl~~ll~~l~----~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG 65 (65)
T PRK06944 1 MDIQLN---QQT--LSLPDGATVADALAAYG----AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG 65 (65)
T ss_pred CEEEEC---CEE--EECCCCCcHHHHHHhhC----CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence 666663 554 45667789999988763 33 3456678888775321 223346789999987666665
No 96
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=94.87 E-value=0.15 Score=42.36 Aligned_cols=72 Identities=21% Similarity=0.233 Sum_probs=54.8
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHh--CCCcCceeeee--C--Cee--ccCCCccccccccCCCEEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE--GIPPDQQRLIF--A--GKQ--LEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~--gip~~~q~L~~--~--G~~--L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
|-+.+|+..| ...+++.++++++.|-.+|-..+ +..|+.+.+.- + |.. +..++++.++|+..|..|+|...
T Consensus 1 Mi~rfRsk~G-~~Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~ys 79 (571)
T COG5100 1 MIFRFRSKEG-QRRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEYS 79 (571)
T ss_pred CeEEEecCCC-ceeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEec
Confidence 6678887665 56789999999999999887665 45566666653 2 222 45678999999999999999885
Q ss_pred e
Q 032224 73 L 73 (145)
Q Consensus 73 ~ 73 (145)
.
T Consensus 80 d 80 (571)
T COG5100 80 D 80 (571)
T ss_pred c
Confidence 3
No 97
>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=94.87 E-value=0.14 Score=31.83 Aligned_cols=63 Identities=14% Similarity=0.249 Sum_probs=48.1
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCC--CcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGI--PPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gi--p~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
...+.+....||.+|.+.+.....- ......+..||+...+ ...+.-+++|++|.++....||
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ppvsGG 77 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILPPVSGG 77 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEESTSTS
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEECCCCCC
Confidence 5677888999999999999877631 2256778899999888 2556667889999987666665
No 98
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=94.56 E-value=0.45 Score=29.42 Aligned_cols=66 Identities=18% Similarity=0.253 Sum_probs=44.9
Q ss_pred CEEEEEeCCCCEEEEEEcCC-CcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 1 MQIFVKTLTGKTITLEVESS-DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~-~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
|+|+| +|+.+ +++.. .||.+|-+. .++++...-+-.+|..+.-+. .++.-+++|+.|.++--..||
T Consensus 1 m~I~v---NG~~~--~~~~~~~tv~~lL~~----l~~~~~~vav~vN~~iv~r~~-w~~~~L~~gD~iEIv~~VgGG 67 (67)
T PRK07696 1 MNLKI---NGNQI--EVPESVKTVAELLTH----LELDNKIVVVERNKDILQKDD-HTDTSVFDGDQIEIVTFVGGG 67 (67)
T ss_pred CEEEE---CCEEE--EcCCCcccHHHHHHH----cCCCCCeEEEEECCEEeCHHH-cCceecCCCCEEEEEEEecCC
Confidence 66666 46655 44454 578877764 577777777889999885432 445567899999977555554
No 99
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=94.55 E-value=0.16 Score=30.72 Aligned_cols=55 Identities=18% Similarity=0.289 Sum_probs=40.1
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
|+|+|. | -.+++..+.|+.+|+.++... .-.++++|-+..++..| ++|+.|.++-
T Consensus 1 M~I~vN---~--k~~~~~~~~tl~~lr~~~k~~------~DI~I~NGF~~~~d~~L-----~e~D~v~~Ik 55 (57)
T PF14453_consen 1 MKIKVN---E--KEIETEENTTLFELRKESKPD------ADIVILNGFPTKEDIEL-----KEGDEVFLIK 55 (57)
T ss_pred CEEEEC---C--EEEEcCCCcCHHHHHHhhCCC------CCEEEEcCcccCCcccc-----CCCCEEEEEe
Confidence 677773 3 356778889999999987642 22678999988876655 4688887763
No 100
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=94.46 E-value=0.35 Score=31.46 Aligned_cols=61 Identities=11% Similarity=0.249 Sum_probs=42.6
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
+|+. .++++..||.+|-+. .++++...-+-.||..+.-+ ..++.-+++|+.|.++--..||
T Consensus 24 NG~~--~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr~-~w~~t~L~egD~IEIv~~VgGG 84 (84)
T PRK06083 24 NDQS--IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVPRS-EWQSTVLSSGDAISLFQAIAGG 84 (84)
T ss_pred CCeE--EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeCHH-HcCcccCCCCCEEEEEEEecCC
Confidence 4554 345667888888775 47788777888999988432 3456667899999987655554
No 101
>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=94.38 E-value=0.26 Score=30.06 Aligned_cols=61 Identities=20% Similarity=0.394 Sum_probs=42.3
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
+|+. ++++...||.+|.+.+ +++++...+..+|..+..+. ..++-+++|+.|.++.-..||
T Consensus 4 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~v~v~vN~~iv~~~~-~~~~~L~~gD~veii~~V~GG 64 (64)
T TIGR01683 4 NGEP--VEVEDGLTLAALLESL----GLDPRRVAVAVNGEIVPRSE-WDDTILKEGDRIEIVTFVGGG 64 (64)
T ss_pred CCeE--EEcCCCCcHHHHHHHc----CCCCCeEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence 4554 4456778999998864 56777777789999874322 234567889999887665555
No 102
>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=94.01 E-value=0.33 Score=30.67 Aligned_cols=44 Identities=16% Similarity=0.335 Sum_probs=36.8
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G 47 (145)
|.++. ++..+.+.++++.|..+|.++|.+.++++.....|.|..
T Consensus 4 vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D 47 (81)
T smart00666 4 VKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQD 47 (81)
T ss_pred EEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence 44544 567888999999999999999999999987778888864
No 103
>PRK07440 hypothetical protein; Provisional
Probab=94.01 E-value=0.57 Score=29.27 Aligned_cols=61 Identities=20% Similarity=0.329 Sum_probs=42.7
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
+|+. ++++...||.+|-+. .++++...-+-.||..+.-+. ..+.-+++|+.|.++--..||
T Consensus 10 NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~~N~~iv~r~~-w~~~~L~~gD~IEIv~~v~GG 70 (70)
T PRK07440 10 NGET--RTCSSGTSLPDLLQQ----LGFNPRLVAVEYNGEILHRQF-WEQTQVQPGDRLEIVTIVGGG 70 (70)
T ss_pred CCEE--EEcCCCCCHHHHHHH----cCCCCCeEEEEECCEEeCHHH-cCceecCCCCEEEEEEEecCC
Confidence 4654 556677899988764 467777788889999886321 345567789999877555554
No 104
>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=93.01 E-value=1.6 Score=31.86 Aligned_cols=71 Identities=28% Similarity=0.367 Sum_probs=49.1
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC-ceeeee---CC---eeccCCCcccccccc-CCCEEEEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIF---AG---KQLEDGRTLADYNIQ-KESTLHLVLR 72 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~-~q~L~~---~G---~~L~d~~tL~~~gi~-~~sti~l~~~ 72 (145)
.|.|..++|....+.+++++|+.++-+.+....|++.. ..-|.+ .+ ..|+...+|.+.... ....+++-.+
T Consensus 5 ~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~l~fr~r 83 (207)
T smart00295 5 VLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVKSEPLTLYFRVK 83 (207)
T ss_pred EEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCCCCCcEEEEEEE
Confidence 57788889999999999999999999999999999642 234432 11 245556666666544 2334544444
No 105
>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=92.99 E-value=0.63 Score=30.48 Aligned_cols=46 Identities=17% Similarity=0.247 Sum_probs=36.6
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccc
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLA 57 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~ 57 (145)
.|.++.+.|+++.+..+|.++|.+++++. ..+.|-|... .|-.+|+
T Consensus 10 ~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykDE--GD~iti~ 55 (86)
T cd06408 10 QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKDD--GDMITMG 55 (86)
T ss_pred cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEcC--CCCcccc
Confidence 67799999999999999999999999995 5666667655 4444443
No 106
>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=92.85 E-value=0.63 Score=39.34 Aligned_cols=70 Identities=14% Similarity=0.172 Sum_probs=54.2
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCC----C--cCceeee-eCCeeccCCCccccccccCCCEEEEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGI----P--PDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gi----p--~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
+|+|... .+..++-++.+.+|.||--.|-+..+- + +..-.|. .+|.+|+.+.+|.+.||.||+++++...
T Consensus 4 RVtV~~~-~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 4 RVTVLAG-RRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred EEEEeeC-CeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 4667654 345888899999999999999887753 1 1223444 5788999999999999999999998754
No 107
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=91.79 E-value=1.8 Score=27.01 Aligned_cols=58 Identities=19% Similarity=0.389 Sum_probs=41.3
Q ss_pred EEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
.++++...|+++|-+. .+++++..-+..||.++..+. -.+.-+++|+.|.++--..||
T Consensus 11 ~~e~~~~~tv~dLL~~----l~~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~~v~GG 68 (68)
T COG2104 11 EVEIAEGTTVADLLAQ----LGLNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVRVVGGG 68 (68)
T ss_pred EEEcCCCCcHHHHHHH----hCCCCceEEEEECCEEccchh-hhhccccCCCEEEEEEeecCC
Confidence 4566666899998875 578888888889999886432 345566778998876544444
No 108
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=91.75 E-value=0.62 Score=36.80 Aligned_cols=68 Identities=19% Similarity=0.301 Sum_probs=52.2
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec-cC--CCccccccccCCCEEEE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL-ED--GRTLADYNIQKESTLHL 69 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L-~d--~~tL~~~gi~~~sti~l 69 (145)
.|.||.++|+++..++++..|+.+++..|....+.......|. |--..+ +| ..+|..+++.+.++|.+
T Consensus 212 rlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil 284 (290)
T KOG2689|consen 212 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCCceecccccccccHHHhccccchheec
Confidence 4788999999999999999999999999999887665444443 333334 22 37899999988887654
No 109
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=91.46 E-value=0.42 Score=39.38 Aligned_cols=65 Identities=20% Similarity=0.314 Sum_probs=50.7
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC-CCcCceeee--eCCeecc-CCCccccccccCCCE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG-IPPDQQRLI--FAGKQLE-DGRTLADYNIQKEST 66 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g-ip~~~q~L~--~~G~~L~-d~~tL~~~gi~~~st 66 (145)
.|.||..+|.-+...++.+-||.|++..|...-. -+...+.|+ |--+.|. ++.||++.||.+...
T Consensus 307 sIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvl 375 (380)
T KOG2086|consen 307 SIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVL 375 (380)
T ss_pred eEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhh
Confidence 4788889999988999999999999999987654 333456665 6667775 568999999976543
No 110
>smart00455 RBD Raf-like Ras-binding domain.
Probab=90.95 E-value=1.1 Score=27.95 Aligned_cols=49 Identities=22% Similarity=0.322 Sum_probs=41.6
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC--eecc
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLE 51 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G--~~L~ 51 (145)
+.|-.++|+...+.+.|..|+.|+-+.+-++.|+.++...+...| ++|+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ld 52 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLD 52 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccee
Confidence 345567899999999999999999999999999999988888755 3554
No 111
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=90.78 E-value=1.5 Score=35.52 Aligned_cols=68 Identities=19% Similarity=0.288 Sum_probs=49.7
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCCcc
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGAK 78 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg~~ 78 (145)
|+|+| +|+. ++++...||.+|-+. .+++++..-+..||+.+.-+ ...++-|++|+.|.++--..||.-
T Consensus 1 M~I~V---NGk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVpr~-~w~~t~LkeGD~IEII~~VgGGs~ 68 (326)
T PRK11840 1 MRIRL---NGEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVPRS-EYGQVALEEGDELEIVHFVGGGSD 68 (326)
T ss_pred CEEEE---CCEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCEECCHH-HcCccccCCCCEEEEEEEecCCCC
Confidence 66766 4554 555677888888765 47888888888999988532 245566789999998876666653
No 112
>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=90.76 E-value=1.2 Score=28.08 Aligned_cols=44 Identities=20% Similarity=0.397 Sum_probs=34.8
Q ss_pred EEEEeCCCCEEE-EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224 3 IFVKTLTGKTIT-LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (145)
Q Consensus 3 I~Vk~~~g~~~~-l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G 47 (145)
|.+.. ++.... +.++.+.|..+|..+|++.++.+.....|.|.+
T Consensus 4 vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D 48 (84)
T PF00564_consen 4 VKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKD 48 (84)
T ss_dssp EEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred EEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence 34433 445555 899999999999999999999998888888843
No 113
>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=90.37 E-value=1.4 Score=27.49 Aligned_cols=45 Identities=22% Similarity=0.335 Sum_probs=35.2
Q ss_pred EEEEEeCCCCEEEEEEc-CCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224 2 QIFVKTLTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~-~~~TV~~LK~~I~~~~gip~~~q~L~~~G 47 (145)
.|.++. +|....+.++ .+.|..+|+++|.+.++++.....|.|..
T Consensus 2 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPD 47 (81)
T ss_pred cEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeC
Confidence 345543 4678888888 89999999999999999886666776644
No 114
>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=90.19 E-value=1.3 Score=27.96 Aligned_cols=44 Identities=20% Similarity=0.272 Sum_probs=38.5
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA 46 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~ 46 (145)
+.|-.++|+.-.+.+.|.+||.|+-+.+.++.|+.++.--|.+.
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~ 45 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLL 45 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEe
Confidence 45667899999999999999999999999999999987766654
No 115
>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=89.92 E-value=0.81 Score=29.40 Aligned_cols=36 Identities=11% Similarity=0.250 Sum_probs=32.8
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG 47 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G 47 (145)
++.+.+++..+.++|.++|+++...+++..+|.|..
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~ 43 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYRA 43 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEecC
Confidence 567789999999999999999999999999999854
No 116
>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=89.92 E-value=1.5 Score=28.92 Aligned_cols=65 Identities=15% Similarity=0.289 Sum_probs=43.3
Q ss_pred CCCEEEEEEcC-----CCcHHHHHHHHHHHhCCCc-CceeeeeCCe-----eccCCCccccc-----cccCCCEEEEEEE
Q 032224 9 TGKTITLEVES-----SDTIDNVKAKIQDKEGIPP-DQQRLIFAGK-----QLEDGRTLADY-----NIQKESTLHLVLR 72 (145)
Q Consensus 9 ~g~~~~l~V~~-----~~TV~~LK~~I~~~~gip~-~~q~L~~~G~-----~L~d~~tL~~~-----gi~~~sti~l~~~ 72 (145)
+|....|.++. +.+..+|+++|++.+.+++ ....|.|... .|.++.-|.++ .-....++.+.++
T Consensus 8 ~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~~~~~~~~~~lrl~v~ 87 (91)
T cd06398 8 GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQYFCSGSRLNPLRIDVT 87 (91)
T ss_pred CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHHHhccCCCceEEEEEE
Confidence 55667777774 7999999999999999998 5667777543 23443333322 2234667777665
Q ss_pred e
Q 032224 73 L 73 (145)
Q Consensus 73 ~ 73 (145)
.
T Consensus 88 ~ 88 (91)
T cd06398 88 V 88 (91)
T ss_pred E
Confidence 4
No 117
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=89.03 E-value=2.9 Score=26.55 Aligned_cols=57 Identities=12% Similarity=0.220 Sum_probs=35.6
Q ss_pred EEEcC-CCcHHHHHHHHHHHhC-----CCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 15 LEVES-SDTIDNVKAKIQDKEG-----IPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 15 l~V~~-~~TV~~LK~~I~~~~g-----ip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
+++++ ..||.+|++.+.++.. ......++..|+....+ +.-|++|+.|-+.....||
T Consensus 19 ~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~~-----~~~l~dgDeVai~PPVsGG 81 (81)
T PRK11130 19 LELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVSF-----DHPLTDGDEVAFFPPVTGG 81 (81)
T ss_pred EEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcCC-----CCCCCCCCEEEEeCCCCCC
Confidence 44443 4799999999987752 11122344455544333 3347789999888766665
No 118
>KOG0009 consensus Ubiquitin-like/40S ribosomal S30 protein fusion [Translation, ribosomal structure and biogenesis; Posttranslational modification, protein turnover, chaperones]
Probab=88.98 E-value=0.16 Score=30.68 Aligned_cols=27 Identities=30% Similarity=0.187 Sum_probs=22.0
Q ss_pred ccccccccccCCcccccccceeeeeee
Q 032224 77 AKKRKKKTYTKPKKIKHKKKKVKLAVL 103 (145)
Q Consensus 77 ~~k~~k~~~~~pk~~k~~~kk~k~~v~ 103 (145)
-.+++|+..+|||.++++++|.+....
T Consensus 8 larAGKVr~QTPKv~kqeK~kkk~GRa 34 (62)
T KOG0009|consen 8 LARAGKVRGQTPKVEKQEKKKKKRGRA 34 (62)
T ss_pred hhhcccccccCCcchhhhhcccccchH
Confidence 357789999999999999988876543
No 119
>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=88.91 E-value=4 Score=25.46 Aligned_cols=55 Identities=22% Similarity=0.290 Sum_probs=40.1
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC--eeccCCCccc
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLEDGRTLA 57 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G--~~L~d~~tL~ 57 (145)
+.|-.++|+.-.+.+.|..||.|+-..+-++.|+.++...+...| ++|+-+...+
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 456678999999999999999999999999999999877665433 4565444443
No 120
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=88.84 E-value=0.49 Score=32.94 Aligned_cols=58 Identities=17% Similarity=0.269 Sum_probs=42.0
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccc---cCCCEEEEEEE
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNI---QKESTLHLVLR 72 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi---~~~sti~l~~~ 72 (145)
+-|+.+.||++|...|..+.+++++..-|+.++..+..+.++++.=- .++.-|++...
T Consensus 45 llVP~d~tV~qF~~iIRkrl~l~~~k~flfVnn~lp~~s~~mg~lYe~~KDeDGFLYi~Ys 105 (121)
T PTZ00380 45 LALPRDATVAELEAAVRQALGTSAKKVTLAIEGSTPAVTATVGDIADACKRDDGFLYVSVR 105 (121)
T ss_pred EEcCCCCcHHHHHHHHHHHcCCChhHEEEEECCccCCccchHHHHHHHhcCCCCeEEEEEc
Confidence 46999999999999999999999988666667766666666655421 23445666543
No 121
>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=88.45 E-value=1.9 Score=27.92 Aligned_cols=36 Identities=17% Similarity=0.309 Sum_probs=29.6
Q ss_pred CCCCEEEEEEcC--CCcHHHHHHHHHHHhCCCcCceeeee
Q 032224 8 LTGKTITLEVES--SDTIDNVKAKIQDKEGIPPDQQRLIF 45 (145)
Q Consensus 8 ~~g~~~~l~V~~--~~TV~~LK~~I~~~~gip~~~q~L~~ 45 (145)
.+|.+..+.+++ +.|..+|++.|...++++ .+.|-|
T Consensus 7 y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKY 44 (81)
T cd06396 7 YNGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKY 44 (81)
T ss_pred ECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEE
Confidence 367888899988 779999999999999998 444443
No 122
>COG5272 UBI4 Ubiquitin [Posttranslational modification, protein turnover, chaperones]
Probab=88.37 E-value=0.085 Score=31.66 Aligned_cols=43 Identities=14% Similarity=-0.051 Sum_probs=37.5
Q ss_pred ccccccccCCcccccccceeeeeeeeeEEEcCCCcEEEecccCC
Q 032224 79 KRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECP 122 (145)
Q Consensus 79 k~~k~~~~~pk~~k~~~kk~k~~v~k~~~v~~~~~~~~l~~~c~ 122 (145)
++.++.+++|++++++.++..+.++. +.+++.+...+....||
T Consensus 3 ~~~~~~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 45 (57)
T COG5272 3 KPIKKATGGAAKPESQLAKAKDTRPE-KQYAEQDSQLNEMALMD 45 (57)
T ss_pred ccccccccccccccchHHHHhhccch-hhhhhhccChhhhhccc
Confidence 45678899999999999999999999 99887777777778888
No 123
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=87.02 E-value=1.5 Score=28.57 Aligned_cols=54 Identities=20% Similarity=0.299 Sum_probs=28.8
Q ss_pred EEEc-CCCcHHHHHHHHH-HHhCCCcCceeeeeCCeec----------cCCCccccccccCCCEEEEE
Q 032224 15 LEVE-SSDTIDNVKAKIQ-DKEGIPPDQQRLIFAGKQL----------EDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 15 l~V~-~~~TV~~LK~~I~-~~~gip~~~q~L~~~G~~L----------~d~~tL~~~gi~~~sti~l~ 70 (145)
+.++ ..+|+.+|-+.|- ...|+..-... ++|..| ..+++|+++||.+|+.|.+.
T Consensus 2 v~~d~~~~TL~~lv~~Vlk~~Lg~~~P~v~--~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 2 VKVDTKKMTLGDLVEKVLKKKLGMNEPDVS--VGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp EEE-TTT-BHHHHHHHCCCCCS--SSEEEE--ES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred EEEechhCcHHHHHHHHHHhccCCCCCEEE--eCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 3444 4689999999874 35564432222 244433 12368999999999988764
No 124
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=86.66 E-value=1.4 Score=30.64 Aligned_cols=56 Identities=20% Similarity=0.440 Sum_probs=39.7
Q ss_pred EEcC-CCcHHHHHHHHHHHh----CCCcC------ceeeee----------------CC-eec---cCCCccccccccCC
Q 032224 16 EVES-SDTIDNVKAKIQDKE----GIPPD------QQRLIF----------------AG-KQL---EDGRTLADYNIQKE 64 (145)
Q Consensus 16 ~V~~-~~TV~~LK~~I~~~~----gip~~------~q~L~~----------------~G-~~L---~d~~tL~~~gi~~~ 64 (145)
.|+. ++||.+|++.+.+.. |++|- .++|+. +. ..| +++.+|.++||.++
T Consensus 21 ~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~nE 100 (122)
T PF10209_consen 21 NVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVENE 100 (122)
T ss_pred cCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCcc
Confidence 5776 899999999887664 45542 234432 11 356 67889999999999
Q ss_pred CEEEEEE
Q 032224 65 STLHLVL 71 (145)
Q Consensus 65 sti~l~~ 71 (145)
..|.+.-
T Consensus 101 TEiSfF~ 107 (122)
T PF10209_consen 101 TEISFFN 107 (122)
T ss_pred ceeeeeC
Confidence 8887653
No 125
>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=86.04 E-value=3.9 Score=27.27 Aligned_cols=39 Identities=18% Similarity=0.240 Sum_probs=32.7
Q ss_pred EeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee
Q 032224 6 KTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF 45 (145)
Q Consensus 6 k~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~ 45 (145)
+-.+|.+..+.|+.+.|..+|+.++.+..+++.. +.|-|
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 4557888999999999999999999999998875 55544
No 126
>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=86.04 E-value=3.3 Score=26.57 Aligned_cols=49 Identities=20% Similarity=0.464 Sum_probs=35.4
Q ss_pred CcHHHHHHHHHHHhCCCcCceeeee--CCeeccCCCccccccccCCCEEEEEEE
Q 032224 21 DTIDNVKAKIQDKEGIPPDQQRLIF--AGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~L~~--~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
.|+.+|+.+..+.++++.+..+|+. +|..++|+..+..+ +..|+.|++.
T Consensus 21 ~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEeyF~tL---p~nT~lm~L~ 71 (78)
T PF02017_consen 21 SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEEYFQTL---PDNTVLMLLE 71 (78)
T ss_dssp SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCHHHCCS---SSSEEEEEEE
T ss_pred CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHHHHhhC---CCCCEEEEEC
Confidence 5899999999999999977666664 88888887655544 2446555553
No 127
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=85.92 E-value=2 Score=27.89 Aligned_cols=56 Identities=16% Similarity=0.248 Sum_probs=37.8
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCc-------CceeeeeCCe-ecc------CCCccccccccCCCEEEEEE
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPP-------DQQRLIFAGK-QLE------DGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~-------~~q~L~~~G~-~L~------d~~tL~~~gi~~~sti~l~~ 71 (145)
|++++++|+.+|-+.+.+...+.. +.-.|++.+- .|+ -+.+|.++ +.+|..|.|.-
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~VtD 70 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVTD 70 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEEC
Confidence 679999999999999998743322 2334444332 132 24689999 89999988753
No 128
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=85.27 E-value=5.2 Score=25.78 Aligned_cols=53 Identities=19% Similarity=0.386 Sum_probs=40.6
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCeeccCCCccccccccCCCEEEEEE
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
+..+.+.+++..||.++-+. .|+|..+.-++ .||+..+-+ +-+++|+.|.+.-
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P 75 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYP 75 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEe
Confidence 34677889999999988765 69999888666 688877554 5566899988764
No 129
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=85.20 E-value=2.4 Score=37.67 Aligned_cols=44 Identities=30% Similarity=0.548 Sum_probs=38.2
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCee--ccC
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ--LED 52 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~--L~d 52 (145)
+...+.+-++++.|+..|++.|+..+|||.+.|-|+|.|.. ++|
T Consensus 323 ~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~~h~~~ 368 (732)
T KOG4250|consen 323 QATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGLSHLED 368 (732)
T ss_pred cceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCccccCc
Confidence 45568889999999999999999999999999999998763 445
No 130
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=85.18 E-value=4.1 Score=30.83 Aligned_cols=48 Identities=21% Similarity=0.329 Sum_probs=29.7
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCCcC---ceeee--eCCee---ccCCCccccc
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIPPD---QQRLI--FAGKQ---LEDGRTLADY 59 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~---~q~L~--~~G~~---L~d~~tL~~~ 59 (145)
.+.+-|+.+.||+||.+.+....+++.+ .++|+ ++++. +..+..|+++
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 5778999999999999999999998765 45554 56663 5666666655
No 131
>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=83.91 E-value=6.8 Score=24.94 Aligned_cols=61 Identities=21% Similarity=0.268 Sum_probs=48.2
Q ss_pred EEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCeeccCCCccccccccCCCEEEEEEEec
Q 032224 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (145)
Q Consensus 14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~~~ 74 (145)
.+.|+.++....+-.-.++++.+|+..--++ -+|--+...++-...=++.|+.+.++.|.+
T Consensus 19 vlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPRDr 80 (82)
T cd01766 19 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPRDR 80 (82)
T ss_pred EEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeeccccc
Confidence 3588888888888888889999998665555 566667777888888888999998887755
No 132
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.73 E-value=1.8 Score=35.24 Aligned_cols=57 Identities=12% Similarity=0.199 Sum_probs=45.4
Q ss_pred EEEEcCCCcHHHHHHHHHHHhCCCcCceeeee---CCee-----ccCCCccccccccCCCEEEEE
Q 032224 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF---AGKQ-----LEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~---~G~~-----L~d~~tL~~~gi~~~sti~l~ 70 (145)
...|.-.-||.||+..+....|+.+.+++|++ +|+. .+.+..|-.|.|++|+.+.+-
T Consensus 351 s~~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq 415 (418)
T KOG2982|consen 351 SGLICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ 415 (418)
T ss_pred ceEEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence 34556677999999999999999999999986 3432 234578999999999987653
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=83.55 E-value=2.6 Score=27.83 Aligned_cols=60 Identities=20% Similarity=0.356 Sum_probs=36.1
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC-Ce------eccCCC---cc--ccccccCCCEEEEEEEecCC
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA-GK------QLEDGR---TL--ADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~-G~------~L~d~~---tL--~~~gi~~~sti~l~~~~~gg 76 (145)
+++....||.+|-+.+.+.+ |..+..|+.. |. .|-++. .| .++-+++|++|.+.....||
T Consensus 23 ~~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~P~v~GG 94 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFISTLHGG 94 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEECCCCCC
Confidence 33435679999999998776 2333333322 21 122221 23 35668999999988777665
No 134
>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e.g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....
Probab=83.23 E-value=4.8 Score=34.90 Aligned_cols=64 Identities=36% Similarity=0.532 Sum_probs=42.3
Q ss_pred CEEEEEEcCCCcHHHHHHHHHHHh--CCC------cCceeeee--C--Ce-eccCC-------------CccccccccCC
Q 032224 11 KTITLEVESSDTIDNVKAKIQDKE--GIP------PDQQRLIF--A--GK-QLEDG-------------RTLADYNIQKE 64 (145)
Q Consensus 11 ~~~~l~V~~~~TV~~LK~~I~~~~--gip------~~~q~L~~--~--G~-~L~d~-------------~tL~~~gi~~~ 64 (145)
..+.+.|-..+||.++|++|-+.. +.| +++.-|.+ + |+ +|.|. .||..|+|.+|
T Consensus 202 ~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~dg 281 (539)
T PF08337_consen 202 EEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVPDG 281 (539)
T ss_dssp TCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--TT
T ss_pred ceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCCCC
Confidence 458889999999999999997553 343 34455432 2 23 55543 36999999999
Q ss_pred CEEEEEEEec
Q 032224 65 STLHLVLRLR 74 (145)
Q Consensus 65 sti~l~~~~~ 74 (145)
++|-++.+..
T Consensus 282 a~vaLv~k~~ 291 (539)
T PF08337_consen 282 ATVALVPKQH 291 (539)
T ss_dssp EEEEEEES--
T ss_pred ceEEEeeccc
Confidence 9999887653
No 135
>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=83.02 E-value=5.9 Score=25.85 Aligned_cols=54 Identities=24% Similarity=0.274 Sum_probs=39.7
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCc-eeee-e-----CCeeccCCCcc
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLI-F-----AGKQLEDGRTL 56 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~-~-----~G~~L~d~~tL 56 (145)
|.|-..+|.+-.|.|++.+|+.++-+.+..+.+...+. -.|+ . =.+.++|...|
T Consensus 5 vkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l~lER~~EDHE~v 65 (85)
T cd01787 5 VKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHLQLERLFEDHELV 65 (85)
T ss_pred EEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecchhhhhhhccchHHH
Confidence 45556789999999999999999999999999876543 3333 1 12456777543
No 136
>PRK01777 hypothetical protein; Validated
Probab=82.51 E-value=12 Score=24.86 Aligned_cols=69 Identities=9% Similarity=0.101 Sum_probs=45.4
Q ss_pred CEEEEEeCC-CC--EEEEEEcCCCcHHHHHHHHHHHhCCCcC--c-----eeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224 1 MQIFVKTLT-GK--TITLEVESSDTIDNVKAKIQDKEGIPPD--Q-----QRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 1 M~I~Vk~~~-g~--~~~l~V~~~~TV~~LK~~I~~~~gip~~--~-----q~L~~~G~~L~d~~tL~~~gi~~~sti~l~ 70 (145)
|+|.|-... .+ ...+++++.+||.++-.++ ||+.+ + -.+.-+|+....+. -+++|+.|.+.
T Consensus 4 i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~s----gi~~~~pei~~~~~~vgI~Gk~v~~d~-----~L~dGDRVeIy 74 (95)
T PRK01777 4 IRVEVVYALPERQYLQRLTLQEGATVEEAIRAS----GLLELRTDIDLAKNKVGIYSRPAKLTD-----VLRDGDRVEIY 74 (95)
T ss_pred eEEEEEEECCCceEEEEEEcCCCCcHHHHHHHc----CCCccCcccccccceEEEeCeECCCCC-----cCCCCCEEEEe
Confidence 456664432 22 4668899999999988765 55544 2 25556787765544 45679999988
Q ss_pred EEecCCcc
Q 032224 71 LRLRGGAK 78 (145)
Q Consensus 71 ~~~~gg~~ 78 (145)
-.+.-..+
T Consensus 75 rPL~~DPk 82 (95)
T PRK01777 75 RPLLADPK 82 (95)
T ss_pred cCCCCCHH
Confidence 77665544
No 137
>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=81.01 E-value=3.7 Score=27.78 Aligned_cols=58 Identities=14% Similarity=0.169 Sum_probs=39.6
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCcCc-eeeeeCCeeccCCCccccccc---cCCCEEEEEEE
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLADYNI---QKESTLHLVLR 72 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~~G~~L~d~~tL~~~gi---~~~sti~l~~~ 72 (145)
+=|+.+.||++|...|..+..++++. +-|+.++..+..+.++++.=- .++.-|++...
T Consensus 37 fLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFLY~~Ys 98 (104)
T PF02991_consen 37 FLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFLYMTYS 98 (104)
T ss_dssp EEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSEEEEEE
T ss_pred EEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeEEEEec
Confidence 45789999999999999999998764 566677766677777766421 23445666543
No 138
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=79.64 E-value=5.8 Score=25.98 Aligned_cols=38 Identities=24% Similarity=0.416 Sum_probs=31.7
Q ss_pred CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCe
Q 032224 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGK 48 (145)
Q Consensus 11 ~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~ 48 (145)
..+.+.|++++|=.++|+.|+..+|+++...+-+ +.|+
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk 59 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGK 59 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCC
Confidence 5789999999999999999999999998766433 4554
No 139
>PF11706 zf-CGNR: CGNR zinc finger; InterPro: IPR021005 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a C-terminal zinc finger domain. It seems likely to be DNA-binding given the conservation of many positively charged residues. The domain is named after a highly conserved motif found in many members of the family. ; PDB: 3H0N_A.
Probab=79.62 E-value=0.94 Score=25.86 Aligned_cols=23 Identities=26% Similarity=0.807 Sum_probs=10.7
Q ss_pred ccCCCCCCCccEEe--ceeCCccccc
Q 032224 119 KECPNAECGAGTFM--ASHFDRHYCE 142 (145)
Q Consensus 119 ~~c~~~~c~~g~~m--a~h~~~~~c~ 142 (145)
+.|.++.|+ .+|+ +.+..|-+|.
T Consensus 3 r~C~~~~C~-~~F~D~sr~~~RrwCs 27 (44)
T PF11706_consen 3 RRCANPDCR-WVFLDTSRNGRRRWCS 27 (44)
T ss_dssp EE--STT----EEE--SSS-----SS
T ss_pred cccCCCCCc-eEEEeCCCCCCceecC
Confidence 579888998 7999 7788888886
No 140
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=78.92 E-value=4.2 Score=34.27 Aligned_cols=74 Identities=15% Similarity=0.299 Sum_probs=58.7
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeeccC---CCccccccccCCCEEEEEEEecC
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLADYNIQKESTLHLVLRLRG 75 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~d---~~tL~~~gi~~~sti~l~~~~~g 75 (145)
.|.||.++|.+|.=.++.++-+..+++.+.+..++......|- |--+...| +++|.++.+.+...|.|+-+-++
T Consensus 316 rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvlpk~r~ 394 (506)
T KOG2507|consen 316 RLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVLPKKRA 394 (506)
T ss_pred EEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeeccccccccccchhhhhhHHHhccCCcceEEEEecCCc
Confidence 5789999999999999999999999999998887777666554 66666532 47899999998888877655433
No 141
>PRK09336 30S ribosomal protein S30e; Provisional
Probab=78.61 E-value=0.95 Score=26.53 Aligned_cols=23 Identities=30% Similarity=0.286 Sum_probs=18.5
Q ss_pred CCccccccccccCCcccccccce
Q 032224 75 GGAKKRKKKTYTKPKKIKHKKKK 97 (145)
Q Consensus 75 gg~~k~~k~~~~~pk~~k~~~kk 97 (145)
|.-.+++|+..+|||..++++++
T Consensus 5 GSLarAGKVr~qTPkv~k~ekkk 27 (50)
T PRK09336 5 GSLTKAGKVRSQTPKIPPKPKKN 27 (50)
T ss_pred hhhhhcccccCCCCCcchhhhcc
Confidence 44568899999999999887655
No 142
>smart00144 PI3K_rbd PI3-kinase family, Ras-binding domain. Certain members of the PI3K family possess Ras-binding domains in their N-termini. These regions show some similarity (although not highly significant similarity) to Ras-binding RA domains (unpublished observation).
Probab=78.42 E-value=18 Score=24.39 Aligned_cols=63 Identities=29% Similarity=0.307 Sum_probs=43.5
Q ss_pred CEEEEEEcCCCcHHHHHHHHHHHh------CCCcC-ceeeeeCCe--eccCCCcccccc-----ccCCCEEEEEEEe
Q 032224 11 KTITLEVESSDTIDNVKAKIQDKE------GIPPD-QQRLIFAGK--QLEDGRTLADYN-----IQKESTLHLVLRL 73 (145)
Q Consensus 11 ~~~~l~V~~~~TV~~LK~~I~~~~------gip~~-~q~L~~~G~--~L~d~~tL~~~g-----i~~~sti~l~~~~ 73 (145)
..+++.+++++|+.+|.+.+-... .-+++ +..|--.|+ -|..+..|.+|. +..+..++|++..
T Consensus 29 ~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~~~L~L~~ 105 (108)
T smart00144 29 QTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGREPHLVLMT 105 (108)
T ss_pred eeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCCceEEEEe
Confidence 468999999999999999887651 12222 455556665 356667777774 4667888887653
No 143
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=78.36 E-value=3.4 Score=37.61 Aligned_cols=62 Identities=18% Similarity=0.382 Sum_probs=46.6
Q ss_pred CCCEEEEEEc-CCCcHHHHHHHHHHHhCCCcCceeeee-CCeeccCCCcccccc-c-cCCCEEEEE
Q 032224 9 TGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIF-AGKQLEDGRTLADYN-I-QKESTLHLV 70 (145)
Q Consensus 9 ~g~~~~l~V~-~~~TV~~LK~~I~~~~gip~~~q~L~~-~G~~L~d~~tL~~~g-i-~~~sti~l~ 70 (145)
.|+..+++.. .++|+++||.+|+...|+...+|.++- +|..++.+..|..|. . .+.+-|++.
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffF 68 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVGHAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFF 68 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhchhhceeeeeecCCcCcccccchhhhccccCCCCceEEe
Confidence 4788888877 467999999999999999999988875 556777777777776 2 233345554
No 144
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=77.99 E-value=3.8 Score=27.46 Aligned_cols=38 Identities=32% Similarity=0.617 Sum_probs=27.3
Q ss_pred eeeeCCeeccCCCccccc-cccCCCEEEEEEEecCCccc
Q 032224 42 RLIFAGKQLEDGRTLADY-NIQKESTLHLVLRLRGGAKK 79 (145)
Q Consensus 42 ~L~~~G~~L~d~~tL~~~-gi~~~sti~l~~~~~gg~~k 79 (145)
.|.|.|+.|..+.+|++| |-.+-+.|.|-+...|.+.+
T Consensus 3 ~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~g~g~P 41 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKRGQGPP 41 (98)
T ss_pred eEEeccccccCCCcHHHhcCCCcceeEEEEeccCCCCCC
Confidence 588999999999999999 33334456666666666543
No 145
>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=77.66 E-value=13 Score=23.45 Aligned_cols=35 Identities=29% Similarity=0.448 Sum_probs=28.9
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCC--cCceeee
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIP--PDQQRLI 44 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip--~~~q~L~ 44 (145)
+...+|.|+.++|..++-+.+.+++++. ++...|+
T Consensus 12 ~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ 48 (87)
T cd01768 12 GTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALV 48 (87)
T ss_pred ccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEE
Confidence 5567899999999999999999999987 4444554
No 146
>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=77.23 E-value=15 Score=23.07 Aligned_cols=40 Identities=30% Similarity=0.256 Sum_probs=30.8
Q ss_pred EEEeCCCC----EEEEEEcCCCcHHHHHHHHHHHhCC--CcCceee
Q 032224 4 FVKTLTGK----TITLEVESSDTIDNVKAKIQDKEGI--PPDQQRL 43 (145)
Q Consensus 4 ~Vk~~~g~----~~~l~V~~~~TV~~LK~~I~~~~gi--p~~~q~L 43 (145)
.|-..++. .-.|.|++++|+.++-+++.+++++ .++...|
T Consensus 6 rVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L 51 (93)
T PF00788_consen 6 RVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCL 51 (93)
T ss_dssp EEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEE
T ss_pred EEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEE
Confidence 34344555 7789999999999999999999998 3344556
No 147
>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=76.75 E-value=8.2 Score=25.30 Aligned_cols=40 Identities=23% Similarity=0.290 Sum_probs=35.6
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCce
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ 41 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q 41 (145)
+|.|-.++|..+.+++.-+++.+++-+.+..+.|+|.+.+
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~ 42 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQ 42 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHH
Confidence 5667778999999999999999999999999999998754
No 148
>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=76.63 E-value=13 Score=24.08 Aligned_cols=43 Identities=14% Similarity=0.220 Sum_probs=35.1
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeee
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIF 45 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~ 45 (145)
+..|+ .+|.+..+.++..-|.+.|.++|...+.+|+...-|.|
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 34553 36777788888888999999999999999998777777
No 149
>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=76.40 E-value=5.5 Score=27.25 Aligned_cols=57 Identities=14% Similarity=0.146 Sum_probs=40.0
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCcCc-eeeeeCCeeccCCCccccc----cccCCCEEEEEEE
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLADY----NIQKESTLHLVLR 72 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~~G~~L~d~~tL~~~----gi~~~sti~l~~~ 72 (145)
+-|+.+.||++|...|.....++++. +-|+.++.....+.+++++ +. ++.-|++...
T Consensus 45 flVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd-~DGfLyl~Ys 106 (112)
T cd01611 45 YLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEEHKD-EDGFLYMTYS 106 (112)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHHhCC-CCCEEEEEEe
Confidence 45999999999999999999988866 4555566544556666544 32 2456776654
No 150
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=76.30 E-value=2.8 Score=31.76 Aligned_cols=30 Identities=20% Similarity=0.450 Sum_probs=22.3
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcC
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPD 39 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~ 39 (145)
|-+|.+.|.+.+|..++|++|++++|++..
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlgv~~k 161 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLGVSDK 161 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH---HH
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhCCChh
Confidence 557889999999999999999999999864
No 151
>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=76.15 E-value=12 Score=23.91 Aligned_cols=37 Identities=5% Similarity=0.130 Sum_probs=33.1
Q ss_pred EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCce
Q 032224 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ 41 (145)
Q Consensus 5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q 41 (145)
|-.++|+...+.|.|++|+.|+-+.+....++.|+.-
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh 40 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEH 40 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHh
Confidence 5567899999999999999999999999999998764
No 152
>PF04758 Ribosomal_S30: Ribosomal protein S30; InterPro: IPR006846 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry is for the ribosomal protein S30.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XZN_X 2XZM_X 3IZB_Z 3U5G_e 3U5C_e 3J16_E 3IZ6_Z.
Probab=75.81 E-value=0.5 Score=28.70 Aligned_cols=26 Identities=31% Similarity=0.305 Sum_probs=19.2
Q ss_pred cCCccccccccccCCcccccccceee
Q 032224 74 RGGAKKRKKKTYTKPKKIKHKKKKVK 99 (145)
Q Consensus 74 ~gg~~k~~k~~~~~pk~~k~~~kk~k 99 (145)
.|.-.+++|+..+|||.+++++++..
T Consensus 3 HGSLarAGKVR~QTPKV~k~~k~k~~ 28 (59)
T PF04758_consen 3 HGSLARAGKVRGQTPKVEKQEKKKKP 28 (59)
T ss_dssp CCCCTTTTHHHHHSSSSS--HHHHHH
T ss_pred ccchhhcccccccCCCcCccccccCC
Confidence 35567889999999999999877643
No 153
>KOG0007 consensus Splicing factor 3a, subunit 1 [RNA processing and modification]
Probab=75.42 E-value=1.4 Score=35.89 Aligned_cols=49 Identities=35% Similarity=0.575 Sum_probs=42.7
Q ss_pred CCCCEEEEEEc-CCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCcc
Q 032224 8 LTGKTITLEVE-SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL 56 (145)
Q Consensus 8 ~~g~~~~l~V~-~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL 56 (145)
.+|+...+.+. .+..+..||.++....+|+++.|.+.+.|..|.|+.++
T Consensus 290 ~dg~~~~~~~~~~~~~~~~~k~k~~~~~~i~~~~q~~~~~~~~l~d~~~~ 339 (341)
T KOG0007|consen 290 ADGQVIKITVQSLSENVASLKEKIADESQIPANKQKLRGEGAFLKDNRSL 339 (341)
T ss_pred CCCceeeeccccccccccccccccccccccchhheeeccCCcccCccccc
Confidence 46778888777 78889999999999999999999999999999887443
No 154
>PTZ00467 40S ribosomal protein S30; Provisional
Probab=74.08 E-value=0.86 Score=28.20 Aligned_cols=27 Identities=26% Similarity=0.282 Sum_probs=21.2
Q ss_pred cCCccccccccccCCcccccccceeee
Q 032224 74 RGGAKKRKKKTYTKPKKIKHKKKKVKL 100 (145)
Q Consensus 74 ~gg~~k~~k~~~~~pk~~k~~~kk~k~ 100 (145)
.|.-.+++|+..+||+..++++++...
T Consensus 5 HGSLarAGKVr~QTPkv~k~eKkk~~~ 31 (66)
T PTZ00467 5 HGSLARAGKVKNQTPKVAKQEKPKQPR 31 (66)
T ss_pred hhhhhhcccccCCCCCchhhhcccCCC
Confidence 345568899999999999988776653
No 155
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=73.78 E-value=9.5 Score=24.23 Aligned_cols=48 Identities=19% Similarity=0.354 Sum_probs=34.7
Q ss_pred CcHHHHHHHHHHHhCCCcCceeee--eCCeeccCCCccccccccCCCEEEEEE
Q 032224 21 DTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
.|+.+|+.+..+.++++....+|. -+|..++|+.-+..+. ..|+.+++
T Consensus 19 ~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEeyF~tLp---~nt~l~~L 68 (74)
T smart00266 19 SSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEEYFQTLP---DNTELMAL 68 (74)
T ss_pred CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHHHHhcCC---CCcEEEEE
Confidence 589999999999999996655554 4899998876655543 33444444
No 156
>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=73.51 E-value=4 Score=31.68 Aligned_cols=73 Identities=18% Similarity=0.421 Sum_probs=47.1
Q ss_pred EEEEEeCC--CCEEE----EEEcCCCcHHHHHHHHHHHhCCCcCceeeeeC----C--eeccCCCccccccccCCCEEEE
Q 032224 2 QIFVKTLT--GKTIT----LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFA----G--KQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 2 ~I~Vk~~~--g~~~~----l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~----G--~~L~d~~tL~~~gi~~~sti~l 69 (145)
-||+|..+ .+++. +-|+.+++|++|-..|.+..|+|++..-++|. + ..++...++....|.+|+.|.+
T Consensus 70 LlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~f 149 (249)
T PF12436_consen 70 LLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICF 149 (249)
T ss_dssp EEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEE
T ss_pred EEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEEE
Confidence 36677654 23332 57889999999999999999999876555552 2 3578889999999999999987
Q ss_pred EEEec
Q 032224 70 VLRLR 74 (145)
Q Consensus 70 ~~~~~ 74 (145)
-....
T Consensus 150 Q~~~~ 154 (249)
T PF12436_consen 150 QRAPS 154 (249)
T ss_dssp EE--G
T ss_pred Eeccc
Confidence 76554
No 157
>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=73.30 E-value=21 Score=22.65 Aligned_cols=59 Identities=17% Similarity=0.272 Sum_probs=42.7
Q ss_pred EE-EEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCeeccCCCccccccccCCCEEEEE
Q 032224 12 TI-TLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 12 ~~-~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~ 70 (145)
++ .+.|++++....+-...++.+.+|+..--++ -+|--+...++..+.-++.|+.|.++
T Consensus 16 p~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrli 76 (76)
T PF03671_consen 16 PYKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRLI 76 (76)
T ss_dssp -EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEEE
T ss_pred cceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeeeC
Confidence 44 4689999988888888888999998766555 56777788888888888889888763
No 158
>PF08783 DWNN: DWNN domain; InterPro: IPR014891 The ~75-residue DWNN (Domain With No Name) domain is highly conserved through eukaryotic species but is absent in prokaryotes. The DWNN domain is found only at the N terminus of the RBBP6 family of proteins which includes: Mammalian RBBP6, a splicing-associated protein that plays a role in the induction of apoptosis and regulation of the cell cycle. Drosophila melanogaster (Fruit fly) SNAMA (something that sticks like glue), a protein that appears to play a role in apoptosis. All of the identified RBBP6 homologues include the DWNN domain, a CCHC-type zinc finger (see PDOC50158 from PROSITEDOC) and a RING-type zinc finger (see PDOC00449 from PROSITEDOC). The three domain form is found in plants, protozoa, fungi and microsporidia. The RBBP6 homologues in vertebrates, insects and worms are longer and include additional domains. In addition to forming part of the full-length RBBP6 protein, the DWNN domain is also expressed in vertebrates as a small protein containing a DWNN domain and a short C-terminal tail (RBBP6 variant 3). The DWNN domain adopts a fold similar to the ubiquitin one, characterised by two alpha-helices and four beta-sheets ordered as beta-beta-alpha-beta-alpha-beta along the sequence. The similarity of DWNN domain to ubiquitin and the presence of the RING finger suggest that the DWNN domain may act as an ubiquitin-like modifier, possibly playing a role in the regulation of the splicing machinery [, ]. ; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 2C7H_A.
Probab=72.23 E-value=16 Score=23.14 Aligned_cols=33 Identities=21% Similarity=0.228 Sum_probs=21.9
Q ss_pred EEEeCCCC-EEEEEEc-CCCcHHHHHHHHHHHhCC
Q 032224 4 FVKTLTGK-TITLEVE-SSDTIDNVKAKIQDKEGI 36 (145)
Q Consensus 4 ~Vk~~~g~-~~~l~V~-~~~TV~~LK~~I~~~~gi 36 (145)
+-|..+.+ ...|.++ ...+|.+||.+|.+..++
T Consensus 2 ~YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~l 36 (74)
T PF08783_consen 2 HYKFKSQKDYDTITFDGTSISVFDLKREIIEKKKL 36 (74)
T ss_dssp EEEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT-
T ss_pred eEEecccCCccEEEECCCeeEHHHHHHHHHHHhCC
Confidence 33444443 4557777 457999999999887765
No 159
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=70.92 E-value=13 Score=24.46 Aligned_cols=33 Identities=18% Similarity=0.264 Sum_probs=29.6
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCcee
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQR 42 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~ 42 (145)
...+.+.|++.+|=.++|+.|+..+++++....
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~Vn 52 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFGVKVESVN 52 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCceeEEE
Confidence 468999999999999999999999999987664
No 160
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=70.69 E-value=12 Score=24.02 Aligned_cols=48 Identities=17% Similarity=0.373 Sum_probs=34.2
Q ss_pred CcHHHHHHHHHHHhCCCcCceeee--eCCeeccCCCccccccccCCCEEEEEE
Q 032224 21 DTIDNVKAKIQDKEGIPPDQQRLI--FAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
.|+.+|+.+..+.++++....+|+ -+|..++|+..+..+. ..|+.|++
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEeYF~tLp---~nT~l~~l 70 (78)
T cd01615 21 SSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEEYFQTLP---DNTVLMLL 70 (78)
T ss_pred CCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHHHHhcCC---CCcEEEEE
Confidence 579999999999999976555554 5888998876555543 33444443
No 161
>PF09469 Cobl: Cordon-bleu ubiquitin-like domain; InterPro: IPR019025 The Cordon-bleu protein domain is highly conserved among vertebrates. The sequence contains three repeated lysine, arginine, and proline-rich regions, the KKRAP motif. The exact function of the protein is unknown but it is thought to be involved in mid-brain neural tube closure. It is expressed specifically in the node []. ; PDB: 2DAJ_A.
Probab=70.62 E-value=7.7 Score=24.88 Aligned_cols=35 Identities=26% Similarity=0.484 Sum_probs=20.9
Q ss_pred HHHHHhCCCcCceeee---eCCeeccCCCccccccccC
Q 032224 29 KIQDKEGIPPDQQRLI---FAGKQLEDGRTLADYNIQK 63 (145)
Q Consensus 29 ~I~~~~gip~~~q~L~---~~G~~L~d~~tL~~~gi~~ 63 (145)
.|.+...+.|+...|+ ..+.+|+-+.+|.++||.+
T Consensus 2 ~IC~KCEfdp~htvLLrD~~s~e~LdLsKSLndlGirE 39 (79)
T PF09469_consen 2 AICEKCEFDPEHTVLLRDYQSGEELDLSKSLNDLGIRE 39 (79)
T ss_dssp HHHHHTT--TTSEEEES-SS---B--TTS-HHHHT-SE
T ss_pred ccccccccCcceEEEeecCCCCCcccccccHHHhhHHH
Confidence 4677778888888777 3556899999999999984
No 162
>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=70.25 E-value=27 Score=22.77 Aligned_cols=60 Identities=23% Similarity=0.379 Sum_probs=42.5
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHh-C--CCc--C-ceeeeeCC--eeccCCCccccccccCCCEEEEEE
Q 032224 12 TITLEVESSDTIDNVKAKIQDKE-G--IPP--D-QQRLIFAG--KQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~-g--ip~--~-~q~L~~~G--~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
...+.|+.++|+.++=++++... | +++ . ..++..+| +.+..+.++++.||.+-+.|.+..
T Consensus 16 ~~Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~ 83 (85)
T PF06234_consen 16 LQLVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRF 83 (85)
T ss_dssp EEEEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEE
T ss_pred EEEEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEE
Confidence 45678999999999999998653 3 333 2 45666888 899999999999999999888765
No 163
>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=70.04 E-value=14 Score=28.57 Aligned_cols=35 Identities=20% Similarity=0.358 Sum_probs=27.8
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI 44 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~ 44 (145)
+..|.++++..+|-.+|-+.|++..+++|+.++|+
T Consensus 189 ~~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~ 223 (249)
T PF12436_consen 189 DPEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFF 223 (249)
T ss_dssp ---EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE
T ss_pred CCCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEE
Confidence 34799999999999999999999999999999886
No 164
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=69.39 E-value=16 Score=23.50 Aligned_cols=39 Identities=13% Similarity=0.121 Sum_probs=30.4
Q ss_pred CcHHHHHHHHHHHhCCCcCceee--eeCCeeccCCCccccc
Q 032224 21 DTIDNVKAKIQDKEGIPPDQQRL--IFAGKQLEDGRTLADY 59 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~L--~~~G~~L~d~~tL~~~ 59 (145)
.|+.+|+.+..+..+++.+..+| .-+|..++|+..+..+
T Consensus 21 ~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~EeyF~~L 61 (78)
T cd06539 21 SSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEEFFQTL 61 (78)
T ss_pred cCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHHHHhhC
Confidence 57999999999999998655544 5689999887655544
No 165
>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=68.21 E-value=28 Score=22.09 Aligned_cols=35 Identities=26% Similarity=0.318 Sum_probs=28.9
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCc--Cceeee
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPP--DQQRLI 44 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~--~~q~L~ 44 (145)
+...+|.|++++|+.++-..+.++++++. +...|+
T Consensus 15 ~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~ 51 (90)
T smart00314 15 GTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLV 51 (90)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEE
Confidence 55688999999999999999999999875 344444
No 166
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=68.21 E-value=16 Score=23.28 Aligned_cols=33 Identities=12% Similarity=0.214 Sum_probs=29.6
Q ss_pred CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceee
Q 032224 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL 43 (145)
Q Consensus 11 ~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L 43 (145)
+.+.+.|++.+|=.++|+.|+..+++.+...+.
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt 47 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNT 47 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 589999999999999999999999998876644
No 167
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=67.90 E-value=28 Score=22.00 Aligned_cols=60 Identities=15% Similarity=0.304 Sum_probs=35.9
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhC-CCcCceeee------eCCeeccCCCccccccccCCCEEEEEEE
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEG-IPPDQQRLI------FAGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~g-ip~~~q~L~------~~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
.|-.-..++.|+++|+..|.+++. +.|....+. -.|-.|+.+..+.+.= .++++|.++++
T Consensus 4 KFLhlt~~~~tl~~L~~eI~~~f~kLYP~~~~~~I~~LQD~~~cDLD~d~~V~DVf-~~~~~vrvi~~ 70 (73)
T PF10407_consen 4 KFLHLTDPNNTLSQLKEEIEERFKKLYPNEPELEILSLQDSDGCDLDPDFLVKDVF-NSNNVVRVILK 70 (73)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHHHHHCCCCCCceEEEeecCCCCCCCcccEeeeee-ccCCEEEEEec
Confidence 345557899999999999999875 334332222 1233444444444432 35677777664
No 168
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=67.75 E-value=8.7 Score=24.61 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=18.0
Q ss_pred EEEEEcCCCcHHHHHHHHHHHh
Q 032224 13 ITLEVESSDTIDNVKAKIQDKE 34 (145)
Q Consensus 13 ~~l~V~~~~TV~~LK~~I~~~~ 34 (145)
+.++++.++|+.++|+.+.+.-
T Consensus 2 i~l~~~~~~Tl~~iK~~lw~~A 23 (78)
T PF02192_consen 2 IPLRVSRDATLSEIKEELWEEA 23 (78)
T ss_dssp EEEEEETT-BHHHHHHHHHHHG
T ss_pred eEEEccCcCcHHHHHHHHHHHH
Confidence 5689999999999999997654
No 169
>KOG2561 consensus Adaptor protein NUB1, contains UBA domain [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=66.67 E-value=1.9 Score=36.52 Aligned_cols=59 Identities=24% Similarity=0.264 Sum_probs=50.3
Q ss_pred EEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEE
Q 032224 14 TLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLR 72 (145)
Q Consensus 14 ~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~ 72 (145)
.+..+...|-++|...|+...||+-+..+.+.+|++|.-.+||.+-|++....+.+.+.
T Consensus 53 l~k~sL~i~Gselqa~iakklgi~enhvKci~~~Kils~~ktlaeQglk~nq~~mv~~~ 111 (568)
T KOG2561|consen 53 LKKCSLHITGSELQALIAKKLGIKENHVKCIINGKILSCRKTLAEQGLKINQELMVAVG 111 (568)
T ss_pred hhhcccccccHHHHHHHHHHcCCchhhhheeeccceeecccchhhhhhhhhhHHHHHhc
Confidence 34555566788999999999999999999999999999999999999988777666554
No 170
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=65.67 E-value=38 Score=22.67 Aligned_cols=31 Identities=19% Similarity=0.265 Sum_probs=26.9
Q ss_pred CCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc
Q 032224 8 LTGKTITLEVESSDTIDNVKAKIQDKEGIPP 38 (145)
Q Consensus 8 ~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~ 38 (145)
.++.-.++.++.++||++|-.++..++.++.
T Consensus 10 ~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~~ 40 (97)
T cd01775 10 SDGTFTTLSCPLNTTVSELIPQLAKKFYLPS 40 (97)
T ss_pred cCCcEEEEEcCCcCcHHHHHHHHHHhhcCCC
Confidence 3566678999999999999999999998876
No 171
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=65.06 E-value=4 Score=22.47 Aligned_cols=24 Identities=29% Similarity=0.600 Sum_probs=19.7
Q ss_pred cccCCCCCCCccEEeceeC--CcccccCC
Q 032224 118 RKECPNAECGAGTFMASHF--DRHYCEFV 144 (145)
Q Consensus 118 ~~~c~~~~c~~g~~ma~h~--~~~~c~~~ 144 (145)
.-.|. .|+ ++|..+|- +.|.|.+-
T Consensus 12 ~f~C~--~C~-~~FC~~HR~~e~H~C~~~ 37 (39)
T smart00154 12 GFKCR--HCG-NLFCGEHRLPEDHDCPGD 37 (39)
T ss_pred CeECC--ccC-CccccccCCccccCCccc
Confidence 66798 898 89999995 78888753
No 172
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=64.91 E-value=21 Score=23.18 Aligned_cols=34 Identities=12% Similarity=0.211 Sum_probs=30.1
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceee
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL 43 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L 43 (145)
...+.|.|++..+=.++|+.|+..+++.+...+.
T Consensus 21 ~n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT 54 (84)
T PRK14548 21 ENKLTFIVDRRATKPDIKRAVEELFDVKVEKVNT 54 (84)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 3589999999999999999999999999877654
No 173
>PRK05978 hypothetical protein; Provisional
Probab=64.85 E-value=3.8 Score=29.54 Aligned_cols=15 Identities=40% Similarity=1.174 Sum_probs=12.1
Q ss_pred ecccCCCCCCCccEEec
Q 032224 117 LRKECPNAECGAGTFMA 133 (145)
Q Consensus 117 l~~~c~~~~c~~g~~ma 133 (145)
++..|| +||.|-...
T Consensus 32 l~grCP--~CG~G~LF~ 46 (148)
T PRK05978 32 FRGRCP--ACGEGKLFR 46 (148)
T ss_pred HcCcCC--CCCCCcccc
Confidence 778899 999887644
No 174
>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=64.38 E-value=14 Score=23.99 Aligned_cols=59 Identities=5% Similarity=0.112 Sum_probs=38.8
Q ss_pred EEEEcCCCcHHHHHHHHHHHhCCCcCc-eeeeeCCeec-cCCCcccccc--ccCCCEEEEEEE
Q 032224 14 TLEVESSDTIDNVKAKIQDKEGIPPDQ-QRLIFAGKQL-EDGRTLADYN--IQKESTLHLVLR 72 (145)
Q Consensus 14 ~l~V~~~~TV~~LK~~I~~~~gip~~~-q~L~~~G~~L-~d~~tL~~~g--i~~~sti~l~~~ 72 (145)
.+-|+.+.|++++..-|..+.++.+++ +-|..+...+ ..+.+++++= -.++..|++...
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Ys 81 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSYC 81 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEEe
Confidence 356999999999999999999988765 4555555423 3444543321 034566766543
No 175
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=64.24 E-value=19 Score=23.93 Aligned_cols=34 Identities=15% Similarity=0.245 Sum_probs=29.7
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceee
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRL 43 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L 43 (145)
...+.+.|++++|=.++|+.+++.+|+-+.....
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~VkV~kVNT 54 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFGVKVEKVNT 54 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEE
Confidence 4678999999999999999999999988776543
No 176
>PRK09710 lar restriction alleviation and modification protein; Reviewed
Probab=64.00 E-value=6.6 Score=24.23 Aligned_cols=21 Identities=29% Similarity=0.626 Sum_probs=17.5
Q ss_pred cccCCCCCCCccEEeceeCCccc
Q 032224 118 RKECPNAECGAGTFMASHFDRHY 140 (145)
Q Consensus 118 ~~~c~~~~c~~g~~ma~h~~~~~ 140 (145)
.+-|| .||--+....|.+++|
T Consensus 6 lKPCP--FCG~~~~~v~~~~g~~ 26 (64)
T PRK09710 6 VKPCP--FCGCPSVTVKAISGYY 26 (64)
T ss_pred ccCCC--CCCCceeEEEecCceE
Confidence 36799 9998888888988887
No 177
>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=63.82 E-value=35 Score=21.62 Aligned_cols=47 Identities=23% Similarity=0.345 Sum_probs=38.8
Q ss_pred EEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCC--eecc
Q 032224 5 VKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAG--KQLE 51 (145)
Q Consensus 5 Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G--~~L~ 51 (145)
|-.++|+.-.+.+.|.+||.|+-..+-++-|+.++.--++.-| ++|+
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~ 52 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLV 52 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccc
Confidence 3356888889999999999999999999999999887777545 3554
No 178
>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=63.63 E-value=40 Score=22.27 Aligned_cols=71 Identities=23% Similarity=0.393 Sum_probs=43.0
Q ss_pred EEEEEeC-CCCEEEEEEcCCCcHHHHHHHHHHH--hCCCc---C-ceeeeeCCe--eccCCCcccccc-----ccCCCEE
Q 032224 2 QIFVKTL-TGKTITLEVESSDTIDNVKAKIQDK--EGIPP---D-QQRLIFAGK--QLEDGRTLADYN-----IQKESTL 67 (145)
Q Consensus 2 ~I~Vk~~-~g~~~~l~V~~~~TV~~LK~~I~~~--~gip~---~-~q~L~~~G~--~L~d~~tL~~~g-----i~~~sti 67 (145)
.|.|... +...+++.++.+.|+.+|-+++... .+..+ . +..|--.|+ -|..+..|.+|. +..+-.+
T Consensus 18 ~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G~~EyL~g~~~L~~y~yIr~cl~~~~~~ 97 (106)
T PF00794_consen 18 KVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCGREEYLLGDHPLSQYEYIRQCLKRGKDP 97 (106)
T ss_dssp EEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETTSSEEE-SSS-GGGBHHHHHHHHCT--E
T ss_pred EEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecCceEEeeCCeeeeccHHHHHHHhcCCCc
Confidence 3555555 3457999999999999999988766 22222 1 445555664 456777888884 3556667
Q ss_pred EEEEE
Q 032224 68 HLVLR 72 (145)
Q Consensus 68 ~l~~~ 72 (145)
+|++.
T Consensus 98 ~L~Lv 102 (106)
T PF00794_consen 98 HLVLV 102 (106)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 66653
No 179
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=63.00 E-value=20 Score=23.13 Aligned_cols=48 Identities=17% Similarity=0.234 Sum_probs=33.3
Q ss_pred CcHHHHHHHHHHHhCCCcC--ceee--eeCCeeccCCCccccccccCCCEEEEEE
Q 032224 21 DTIDNVKAKIQDKEGIPPD--QQRL--IFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~--~q~L--~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
.|+.+|+.+..+.+.++.+ ..+| .-+|..++|+.-+..+. ..|..|++
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEeyF~tLp---~nT~l~~L 72 (80)
T cd06536 21 SSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDEDYFLCLP---PNTKFVLL 72 (80)
T ss_pred CCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHHHHhhCC---CCcEEEEE
Confidence 5799999999999999843 2444 46899998876665543 33444443
No 180
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=62.30 E-value=30 Score=23.73 Aligned_cols=38 Identities=5% Similarity=0.198 Sum_probs=31.7
Q ss_pred EEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeec
Q 032224 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQL 50 (145)
Q Consensus 13 ~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L 50 (145)
-...|++++|++.+-..|....+++++++-.+|=....
T Consensus 47 ~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sF 84 (116)
T KOG3439|consen 47 SKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSF 84 (116)
T ss_pred ceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCcc
Confidence 34689999999999999999999999888777655433
No 181
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=62.19 E-value=4.6 Score=21.69 Aligned_cols=6 Identities=33% Similarity=0.855 Sum_probs=2.4
Q ss_pred Cccccc
Q 032224 137 DRHYCE 142 (145)
Q Consensus 137 ~~~~c~ 142 (145)
.|+.|.
T Consensus 21 ~R~vC~ 26 (34)
T PF14803_consen 21 ERLVCP 26 (34)
T ss_dssp -EEEET
T ss_pred cceECC
Confidence 344444
No 182
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=60.97 E-value=4.6 Score=21.31 Aligned_cols=12 Identities=42% Similarity=1.182 Sum_probs=8.8
Q ss_pred cCCCCCCCccEEec
Q 032224 120 ECPNAECGAGTFMA 133 (145)
Q Consensus 120 ~c~~~~c~~g~~ma 133 (145)
-|| .||.||...
T Consensus 3 lcp--kcgvgvl~p 14 (36)
T PF09151_consen 3 LCP--KCGVGVLEP 14 (36)
T ss_dssp B-T--TTSSSBEEE
T ss_pred cCC--ccCceEEEE
Confidence 489 999998754
No 183
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=60.53 E-value=12 Score=23.97 Aligned_cols=22 Identities=23% Similarity=0.388 Sum_probs=18.8
Q ss_pred EEEEEcCCCcHHHHHHHHHHHh
Q 032224 13 ITLEVESSDTIDNVKAKIQDKE 34 (145)
Q Consensus 13 ~~l~V~~~~TV~~LK~~I~~~~ 34 (145)
+.++|+.++|+.++|+.+.+.-
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A 23 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQA 23 (78)
T ss_pred eeEEccccccHHHHHHHHHHHH
Confidence 4688999999999999997654
No 184
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=60.47 E-value=21 Score=22.28 Aligned_cols=43 Identities=21% Similarity=0.315 Sum_probs=28.8
Q ss_pred CcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEE
Q 032224 21 DTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l 69 (145)
.|+++|....++++|+++. ..+.-+|...+|=.. |.+|+.|++
T Consensus 26 ~SleeLl~ia~~kfg~~~~-~v~~~dgaeIdDI~~-----IRDgD~L~~ 68 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFSAT-KVLNEDGAEIDDIDV-----IRDGDHLYL 68 (69)
T ss_pred ccHHHHHHHHHHHhCCCce-EEEcCCCCEEeEEEE-----EEcCCEEEE
Confidence 6999999999999999733 333344544444322 456777765
No 185
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=59.72 E-value=25 Score=22.61 Aligned_cols=48 Identities=17% Similarity=0.238 Sum_probs=33.4
Q ss_pred CcHHHHHHHHHHHhCCCc-CceeeeeCCeeccCCCccccccccCCCEEEEEE
Q 032224 21 DTIDNVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~-~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~ 71 (145)
.|+.+|+.+..+.++++. ....|.-+|..++|+.-+..+. ..|+.|++
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~lvL~eDGT~Vd~EeyF~tLp---~nt~l~vL 69 (79)
T cd06538 21 DSLEDLLNKVLDALLLDCISSLVLDEDGTGVDTEEFFQALA---DNTVFMVL 69 (79)
T ss_pred CCHHHHHHHHHHHcCCCCccEEEEecCCcEEccHHHHhhCC---CCcEEEEE
Confidence 589999999999999963 2344556889998876555543 34544444
No 186
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=58.68 E-value=11 Score=30.95 Aligned_cols=65 Identities=17% Similarity=0.155 Sum_probs=50.1
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHh-CCCcCceeeeeCC---eec--cCCCccccccccCCCE
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVKAKIQDKE-GIPPDQQRLIFAG---KQL--EDGRTLADYNIQKEST 66 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~-gip~~~q~L~~~G---~~L--~d~~tL~~~gi~~~st 66 (145)
.|.||.++|+.....+..+++|.-|-.-+.... |.+-...+|+.+- +.| ..+.||.++||.+..+
T Consensus 279 ~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 279 SIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 378899999877777788899988887776554 5666778888665 455 3568999999988765
No 187
>PF01428 zf-AN1: AN1-like Zinc finger; InterPro: IPR000058 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the AN1-type zinc finger domain, which has a dimetal (zinc)-bound alpha/beta fold. This domain was first identified as a zinc finger at the C terminus of AN1 Q91889 from SWISSPROT, a ubiquitin-like protein in Xenopus laevis []. The AN1-type zinc finger contains six conserved cysteines and two histidines that could potentially coordinate 2 zinc atoms. Certain stress-associated proteins (SAP) contain AN1 domain, often in combination with A20 zinc finger domains (SAP8) or C2H2 domains (SAP16) []. For example, the human protein Znf216 has an A20 zinc-finger at the N terminus and an AN1 zinc-finger at the C terminus, acting to negatively regulate the NFkappaB activation pathway and to interact with components of the immune response like RIP, IKKgamma and TRAF6. The interact of Znf216 with IKK-gamma and RIP is mediated by the A20 zinc-finger domain, while its interaction with TRAF6 is mediated by the AN1 zinc-finger domain; therefore, both zinc-finger domains are involved in regulating the immune response []. The AN1 zinc finger domain is also found in proteins containing a ubiquitin-like domain, which are involved in the ubiquitination pathway []. Proteins containing an AN1-type zinc finger include: Ascidian posterior end mark 6 (pem-6) protein []. Human AWP1 protein (associated with PRK1), which is expressed during early embryogenesis []. Human immunoglobulin mu binding protein 2 (SMUBP-2), mutations in which cause muscular atrophy with respiratory distress type 1 []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1WFP_A 1WYS_A 1WG2_A 1WFH_A 1X4W_A 1WFE_A 1WFL_A 1X4V_A.
Probab=58.53 E-value=6 Score=22.09 Aligned_cols=25 Identities=32% Similarity=0.736 Sum_probs=16.5
Q ss_pred ecccCCCCCCCccEEecee--CCcccccCC
Q 032224 117 LRKECPNAECGAGTFMASH--FDRHYCEFV 144 (145)
Q Consensus 117 l~~~c~~~~c~~g~~ma~h--~~~~~c~~~ 144 (145)
+.-.|+ .|+ +.|...| .+.|-|...
T Consensus 12 ~~~~C~--~C~-~~FC~~Hr~~e~H~C~~~ 38 (43)
T PF01428_consen 12 LPFKCK--HCG-KSFCLKHRLPEDHNCSKL 38 (43)
T ss_dssp SHEE-T--TTS--EE-TTTHSTTTCT-SST
T ss_pred CCeECC--CCC-cccCccccCccccCCcch
Confidence 567899 898 8999999 467888753
No 188
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=58.06 E-value=14 Score=33.51 Aligned_cols=58 Identities=17% Similarity=0.271 Sum_probs=43.7
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--e--CCeec--cCCCccccccccCCCEEEEEE
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--F--AGKQL--EDGRTLADYNIQKESTLHLVL 71 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~--~G~~L--~d~~tL~~~gi~~~sti~l~~ 71 (145)
-+.+.|+..++++.+|+.|++..+++.+..+|+ + +|..+ .++.+|+.+ .++.+|.+-+
T Consensus 878 ~~kl~Vd~rmr~~AFKkHiE~~i~V~~~HFKi~R~~~~N~~~~S~~~NetLs~~--~~~~~iTI~L 941 (1203)
T KOG4598|consen 878 FHKLDVDSRMRVLAFKKHVEEQLEVDKDHFKIVRHASDNGSEASFMDNETLSGA--FQSCFITIKL 941 (1203)
T ss_pred heeeeccceeeHHHHHHHHHHHhCcChhHeEEEEEecCCcchhhhccchhhhhh--cccceEEEEe
Confidence 356889999999999999999999999998887 2 33333 466777755 3566765543
No 189
>cd01776 Rin1_RA Ubiquitin domain of RIN1 RAS effector. Rin1_RA RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form, that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles. In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=58.05 E-value=39 Score=22.02 Aligned_cols=42 Identities=24% Similarity=0.220 Sum_probs=32.6
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCC-cCceeee--eCCe--eccCC
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIP-PDQQRLI--FAGK--QLEDG 53 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip-~~~q~L~--~~G~--~L~d~ 53 (145)
.-++.|.|.+|+.+|=+.++.++.|. |+...|+ -+|. .|.|+
T Consensus 15 ~KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd 61 (87)
T cd01776 15 GKTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPD 61 (87)
T ss_pred eeeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCcc
Confidence 46799999999999999999999875 5665665 3553 67665
No 190
>CHL00030 rpl23 ribosomal protein L23
Probab=58.00 E-value=28 Score=23.01 Aligned_cols=32 Identities=22% Similarity=0.158 Sum_probs=28.2
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCce
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQ 41 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q 41 (145)
...+.+.|++++|=.++|++|+..+++.+...
T Consensus 19 ~n~y~F~V~~~anK~eIK~avE~lf~VkV~~V 50 (93)
T CHL00030 19 KNQYTFDVDSGSTKTEIKHWIELFFGVKVIAV 50 (93)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCeEEEE
Confidence 46899999999999999999999999876554
No 191
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=57.73 E-value=32 Score=22.24 Aligned_cols=39 Identities=10% Similarity=0.016 Sum_probs=28.9
Q ss_pred CcHHHHHHHHHHHhCCCc-CceeeeeCCeeccCCCccccc
Q 032224 21 DTIDNVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLADY 59 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~-~~q~L~~~G~~L~d~~tL~~~ 59 (145)
.|+.+|+.+..+..+++. ..+.|.-+|..++|+..+..+
T Consensus 21 ~sL~EL~~K~~~~L~~~~~~~lvLeeDGT~Vd~EeyF~tL 60 (81)
T cd06537 21 ASLQELLAKALETLLLSGVLTLVLEEDGTAVDSEDFFELL 60 (81)
T ss_pred cCHHHHHHHHHHHhCCCCceEEEEecCCCEEccHHHHhhC
Confidence 579999999999999873 334444688899887655544
No 192
>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=56.49 E-value=44 Score=21.70 Aligned_cols=37 Identities=14% Similarity=0.275 Sum_probs=30.6
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcC-ceeeee
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPD-QQRLIF 45 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~-~q~L~~ 45 (145)
+|..+...++++.|..+|.+++.+....+.+ ...+.|
T Consensus 8 ~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw 45 (83)
T cd06404 8 NGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKW 45 (83)
T ss_pred cCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEE
Confidence 6788888999999999999999999988664 345555
No 193
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=56.11 E-value=6.9 Score=22.30 Aligned_cols=7 Identities=29% Similarity=0.576 Sum_probs=3.8
Q ss_pred cccccCC
Q 032224 138 RHYCEFV 144 (145)
Q Consensus 138 ~~~c~~~ 144 (145)
|+.|..|
T Consensus 20 ~~vC~~C 26 (52)
T smart00661 20 RFVCRKC 26 (52)
T ss_pred EEECCcC
Confidence 5555544
No 194
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=55.51 E-value=52 Score=22.21 Aligned_cols=36 Identities=25% Similarity=0.319 Sum_probs=28.0
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCc
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPP 38 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~ 38 (145)
|+|-..+|++..|.|..-.+..+++.++-.++|++.
T Consensus 3 i~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~ 38 (105)
T PF14847_consen 3 IRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPE 38 (105)
T ss_dssp EEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS-
T ss_pred EEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCcc
Confidence 566677899999999999999999999999999887
No 195
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=55.07 E-value=66 Score=22.03 Aligned_cols=37 Identities=19% Similarity=0.214 Sum_probs=29.9
Q ss_pred CEEEEEeCCCCE--EEEEEcCCCcHHHHHHHHHHHhCCC
Q 032224 1 MQIFVKTLTGKT--ITLEVESSDTIDNVKAKIQDKEGIP 37 (145)
Q Consensus 1 M~I~Vk~~~g~~--~~l~V~~~~TV~~LK~~I~~~~gip 37 (145)
|+.++...+++. -.|.|++++|+.++.+.+-+++.+.
T Consensus 24 mrf~~qd~~~k~atK~VrVsS~~tt~eVI~~LLeKFk~d 62 (112)
T cd01782 24 MRFYFQDGGEKVATKCIRVSSTATTRDVIDTLSEKFRPD 62 (112)
T ss_pred EEEEEEcCCCcEEEEEEEEecCCCHHHHHHHHHHHhccc
Confidence 667777766653 4589999999999999999998854
No 196
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=53.53 E-value=6.9 Score=19.41 Aligned_cols=9 Identities=56% Similarity=1.316 Sum_probs=6.9
Q ss_pred cccCCCCCCCc
Q 032224 118 RKECPNAECGA 128 (145)
Q Consensus 118 ~~~c~~~~c~~ 128 (145)
...|| +||+
T Consensus 2 ~~~Cp--~Cg~ 10 (26)
T PF13248_consen 2 EMFCP--NCGA 10 (26)
T ss_pred cCCCc--ccCC
Confidence 36788 8987
No 197
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=50.05 E-value=39 Score=24.61 Aligned_cols=38 Identities=8% Similarity=0.036 Sum_probs=32.0
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCC
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAG 47 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G 47 (145)
...+.|.|++++|=.++|..|+..+++.+.....+ ..|
T Consensus 22 ~N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~~~~ 60 (158)
T PRK12280 22 KNVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFNVDK 60 (158)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEecCC
Confidence 46799999999999999999999999998776544 444
No 198
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=49.75 E-value=11 Score=22.02 Aligned_cols=25 Identities=20% Similarity=0.357 Sum_probs=11.5
Q ss_pred ccCCCCCCCccEEeceeCCc--ccccC
Q 032224 119 KECPNAECGAGTFMASHFDR--HYCEF 143 (145)
Q Consensus 119 ~~c~~~~c~~g~~ma~h~~~--~~c~~ 143 (145)
+.||++.|+.++......+. ..|..
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~ 45 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPS 45 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTS
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCC
Confidence 58998889966555544444 45543
No 199
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.84 E-value=8.2 Score=26.90 Aligned_cols=12 Identities=58% Similarity=1.442 Sum_probs=10.7
Q ss_pred ecccCCCCCCCccE
Q 032224 117 LRKECPNAECGAGT 130 (145)
Q Consensus 117 l~~~c~~~~c~~g~ 130 (145)
++..|| +||.|-
T Consensus 20 l~grCP--~CGeGr 31 (126)
T COG5349 20 LRGRCP--RCGEGR 31 (126)
T ss_pred hcCCCC--CCCCch
Confidence 789999 999985
No 200
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=45.80 E-value=19 Score=22.99 Aligned_cols=55 Identities=9% Similarity=0.109 Sum_probs=32.0
Q ss_pred cCCCcHHHHHHHHHHHhCCC---cCcee-e-eeCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 18 ESSDTIDNVKAKIQDKEGIP---PDQQR-L-IFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 18 ~~~~TV~~LK~~I~~~~gip---~~~q~-L-~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
....||++|.+.+.++.... -.... + ..+...+.+. +.-|++|++|.+.....||
T Consensus 25 ~~~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~----~t~L~dGDeVa~~PPVsGG 84 (84)
T COG1977 25 TVGATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGL----DTPLKDGDEVAFFPPVSGG 84 (84)
T ss_pred cHHHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeeccc----cccCCCCCEEEEeCCCCCC
Confidence 34578999999986665311 11111 1 1233333332 3346789999988777776
No 201
>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=45.79 E-value=42 Score=22.35 Aligned_cols=64 Identities=20% Similarity=0.374 Sum_probs=34.3
Q ss_pred CEEEEEEc---CCCcHHHHHHHHHHHhCCCcCceeeeeCCe-------eccC--CCcc---ccccccCCCEEEEEEEecC
Q 032224 11 KTITLEVE---SSDTIDNVKAKIQDKEGIPPDQQRLIFAGK-------QLED--GRTL---ADYNIQKESTLHLVLRLRG 75 (145)
Q Consensus 11 ~~~~l~V~---~~~TV~~LK~~I~~~~gip~~~q~L~~~G~-------~L~d--~~tL---~~~gi~~~sti~l~~~~~g 75 (145)
+.+.++++ ...|+.+|-..|.+..-- ++--|+..+. .|=+ +.-| .+|-++++++|.++-.+.|
T Consensus 18 k~h~v~l~~~~~~~ti~~Li~~l~~nll~--~r~elF~~~~~vrPGILvLINd~DwEl~g~~~y~l~~~D~I~FiSTLHG 95 (96)
T PF09138_consen 18 KKHKVSLPSDGEPATIKDLIDYLRDNLLK--ERPELFLEGGSVRPGILVLINDADWELLGEEDYVLKDGDNITFISTLHG 95 (96)
T ss_dssp SEEEEEE-SSCSC-BHHHHHHHHCCCT-S--SGHHHHBSSSSB-TTEEEEETTCEHHHHTCCCSB--TTEEEEEEETTT-
T ss_pred eeEEEEcCCCCCCcCHHHHHHHHHHhccC--CCHhHEecCCeEcCcEEEEEcCccceeecCcceEcCCCCEEEEEccCCC
Confidence 46778877 678999999888754321 1222222221 1211 1222 3688999999998887777
Q ss_pred C
Q 032224 76 G 76 (145)
Q Consensus 76 g 76 (145)
|
T Consensus 96 G 96 (96)
T PF09138_consen 96 G 96 (96)
T ss_dssp -
T ss_pred C
Confidence 6
No 202
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=44.90 E-value=18 Score=29.38 Aligned_cols=47 Identities=19% Similarity=0.262 Sum_probs=38.6
Q ss_pred EEEEEcCCCcHHHHHHHHHHHhC-CC-cCceeeeeCCeeccCCCccccc
Q 032224 13 ITLEVESSDTIDNVKAKIQDKEG-IP-PDQQRLIFAGKQLEDGRTLADY 59 (145)
Q Consensus 13 ~~l~V~~~~TV~~LK~~I~~~~g-ip-~~~q~L~~~G~~L~d~~tL~~~ 59 (145)
-.+.++..+||.+|+.-+..+.+ ++ ..+.-+++++..|.+..||.+.
T Consensus 166 ~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~i 214 (331)
T KOG2660|consen 166 RFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKDI 214 (331)
T ss_pred ceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhhh
Confidence 34678889999999999999988 43 3566888999999999988754
No 203
>PHA00626 hypothetical protein
Probab=44.74 E-value=17 Score=21.83 Aligned_cols=6 Identities=67% Similarity=2.189 Sum_probs=3.2
Q ss_pred CCCCCCCc
Q 032224 121 CPNAECGA 128 (145)
Q Consensus 121 c~~~~c~~ 128 (145)
|| .||.
T Consensus 3 CP--~CGS 8 (59)
T PHA00626 3 CP--KCGS 8 (59)
T ss_pred CC--CCCC
Confidence 55 5554
No 204
>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=44.64 E-value=19 Score=21.54 Aligned_cols=31 Identities=13% Similarity=0.275 Sum_probs=20.9
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHH
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQ 31 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~ 31 (145)
|.|.+.+.+|+.|.++...-.--.-|+..++
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~ 31 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNMLE 31 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHHHH
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHHHh
Confidence 7899999999999998554333344455554
No 205
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=44.42 E-value=84 Score=20.15 Aligned_cols=62 Identities=21% Similarity=0.275 Sum_probs=43.0
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCcCceeee-eCCeeccCCCccccccccCCCEEEEEEEecCC
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLI-FAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~~~q~L~-~~G~~L~d~~tL~~~gi~~~sti~l~~~~~gg 76 (145)
++|+.++....+-.--++.+.+|+.---++ -+|--+...++-...=++.||.+.++.|.+-|
T Consensus 31 ~svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agnvflkhgselr~iprdrvg 93 (94)
T KOG3483|consen 31 LSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDRVG 93 (94)
T ss_pred ecCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccceeeccCCEEEeccccccC
Confidence 466666666666556677788888665555 45555666677777778899999888776544
No 206
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=44.33 E-value=22 Score=24.42 Aligned_cols=29 Identities=28% Similarity=0.398 Sum_probs=23.9
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHH
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKI 30 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I 30 (145)
|+|.|.. +++.+..++..+.|..+|.+++
T Consensus 1 mkI~i~i-~~~~~~a~L~d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKITI-GGQEIEAELNDSPTARAFAAQL 29 (120)
T ss_dssp EEEEEEE-TTEEEEEEEETTHHHHHHHHC-
T ss_pred CeEEEEE-CCEEEEEEECCCHHHHHHHHhC
Confidence 7888865 5789999999999998888765
No 207
>PF01376 Enterotoxin_b: Heat-labile enterotoxin beta chain; InterPro: IPR001835 Escherichia coli heat-labile enterotoxin is a bacterial protein toxin with an AB5 multimer structure, in which the B pentamer has a membrane-binding function and the A chain (IPR001144 from INTERPRO) is needed for enzymatic activity []. The B subunits are arranged as a donut-shaped pentamer, each subunit participating in ~30 hydrogen bonds and 6 salt bridges with its two neighbours []. The A subunit has a less well-defined secondary structure. It predominantly interacts with the pentamer via the C-terminal A2 fragment, which runs through the charged central pore of the B subunits. A putative catalytic residue in the A1 fragment (Glu112) lies close to a hydrophobic region, which packs two loops together. It is thought that this region might be important for catalysis and membrane translocation [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1LTA_D 2XRS_O 1LTS_E 1LTT_H 1TET_P 1JQY_Y 1PZI_D 1DJR_E 1EEF_D 1LTB_E ....
Probab=43.83 E-value=39 Score=22.00 Aligned_cols=31 Identities=29% Similarity=0.423 Sum_probs=21.0
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHH
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDK 33 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~ 33 (145)
+.|...+|.+|.++|+.++-+..-|..|+..
T Consensus 38 ~iitf~ngatfqvevpgsqhi~sqkk~ierm 68 (102)
T PF01376_consen 38 VIITFKNGATFQVEVPGSQHIDSQKKAIERM 68 (102)
T ss_dssp EEEEETTS-EEEE--SSTTSTTTHHHHHHHH
T ss_pred EEEEecCCcEEEEecCCccchhhhHHHHHHH
Confidence 4566678999999999988877777766543
No 208
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=43.34 E-value=91 Score=20.23 Aligned_cols=72 Identities=14% Similarity=0.198 Sum_probs=35.5
Q ss_pred CEEEEEeC--CCC-EEEEEEcCCCcHHHHHHHHH--HH-hCCCcCceeeeeCCeeccCCCccccccccCCCEEEEEEEec
Q 032224 1 MQIFVKTL--TGK-TITLEVESSDTIDNVKAKIQ--DK-EGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLR 74 (145)
Q Consensus 1 M~I~Vk~~--~g~-~~~l~V~~~~TV~~LK~~I~--~~-~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~~~~~ 74 (145)
|+|.|-.. ..+ .+.++|+..+||.+--++-. +. -.+..+..++-.-|+....+. -+++|+.|.+.-.+.
T Consensus 1 i~VeV~yA~p~~q~~~~l~vp~GtTv~~Ai~~Sgi~~~~p~idl~~~~vGIfGk~~~~d~-----~L~~GDRVEIYRPL~ 75 (84)
T PF03658_consen 1 IRVEVAYALPERQVILTLEVPEGTTVAQAIEASGILEQFPEIDLEKNKVGIFGKLVKLDT-----VLRDGDRVEIYRPLT 75 (84)
T ss_dssp EEEEEEEEETTCEEEEEEEEETT-BHHHHHHHHTHHHH-TT--TTTSEEEEEE-S--TT------B--TT-EEEEE-S--
T ss_pred CEEEEEEECCCeEEEEEEECCCcCcHHHHHHHcCchhhCcccCcccceeeeeeeEcCCCC-----cCCCCCEEEEeccCc
Confidence 55666433 333 46789999999988766432 22 245556667766676655444 446799999875554
Q ss_pred CCc
Q 032224 75 GGA 77 (145)
Q Consensus 75 gg~ 77 (145)
-..
T Consensus 76 ~DP 78 (84)
T PF03658_consen 76 ADP 78 (84)
T ss_dssp ---
T ss_pred cCh
Confidence 443
No 209
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=41.27 E-value=24 Score=20.54 Aligned_cols=16 Identities=31% Similarity=0.748 Sum_probs=11.3
Q ss_pred cccCCCCCCCccEEec
Q 032224 118 RKECPNAECGAGTFMA 133 (145)
Q Consensus 118 ~~~c~~~~c~~g~~ma 133 (145)
.+.||++.|+..++..
T Consensus 18 ~~~CP~~~C~~~~~~~ 33 (64)
T smart00647 18 LKWCPAPDCSAAIIVT 33 (64)
T ss_pred ccCCCCCCCcceEEec
Confidence 4578888888766654
No 210
>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=40.64 E-value=43 Score=23.18 Aligned_cols=25 Identities=20% Similarity=0.345 Sum_probs=19.0
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCcC
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPPD 39 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~~ 39 (145)
++|+.+.|+.+|-+.+++.+|+.+.
T Consensus 37 ~~v~~~~Tl~~li~~~~~~~~lev~ 61 (125)
T PF09358_consen 37 IEVNGDMTLQELIDYFKEKYGLEVT 61 (125)
T ss_dssp EEEES--BHHHHHHHHHHTTS-EEE
T ss_pred EEEcCCCCHHHHHHHHHHHhCceEE
Confidence 5777789999999999999998765
No 211
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=39.80 E-value=1.1e+02 Score=20.33 Aligned_cols=57 Identities=26% Similarity=0.375 Sum_probs=36.1
Q ss_pred CCCcHHHHHHHHHHHhCCCcCceeeeeCCee------c-cC-CCc-c--ccccccCCCEEEEEEEecCC
Q 032224 19 SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ------L-ED-GRT-L--ADYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 19 ~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~------L-~d-~~t-L--~~~gi~~~sti~l~~~~~gg 76 (145)
..+||.+|-..|....--.+++ -++.+|.. | .| +.- | .+|.+++|+.|.++-.+.||
T Consensus 34 ~~~tvgdll~yi~~~~ie~r~~-lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiSTlHGg 101 (101)
T KOG4146|consen 34 SPATVGDLLDYIFGKYIETRDS-LFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFISTLHGG 101 (101)
T ss_pred CcccHHHHHHHHHHHHhcCCcc-eEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEeccCC
Confidence 4579999999988754322222 23344421 2 11 222 2 57899999999988888776
No 212
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=38.50 E-value=78 Score=22.74 Aligned_cols=33 Identities=9% Similarity=0.153 Sum_probs=29.2
Q ss_pred CCEEEEEEcCCCcHHHHHHHHHHHhCCCcCcee
Q 032224 10 GKTITLEVESSDTIDNVKAKIQDKEGIPPDQQR 42 (145)
Q Consensus 10 g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~ 42 (145)
.+.+.|.|+...+=.++|+.|+..+++.+....
T Consensus 82 ~N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVN 114 (145)
T PTZ00191 82 NNTLVFIVDQRANKTQIKKAVEKLYDVKVVKVN 114 (145)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEE
Confidence 468999999999999999999999999887653
No 213
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=38.13 E-value=27 Score=24.91 Aligned_cols=27 Identities=15% Similarity=0.284 Sum_probs=23.6
Q ss_pred eccCCCccccccccCCCEEEEEEEecC
Q 032224 49 QLEDGRTLADYNIQKESTLHLVLRLRG 75 (145)
Q Consensus 49 ~L~d~~tL~~~gi~~~sti~l~~~~~g 75 (145)
..+|+++|.+.+++-|+-|.+.+.+..
T Consensus 113 g~ddnktL~~~kf~iGD~lDVaI~~p~ 139 (151)
T KOG3391|consen 113 GIDDNKTLQQTKFEIGDYLDVAITPPN 139 (151)
T ss_pred cCCccchhhhCCccccceEEEEecCcc
Confidence 457899999999999999999998654
No 214
>COG4919 Ribosomal protein S30 [Translation, ribosomal structure and biogenesis]
Probab=37.76 E-value=19 Score=20.90 Aligned_cols=24 Identities=29% Similarity=0.288 Sum_probs=18.8
Q ss_pred CCccccccccccCCccccccccee
Q 032224 75 GGAKKRKKKTYTKPKKIKHKKKKV 98 (145)
Q Consensus 75 gg~~k~~k~~~~~pk~~k~~~kk~ 98 (145)
|.-.+++|+.-+|||-..+.+++-
T Consensus 5 GSLTKAGKVR~QTPkipaK~kkn~ 28 (54)
T COG4919 5 GSLTKAGKVRKQTPKIPAKQKKNY 28 (54)
T ss_pred cccccccchhccCCCCCccccccC
Confidence 445688899999999888777653
No 215
>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=36.55 E-value=1.2e+02 Score=24.43 Aligned_cols=59 Identities=19% Similarity=0.223 Sum_probs=41.9
Q ss_pred EEEcCCCcHHHHHHHHHHHh--------------C-CCcCceeeeeCCeeccCCCccccccc---cCCCEEEEEEEe
Q 032224 15 LEVESSDTIDNVKAKIQDKE--------------G-IPPDQQRLIFAGKQLEDGRTLADYNI---QKESTLHLVLRL 73 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~--------------g-ip~~~q~L~~~G~~L~d~~tL~~~gi---~~~sti~l~~~~ 73 (145)
|..+.-.-|.-+...|.+++ . .|.+.+.|+++|+.|+.+.||+..-- +.+.-|.|..|.
T Consensus 252 L~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 252 LNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred ecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEe
Confidence 44444456778888888877 2 34456789999999999999877642 556667676664
No 216
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=35.46 E-value=22 Score=19.45 Aligned_cols=12 Identities=42% Similarity=1.301 Sum_probs=9.5
Q ss_pred ccCCCCCCCccEEec
Q 032224 119 KECPNAECGAGTFMA 133 (145)
Q Consensus 119 ~~c~~~~c~~g~~ma 133 (145)
-.|| .|+ |+++-
T Consensus 20 d~C~--~C~-G~W~d 31 (41)
T PF13453_consen 20 DVCP--SCG-GIWFD 31 (41)
T ss_pred EECC--CCC-eEEcc
Confidence 4599 898 99874
No 217
>PF02505 MCR_D: Methyl-coenzyme M reductase operon protein D; InterPro: IPR003901 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. Genes encoding the beta (mcrB) and gamma (mcrG) subunits of MCR are separated by two open reading frames coding for two proteins C and D [, ]. The function of proteins C and D is unknown. This entry represents protein D.; GO: 0015948 methanogenesis
Probab=35.42 E-value=1e+02 Score=22.32 Aligned_cols=44 Identities=30% Similarity=0.437 Sum_probs=30.5
Q ss_pred EEEEEEcC-CCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccc
Q 032224 12 TITLEVES-SDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59 (145)
Q Consensus 12 ~~~l~V~~-~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~ 59 (145)
.+.+++.. .+.+..+++...+.+.++-+ +.-|+-+....|++||
T Consensus 76 ri~lele~~~~~ie~I~~iCee~lpf~y~----i~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 76 RIILELEDEEDVIEKIREICEEVLPFGYD----IKEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEEecCcHHHHHHHHHHHHHhCCCceE----eeeeEEeccCCchhhh
Confidence 35567777 67777777777766543322 2468888999999887
No 218
>COG3582 Predicted nucleic acid binding protein containing the AN1-type Zn-finger [General function prediction only]
Probab=35.29 E-value=65 Score=23.58 Aligned_cols=32 Identities=28% Similarity=0.381 Sum_probs=25.6
Q ss_pred eeeeEEEcCCCcEEEecccCCCCCCCccEEeceeC
Q 032224 102 VLQFYKVDDSGKVQRLRKECPNAECGAGTFMASHF 136 (145)
Q Consensus 102 v~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~ 136 (145)
+..++.-+-.|+-+.+-..|+ .|+ |-|++.|-
T Consensus 94 t~~~a~~~~~g~~s~l~~~c~--~c~-g~fc~~h~ 125 (162)
T COG3582 94 TDRCATPQCTGKGSTLAGKCN--YCT-GYFCAEHR 125 (162)
T ss_pred ceeeecceeccCCcccccccc--CCC-Ccceecee
Confidence 344555556788899999999 898 99999994
No 219
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.26 E-value=13 Score=23.56 Aligned_cols=16 Identities=50% Similarity=1.180 Sum_probs=12.3
Q ss_pred EEecccCCCCCCCccEEec
Q 032224 115 QRLRKECPNAECGAGTFMA 133 (145)
Q Consensus 115 ~~l~~~c~~~~c~~g~~ma 133 (145)
.+|.+.|| +|| |-+.|
T Consensus 38 ~~l~g~CP--nCG-Gelv~ 53 (84)
T COG3813 38 NRLHGLCP--NCG-GELVA 53 (84)
T ss_pred HhhcCcCC--CCC-chhhc
Confidence 37889999 899 65554
No 220
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=33.74 E-value=14 Score=26.84 Aligned_cols=21 Identities=43% Similarity=0.934 Sum_probs=16.4
Q ss_pred CCCcEEEecccCCCCCCCccEEec
Q 032224 110 DSGKVQRLRKECPNAECGAGTFMA 133 (145)
Q Consensus 110 ~~~~~~~l~~~c~~~~c~~g~~ma 133 (145)
++|...|-|++|| .|| +-|..
T Consensus 20 edg~aIRRRReC~--~C~-~RFTT 40 (156)
T COG1327 20 EEGNAIRRRRECL--ECG-ERFTT 40 (156)
T ss_pred cccchhhhhhccc--ccc-cccch
Confidence 4677778899999 898 66643
No 221
>COG3809 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.37 E-value=23 Score=22.84 Aligned_cols=11 Identities=36% Similarity=1.235 Sum_probs=8.8
Q ss_pred ccCCCCCCCccEEe
Q 032224 119 KECPNAECGAGTFM 132 (145)
Q Consensus 119 ~~c~~~~c~~g~~m 132 (145)
-.|| +|+ ||.+
T Consensus 22 D~CP--rCr-GVWL 32 (88)
T COG3809 22 DYCP--RCR-GVWL 32 (88)
T ss_pred eeCC--ccc-cEee
Confidence 4699 998 9975
No 222
>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=32.91 E-value=1.1e+02 Score=18.06 Aligned_cols=59 Identities=12% Similarity=0.142 Sum_probs=37.5
Q ss_pred EEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEEE
Q 032224 3 IFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 3 I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l~ 70 (145)
|.|..++|+... ++...|+.|+=..|....+-. ..--..+|+..+-+.. |.++++|.++
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--LPEGSTVLDVAYSIHSSLAKR--AVAAKVNGQLVDLDHP-----LEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHHHC--EEEEEETTEEEETTSB-----B-SSEEEEEE
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHHhh--eeEEEEcCEECCCCCC-----cCCCCEEEEE
Confidence 456668888765 778889999999998665311 1122367776655444 4567777664
No 223
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; GO: 0005524 ATP binding, 0043565 sequence-specific DNA binding, 0006270 DNA-dependent DNA replication initiation, 0006275 regulation of DNA replication; PDB: 2HCB_B 3R8F_C 1L8Q_A 3PVP_B 3PVV_A 1J1V_A.
Probab=32.56 E-value=21 Score=21.96 Aligned_cols=20 Identities=15% Similarity=0.361 Sum_probs=14.6
Q ss_pred cHHHHHHHHHHHhCCCcCce
Q 032224 22 TIDNVKAKIQDKEGIPPDQQ 41 (145)
Q Consensus 22 TV~~LK~~I~~~~gip~~~q 41 (145)
|+.++.+.+++.+|++++++
T Consensus 1 t~~~Ii~~Va~~~~v~~~~i 20 (70)
T PF08299_consen 1 TIEDIIEAVAEYFGVSVEDI 20 (70)
T ss_dssp -HHHHHHHHHHHTT--HHHH
T ss_pred CHHHHHHHHHHHHCCCHHHH
Confidence 68899999999999997654
No 224
>TIGR00244 transcriptional regulator NrdR. Members of this almost entirely bacterial family contain an ATP cone domain (PFAM:PF03477). There is never more than one member per genome. Common gene symbols given include nrdR, ybaD, ribX and ytcG. The member from Streptomyces coelicolor is found upstream in the operon of the class II oxygen-independent ribonucleotide reductase gene nrdJ and was shown to repress nrdJ expression. Many members of this family are found near genes for riboflavin biosynthesis in Gram-negative bacteria, suggesting a role in that pathway. However, a phylogenetic profiling study associates members of this family with the presence of a palindromic signal with consensus acaCwAtATaTwGtgt, termed the NrdR-box, an upstream element for most operons for ribonucleotide reductase of all three classes in bacterial genomes.
Probab=32.46 E-value=31 Score=24.84 Aligned_cols=21 Identities=38% Similarity=0.806 Sum_probs=16.2
Q ss_pred CCCcEEEecccCCCCCCCccEEec
Q 032224 110 DSGKVQRLRKECPNAECGAGTFMA 133 (145)
Q Consensus 110 ~~~~~~~l~~~c~~~~c~~g~~ma 133 (145)
++|...|-|++|+ .|| .-|..
T Consensus 20 ~dg~~IRRRReC~--~C~-~RFTT 40 (147)
T TIGR00244 20 EDGQSIRRRRECL--ECH-ERFTT 40 (147)
T ss_pred CCCCeeeecccCC--ccC-Cccce
Confidence 3688888899999 898 45543
No 225
>PF13699 DUF4157: Domain of unknown function (DUF4157)
Probab=31.98 E-value=96 Score=19.60 Aligned_cols=46 Identities=7% Similarity=0.138 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccccccCCCEEEE
Q 032224 24 DNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 24 ~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~gi~~~sti~l 69 (145)
..++..++..+|.+.+..++..+...-.-...+..-.+.-|..|++
T Consensus 4 ~~~r~~~e~~~G~dl~~Vrvh~~~~a~~~~~~~~A~A~T~G~~I~f 49 (79)
T PF13699_consen 4 ESIRSRLERAFGADLSDVRVHTGPAASRAAAALGARAFTVGNDIYF 49 (79)
T ss_pred HHHHHHHHHHhCCCccceEEEeCCchhhhhhccCCeEEEECCEEEE
Confidence 4688999999999999999877743222222233334556778877
No 226
>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=31.64 E-value=44 Score=23.94 Aligned_cols=56 Identities=16% Similarity=0.219 Sum_probs=39.2
Q ss_pred EEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCc------------cccccccCCCE-EEEEE
Q 032224 16 EVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRT------------LADYNIQKEST-LHLVL 71 (145)
Q Consensus 16 ~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~t------------L~~~gi~~~st-i~l~~ 71 (145)
+.-|+..|..|-.+.+-.-.+..+.-.+.++|+.|+++.. |..|.+.+++. .++..
T Consensus 20 t~lPt~vVe~liskfe~H~kL~~~~~tVti~G~~Lege~K~~~I~~FNeAiFLekyY~~P~~e~~~l~p 88 (149)
T PF10787_consen 20 TSLPTSVVEWLISKFELHPKLDEENTTVTIDGKRLEGEDKSQIIDQFNEAIFLEKYYIPPGNEERYLHP 88 (149)
T ss_pred ecCcHHHHHHHHHHheecccccccceEEEECCeecCchHHHHHHHHHhHHHHHHhhccCCCCcccccCc
Confidence 3336677788877777666677777788999999987642 67777766665 44443
No 227
>TIGR03260 met_CoM_red_D methyl-coenzyme M reductase operon protein D. Members of this protein family are protein D, a non-structural protein, of the operon for methyl coenzyme M reductase, also called coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). That enzyme, with alpha, beta, and gamma subunits, catalyzes the last step in methanogenesis; it has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this model does not separate the isozymes. Proteins in this family are expressed at much lower levels than the methyl-coenzyme M reductase itself and associate and have been shown to form at least transient associations. The precise function is unknown.
Probab=31.49 E-value=1.3e+02 Score=21.75 Aligned_cols=43 Identities=26% Similarity=0.415 Sum_probs=29.1
Q ss_pred EEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccc
Q 032224 13 ITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY 59 (145)
Q Consensus 13 ~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~ 59 (145)
+.+++...+.+.++++...+.+-++-+ +.-|+-+....|++||
T Consensus 76 I~le~~~~~~i~~I~eiC~e~~pF~y~----i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 76 IILELEDEDIVEEIEEICKEMLPFGYE----VRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEecCHHHHHHHHHHHHhhCCCceE----eeeeeEeecCCchhhh
Confidence 455666777788887777766554422 3456778888888887
No 228
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=31.44 E-value=43 Score=18.65 Aligned_cols=25 Identities=32% Similarity=0.822 Sum_probs=17.5
Q ss_pred ecccCCCCCCCccEEeceeCCcccccCC
Q 032224 117 LRKECPNAECGAGTFMASHFDRHYCEFV 144 (145)
Q Consensus 117 l~~~c~~~~c~~g~~ma~h~~~~~c~~~ 144 (145)
|...|| .|| ...|-.+..+.||=.|
T Consensus 16 L~~~Cp--~C~-~PL~~~k~g~~~Cv~C 40 (41)
T PF06677_consen 16 LDEHCP--DCG-TPLMRDKDGKIYCVSC 40 (41)
T ss_pred hcCccC--CCC-CeeEEecCCCEECCCC
Confidence 457899 897 4666667777888543
No 229
>KOG3173 consensus Predicted Zn-finger protein [General function prediction only]
Probab=31.18 E-value=23 Score=26.00 Aligned_cols=17 Identities=41% Similarity=0.995 Sum_probs=14.6
Q ss_pred CCCccEEecee--CCccccc
Q 032224 125 ECGAGTFMASH--FDRHYCE 142 (145)
Q Consensus 125 ~c~~g~~ma~h--~~~~~c~ 142 (145)
+|| .+|++.| .++|-|-
T Consensus 123 rCG-~~fC~~HRy~e~H~C~ 141 (167)
T KOG3173|consen 123 RCG-NTFCGTHRYPEQHDCS 141 (167)
T ss_pred ccC-CcccccccCCcccccc
Confidence 799 8999999 5888884
No 230
>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=31.01 E-value=90 Score=19.18 Aligned_cols=55 Identities=18% Similarity=0.291 Sum_probs=37.8
Q ss_pred CEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCeeccCCCccccc--cccCCCEEEEEEEe
Q 032224 11 KTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADY--NIQKESTLHLVLRL 73 (145)
Q Consensus 11 ~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~L~d~~tL~~~--gi~~~sti~l~~~~ 73 (145)
...-.+|.++.. ++..|+.+.+.-+..+|..+.+...|.++ ....|+++.|.+.-
T Consensus 15 g~~V~~V~~~sp--------A~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v~R 71 (82)
T PF13180_consen 15 GVVVVSVIPGSP--------AAKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTVLR 71 (82)
T ss_dssp SEEEEEESTTSH--------HHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEEEE
T ss_pred eEEEEEeCCCCc--------HHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEEEE
Confidence 344456766654 44678999999999999999665544333 45678999888753
No 231
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=30.64 E-value=1.5e+02 Score=19.06 Aligned_cols=46 Identities=17% Similarity=0.251 Sum_probs=28.5
Q ss_pred ccccCCCEEEEEEEecCCccccccccccCCcccccccceeeeeeeeeEEEcCCCcEEEecccCCCCCCC
Q 032224 59 YNIQKESTLHLVLRLRGGAKKRKKKTYTKPKKIKHKKKKVKLAVLQFYKVDDSGKVQRLRKECPNAECG 127 (145)
Q Consensus 59 ~gi~~~sti~l~~~~~gg~~k~~k~~~~~pk~~k~~~kk~k~~v~k~~~v~~~~~~~~l~~~c~~~~c~ 127 (145)
..+.+|+.|.+.-.+.- |. .+.+-+......+..+++.+..|| .||
T Consensus 46 ~~l~~Gd~V~v~G~v~~---------y~------------ql~ve~l~~~glg~~~~~~np~C~--~C~ 91 (91)
T cd04482 46 RLLIPGDEVTVYGSVRP---------GT------------TLNLEKLRVIRLARLYERENPVCP--KCG 91 (91)
T ss_pred CCCCCCCEEEEEEEEec---------CC------------EEEEEEEEECCCcceEEEcCCcCC--CCC
Confidence 44678888877655321 11 355555554443334788899999 896
No 232
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=30.49 E-value=34 Score=30.96 Aligned_cols=21 Identities=38% Similarity=1.016 Sum_probs=16.2
Q ss_pred cCCCCCCCccEEeceeCCc-----ccccCC
Q 032224 120 ECPNAECGAGTFMASHFDR-----HYCEFV 144 (145)
Q Consensus 120 ~c~~~~c~~g~~ma~h~~~-----~~c~~~ 144 (145)
+|| +|.. -|..|.++ ||||..
T Consensus 446 ~Cp--~Cd~--~lt~H~~~~~L~CH~Cg~~ 471 (730)
T COG1198 446 ECP--NCDS--PLTLHKATGQLRCHYCGYQ 471 (730)
T ss_pred cCC--CCCc--ceEEecCCCeeEeCCCCCC
Confidence 599 8975 89999865 688863
No 233
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=29.29 E-value=1.3e+02 Score=18.04 Aligned_cols=40 Identities=15% Similarity=0.192 Sum_probs=28.7
Q ss_pred EEEEEcCCCcHHHHHHHHHHHh--CCCcCceeeeeCCeeccC
Q 032224 13 ITLEVESSDTIDNVKAKIQDKE--GIPPDQQRLIFAGKQLED 52 (145)
Q Consensus 13 ~~l~V~~~~TV~~LK~~I~~~~--gip~~~q~L~~~G~~L~d 52 (145)
-.+.|+.+.|..+|-+.+.+.. .-.+-...++.+|..|.+
T Consensus 18 ~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~~lr~ 59 (65)
T PF08154_consen 18 TPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGEELRT 59 (65)
T ss_pred CCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCEEeec
Confidence 4588999999999999998877 233334556667776644
No 234
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=29.27 E-value=46 Score=18.27 Aligned_cols=13 Identities=31% Similarity=1.025 Sum_probs=7.1
Q ss_pred cCCCCCCCccEEece
Q 032224 120 ECPNAECGAGTFMAS 134 (145)
Q Consensus 120 ~c~~~~c~~g~~ma~ 134 (145)
.|| .||+..+..+
T Consensus 2 ~Cp--~Cg~~~~~~D 14 (43)
T PF08271_consen 2 KCP--NCGSKEIVFD 14 (43)
T ss_dssp SBT--TTSSSEEEEE
T ss_pred CCc--CCcCCceEEc
Confidence 366 6776544333
No 235
>PF03119 DNA_ligase_ZBD: NAD-dependent DNA ligase C4 zinc finger domain; InterPro: IPR004149 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in NAD-dependent DNA ligases. DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This domain is a small zinc binding motif that is presumably DNA binding. It is found only in NAD-dependent DNA ligases. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1DGS_A 1V9P_B 2OWO_A.
Probab=29.12 E-value=36 Score=17.19 Aligned_cols=20 Identities=25% Similarity=0.526 Sum_probs=8.9
Q ss_pred cCCCCCCCccEEeceeCCcccc
Q 032224 120 ECPNAECGAGTFMASHFDRHYC 141 (145)
Q Consensus 120 ~c~~~~c~~g~~ma~h~~~~~c 141 (145)
.|| .||+-++...-.--++|
T Consensus 1 ~CP--~C~s~l~~~~~ev~~~C 20 (28)
T PF03119_consen 1 TCP--VCGSKLVREEGEVDIRC 20 (28)
T ss_dssp B-T--TT--BEEE-CCTTCEEE
T ss_pred CcC--CCCCEeEcCCCCEeEEC
Confidence 477 78876664444444555
No 236
>cd06535 CIDE_N_CAD CIDE_N domain of CAD nuclease. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and the release of active DFF40/CAD nuclease.
Probab=29.09 E-value=1.3e+02 Score=19.21 Aligned_cols=31 Identities=13% Similarity=0.065 Sum_probs=24.1
Q ss_pred CcHHHHHHHHHHHhCCCcCc--eeeeeCCeecc
Q 032224 21 DTIDNVKAKIQDKEGIPPDQ--QRLIFAGKQLE 51 (145)
Q Consensus 21 ~TV~~LK~~I~~~~gip~~~--q~L~~~G~~L~ 51 (145)
.|+.+|+.+..+.+.++... ..|.-+|..+.
T Consensus 21 ~sL~eL~~K~~~~l~l~~~~~~l~L~eDGTeVt 53 (77)
T cd06535 21 KNLKELLRKGCRLLQLPCAGSRLCLYEDGTEVT 53 (77)
T ss_pred CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEeh
Confidence 57999999999999998654 44456788774
No 237
>PRK00420 hypothetical protein; Validated
Probab=28.81 E-value=38 Score=23.26 Aligned_cols=25 Identities=28% Similarity=0.610 Sum_probs=15.4
Q ss_pred ecccCCCCCCCccEEeceeCCcccccCC
Q 032224 117 LRKECPNAECGAGTFMASHFDRHYCEFV 144 (145)
Q Consensus 117 l~~~c~~~~c~~g~~ma~h~~~~~c~~~ 144 (145)
|...|| .||. -++..+....+|-.|
T Consensus 22 l~~~CP--~Cg~-pLf~lk~g~~~Cp~C 46 (112)
T PRK00420 22 LSKHCP--VCGL-PLFELKDGEVVCPVH 46 (112)
T ss_pred ccCCCC--CCCC-cceecCCCceECCCC
Confidence 457899 8984 444435556666543
No 238
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=28.74 E-value=1.8e+02 Score=19.26 Aligned_cols=67 Identities=18% Similarity=0.297 Sum_probs=38.6
Q ss_pred CCEEEEEEc--CCCcHHHHHHHHHHHhCCCcCceeeeeCCee------ccC--C-Cccc--cccccCCCEEEEEEEecCC
Q 032224 10 GKTITLEVE--SSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQ------LED--G-RTLA--DYNIQKESTLHLVLRLRGG 76 (145)
Q Consensus 10 g~~~~l~V~--~~~TV~~LK~~I~~~~gip~~~q~L~~~G~~------L~d--~-~tL~--~~gi~~~sti~l~~~~~gg 76 (145)
.+.+.+.++ ...+|++|-..+.....-|...--+..+|.. |-+ + ..|+ +|.+.+|+.|.++-.+.||
T Consensus 17 qR~~el~~~~~e~~~vg~liD~~~~~i~~p~~~sifie~g~lrpGiI~LINd~DWeLleke~y~ledgDiIvfistlHGg 96 (96)
T COG5131 17 QREIELTREEVEGSSVGTLIDALRYFIYAPTRDSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFISTLHGG 96 (96)
T ss_pred ceeeEEEEcccCCcchhhHHHHHHHHHhCCccceeeecCCCCcccEEEEEcCccHhhhhcccccCCCCCEEEEEecccCC
Confidence 344555555 4568888888887732222222222234431 211 2 2333 4889999999988887775
No 239
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=28.40 E-value=41 Score=17.77 Aligned_cols=11 Identities=36% Similarity=1.029 Sum_probs=5.9
Q ss_pred cCCCCCCCccEEec
Q 032224 120 ECPNAECGAGTFMA 133 (145)
Q Consensus 120 ~c~~~~c~~g~~ma 133 (145)
.|| +|| ..|.|
T Consensus 27 ~C~--~C~-~~~~~ 37 (38)
T TIGR02098 27 RCG--KCG-HVWYA 37 (38)
T ss_pred ECC--CCC-CEEEe
Confidence 466 666 35543
No 240
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=28.34 E-value=36 Score=20.06 Aligned_cols=20 Identities=20% Similarity=0.484 Sum_probs=16.8
Q ss_pred cHHHHHHHHHHHhCCCcCce
Q 032224 22 TIDNVKAKIQDKEGIPPDQQ 41 (145)
Q Consensus 22 TV~~LK~~I~~~~gip~~~q 41 (145)
|+.++.+.+++.+||+++++
T Consensus 1 ~~~~I~~~Va~~~~i~~~~i 20 (60)
T smart00760 1 TIEEIIEAVAEYFGVKPEDL 20 (60)
T ss_pred CHHHHHHHHHHHhCCCHHHH
Confidence 57889999999999987754
No 241
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=28.00 E-value=28 Score=20.93 Aligned_cols=14 Identities=43% Similarity=1.137 Sum_probs=10.2
Q ss_pred EecccCCCCCCCccEEe
Q 032224 116 RLRKECPNAECGAGTFM 132 (145)
Q Consensus 116 ~l~~~c~~~~c~~g~~m 132 (145)
.|...|| +|| |-|.
T Consensus 39 ~l~~~CP--NCg-Gelv 52 (57)
T PF06906_consen 39 MLNGVCP--NCG-GELV 52 (57)
T ss_pred HhcCcCc--CCC-Cccc
Confidence 3578999 898 6553
No 242
>PF14369 zf-RING_3: zinc-finger
Probab=27.95 E-value=32 Score=18.35 Aligned_cols=10 Identities=50% Similarity=1.454 Sum_probs=7.7
Q ss_pred cCCCCCCCccEEe
Q 032224 120 ECPNAECGAGTFM 132 (145)
Q Consensus 120 ~c~~~~c~~g~~m 132 (145)
.|| +|+ |.|.
T Consensus 23 ~CP--~C~-~gFv 32 (35)
T PF14369_consen 23 ACP--RCH-GGFV 32 (35)
T ss_pred CCc--CCC-CcEe
Confidence 699 998 5664
No 243
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=27.65 E-value=1.7e+02 Score=18.56 Aligned_cols=34 Identities=26% Similarity=0.332 Sum_probs=25.8
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHHHHHHHhC
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEG 35 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~~I~~~~g 35 (145)
|+|.|=.. ....+|.++.+.|-.++.+.|.+...
T Consensus 1 MeIkIGi~-~~~REl~ies~~s~dev~~~v~~Al~ 34 (74)
T PF11305_consen 1 MEIKIGIQ-NVARELVIESDQSADEVEAAVTDALA 34 (74)
T ss_pred CeEEEeee-cCCceEEEecCCCHHHHHHHHHHHHh
Confidence 77777543 34567788888899999999988754
No 244
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=27.60 E-value=1.1e+02 Score=19.63 Aligned_cols=39 Identities=18% Similarity=0.349 Sum_probs=28.8
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHhCCCcCceeee--eCCeec
Q 032224 12 TITLEVESSDTIDNVKAKIQDKEGIPPDQQRLI--FAGKQL 50 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~--~~G~~L 50 (145)
.+.+.++.+.+..+|.+.|....+--..+..|+ |.|..+
T Consensus 9 DiS~~v~~~~~~~~i~~~i~~~~~~~l~~v~l~D~y~~~~l 49 (94)
T PF03147_consen 9 DISFVVPEDVPFADIEEVIRSAGGPLLESVELFDVYRGEKL 49 (94)
T ss_dssp EEEEEEETTS-HHHHHHHHHHHHTTTEEEEEEEEEEESTTS
T ss_pred cEEEEECCCCCHHHHHHHHHHhCccceeEEEEEEEEcCCCC
Confidence 577889999999999999998876555666665 666444
No 245
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=27.43 E-value=94 Score=22.62 Aligned_cols=27 Identities=26% Similarity=0.473 Sum_probs=20.7
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHHH
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVKA 28 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK~ 28 (145)
|.|.+ +.+|+.+.++++|.+++.++-.
T Consensus 2 ~~i~l-tvNG~~~~~~~~p~~~Ll~~LR 28 (156)
T COG2080 2 MPITL-TVNGEPVELDVDPRTPLLDVLR 28 (156)
T ss_pred CcEEE-EECCeEEEEEeCCCChHHHHHH
Confidence 34555 3489999999999999877654
No 246
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=26.97 E-value=46 Score=23.38 Aligned_cols=15 Identities=27% Similarity=0.600 Sum_probs=9.1
Q ss_pred ccCCCCCCCccEEecee
Q 032224 119 KECPNAECGAGTFMASH 135 (145)
Q Consensus 119 ~~c~~~~c~~g~~ma~h 135 (145)
..|+ .|.+|.+|..|
T Consensus 42 ~CC~--kCPPGt~v~~~ 56 (127)
T PHA02637 42 LCCL--SCPPGTYASRL 56 (127)
T ss_pred eEcC--CCCCCCEEeCc
Confidence 3555 66666666666
No 247
>PF01666 DX: DX module; InterPro: IPR002593 This domain has no known function. It is found in several Caenorhabditis elegans proteins. The domain contains 6 conserved cysteines that probably form three disulphide bridges.
Probab=26.51 E-value=1.5e+02 Score=18.69 Aligned_cols=42 Identities=21% Similarity=0.513 Sum_probs=24.5
Q ss_pred eeeeeeeEEEcCCCcEEEecccCC-CCCCCccEEece-eCCcccc
Q 032224 99 KLAVLQFYKVDDSGKVQRLRKECP-NAECGAGTFMAS-HFDRHYC 141 (145)
Q Consensus 99 k~~v~k~~~v~~~~~~~~l~~~c~-~~~c~~g~~ma~-h~~~~~c 141 (145)
++.++.-+... +.....+.+.|. |..|+.|-++.. ...+++|
T Consensus 29 ki~imG~~~~~-g~~~~~~~~~C~~N~DC~~~~VCV~~~~~~~~C 72 (76)
T PF01666_consen 29 KIVIMGEENFN-GQENKELESYCTSNRDCGSGSVCVRENSARGRC 72 (76)
T ss_pred eEEEEeeeccC-CcEeEeeccccccCcccCCCcEEEEEECCccEE
Confidence 34444444443 234444556664 456888888877 5667777
No 248
>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=25.96 E-value=82 Score=21.07 Aligned_cols=24 Identities=25% Similarity=0.523 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHhCCCcCceeeeeC
Q 032224 23 IDNVKAKIQDKEGIPPDQQRLIFA 46 (145)
Q Consensus 23 V~~LK~~I~~~~gip~~~q~L~~~ 46 (145)
...|-+.+++..|||+++..+.|.
T Consensus 76 s~~i~~~l~~~LgIp~~Riyi~f~ 99 (114)
T PF01187_consen 76 SAAITEFLEEELGIPPDRIYINFH 99 (114)
T ss_dssp HHHHHHHHHHHHT--GGGEEEEEE
T ss_pred HHHHHHHHHHHhCCCcCceEEEEE
Confidence 456667778899999999988774
No 249
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=25.48 E-value=94 Score=21.37 Aligned_cols=42 Identities=14% Similarity=0.241 Sum_probs=31.1
Q ss_pred EEEcCCCcHHHHHHHHHHHhCCCcCceeeee-CCeeccCCCcc
Q 032224 15 LEVESSDTIDNVKAKIQDKEGIPPDQQRLIF-AGKQLEDGRTL 56 (145)
Q Consensus 15 l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~-~G~~L~d~~tL 56 (145)
+-|+.+.||++|-..|..+..++|++--++| ++....-..++
T Consensus 49 yLVP~dltvgqfi~iIRkRiqL~~~kA~flfVn~~~p~ts~~m 91 (116)
T KOG1654|consen 49 YLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFVNNTSPPTSATM 91 (116)
T ss_pred eeccccccHHHHHHHHHHHhccChhHeEEEEEcCcCCcchhhH
Confidence 4688899999999999999999998765555 44443333333
No 250
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=25.31 E-value=43 Score=23.64 Aligned_cols=34 Identities=29% Similarity=0.671 Sum_probs=21.3
Q ss_pred eeEEEcCCCcEEEecccCCCCCCCccEEeceeCCcccccCCC
Q 032224 104 QFYKVDDSGKVQRLRKECPNAECGAGTFMASHFDRHYCEFVP 145 (145)
Q Consensus 104 k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~h~~~~~c~~~~ 145 (145)
.|++--..|++.- ..|+ +||. +| |-.|.+|-+|+
T Consensus 17 ~f~~~l~~~kl~g--~kC~--~CG~-v~---~PPr~~Cp~C~ 50 (140)
T COG1545 17 KFFKGLKEGKLLG--TKCK--KCGR-VY---FPPRAYCPKCG 50 (140)
T ss_pred HHhhhhhhCcEEE--EEcC--CCCe-EE---cCCcccCCCCC
Confidence 3443222466655 7799 8996 43 56788887664
No 251
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.02 E-value=59 Score=22.34 Aligned_cols=22 Identities=23% Similarity=0.445 Sum_probs=16.4
Q ss_pred ecc-CCCccccccccCCCEEEEE
Q 032224 49 QLE-DGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 49 ~L~-d~~tL~~~gi~~~sti~l~ 70 (145)
.|. ++.+|..|||.+...|.+.
T Consensus 89 ~L~d~~ktL~~~GIenETEis~F 111 (127)
T KOG4147|consen 89 LLKDEDKTLKAAGIENETEISFF 111 (127)
T ss_pred eecCccchHHHhccCcchhhhhh
Confidence 455 5688999999888776543
No 252
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=24.98 E-value=1.2e+02 Score=17.90 Aligned_cols=25 Identities=32% Similarity=0.705 Sum_probs=16.7
Q ss_pred CCcEEEecccCCCCCCCccEEeceeCCc
Q 032224 111 SGKVQRLRKECPNAECGAGTFMASHFDR 138 (145)
Q Consensus 111 ~~~~~~l~~~c~~~~c~~g~~ma~h~~~ 138 (145)
+..+--|...|| .||. .-...|--|
T Consensus 10 ~~~~YTLk~~cp--~cG~-~T~~ahPaR 34 (53)
T PF04135_consen 10 GCRVYTLKDKCP--PCGG-PTESAHPAR 34 (53)
T ss_dssp TTCEEESSSBBT--TTSS-BSEESSSSS
T ss_pred CCCcEeCCCccC--CCCC-CCcCCcCCC
Confidence 456666778999 9994 444457544
No 253
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=24.83 E-value=39 Score=20.23 Aligned_cols=20 Identities=40% Similarity=0.720 Sum_probs=13.7
Q ss_pred EecccCCCCCCCccEEeceeCCc
Q 032224 116 RLRKECPNAECGAGTFMASHFDR 138 (145)
Q Consensus 116 ~l~~~c~~~~c~~g~~ma~h~~~ 138 (145)
-|...|| .||.-.+.| |--|
T Consensus 15 TLk~~CP--~CG~~t~~~-~P~r 34 (56)
T PRK13130 15 TLKEICP--VCGGKTKNP-HPPR 34 (56)
T ss_pred EccccCc--CCCCCCCCC-CCCC
Confidence 3578899 899665555 6544
No 254
>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=24.79 E-value=68 Score=22.52 Aligned_cols=27 Identities=22% Similarity=0.355 Sum_probs=22.3
Q ss_pred cCCCccccccccCCCEEEEEEEecCCc
Q 032224 51 EDGRTLADYNIQKESTLHLVLRLRGGA 77 (145)
Q Consensus 51 ~d~~tL~~~gi~~~sti~l~~~~~gg~ 77 (145)
.=...|+++|..++++|.|.+-+++|.
T Consensus 92 gitdlLedLga~~d~sIvVTLVPr~g~ 118 (130)
T PF12143_consen 92 GITDLLEDLGAEDDDSIVVTLVPRGGG 118 (130)
T ss_pred EhhHHHHHhCCCCCCEEEEEEEEccCC
Confidence 334568999999999999999888875
No 255
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=24.68 E-value=2.5e+02 Score=20.19 Aligned_cols=40 Identities=25% Similarity=0.198 Sum_probs=25.4
Q ss_pred EEEEEeCCCC---EEEEEEcCCCcHHHHHHHHHHHhCCCcCce
Q 032224 2 QIFVKTLTGK---TITLEVESSDTIDNVKAKIQDKEGIPPDQQ 41 (145)
Q Consensus 2 ~I~Vk~~~g~---~~~l~V~~~~TV~~LK~~I~~~~gip~~~q 41 (145)
+|.|...+-+ -..|.|+.+.|+.+|=..|+..+|..-..+
T Consensus 6 ~lkV~L~~~~p~iwRri~Vp~~~tl~~Lh~~Iq~afgw~~~HL 48 (179)
T PF07929_consen 6 QLKVSLKGSKPPIWRRIEVPADITLADLHEVIQAAFGWDDDHL 48 (179)
T ss_dssp EEEEEETT-SS-EEEEEEEETT-BHHHHHHHHHHHTT----S-
T ss_pred EEEEEEcCCCCCeEEEEEECCCCCHHHHHHHHHHHhCcCCCEe
Confidence 4555544322 256899999999999999999999875543
No 256
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=24.27 E-value=65 Score=25.26 Aligned_cols=24 Identities=25% Similarity=0.542 Sum_probs=17.6
Q ss_pred ccCCCCCCCccEEeceeCCc--ccccCC
Q 032224 119 KECPNAECGAGTFMASHFDR--HYCEFV 144 (145)
Q Consensus 119 ~~c~~~~c~~g~~ma~h~~~--~~c~~~ 144 (145)
..|| +||+-+-...-.+| +||-.|
T Consensus 245 ~pCp--rCG~~I~~~~~~gR~t~~CP~C 270 (272)
T PRK14810 245 EPCL--NCKTPIRRVVVAGRSSHYCPHC 270 (272)
T ss_pred CcCC--CCCCeeEEEEECCCccEECcCC
Confidence 5699 99987776666654 677765
No 257
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=24.02 E-value=87 Score=21.11 Aligned_cols=27 Identities=26% Similarity=0.634 Sum_probs=14.1
Q ss_pred HHHHHHHHHHhCCCcCceeeeeCCeecc
Q 032224 24 DNVKAKIQDKEGIPPDQQRLIFAGKQLE 51 (145)
Q Consensus 24 ~~LK~~I~~~~gip~~~q~L~~~G~~L~ 51 (145)
...++.+.+ .|+++++..++++|-.++
T Consensus 148 ~~~~~~l~~-~~~~~~ki~vI~ngid~~ 174 (177)
T PF13439_consen 148 ESTKDELIK-FGIPPEKIHVIYNGIDTD 174 (177)
T ss_dssp HHHHHHHHH-HT--SS-EEE----B-CC
T ss_pred HHHHHHHHH-hCCcccCCEEEECCccHH
Confidence 456677777 899999999999986554
No 258
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=23.97 E-value=61 Score=18.09 Aligned_cols=22 Identities=27% Similarity=0.617 Sum_probs=12.3
Q ss_pred cCCCCCCCcc--EEeceeCCcccccCC
Q 032224 120 ECPNAECGAG--TFMASHFDRHYCEFV 144 (145)
Q Consensus 120 ~c~~~~c~~g--~~ma~h~~~~~c~~~ 144 (145)
.|| +||.- ..++ ...++-|..|
T Consensus 20 ~CP--~Cg~~~~~~~~-~~~~~~C~~C 43 (46)
T PF12760_consen 20 VCP--HCGSTKHYRLK-TRGRYRCKAC 43 (46)
T ss_pred CCC--CCCCeeeEEeC-CCCeEECCCC
Confidence 499 99852 1222 2456667654
No 259
>PRK11347 antitoxin ChpS; Provisional
Probab=23.43 E-value=68 Score=20.63 Aligned_cols=18 Identities=11% Similarity=0.294 Sum_probs=14.5
Q ss_pred ccccccccCCCEEEEEEE
Q 032224 55 TLADYNIQKESTLHLVLR 72 (145)
Q Consensus 55 tL~~~gi~~~sti~l~~~ 72 (145)
.|.++++..|++|.+.+.
T Consensus 20 il~~l~l~~G~~v~i~v~ 37 (83)
T PRK11347 20 VMKELNLQPGQSVEAQVS 37 (83)
T ss_pred HHHHcCCCCCCEEEEEEE
Confidence 467888899999888775
No 260
>TIGR02008 fdx_plant ferredoxin [2Fe-2S]. This model represents single domain 2Fe-2S (also called plant type) ferredoxins. In general, these occur as a single domain proteins or with a chloroplast transit peptide. Species tend to be photosynthetic, but several forms may occur in one species and individually may not be associated with photocynthesis. Halobacterial forms differ somewhat in architecture; they score between trusted and noise cutoffs. Sequences scoring below the noise cutoff tend to be ferredoxin-related domains of larger proteins.
Probab=23.41 E-value=1.7e+02 Score=18.94 Aligned_cols=26 Identities=15% Similarity=0.178 Sum_probs=20.0
Q ss_pred EEEEEeCCCCEEEEEEcCCCcHHHHH
Q 032224 2 QIFVKTLTGKTITLEVESSDTIDNVK 27 (145)
Q Consensus 2 ~I~Vk~~~g~~~~l~V~~~~TV~~LK 27 (145)
+|++...++....+++++..||.+.-
T Consensus 4 ~v~~~~~~~~~~~~~~~~g~tLLda~ 29 (97)
T TIGR02008 4 KVTLVNPDGGEETIECPDDQYILDAA 29 (97)
T ss_pred EEEEEECCCCEEEEEECCCCcHHHHH
Confidence 46665567878889999999887763
No 261
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=23.40 E-value=50 Score=23.89 Aligned_cols=19 Identities=42% Similarity=0.913 Sum_probs=12.9
Q ss_pred CcEEEecccCCCCCCCccEEec
Q 032224 112 GKVQRLRKECPNAECGAGTFMA 133 (145)
Q Consensus 112 ~~~~~l~~~c~~~~c~~g~~ma 133 (145)
|-..+.+.+|| .|| +.|-+
T Consensus 22 ~~~~~~~~~c~--~c~-~~f~~ 40 (154)
T PRK00464 22 GNAIRRRRECL--ACG-KRFTT 40 (154)
T ss_pred CCceeeeeecc--ccC-CcceE
Confidence 44444459999 898 67744
No 262
>KOG4842 consensus Protein involved in sister chromatid separation and/or segregation [Cell cycle control, cell division, chromosome partitioning]
Probab=23.34 E-value=27 Score=27.60 Aligned_cols=64 Identities=23% Similarity=0.363 Sum_probs=46.1
Q ss_pred CCCEEEEEEcCCCcHHHHHHHHHHHhCCCcCceeeeeCCe--------------------eccCC----CccccccccCC
Q 032224 9 TGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGK--------------------QLEDG----RTLADYNIQKE 64 (145)
Q Consensus 9 ~g~~~~l~V~~~~TV~~LK~~I~~~~gip~~~q~L~~~G~--------------------~L~d~----~tL~~~gi~~~ 64 (145)
.|..+.++++.+++|.|.+..++...++.+...++++.+- .+.|. +.++...+..+
T Consensus 11 ~gn~i~ls~~~~~ri~D~~~~l~K~~~vss~~~kll~~~llk~iahl~~p~mkEh~f~vti~~Dk~irnq~~sg~nvn~g 90 (278)
T KOG4842|consen 11 SGNAIYLSMAGSQRIPDKNPHLQKVAVVSSKPNKLLALNLLKEIAHLVSPLMKEHHFKVTILVDKYIRNQRLSGMNVNHG 90 (278)
T ss_pred cCcEEEEEeccccccCCCCcccceeeeeccchHHHHhhhhhhhhhhhhhhhhccccceeEEeehhHHHhhhhhccccCCc
Confidence 4788999999999999999999999888887776665431 11111 23555566777
Q ss_pred CEEEEEEE
Q 032224 65 STLHLVLR 72 (145)
Q Consensus 65 sti~l~~~ 72 (145)
+++.+.++
T Consensus 91 ski~lslr 98 (278)
T KOG4842|consen 91 SKIMLSLR 98 (278)
T ss_pred ceEEEEee
Confidence 77777776
No 263
>PF14807 AP4E_app_platf: Adaptin AP4 complex epsilon appendage platform
Probab=23.18 E-value=2.4e+02 Score=18.93 Aligned_cols=55 Identities=24% Similarity=0.244 Sum_probs=39.3
Q ss_pred cCCCcHHHHHHHHHHHhCCCc---CceeeeeCCeeccCCC-ccccccccCCCEEEEEEEe
Q 032224 18 ESSDTIDNVKAKIQDKEGIPP---DQQRLIFAGKQLEDGR-TLADYNIQKESTLHLVLRL 73 (145)
Q Consensus 18 ~~~~TV~~LK~~I~~~~gip~---~~q~L~~~G~~L~d~~-tL~~~gi~~~sti~l~~~~ 73 (145)
.+-.|+.++-..+.+..++-. =.+-.++.++.+..+. .|-.+.+..+ ++.+.++.
T Consensus 28 ~~~~t~~~~l~~l~~~l~lh~VevIg~E~I~A~~ll~~~~~~L~H~~~~~~-~l~l~vrs 86 (104)
T PF14807_consen 28 SSQRTLPEFLQRLQQKLRLHVVEVIGNEGIFACQLLNSSPVCLLHCRVNAG-TLDLWVRS 86 (104)
T ss_pred cCcCCHHHHHHHHHHhcCceEEEEeCccceeeeeccCCCCeEEEEEEecCC-eEEEEEEc
Confidence 356788888888887776432 2236678888887766 7888888666 88887764
No 264
>PF13085 Fer2_3: 2Fe-2S iron-sulfur cluster binding domain; PDB: 3P4Q_N 1KFY_N 3CIR_N 3P4R_B 2B76_N 1KF6_B 3P4P_N 3P4S_B 1L0V_B 1ZOY_B ....
Probab=23.00 E-value=1.1e+02 Score=20.76 Aligned_cols=23 Identities=17% Similarity=0.229 Sum_probs=20.2
Q ss_pred EEEEEEcCCCcHHHHHHHHHHHh
Q 032224 12 TITLEVESSDTIDNVKAKIQDKE 34 (145)
Q Consensus 12 ~~~l~V~~~~TV~~LK~~I~~~~ 34 (145)
+|.+++.+.+||.++-..|.+..
T Consensus 20 ~y~v~~~~~~tVLd~L~~Ik~~~ 42 (110)
T PF13085_consen 20 EYEVPVEPGMTVLDALNYIKEEQ 42 (110)
T ss_dssp EEEEEGGSTSBHHHHHHHHHHHT
T ss_pred EEEecCCCCCcHHHHHHHHHhcc
Confidence 57788889999999999998875
No 265
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=22.54 E-value=1.4e+02 Score=22.92 Aligned_cols=24 Identities=21% Similarity=0.182 Sum_probs=20.1
Q ss_pred CEEEEEEcCCCcHHHHHHHHHHHh
Q 032224 11 KTITLEVESSDTIDNVKAKIQDKE 34 (145)
Q Consensus 11 ~~~~l~V~~~~TV~~LK~~I~~~~ 34 (145)
++|.+++++.+||.++-..|.+..
T Consensus 24 ~~y~v~~~~~~tvLdaL~~Ik~~~ 47 (239)
T PRK13552 24 VTYQLEETPGMTLFIALNRIREEQ 47 (239)
T ss_pred EEEEecCCCCCCHHHHHHHHHhcC
Confidence 357788889999999999998754
No 266
>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=22.53 E-value=2.1e+02 Score=17.91 Aligned_cols=64 Identities=11% Similarity=0.174 Sum_probs=36.1
Q ss_pred EEEEEeCCCC---EEEEEEcCCCcHHHHHHHHHHHhC--CCcCce---eeeeCCeeccCCCccccccccCCCEEEEE
Q 032224 2 QIFVKTLTGK---TITLEVESSDTIDNVKAKIQDKEG--IPPDQQ---RLIFAGKQLEDGRTLADYNIQKESTLHLV 70 (145)
Q Consensus 2 ~I~Vk~~~g~---~~~l~V~~~~TV~~LK~~I~~~~g--ip~~~q---~L~~~G~~L~d~~tL~~~gi~~~sti~l~ 70 (145)
+|+-+..++. .-.+.++..+||.|+=.+|....+ +..... ..-++|+...-+. -++++++|.++
T Consensus 3 rvytk~~g~~~d~~~~liL~~GaTV~D~a~~iH~di~~~f~~A~v~g~s~~~~gq~Vgl~~-----~L~d~DvVeI~ 74 (75)
T cd01666 3 RVYTKPKGQEPDFDEPVILRRGSTVEDVCNKIHKDLVKQFKYALVWGSSVKHSPQRVGLDH-----VLEDEDVVQIV 74 (75)
T ss_pred EEEeCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHHHhCCeeEEeccCCcCCCeECCCCC-----EecCCCEEEEe
Confidence 4555544332 245788889999999999985432 221110 1114565554433 44567777764
No 267
>PLN02294 cytochrome c oxidase subunit Vb
Probab=22.48 E-value=1e+02 Score=22.79 Aligned_cols=24 Identities=25% Similarity=0.648 Sum_probs=17.0
Q ss_pred eeeEEEcCCCcEEEecccCCCCCCCccEEece
Q 032224 103 LQFYKVDDSGKVQRLRKECPNAECGAGTFMAS 134 (145)
Q Consensus 103 ~k~~~v~~~~~~~~l~~~c~~~~c~~g~~ma~ 134 (145)
..|+.+.+ |+..| || +||. +|+.+
T Consensus 131 v~Wf~L~k-Gkp~R----Cp--eCG~-~fkL~ 154 (174)
T PLN02294 131 VVWFWLEK-GKSFE----CP--VCTQ-YFELE 154 (174)
T ss_pred eEEEEecC-CCcee----CC--CCCC-EEEEE
Confidence 34777773 55444 99 9994 99887
No 268
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=22.09 E-value=1.7e+02 Score=18.77 Aligned_cols=25 Identities=12% Similarity=0.271 Sum_probs=19.4
Q ss_pred CCCcHHHHHHHHHHHhCCCcCceee
Q 032224 19 SSDTIDNVKAKIQDKEGIPPDQQRL 43 (145)
Q Consensus 19 ~~~TV~~LK~~I~~~~gip~~~q~L 43 (145)
++-+-.++++.|++..+++++.+.+
T Consensus 11 ~Tpsr~ei~~klA~~~~~~~~~ivv 35 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNVDPDLIVV 35 (84)
T ss_dssp SS--HHHHHHHHHHHHTSTGCCEEE
T ss_pred CCCCHHHHHHHHHHHhCCCCCeEEE
Confidence 5678899999999999998876544
No 269
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=21.94 E-value=43 Score=18.22 Aligned_cols=10 Identities=50% Similarity=1.255 Sum_probs=6.6
Q ss_pred ccCCCCCCCccE
Q 032224 119 KECPNAECGAGT 130 (145)
Q Consensus 119 ~~c~~~~c~~g~ 130 (145)
.-|| +|+.|-
T Consensus 3 ~~Cp--rC~kg~ 12 (36)
T PF14787_consen 3 GLCP--RCGKGF 12 (36)
T ss_dssp -C-T--TTSSSC
T ss_pred ccCc--ccCCCc
Confidence 4599 999875
No 270
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=21.60 E-value=2.6e+02 Score=18.70 Aligned_cols=33 Identities=6% Similarity=0.166 Sum_probs=23.2
Q ss_pred CEEEEEEcCCCcHHHHHHHHHHHh-CCCcCceee
Q 032224 11 KTITLEVESSDTIDNVKAKIQDKE-GIPPDQQRL 43 (145)
Q Consensus 11 ~~~~l~V~~~~TV~~LK~~I~~~~-gip~~~q~L 43 (145)
....+.+.++++..++.+++.+.. .++.++..|
T Consensus 29 ~i~~i~~~~~~~~~~~~~~l~~~i~~~~~~~~vi 62 (116)
T TIGR00824 29 NVGAVPFVPGENAETLQEKYNAALADLDTEEEVL 62 (116)
T ss_pred CeEEEEcCCCcCHHHHHHHHHHHHHhcCCCCCEE
Confidence 356788889999999999987665 344444444
No 271
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=21.59 E-value=55 Score=20.16 Aligned_cols=16 Identities=13% Similarity=0.308 Sum_probs=10.5
Q ss_pred CccccccccCCCEEEE
Q 032224 54 RTLADYNIQKESTLHL 69 (145)
Q Consensus 54 ~tL~~~gi~~~sti~l 69 (145)
..|.+.|+++|++|.+
T Consensus 47 ~~L~~~G~~~GD~V~I 62 (69)
T PF09269_consen 47 KALRKAGAKEGDTVRI 62 (69)
T ss_dssp HHHHTTT--TT-EEEE
T ss_pred HHHHHcCCCCCCEEEE
Confidence 4588899999999875
No 272
>PRK14811 formamidopyrimidine-DNA glycosylase; Provisional
Probab=21.45 E-value=78 Score=24.82 Aligned_cols=24 Identities=29% Similarity=0.653 Sum_probs=18.1
Q ss_pred ccCCCCCCCccEEeceeCCc--ccccCC
Q 032224 119 KECPNAECGAGTFMASHFDR--HYCEFV 144 (145)
Q Consensus 119 ~~c~~~~c~~g~~ma~h~~~--~~c~~~ 144 (145)
+.|| +||.=+-.....+| +||-.|
T Consensus 236 ~pC~--~Cg~~I~~~~~~gR~ty~Cp~C 261 (269)
T PRK14811 236 QPCP--RCGTPIEKIVVGGRGTHFCPQC 261 (269)
T ss_pred CCCC--cCCCeeEEEEECCCCcEECCCC
Confidence 5699 99987777777765 677665
No 273
>cd02413 40S_S3_KH K homology RNA-binding (KH) domain of the eukaryotic 40S small ribosomal subunit protein S3. S3 is part of the head region of the 40S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=21.07 E-value=2.3e+02 Score=17.91 Aligned_cols=24 Identities=17% Similarity=0.310 Sum_probs=20.5
Q ss_pred CCcHHHHHHHHHHHhCCCcCceee
Q 032224 20 SDTIDNVKAKIQDKEGIPPDQQRL 43 (145)
Q Consensus 20 ~~TV~~LK~~I~~~~gip~~~q~L 43 (145)
..++.+|++.|+..++++..+..+
T Consensus 49 G~~i~~L~~~L~k~~~~~~~~i~v 72 (81)
T cd02413 49 GRRIRELTSLVQKRFNFPEGSVEL 72 (81)
T ss_pred chhHHHHHHHHHHHhCCCCCeEEE
Confidence 478999999999999998776665
No 274
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=20.78 E-value=1.8e+02 Score=16.61 Aligned_cols=31 Identities=19% Similarity=0.426 Sum_probs=18.0
Q ss_pred EEEcCCCcHHHHHHH-------HHHHhCCCcCceeeee
Q 032224 15 LEVESSDTIDNVKAK-------IQDKEGIPPDQQRLIF 45 (145)
Q Consensus 15 l~V~~~~TV~~LK~~-------I~~~~gip~~~q~L~~ 45 (145)
+.+.+.-|..+.++. +.+.+|+|+++..+++
T Consensus 6 i~~~~Grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i 43 (61)
T PRK02220 6 IKLIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHVII 43 (61)
T ss_pred EEEcCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEE
Confidence 344444454444443 3566789988876655
No 275
>COG2029 Uncharacterized conserved protein [Function unknown]
Probab=20.64 E-value=38 Score=25.04 Aligned_cols=28 Identities=21% Similarity=0.476 Sum_probs=21.6
Q ss_pred eeeeCCeeccCCCccccccccCCCEEEE
Q 032224 42 RLIFAGKQLEDGRTLADYNIQKESTLHL 69 (145)
Q Consensus 42 ~L~~~G~~L~d~~tL~~~gi~~~sti~l 69 (145)
+|-|.|.+++.....+.|||+..|.|.+
T Consensus 12 ~ldYdGSqI~~~wA~~~fgI~gdSiVvf 39 (189)
T COG2029 12 RLDYDGSQIRSAWAYRNFGIKGDSIVVF 39 (189)
T ss_pred cccCchhhhhhhHhHhhcCcCCceEEEE
Confidence 4678888888888889999986665544
No 276
>KOG2013 consensus SMT3/SUMO-activating complex, catalytic component UBA2 [Posttranslational modification, protein turnover, chaperones]
Probab=20.38 E-value=1.8e+02 Score=25.41 Aligned_cols=55 Identities=24% Similarity=0.366 Sum_probs=34.6
Q ss_pred EEEEEc-CCCcHHHHHHHHH-HHhCCCcCceeeee-----CCeecc--CCCccccccccCCCEEEE
Q 032224 13 ITLEVE-SSDTIDNVKAKIQ-DKEGIPPDQQRLIF-----AGKQLE--DGRTLADYNIQKESTLHL 69 (145)
Q Consensus 13 ~~l~V~-~~~TV~~LK~~I~-~~~gip~~~q~L~~-----~G~~L~--d~~tL~~~gi~~~sti~l 69 (145)
..++++ ...|+.+|-..|- .+++..| ++.|.+ .- ..+ .+.+|+++||.+|+.|.+
T Consensus 445 ~~l~ln~~~~~~~~L~D~ivk~r~~~~p-dvsll~~~Li~~~-d~e~n~~k~lsel~i~ngsli~~ 508 (603)
T KOG2013|consen 445 LVLELNTRKSTLRDLVDKIVKTRLGYLP-DVSLLDDDLIDDM-DFEDNLDKTLSELGILNGSLINV 508 (603)
T ss_pred eEEEeccccchHHHHHHHHHHHHhccCc-ccchhhhhhcccc-cchhhhhhhHHhhCCCCCceEee
Confidence 445555 4578888888874 4556654 333333 22 112 347899999999996544
No 277
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=20.00 E-value=2.4e+02 Score=19.07 Aligned_cols=27 Identities=7% Similarity=0.096 Sum_probs=21.1
Q ss_pred CEEEEEeCCCCEEEEEEcCCCcHHHHH
Q 032224 1 MQIFVKTLTGKTITLEVESSDTIDNVK 27 (145)
Q Consensus 1 M~I~Vk~~~g~~~~l~V~~~~TV~~LK 27 (145)
++|++...+|+...+++.+..|+.+.-
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~tLl~a~ 27 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGMSLLEAA 27 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCCcHHHHH
Confidence 467776788999999999888877653
Done!