Query psy4181
Match_columns 73
No_of_seqs 106 out of 471
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 18:55:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4181.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4181hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01791 Ubl5 UBL5 ubiquitin-li 100.0 2.4E-32 5.2E-37 160.5 8.8 73 1-73 1-73 (73)
2 cd01807 GDX_N ubiquitin-like d 100.0 6.6E-30 1.4E-34 148.8 8.6 72 2-73 1-72 (74)
3 cd01793 Fubi Fubi ubiquitin-li 100.0 1.3E-29 2.9E-34 147.7 8.4 70 2-73 1-70 (74)
4 cd01797 NIRF_N amino-terminal 100.0 7.4E-29 1.6E-33 146.9 8.3 71 2-72 1-73 (78)
5 PTZ00044 ubiquitin; Provisiona 100.0 1.3E-28 2.7E-33 143.2 8.5 71 2-72 1-71 (76)
6 cd01798 parkin_N amino-termina 100.0 1.6E-28 3.4E-33 141.6 8.2 70 4-73 1-70 (70)
7 cd01810 ISG15_repeat2 ISG15 ub 100.0 1.7E-28 3.8E-33 143.0 8.0 70 4-73 1-70 (74)
8 cd01802 AN1_N ubiquitin-like d 100.0 4.2E-28 9.2E-33 150.4 9.1 72 2-73 28-99 (103)
9 cd01794 DC_UbP_C dendritic cel 99.9 2.1E-27 4.5E-32 138.2 7.7 68 4-71 1-68 (70)
10 cd01808 hPLIC_N Ubiquitin-like 99.9 6.6E-27 1.4E-31 135.2 8.6 71 2-73 1-71 (71)
11 cd01806 Nedd8 Nebb8-like ubiq 99.9 7.7E-27 1.7E-31 134.8 8.7 72 2-73 1-72 (76)
12 cd01803 Ubiquitin Ubiquitin. U 99.9 8.4E-27 1.8E-31 134.6 8.5 72 2-73 1-72 (76)
13 cd01790 Herp_N Homocysteine-re 99.9 8.5E-27 1.8E-31 139.2 7.9 72 2-73 2-79 (79)
14 cd01805 RAD23_N Ubiquitin-like 99.9 1.4E-26 3.1E-31 134.6 8.6 70 2-71 1-72 (77)
15 cd01809 Scythe_N Ubiquitin-lik 99.9 1.8E-26 3.9E-31 132.1 8.7 72 2-73 1-72 (72)
16 KOG0004|consensus 99.9 9.4E-28 2E-32 157.8 3.4 71 2-72 1-71 (156)
17 cd01804 midnolin_N Ubiquitin-l 99.9 1.4E-26 3.1E-31 136.7 8.2 70 2-72 2-71 (78)
18 KOG0003|consensus 99.9 3.1E-28 6.7E-33 153.1 0.2 71 2-72 1-71 (128)
19 cd01792 ISG15_repeat1 ISG15 ub 99.9 1.8E-26 3.9E-31 136.4 7.4 71 2-72 3-75 (80)
20 cd01796 DDI1_N DNA damage indu 99.9 3.9E-26 8.4E-31 132.7 7.4 68 4-71 1-70 (71)
21 KOG0005|consensus 99.9 1.2E-26 2.7E-31 132.8 4.1 70 2-71 1-70 (70)
22 PF00240 ubiquitin: Ubiquitin 99.9 8.3E-25 1.8E-29 124.7 8.7 67 7-73 1-67 (69)
23 cd01812 BAG1_N Ubiquitin-like 99.9 2.2E-24 4.7E-29 123.4 7.2 69 2-71 1-69 (71)
24 cd01763 Sumo Small ubiquitin-r 99.9 3.3E-23 7E-28 124.5 9.6 72 2-73 12-83 (87)
25 cd01800 SF3a120_C Ubiquitin-li 99.9 2.9E-23 6.3E-28 121.6 7.4 64 9-72 5-68 (76)
26 cd01815 BMSC_UbP_N Ubiquitin-l 99.9 4.5E-23 9.8E-28 122.2 4.9 52 20-71 19-73 (75)
27 smart00213 UBQ Ubiquitin homol 99.9 4.5E-22 9.7E-27 110.6 7.0 64 2-66 1-64 (64)
28 cd01799 Hoil1_N Ubiquitin-like 99.9 3.9E-22 8.5E-27 117.5 7.0 64 7-71 8-73 (75)
29 cd01813 UBP_N UBP ubiquitin pr 99.9 6.4E-22 1.4E-26 116.1 7.4 69 2-71 1-72 (74)
30 TIGR00601 rad23 UV excision re 99.9 2.6E-21 5.5E-26 141.7 8.4 70 2-71 1-73 (378)
31 KOG0010|consensus 99.8 3.2E-21 7E-26 144.2 6.9 70 2-72 16-85 (493)
32 cd01769 UBL Ubiquitin-like dom 99.8 4E-19 8.8E-24 99.7 7.9 68 6-73 2-69 (69)
33 cd01814 NTGP5 Ubiquitin-like N 99.8 8.9E-20 1.9E-24 115.0 5.6 73 1-73 4-90 (113)
34 PF11976 Rad60-SLD: Ubiquitin- 99.7 8.4E-18 1.8E-22 96.6 7.7 70 2-71 1-71 (72)
35 KOG0001|consensus 99.7 3.4E-17 7.5E-22 90.9 8.4 70 3-72 1-70 (75)
36 cd01789 Alp11_N Ubiquitin-like 99.7 7E-16 1.5E-20 92.2 8.7 70 2-71 2-79 (84)
37 cd01795 USP48_C USP ubiquitin- 99.7 1.9E-16 4.2E-21 98.4 6.4 60 12-71 15-75 (107)
38 KOG0011|consensus 99.7 2E-16 4.4E-21 114.2 6.4 69 2-70 1-71 (340)
39 KOG3493|consensus 99.6 1.4E-16 3.1E-21 92.4 1.9 73 1-73 1-73 (73)
40 PLN02560 enoyl-CoA reductase 99.6 2.5E-15 5.4E-20 107.8 7.8 69 2-70 1-80 (308)
41 PF14560 Ubiquitin_2: Ubiquiti 99.6 3.4E-14 7.3E-19 84.8 7.9 71 1-71 1-81 (87)
42 KOG4248|consensus 99.5 1.5E-14 3.3E-19 115.5 6.5 71 2-73 3-73 (1143)
43 cd01801 Tsc13_N Ubiquitin-like 99.5 1.2E-13 2.7E-18 80.9 6.0 68 3-70 2-74 (77)
44 PF13881 Rad60-SLD_2: Ubiquiti 99.4 7.1E-12 1.5E-16 78.8 10.1 72 2-73 3-88 (111)
45 cd00196 UBQ Ubiquitin-like pro 99.4 9.3E-12 2E-16 65.2 8.0 66 7-72 3-68 (69)
46 cd01788 ElonginB Ubiquitin-lik 99.4 2.5E-12 5.4E-17 81.5 6.5 71 3-73 2-80 (119)
47 PF11543 UN_NPL4: Nuclear pore 99.1 1.3E-10 2.9E-15 69.2 4.8 69 2-71 5-78 (80)
48 cd01811 OASL_repeat1 2'-5' oli 98.9 5.6E-09 1.2E-13 62.1 7.1 68 2-70 1-73 (80)
49 KOG0006|consensus 98.8 1.5E-08 3.2E-13 74.3 5.8 70 2-71 1-73 (446)
50 KOG1872|consensus 98.7 5.7E-08 1.2E-12 73.2 6.2 67 4-71 6-73 (473)
51 PF08817 YukD: WXG100 protein 98.5 4.6E-07 1E-11 53.1 6.6 69 2-70 3-78 (79)
52 KOG1769|consensus 98.5 1.7E-06 3.7E-11 53.6 8.6 70 2-71 21-90 (99)
53 PF11470 TUG-UBL1: GLUT4 regul 98.4 2.4E-06 5.2E-11 49.3 6.7 63 8-70 3-65 (65)
54 KOG4495|consensus 98.4 8.2E-07 1.8E-11 55.2 4.6 60 3-62 2-64 (110)
55 PF13019 Telomere_Sde2: Telome 98.3 5.6E-06 1.2E-10 55.3 8.1 71 2-72 1-83 (162)
56 PF00789 UBX: UBX domain; Int 98.3 1.6E-05 3.5E-10 46.3 9.0 70 2-71 7-81 (82)
57 KOG0013|consensus 98.3 1.2E-06 2.5E-11 60.9 4.3 57 10-66 155-211 (231)
58 PF10302 DUF2407: DUF2407 ubiq 98.3 2.6E-06 5.7E-11 52.4 5.5 56 4-59 3-63 (97)
59 smart00166 UBX Domain present 97.8 0.00021 4.5E-09 41.7 7.4 70 2-71 5-79 (80)
60 cd01770 p47_UBX p47-like ubiqu 97.7 0.0005 1.1E-08 40.6 7.6 67 2-68 5-75 (79)
61 KOG1639|consensus 97.6 0.00019 4.2E-09 51.3 5.5 69 2-70 1-76 (297)
62 cd01774 Faf1_like2_UBX Faf1 ik 97.6 0.0016 3.4E-08 39.0 8.7 68 2-70 5-82 (85)
63 cd01767 UBX UBX (ubiquitin reg 97.5 0.0016 3.4E-08 37.6 7.8 68 2-71 3-75 (77)
64 cd01772 SAKS1_UBX SAKS1-like U 97.4 0.002 4.3E-08 37.8 7.7 68 3-71 6-78 (79)
65 KOG3206|consensus 97.4 0.00099 2.1E-08 46.5 6.8 71 1-71 1-79 (234)
66 PRK08364 sulfur carrier protei 97.3 0.0039 8.5E-08 35.7 7.8 61 1-71 4-64 (70)
67 COG5417 Uncharacterized small 97.1 0.0082 1.8E-07 35.8 8.0 66 5-70 10-80 (81)
68 cd06409 PB1_MUG70 The MUG70 pr 97.1 0.0027 6E-08 38.4 5.9 43 4-46 3-48 (86)
69 PF15044 CLU_N: Mitochondrial 97.0 0.0014 3.1E-08 38.5 4.2 54 18-71 1-56 (76)
70 PF09379 FERM_N: FERM N-termin 97.0 0.0067 1.5E-07 34.6 7.0 65 6-70 1-72 (80)
71 PRK06437 hypothetical protein; 96.9 0.011 2.4E-07 33.7 7.3 53 10-71 9-61 (67)
72 cd01773 Faf1_like1_UBX Faf1 ik 96.8 0.028 6E-07 33.7 8.3 68 3-71 7-79 (82)
73 cd06406 PB1_P67 A PB1 domain i 96.7 0.0092 2E-07 35.7 6.1 44 2-49 5-48 (80)
74 PLN02799 Molybdopterin synthas 96.7 0.017 3.6E-07 33.5 7.0 66 1-71 1-76 (82)
75 KOG4583|consensus 96.6 0.00086 1.9E-08 49.6 1.3 59 2-60 10-72 (391)
76 COG5227 SMT3 Ubiquitin-like pr 96.5 0.019 4.1E-07 35.5 6.5 66 3-68 26-91 (103)
77 cd01771 Faf1_UBX Faf1 UBX doma 96.5 0.042 9.1E-07 32.4 7.8 69 2-71 5-78 (80)
78 PF14453 ThiS-like: ThiS-like 96.5 0.028 6E-07 31.7 6.5 53 2-70 1-53 (57)
79 PF14836 Ubiquitin_3: Ubiquiti 96.4 0.054 1.2E-06 32.9 7.9 60 11-71 13-78 (88)
80 cd00754 MoaD Ubiquitin domain 96.1 0.056 1.2E-06 30.7 6.7 57 10-71 13-74 (80)
81 smart00455 RBD Raf-like Ras-bi 96.1 0.042 9.1E-07 31.7 6.1 43 6-48 4-46 (70)
82 PRK06488 sulfur carrier protei 96.0 0.078 1.7E-06 29.6 6.7 59 2-71 1-59 (65)
83 PF08337 Plexin_cytopl: Plexin 95.8 0.024 5.3E-07 44.0 5.6 63 10-72 200-288 (539)
84 cd01760 RBD Ubiquitin-like dom 95.6 0.073 1.6E-06 31.0 5.7 44 5-48 3-46 (72)
85 PRK06083 sulfur carrier protei 95.5 0.16 3.6E-06 30.3 7.3 61 1-71 18-78 (84)
86 smart00666 PB1 PB1 domain. Pho 95.5 0.11 2.4E-06 29.7 6.3 46 2-48 2-47 (81)
87 PRK07440 hypothetical protein; 95.4 0.25 5.3E-06 28.3 7.4 61 1-71 4-64 (70)
88 PRK05659 sulfur carrier protei 95.3 0.23 4.9E-06 27.5 7.1 60 2-71 1-60 (66)
89 KOG0012|consensus 95.1 0.031 6.7E-07 41.7 3.8 61 10-70 11-73 (380)
90 PRK05863 sulfur carrier protei 95.1 0.15 3.3E-06 28.6 5.9 57 2-71 1-59 (65)
91 PF10790 DUF2604: Protein of U 95.0 0.17 3.6E-06 29.6 5.8 63 10-72 4-70 (76)
92 TIGR01682 moaD molybdopterin c 95.0 0.16 3.6E-06 29.2 6.0 58 9-71 12-74 (80)
93 TIGR02958 sec_mycoba_snm4 secr 94.9 0.17 3.7E-06 38.3 7.3 69 3-72 4-79 (452)
94 smart00295 B41 Band 4.1 homolo 94.9 0.12 2.5E-06 33.6 5.7 62 2-63 4-72 (207)
95 PF11620 GABP-alpha: GA-bindin 94.8 0.12 2.6E-06 31.5 5.2 59 14-72 5-63 (88)
96 PF14451 Ub-Mut7C: Mut7-C ubiq 94.7 0.24 5.3E-06 29.4 6.4 52 11-71 22-74 (81)
97 KOG0007|consensus 94.6 0.014 3E-07 42.5 1.0 51 8-58 289-340 (341)
98 PF12754 Blt1: Cell-cycle cont 94.4 0.011 2.4E-07 43.1 0.0 62 2-63 79-160 (309)
99 cd00565 ThiS ThiaminS ubiquiti 94.3 0.36 7.9E-06 26.8 6.2 55 10-71 5-59 (65)
100 PF06234 TmoB: Toluene-4-monoo 94.0 0.58 1.3E-05 28.3 6.9 60 13-72 16-83 (85)
101 PRK07696 sulfur carrier protei 94.0 0.59 1.3E-05 26.4 7.0 60 2-71 1-61 (67)
102 cd06407 PB1_NLP A PB1 domain i 94.0 0.39 8.5E-06 28.5 6.1 37 10-46 8-45 (82)
103 KOG4250|consensus 93.9 0.22 4.7E-06 40.0 6.2 42 9-50 322-363 (732)
104 PF02597 ThiS: ThiS family; I 93.5 0.7 1.5E-05 25.8 6.5 59 10-71 11-71 (77)
105 cd05992 PB1 The PB1 domain is 93.3 0.54 1.2E-05 26.5 5.8 43 4-47 3-46 (81)
106 TIGR01683 thiS thiamine biosyn 93.3 0.71 1.5E-05 25.6 6.1 55 10-71 4-58 (64)
107 PF00564 PB1: PB1 domain; Int 93.2 0.71 1.5E-05 26.2 6.2 45 3-48 3-48 (84)
108 PF12436 USP7_ICP0_bdg: ICP0-b 93.1 0.13 2.9E-06 35.8 3.5 68 2-69 69-148 (249)
109 cd06396 PB1_NBR1 The PB1 domai 92.5 0.5 1.1E-05 28.3 5.0 38 10-53 8-47 (81)
110 PF02196 RBD: Raf-like Ras-bin 92.4 0.84 1.8E-05 26.2 5.8 43 6-48 5-47 (71)
111 PRK08053 sulfur carrier protei 92.3 1.1 2.5E-05 24.9 7.3 60 2-71 1-60 (66)
112 cd06408 PB1_NoxR The PB1 domai 92.1 1.1 2.4E-05 27.0 6.2 52 4-58 3-55 (86)
113 cd01768 RA RA (Ras-associating 92.1 1.4 3E-05 25.3 7.2 46 10-55 11-64 (87)
114 TIGR01687 moaD_arch MoaD famil 91.9 1.5 3.3E-05 25.4 8.0 59 9-71 12-82 (88)
115 cd01817 RGS12_RBD Ubiquitin do 91.9 0.77 1.7E-05 27.0 5.1 42 8-49 6-47 (73)
116 PF00788 RA: Ras association ( 91.8 1.5 3.2E-05 25.1 6.7 42 2-45 5-52 (93)
117 COG5100 NPL4 Nuclear pore prot 91.7 0.8 1.7E-05 35.2 6.3 70 2-72 1-78 (571)
118 smart00144 PI3K_rbd PI3-kinase 91.3 2.3 4.9E-05 26.2 7.3 62 11-72 28-103 (108)
119 smart00314 RA Ras association 91.2 1.9 4.1E-05 25.0 6.4 53 2-54 5-65 (90)
120 PF14732 UAE_UbL: Ubiquitin/SU 90.9 0.57 1.2E-05 27.9 4.0 53 16-70 2-66 (87)
121 PF14533 USP7_C2: Ubiquitin-sp 90.6 2.1 4.5E-05 29.2 7.1 48 13-60 35-90 (213)
122 cd01787 GRB7_RA RA (RAS-associ 90.4 1.3 2.9E-05 26.7 5.3 56 2-59 5-67 (85)
123 cd06410 PB1_UP2 Uncharacterize 90.4 1.7 3.6E-05 26.6 5.9 40 6-46 17-56 (97)
124 PRK11840 bifunctional sulfur c 90.2 1.9 4.2E-05 31.8 7.0 60 2-71 1-60 (326)
125 cd06411 PB1_p51 The PB1 domain 90.0 1 2.2E-05 26.8 4.5 35 13-47 8-42 (78)
126 PRK06944 sulfur carrier protei 90.0 2 4.4E-05 23.5 7.3 59 2-71 1-59 (65)
127 COG2104 ThiS Sulfur transfer p 89.8 2.5 5.4E-05 24.3 7.3 61 1-71 2-62 (68)
128 cd01777 SNX27_RA Ubiquitin dom 89.7 1.3 2.8E-05 26.9 4.9 42 3-44 3-44 (87)
129 PRK01777 hypothetical protein; 89.1 3.5 7.7E-05 25.1 7.5 62 1-71 3-74 (95)
130 cd01818 TIAM1_RBD Ubiquitin do 87.8 4.1 8.8E-05 24.3 6.0 39 6-44 4-42 (77)
131 PF02505 MCR_D: Methyl-coenzym 86.6 2.2 4.8E-05 28.4 4.8 52 2-60 68-120 (153)
132 PF11834 DUF3354: Domain of un 86.4 3.5 7.6E-05 23.8 5.1 51 11-71 19-69 (69)
133 cd01764 Urm1 Urm1-like ubuitin 86.2 3.6 7.8E-05 24.7 5.4 54 16-71 23-88 (94)
134 PF14533 USP7_C2: Ubiquitin-sp 86.1 0.76 1.6E-05 31.3 2.6 31 11-41 132-162 (213)
135 KOG3439|consensus 85.1 5.4 0.00012 25.4 5.9 50 2-51 31-84 (116)
136 cd06398 PB1_Joka2 The PB1 doma 84.9 6.4 0.00014 23.7 6.3 42 4-46 3-50 (91)
137 KOG2982|consensus 84.3 1.3 2.8E-05 33.3 3.2 52 18-69 354-413 (418)
138 KOG2086|consensus 84.2 1.7 3.8E-05 32.6 3.9 66 4-69 308-377 (380)
139 PTZ00380 microtubule-associate 84.0 1.7 3.7E-05 27.8 3.3 46 12-58 41-87 (121)
140 PF10209 DUF2340: Uncharacteri 83.5 4 8.6E-05 26.2 4.8 59 13-71 16-106 (122)
141 COG5272 UBI4 Ubiquitin [Posttr 83.1 0.2 4.2E-06 27.6 -1.1 54 3-56 2-55 (57)
142 PF00794 PI3K_rbd: PI3-kinase 81.5 9.2 0.0002 23.0 6.3 68 3-70 18-99 (106)
143 PF12436 USP7_ICP0_bdg: ICP0-b 81.5 7 0.00015 27.2 5.9 37 9-45 187-223 (249)
144 TIGR03260 met_CoM_red_D methyl 78.6 6.8 0.00015 26.0 4.8 52 2-60 67-118 (150)
145 PF13180 PDZ_2: PDZ domain; PD 78.2 4.6 9.9E-05 22.8 3.5 53 12-72 15-69 (82)
146 PF00276 Ribosomal_L23: Riboso 77.9 11 0.00023 22.5 5.2 42 11-52 20-62 (91)
147 PRK05841 flgE flagellar hook p 72.4 6.4 0.00014 31.3 4.0 42 2-43 249-299 (603)
148 KOG4248|consensus 72.4 1.2 2.5E-05 37.5 -0.0 63 8-70 331-393 (1143)
149 PRK05738 rplW 50S ribosomal pr 71.4 14 0.00031 22.2 4.6 40 11-50 20-60 (92)
150 PLN02593 adrenodoxin-like ferr 71.3 16 0.00034 22.7 5.0 36 2-41 1-36 (117)
151 PF10407 Cytokin_check_N: Cdc1 71.3 9.1 0.0002 22.4 3.6 52 12-68 3-55 (73)
152 TIGR02008 fdx_plant ferredoxin 71.0 19 0.00042 21.3 5.3 37 2-42 3-39 (97)
153 PF02192 PI3K_p85B: PI3-kinase 71.0 7 0.00015 23.0 3.1 22 14-35 2-23 (78)
154 PF02991 Atg8: Autophagy prote 70.7 11 0.00024 23.3 4.1 42 18-59 39-81 (104)
155 cd01611 GABARAP Ubiquitin doma 68.7 14 0.00031 23.0 4.3 57 15-72 44-105 (112)
156 KOG4572|consensus 68.5 12 0.00026 31.6 4.8 52 10-61 3-56 (1424)
157 PF11816 DUF3337: Domain of un 68.1 21 0.00045 25.9 5.6 60 14-73 250-327 (331)
158 PRK11130 moaD molybdopterin sy 67.5 21 0.00045 20.4 6.2 57 9-71 13-75 (81)
159 cd01778 RASSF1_RA Ubiquitin-li 67.4 26 0.00056 21.6 5.2 35 9-43 14-48 (96)
160 smart00143 PI3K_p85B PI3-kinas 66.7 9 0.0002 22.7 2.9 25 14-38 2-27 (78)
161 PF08825 E2_bind: E2 binding d 66.2 13 0.00029 22.1 3.6 54 16-70 1-68 (84)
162 cd01775 CYR1_RA Ubiquitin doma 66.0 29 0.00063 21.4 5.3 31 10-40 11-41 (97)
163 PRK11872 antC anthranilate dio 65.8 17 0.00038 26.0 4.8 37 2-42 3-39 (340)
164 KOG3309|consensus 65.3 13 0.00029 24.9 3.8 28 2-29 44-71 (159)
165 PF08783 DWNN: DWNN domain; I 65.1 16 0.00034 21.4 3.7 34 14-47 12-48 (74)
166 COG4055 McrD Methyl coenzyme M 64.8 28 0.0006 23.3 5.3 51 3-60 77-128 (165)
167 cd05484 retropepsin_like_LTR_2 63.5 14 0.0003 21.3 3.3 43 10-52 8-54 (91)
168 cd06397 PB1_UP1 Uncharacterize 63.2 31 0.00066 20.8 6.9 42 4-46 3-44 (82)
169 PF08299 Bac_DnaA_C: Bacterial 63.1 4.7 0.0001 22.8 1.2 20 23-42 1-20 (70)
170 TIGR03636 L23_arch archaeal ri 62.9 25 0.00055 20.6 4.4 34 11-44 14-47 (77)
171 KOG1364|consensus 62.8 8 0.00017 29.0 2.7 64 4-67 280-349 (356)
172 KOG4842|consensus 62.8 0.78 1.7E-05 33.1 -2.5 57 1-58 1-58 (278)
173 TIGR00824 EIIA-man PTS system, 62.0 28 0.00062 21.3 4.7 40 12-51 29-73 (116)
174 PF14847 Ras_bdg_2: Ras-bindin 61.6 36 0.00078 21.0 5.8 37 3-39 2-38 (105)
175 PRK06959 putative threonine-ph 61.6 11 0.00024 26.8 3.1 30 19-49 51-80 (339)
176 cd01776 Rin1_RA Ubiquitin doma 61.0 28 0.00061 21.1 4.4 60 12-73 14-85 (87)
177 PF09269 DUF1967: Domain of un 60.9 5.2 0.00011 22.8 1.2 17 54-70 46-62 (69)
178 COG3760 Uncharacterized conser 60.7 15 0.00032 24.7 3.4 55 3-67 47-101 (164)
179 PRK14548 50S ribosomal protein 60.5 30 0.00066 20.6 4.5 34 11-44 21-54 (84)
180 cd01782 AF6_RA_repeat1 Ubiquit 59.9 42 0.00091 21.3 5.6 37 2-38 24-62 (112)
181 cd01816 Raf_RBD Ubiquitin doma 59.7 34 0.00074 20.2 6.7 55 2-58 2-61 (74)
182 PTZ00490 Ferredoxin superfamil 59.7 25 0.00054 22.9 4.3 26 2-27 36-61 (143)
183 TIGR03595 Obg_CgtA_exten Obg f 59.4 4.5 9.8E-05 23.1 0.7 17 54-70 46-62 (69)
184 COG0274 DeoC Deoxyribose-phosp 56.5 14 0.00031 26.0 3.0 25 5-34 156-180 (228)
185 COG0089 RplW Ribosomal protein 56.3 39 0.00085 20.7 4.5 60 11-70 21-90 (94)
186 PF02824 TGS: TGS domain; Int 56.0 32 0.00069 18.7 5.5 59 4-71 1-59 (60)
187 PF04584 Pox_A28: Poxvirus A28 56.0 6 0.00013 26.0 1.0 26 5-30 45-71 (140)
188 cd02413 40S_S3_KH K homology R 55.7 40 0.00086 19.7 5.6 26 19-44 47-72 (81)
189 PF03931 Skp1_POZ: Skp1 family 54.8 9.3 0.0002 20.9 1.5 33 2-34 1-33 (62)
190 cd01612 APG12_C Ubiquitin-like 54.7 43 0.00094 19.8 4.6 56 15-72 19-80 (87)
191 PF11069 DUF2870: Protein of u 54.2 6.5 0.00014 24.4 0.8 19 43-61 3-21 (98)
192 PF01282 Ribosomal_S24e: Ribos 54.1 31 0.00066 20.4 3.7 26 19-44 10-35 (84)
193 cd06404 PB1_aPKC PB1 domain is 53.5 42 0.0009 20.2 4.2 36 6-41 3-39 (83)
194 TIGR01916 F420_cofE F420-0:gam 53.3 19 0.00042 25.5 3.2 46 9-56 113-160 (243)
195 smart00760 Bac_DnaA_C Bacteria 52.9 11 0.00024 20.4 1.6 20 23-42 1-20 (60)
196 PF02017 CIDE-N: CIDE-N domain 52.6 32 0.00069 20.3 3.6 34 22-55 21-56 (78)
197 PF13439 Glyco_transf_4: Glyco 52.0 19 0.00041 21.6 2.7 27 25-52 148-174 (177)
198 CHL00030 rpl23 ribosomal prote 51.3 36 0.00078 20.6 3.8 40 10-49 18-58 (93)
199 KOG3076|consensus 50.1 22 0.00047 24.8 3.0 22 15-36 161-182 (206)
200 KOG2561|consensus 49.9 18 0.00039 28.4 2.8 50 15-64 53-102 (568)
201 cd05864 Ig2_VEGFR-2 Second imm 48.6 28 0.00062 19.2 2.9 21 34-54 7-27 (70)
202 PF07984 DUF1693: Domain of un 48.3 18 0.00039 26.7 2.5 35 10-45 22-56 (320)
203 PRK13011 formyltetrahydrofolat 47.7 29 0.00064 24.8 3.5 22 14-35 238-259 (286)
204 KOG2660|consensus 47.4 16 0.00035 27.1 2.2 44 16-59 168-213 (331)
205 COG0299 PurN Folate-dependent 47.1 25 0.00054 24.4 2.9 35 15-49 153-188 (200)
206 cd05748 Ig_Titin_like Immunogl 47.1 36 0.00078 18.2 3.2 21 34-54 8-28 (74)
207 PHA02090 hypothetical protein 46.9 2.2 4.8E-05 24.9 -1.9 40 6-45 32-71 (79)
208 PF03610 EIIA-man: PTS system 46.7 63 0.0014 19.4 5.1 35 12-46 28-63 (116)
209 cd05730 Ig3_NCAM-1_like Third 45.1 56 0.0012 18.4 4.7 33 8-54 15-47 (95)
210 PF09776 Mitoc_L55: Mitochondr 45.0 16 0.00035 23.2 1.6 11 63-73 52-62 (116)
211 cd05762 Ig8_MLCK Eighth immuno 44.8 63 0.0014 18.8 5.3 32 10-55 14-45 (98)
212 COG1977 MoaD Molybdopterin con 44.6 62 0.0013 18.7 4.3 49 19-71 25-78 (84)
213 cd00006 PTS_IIA_man PTS_IIA, P 44.4 67 0.0014 19.5 4.3 40 12-51 28-72 (122)
214 TIGR00655 PurU formyltetrahydr 43.4 38 0.00081 24.2 3.5 23 14-36 233-255 (280)
215 cd01615 CIDE_N CIDE_N domain, 43.3 70 0.0015 18.9 5.9 44 11-55 11-56 (78)
216 cd01784 rasfadin_RA Ubiquitin- 43.3 64 0.0014 19.6 4.0 34 9-42 9-43 (87)
217 smart00266 CAD Domains present 42.9 69 0.0015 18.8 5.1 43 12-55 10-54 (74)
218 PTZ00071 40S ribosomal protein 42.6 93 0.002 20.2 6.1 36 11-47 21-61 (132)
219 PF08766 DEK_C: DEK C terminal 42.6 18 0.0004 19.3 1.4 22 21-42 20-41 (54)
220 PF01191 RNA_pol_Rpb5_C: RNA p 42.1 66 0.0014 18.7 3.8 39 28-71 20-58 (74)
221 cd05736 Ig2_Follistatin_like S 41.7 57 0.0012 17.5 3.4 21 34-54 7-27 (76)
222 PRK13293 F420-0--gamma-glutamy 41.6 31 0.00066 24.6 2.7 46 9-56 114-161 (245)
223 PRK09570 rpoH DNA-directed RNA 41.6 60 0.0013 19.2 3.6 40 28-72 23-62 (79)
224 PF06487 SAP18: Sin3 associate 41.5 38 0.00082 21.4 2.9 58 13-71 38-119 (120)
225 KOG3784|consensus 40.5 72 0.0016 24.4 4.7 34 3-38 111-144 (407)
226 PF10787 YfmQ: Uncharacterised 40.3 19 0.00041 23.9 1.4 43 14-56 17-59 (149)
227 PF13085 Fer2_3: 2Fe-2S iron-s 40.0 63 0.0014 20.1 3.7 25 12-36 19-43 (110)
228 PF02037 SAP: SAP domain; Int 39.8 41 0.0009 16.4 2.4 19 20-39 2-20 (35)
229 PF04126 Cyclophil_like: Cyclo 39.6 33 0.00072 21.3 2.4 29 2-31 1-29 (120)
230 PRK12294 hisZ ATP phosphoribos 39.3 97 0.0021 22.0 5.0 48 9-62 58-105 (272)
231 PRK13010 purU formyltetrahydro 39.3 48 0.001 23.8 3.5 38 13-50 241-279 (289)
232 COG3900 Predicted periplasmic 39.2 56 0.0012 23.4 3.7 29 17-45 120-148 (262)
233 PF12085 DUF3562: Protein of u 39.2 28 0.0006 20.1 1.9 23 21-43 3-25 (66)
234 COG2080 CoxS Aerobic-type carb 39.1 51 0.0011 22.0 3.4 53 1-57 1-63 (156)
235 PF05402 PqqD: Coenzyme PQQ sy 39.0 26 0.00055 18.9 1.7 23 19-41 27-49 (68)
236 PRK11639 zinc uptake transcrip 38.7 53 0.0011 21.5 3.4 38 10-50 106-143 (169)
237 cd01783 DAGK_delta_RA Ubiquiti 38.6 67 0.0015 19.8 3.6 28 14-41 19-46 (97)
238 PF00111 Fer2: 2Fe-2S iron-sul 38.6 35 0.00077 18.7 2.3 22 8-29 2-24 (78)
239 PRK14432 acylphosphatase; Prov 38.6 50 0.0011 19.7 3.0 35 5-42 33-69 (93)
240 PF03147 FDX-ACB: Ferredoxin-f 38.6 66 0.0014 18.8 3.5 41 12-52 8-50 (94)
241 smart00513 SAP Putative DNA-bi 38.5 48 0.001 16.0 2.5 19 20-39 2-20 (35)
242 TIGR01941 nqrF NADH:ubiquinone 38.2 62 0.0014 23.8 4.0 37 2-42 30-66 (405)
243 cd02071 MM_CoA_mut_B12_BD meth 38.1 32 0.0007 21.0 2.2 52 12-63 52-104 (122)
244 cd04976 Ig2_VEGFR Second immun 37.7 56 0.0012 17.7 3.0 21 34-54 7-27 (71)
245 PF09631 Sen15: Sen15 protein; 37.7 34 0.00073 20.6 2.2 51 14-66 45-95 (101)
246 KOG2013|consensus 37.4 19 0.00042 28.5 1.3 56 14-70 445-508 (603)
247 PRK09462 fur ferric uptake reg 37.4 78 0.0017 19.9 4.0 39 10-51 96-134 (148)
248 PF06071 YchF-GTPase_C: Protei 37.3 25 0.00055 21.1 1.6 14 59-72 70-83 (84)
249 cd07857 STKc_MPK1 Catalytic do 37.1 21 0.00046 24.6 1.4 24 11-34 308-331 (332)
250 cd04972 Ig_TrkABC_d4 Fourth do 36.7 80 0.0017 17.7 4.0 31 10-54 14-44 (90)
251 PRK05283 deoxyribose-phosphate 36.6 53 0.0011 23.4 3.3 24 5-33 163-186 (257)
252 PRK12280 rplW 50S ribosomal pr 36.4 1E+02 0.0022 20.6 4.4 40 10-49 21-61 (158)
253 PF13579 Glyco_trans_4_4: Glyc 36.0 41 0.00089 19.6 2.4 23 25-48 138-160 (160)
254 PF01376 Enterotoxin_b: Heat-l 35.7 44 0.00094 20.4 2.4 30 1-32 37-66 (102)
255 cd04978 Ig4_L1-NrCAM_like Four 35.2 74 0.0016 16.8 4.8 19 36-54 12-30 (76)
256 cd05868 Ig4_NrCAM Fourth immun 35.0 67 0.0014 17.6 3.0 20 34-53 10-29 (76)
257 CHL00134 petF ferredoxin; Vali 34.9 1E+02 0.0022 18.3 5.2 37 2-42 4-41 (99)
258 cd05479 RP_DDI RP_DDI; retrope 34.8 35 0.00075 20.9 2.0 39 2-41 17-55 (124)
259 PF05585 DUF1758: Putative pep 34.5 1.2E+02 0.0027 19.2 5.7 40 4-43 1-42 (164)
260 cd05746 Ig4_Peroxidasin Fourth 34.4 76 0.0016 16.8 3.2 34 34-70 7-40 (69)
261 PRK00982 acpP acyl carrier pro 34.2 33 0.00071 19.0 1.7 31 23-62 4-35 (78)
262 PF01568 Molydop_binding: Moly 34.1 17 0.00036 21.3 0.4 21 51-71 33-53 (110)
263 PF09469 Cobl: Cordon-bleu ubi 33.8 27 0.00059 20.8 1.3 35 31-65 3-40 (79)
264 PF09014 Sushi_2: Beta-2-glyco 33.4 57 0.0012 19.7 2.6 35 36-71 5-39 (85)
265 PF01187 MIF: Macrophage migra 32.8 71 0.0015 19.3 3.1 24 24-47 76-99 (114)
266 cd05747 Ig5_Titin_like M5, fif 32.4 83 0.0018 17.7 3.2 32 9-54 16-47 (92)
267 PLN00036 40S ribosomal protein 32.4 20 0.00043 25.8 0.6 68 4-71 137-211 (261)
268 PF04014 Antitoxin-MazE: Antid 32.1 42 0.00091 17.2 1.7 16 57-72 16-31 (47)
269 PRK13552 frdB fumarate reducta 32.1 1.2E+02 0.0026 21.1 4.4 25 12-36 24-48 (239)
270 COG2004 RPS24A Ribosomal prote 31.9 64 0.0014 20.2 2.8 33 12-44 18-54 (107)
271 PF03607 DCX: Doublecortin; I 31.4 82 0.0018 17.1 2.9 37 20-57 7-45 (60)
272 PF00551 Formyl_trans_N: Formy 31.3 78 0.0017 20.6 3.3 22 14-35 152-173 (181)
273 cd00989 PDZ_metalloprotease PD 31.2 59 0.0013 17.5 2.4 42 31-72 24-66 (79)
274 PRK08453 fliD flagellar cappin 31.2 48 0.001 26.8 2.6 26 10-35 136-161 (673)
275 TIGR00126 deoC deoxyribose-pho 31.1 1.3E+02 0.0029 20.5 4.5 26 5-35 148-173 (211)
276 PLN02828 formyltetrahydrofolat 30.9 79 0.0017 22.6 3.5 23 14-36 220-242 (268)
277 TIGR03193 4hydroxCoAred 4-hydr 30.8 88 0.0019 20.5 3.4 23 2-27 2-24 (148)
278 PRK11347 antitoxin ChpS; Provi 30.8 37 0.00081 20.0 1.5 17 55-71 19-35 (83)
279 cd00508 MopB_CT_Fdh-Nap-like T 30.7 28 0.00061 20.5 1.0 22 50-71 37-58 (120)
280 PLN02331 phosphoribosylglycina 30.6 84 0.0018 21.4 3.4 22 14-35 156-177 (207)
281 PF04110 APG12: Ubiquitin-like 30.5 89 0.0019 18.7 3.2 46 13-58 17-64 (87)
282 PF02736 Myosin_N: Myosin N-te 30.4 64 0.0014 16.3 2.3 15 3-17 25-39 (42)
283 KOG3391|consensus 30.1 40 0.00087 22.3 1.7 22 50-71 113-134 (151)
284 PF13670 PepSY_2: Peptidase pr 30.1 1.1E+02 0.0024 17.3 3.6 20 3-22 57-76 (83)
285 PRK06027 purU formyltetrahydro 30.0 83 0.0018 22.4 3.5 23 13-35 237-259 (286)
286 TIGR02609 doc_partner putative 30.0 39 0.00085 19.2 1.5 17 55-71 17-33 (74)
287 PF07971 Glyco_hydro_92: Glyco 29.9 1.3E+02 0.0029 23.3 4.8 55 3-71 443-497 (502)
288 PF12747 DdrB: DdrB-like prote 29.9 1.6E+02 0.0034 19.0 4.8 33 1-33 1-33 (123)
289 PF13650 Asp_protease_2: Aspar 29.7 42 0.0009 18.4 1.6 33 10-42 6-38 (90)
290 cd05867 Ig4_L1-CAM_like Fourth 29.6 57 0.0012 17.7 2.1 21 35-55 11-31 (76)
291 PTZ00191 60S ribosomal protein 29.6 1.2E+02 0.0027 19.9 3.9 34 11-44 82-115 (145)
292 cd00991 PDZ_archaeal_metallopr 29.3 1.1E+02 0.0023 16.9 3.3 41 32-72 23-65 (79)
293 PF12949 HeH: HeH/LEM domain; 29.1 43 0.00092 16.8 1.4 15 20-34 2-16 (35)
294 KOG2689|consensus 28.9 1.5E+02 0.0033 21.7 4.7 67 3-70 212-284 (290)
295 cd02788 MopB_CT_NDH-1_NuoG2-N7 28.9 32 0.0007 20.1 1.0 20 52-71 33-52 (96)
296 cd02785 MopB_CT_4 The MopB_CT_ 28.8 31 0.00068 20.8 1.0 20 52-71 36-55 (124)
297 PF01556 CTDII: DnaJ C termina 28.4 1E+02 0.0022 17.4 3.1 19 3-21 18-36 (81)
298 cd00987 PDZ_serine_protease PD 28.4 83 0.0018 17.2 2.7 41 32-72 37-79 (90)
299 PRK12385 fumarate reductase ir 28.1 1.8E+02 0.0039 20.2 4.8 26 12-37 25-50 (244)
300 cd02790 MopB_CT_Formate-Dh_H F 28.0 34 0.00074 20.1 1.1 22 50-71 37-58 (116)
301 cd02776 MopB_CT_Nitrate-R-NarG 28.0 34 0.00073 21.7 1.1 20 52-71 35-54 (141)
302 PF08207 EFP_N: Elongation fac 27.9 49 0.0011 17.9 1.6 22 2-23 35-57 (58)
303 cd05743 Ig_Perlecan_D2_like Im 27.8 1.1E+02 0.0024 16.6 3.9 21 35-55 11-31 (78)
304 cd02786 MopB_CT_3 The MopB_CT_ 27.7 34 0.00073 20.2 1.0 19 53-71 36-54 (116)
305 PLN03136 Ferredoxin; Provision 27.7 1.8E+02 0.0039 19.0 6.0 60 4-68 57-127 (148)
306 PF09581 Spore_III_AF: Stage I 27.7 52 0.0011 21.4 2.0 24 21-44 163-186 (188)
307 cd07153 Fur_like Ferric uptake 27.4 1.4E+02 0.003 17.5 4.2 37 10-49 79-115 (116)
308 cd05848 Ig1_Contactin-5 First 27.4 1.3E+02 0.0028 17.2 4.6 30 10-53 18-47 (94)
309 PRK01178 rps24e 30S ribosomal 27.2 1.4E+02 0.003 18.3 3.7 34 11-44 16-53 (99)
310 KOG3751|consensus 27.1 1E+02 0.0023 24.7 3.8 53 4-56 189-250 (622)
311 KOG3157|consensus 27.1 41 0.00088 23.9 1.4 24 23-46 187-210 (244)
312 cd02783 MopB_CT_2 The MopB_CT_ 27.1 35 0.00075 21.9 1.0 20 52-71 36-55 (156)
313 cd02784 MopB_CT_PHLH The MopB_ 27.0 35 0.00075 21.8 1.0 22 50-71 40-61 (137)
314 cd02775 MopB_CT Molybdopterin- 27.0 37 0.0008 19.2 1.1 22 50-71 25-46 (101)
315 cd05885 Ig2_Necl-4 Second immu 26.9 60 0.0013 18.8 2.0 22 33-54 8-29 (80)
316 PRK12464 1-deoxy-D-xylulose 5- 26.8 89 0.0019 23.7 3.3 53 10-64 197-258 (383)
317 cd00990 PDZ_glycyl_aminopeptid 26.7 1.2E+02 0.0025 16.4 3.3 40 31-72 24-64 (80)
318 cd04975 Ig4_SCFR_like Fourth i 26.3 60 0.0013 19.2 2.0 21 34-54 27-48 (101)
319 cd04867 TGS_YchF_C TGS_YchF_C: 26.1 40 0.00088 20.2 1.1 14 59-72 70-83 (83)
320 cd02787 MopB_CT_ydeP The MopB_ 25.9 37 0.0008 20.1 1.0 20 52-71 35-54 (112)
321 cd02781 MopB_CT_Acetylene-hydr 25.9 39 0.00085 20.4 1.1 20 52-71 37-56 (130)
322 cd01781 AF6_RA_repeat2 Ubiquit 25.7 1.7E+02 0.0036 18.1 3.9 28 14-41 18-45 (100)
323 PF03459 TOBE: TOBE domain; I 25.7 44 0.00096 17.7 1.2 21 53-73 38-58 (64)
324 PF03461 TRCF: TRCF domain; I 25.6 32 0.00069 20.6 0.6 24 19-42 30-53 (101)
325 cd05855 Ig_TrkB_d5 Fifth domai 25.6 71 0.0015 18.2 2.1 21 35-55 8-28 (79)
326 cd00992 PDZ_signaling PDZ doma 25.5 1.1E+02 0.0023 16.4 2.8 21 32-52 39-59 (82)
327 PRK10872 relA (p)ppGpp synthet 25.4 3.9E+02 0.0084 22.1 7.7 61 3-72 405-465 (743)
328 TIGR00691 spoT_relA (p)ppGpp s 25.4 3.6E+02 0.0079 21.7 6.9 61 3-72 361-421 (683)
329 cd05894 Ig_C5_MyBP-C C5 immuno 25.4 1.4E+02 0.003 16.8 4.3 31 9-53 8-38 (86)
330 PRK11433 aldehyde oxidoreducta 25.4 99 0.0022 21.6 3.1 24 4-28 52-75 (217)
331 COG2029 Uncharacterized conser 25.2 20 0.00044 24.5 -0.3 26 43-68 12-37 (189)
332 cd02794 MopB_CT_DmsA-EC The Mo 24.9 41 0.0009 20.2 1.1 20 52-71 34-53 (121)
333 cd05852 Ig5_Contactin-1 Fifth 24.9 1.2E+02 0.0027 16.5 3.0 32 35-69 11-42 (73)
334 PLN02696 1-deoxy-D-xylulose-5- 24.8 1.1E+02 0.0024 23.7 3.5 53 10-64 260-321 (454)
335 PF13565 HTH_32: Homeodomain-l 24.8 1.1E+02 0.0024 16.6 2.8 21 19-39 46-66 (77)
336 PF10678 DUF2492: Protein of u 24.7 1E+02 0.0022 18.2 2.7 21 19-39 17-37 (78)
337 COG1978 Uncharacterized protei 24.7 2.2E+02 0.0047 18.9 4.6 38 3-40 51-88 (152)
338 PRK09908 xanthine dehydrogenas 24.5 1.3E+02 0.0028 20.0 3.4 22 9-30 13-34 (159)
339 PF14552 Tautomerase_2: Tautom 24.4 1.1E+02 0.0024 17.8 2.8 28 26-53 51-78 (82)
340 COG0481 LepA Membrane GTPase L 24.3 1.1E+02 0.0023 24.6 3.3 28 20-47 141-168 (603)
341 cd06539 CIDE_N_A CIDE_N domain 24.2 1.7E+02 0.0036 17.4 5.4 41 14-55 14-56 (78)
342 PRK13294 F420-0--gamma-glutamy 24.2 83 0.0018 24.0 2.7 47 10-56 115-161 (448)
343 cd05863 Ig2_VEGFR-3 Second imm 24.0 63 0.0014 17.8 1.6 19 35-53 8-26 (67)
344 PF12977 DUF3861: Domain of Un 23.9 1E+02 0.0023 18.7 2.7 29 12-40 22-50 (94)
345 PRK06425 histidinol-phosphate 23.8 1.2E+02 0.0025 21.3 3.3 29 19-48 37-65 (332)
346 PRK14444 acylphosphatase; Prov 23.7 1.7E+02 0.0036 17.3 3.6 35 5-41 35-70 (92)
347 PF04411 DUF524: Protein of un 23.6 1.9E+02 0.0042 18.0 5.0 50 23-73 7-63 (154)
348 PF09273 Rubis-subs-bind: Rubi 23.5 1.2E+02 0.0027 17.8 3.0 31 18-48 1-31 (128)
349 PRK14433 acylphosphatase; Prov 23.5 1.4E+02 0.0031 17.4 3.2 33 5-39 32-65 (87)
350 TIGR00243 Dxr 1-deoxy-D-xylulo 23.5 1.2E+02 0.0026 23.1 3.4 53 10-64 205-266 (389)
351 PTZ00397 macrophage migration 23.4 1.6E+02 0.0034 17.7 3.4 25 25-49 79-103 (116)
352 COG2853 VacJ Surface lipoprote 23.4 61 0.0013 23.2 1.8 31 31-70 121-151 (250)
353 cd00986 PDZ_LON_protease PDZ d 23.4 1.4E+02 0.003 16.2 3.1 37 36-72 24-62 (79)
354 cd02067 B12-binding B12 bindin 23.3 1.4E+02 0.003 17.7 3.2 50 13-62 53-103 (119)
355 COG4009 Uncharacterized protei 23.2 68 0.0015 19.4 1.7 26 47-72 30-55 (88)
356 cd02793 MopB_CT_DMSOR-BSOR-TMA 23.2 47 0.001 20.3 1.1 19 53-71 38-56 (129)
357 PF12689 Acid_PPase: Acid Phos 23.2 1.6E+02 0.0035 19.5 3.7 33 15-49 101-133 (169)
358 cd04860 AE_Prim_S AE_Prim_S: p 23.1 2.3E+02 0.0049 19.7 4.6 41 7-49 73-136 (232)
359 PRK14429 acylphosphatase; Prov 23.0 1.7E+02 0.0037 17.1 3.5 32 5-38 33-65 (90)
360 PF08821 CGGC: CGGC domain; I 23.0 80 0.0017 19.4 2.1 17 23-39 86-102 (107)
361 cd03061 GST_N_CLIC GST_N famil 23.0 1.6E+02 0.0035 17.5 3.4 37 2-42 6-42 (91)
362 cd08347 PcpA_C_like C-terminal 22.8 84 0.0018 19.8 2.2 37 3-39 104-141 (157)
363 cd00988 PDZ_CTP_protease PDZ d 22.8 1.4E+02 0.0031 16.2 3.6 41 32-72 26-69 (85)
364 cd00118 LysM Lysin domain, fou 22.8 91 0.002 13.9 2.2 22 16-41 3-24 (46)
365 cd06536 CIDE_N_ICAD CIDE_N dom 22.5 1.8E+02 0.004 17.2 4.9 43 12-55 12-58 (80)
366 PF07498 Rho_N: Rho terminatio 22.4 85 0.0018 16.0 1.8 17 21-38 4-20 (43)
367 COG1709 Predicted transcriptio 22.2 2.2E+02 0.0048 20.3 4.3 20 20-39 204-223 (241)
368 PF00571 CBS: CBS domain CBS d 22.2 1.2E+02 0.0026 15.1 2.8 20 16-35 10-29 (57)
369 cd05857 Ig2_FGFR Second immuno 22.0 1.5E+02 0.0032 16.0 3.5 34 10-57 8-41 (85)
370 PF05370 DUF749: Domain of unk 22.0 71 0.0015 19.4 1.6 26 47-72 29-54 (87)
371 PF06543 Lac_bphage_repr: Lact 22.0 38 0.00081 18.5 0.4 19 35-54 16-34 (49)
372 CHL00192 syfB phenylalanyl-tRN 21.8 1.8E+02 0.0039 23.4 4.3 43 10-52 615-659 (704)
373 cd02782 MopB_CT_1 The MopB_CT_ 21.8 52 0.0011 19.9 1.0 19 53-71 38-56 (129)
374 cd05859 Ig4_PDGFR-alpha Fourth 21.7 84 0.0018 18.5 1.9 21 35-55 28-48 (101)
375 cd02778 MopB_CT_Thiosulfate-R- 21.6 52 0.0011 19.6 1.0 20 52-71 34-53 (123)
376 cd02789 MopB_CT_FmdC-FwdD The 21.5 54 0.0012 19.6 1.1 22 50-71 33-54 (106)
377 cd02779 MopB_CT_Arsenite-Ox Th 21.5 53 0.0011 19.6 1.0 19 53-71 38-56 (115)
378 TIGR02988 YaaA_near_RecF S4 do 21.3 25 0.00055 18.8 -0.4 29 42-70 28-58 (59)
379 PF12969 DUF3857: Domain of Un 21.3 75 0.0016 19.8 1.8 17 57-73 85-101 (177)
380 cd02777 MopB_CT_DMSOR-like The 21.1 53 0.0012 19.9 1.0 20 52-71 38-57 (127)
381 COG4352 RPL13 Ribosomal protei 21.0 1.3E+02 0.0028 19.1 2.7 28 16-43 55-87 (113)
382 cd05745 Ig3_Peroxidasin Third 20.9 1.5E+02 0.0033 15.8 2.9 20 35-54 12-31 (74)
383 PF06200 tify: tify domain; I 20.9 1.2E+02 0.0027 15.2 2.2 13 39-51 5-17 (36)
384 PTZ00223 40S ribosomal protein 20.9 35 0.00076 24.7 0.2 49 5-53 135-188 (273)
385 COG3019 Predicted metal-bindin 20.8 1.9E+02 0.0042 19.2 3.6 43 12-58 49-94 (149)
386 PTZ00038 ferredoxin; Provision 20.8 2.9E+02 0.0062 18.9 6.2 35 3-42 97-131 (191)
387 PF09358 UBA_e1_C: Ubiquitin-a 20.7 2.3E+02 0.005 17.7 4.1 35 16-52 37-71 (125)
388 PF14026 DUF4242: Protein of u 20.7 1.8E+02 0.004 16.6 5.8 37 3-42 38-74 (77)
389 PRK12277 50S ribosomal protein 20.4 1.2E+02 0.0027 18.2 2.4 29 15-43 27-60 (83)
390 PRK15088 PTS system mannose-sp 20.4 2.9E+02 0.0063 20.1 4.8 41 11-51 29-74 (322)
391 PF03587 EMG1: EMG1/NEP1 methy 20.3 97 0.0021 21.2 2.2 43 1-45 61-112 (202)
392 PF14535 AMP-binding_C_2: AMP- 20.3 1.9E+02 0.0042 16.7 3.7 23 24-47 57-79 (96)
393 cd02792 MopB_CT_Formate-Dh-Na- 20.2 58 0.0013 19.3 1.0 20 52-71 39-58 (122)
394 COG3812 Uncharacterized protei 20.1 66 0.0014 21.9 1.3 32 10-41 97-132 (193)
395 cd02791 MopB_CT_Nitrate-R-NapA 20.1 59 0.0013 19.2 1.0 20 52-71 39-58 (122)
396 PF07687 M20_dimer: Peptidase 20.1 1.6E+02 0.0035 16.6 3.0 21 14-34 83-103 (111)
397 cd05481 retropepsin_like_LTR_1 20.0 1.4E+02 0.003 17.5 2.6 43 10-52 6-56 (93)
No 1
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.98 E-value=2.4e-32 Score=160.47 Aligned_cols=73 Identities=92% Similarity=1.419 Sum_probs=72.2
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
||.|+||++.|+.+.++|+|++||++||++|+++.|+||++|||+|+|++|+|+.||++|||++|+||||+||
T Consensus 1 ~~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~~ 73 (73)
T cd01791 1 MIEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYYQ 73 (73)
T ss_pred CEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEeC
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999997
No 2
>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=99.96 E-value=6.6e-30 Score=148.85 Aligned_cols=72 Identities=21% Similarity=0.272 Sum_probs=70.2
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
|+|+||+.+|++++++|++++||++||++|++++|+|+++|||+|+|++|+|+.||++|||++|++|||.-|
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~ 72 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVR 72 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEc
Confidence 799999999999999999999999999999999999999999999999999999999999999999999754
No 3
>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=99.96 E-value=1.3e-29 Score=147.71 Aligned_cols=70 Identities=16% Similarity=0.180 Sum_probs=67.3
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
||||||+ +++++++|+|++||++||++|++++|+|+++|||+|+|++|+|+.||++|||++++||||+.|
T Consensus 1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01793 1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGR 70 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence 7999998 589999999999999999999999999999999999999999999999999999999999864
No 4
>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=99.96 E-value=7.4e-29 Score=146.93 Aligned_cols=71 Identities=17% Similarity=0.096 Sum_probs=68.2
Q ss_pred EEEEEEcCCCCE-EEEE-eCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 2 IEITCNDRLGKK-VRVK-CNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 2 ~~i~vk~~~G~~-~~v~-v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
||||||+++|++ ++++ ++|++||++||++|++++|+|+++|||+|+||+|+|+.||++|||++|++|||.-
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~ 73 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLV 73 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEE
Confidence 899999999997 6895 8999999999999999999999999999999999999999999999999999974
No 5
>PTZ00044 ubiquitin; Provisional
Probab=99.96 E-value=1.3e-28 Score=143.23 Aligned_cols=71 Identities=21% Similarity=0.371 Sum_probs=69.7
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
||||||+++|+++++++++++||++||++|+++.|+|+++|||+|+|++|+|+.+|++|+|++|++|||..
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~ 71 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVL 71 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999975
No 6
>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=99.96 E-value=1.6e-28 Score=141.56 Aligned_cols=70 Identities=16% Similarity=0.246 Sum_probs=68.5
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
||||++.|++++++|+|++||++||++|++++|+|+++|||+|+|++|+|+.||++|||++|+||||+.|
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 6899999999999999999999999999999999999999999999999999999999999999999875
No 7
>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=99.95 E-value=1.7e-28 Score=142.99 Aligned_cols=70 Identities=13% Similarity=0.190 Sum_probs=68.2
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
||||++.|++++++|+|++||++||++|+++.|+|+++|+|+|+|++|+|+.||++|||++|+||||..+
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLR 70 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEE
Confidence 7999999999999999999999999999999999999999999999999999999999999999999864
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=99.95 E-value=4.2e-28 Score=150.38 Aligned_cols=72 Identities=21% Similarity=0.254 Sum_probs=70.3
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
|+||||++.|++++++|++++||.+||++|++++|+|+++|||+|+|++|+|+.+|++|||++|+||||+.+
T Consensus 28 M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~ 99 (103)
T cd01802 28 MELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLA 99 (103)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEe
Confidence 899999999999999999999999999999999999999999999999999999999999999999999753
No 9
>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=99.95 E-value=2.1e-27 Score=138.25 Aligned_cols=68 Identities=21% Similarity=0.258 Sum_probs=65.9
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
+.||.++|++++++|+|++||++||++|++++|+|+++|||+|+|++|+|+.||++|||++|+||||.
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~ 68 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVI 68 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEE
Confidence 36899999999999999999999999999999999999999999999999999999999999999985
No 10
>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=99.94 E-value=6.6e-27 Score=135.23 Aligned_cols=71 Identities=23% Similarity=0.343 Sum_probs=68.1
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
|+|+||+++|+. ++++++++||++||++|++++|+|+++|||+|+|++|+|+.||++|||++|+||||+.+
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 IKVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCCE-EEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 579999999985 89999999999999999999999999999999999999999999999999999999875
No 11
>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=99.94 E-value=7.7e-27 Score=134.77 Aligned_cols=72 Identities=19% Similarity=0.297 Sum_probs=70.0
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
|+|+||+.+|+++.+++++++||++||++|+++.|+|+++|||+|+|+.|+|+.||++|||++|++|||..+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~ 72 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLA 72 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEE
Confidence 799999999999999999999999999999999999999999999999999999999999999999999863
No 12
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.94 E-value=8.4e-27 Score=134.61 Aligned_cols=72 Identities=24% Similarity=0.322 Sum_probs=70.1
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
|+|+||+++|+++.++++|++||++||++|+++.|+|+++|||+|+|+.|+|+.||++|||++|++||+..+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~ 72 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR 72 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEE
Confidence 789999999999999999999999999999999999999999999999999999999999999999999864
No 13
>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=99.94 E-value=8.5e-27 Score=139.23 Aligned_cols=72 Identities=17% Similarity=0.138 Sum_probs=65.6
Q ss_pred EEEEEEcCCCCE--EEEEeCCCCcHHHHHHHHHHHhC--CCCccEEEEEcceEecCCccccccC--CCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKK--VRVKCNPDDTIGDLKKLIAAQTG--TRWEKIVLKKWYTIFKDHIRIMDYE--IHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~--~~v~v~~~~TV~~lK~~I~~~~g--ip~~~QrLif~Gk~L~D~~tL~~y~--I~~g~ti~L~~~ 73 (73)
|.|+||+++|++ ++++++|++||++||++|++..+ .|+++|||||+||.|+|+.||++|+ +++|+||||+|.
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~~ 79 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVCA 79 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEeC
Confidence 789999999999 55555899999999999999874 5689999999999999999999996 999999999983
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=99.94 E-value=1.4e-26 Score=134.64 Aligned_cols=70 Identities=24% Similarity=0.343 Sum_probs=68.5
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCC--CCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGT--RWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gi--p~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+||+.+|++++++|++++||++||++|++++|+ |+++|||+|+|++|+|+.||++|||++|++|++.
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~ 72 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVM 72 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEE
Confidence 799999999999999999999999999999999999 9999999999999999999999999999999875
No 15
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.94 E-value=1.8e-26 Score=132.05 Aligned_cols=72 Identities=25% Similarity=0.302 Sum_probs=69.8
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
|+|+||++.|+++++++++++||++||++|+++.|+|++.|+|+|+|+.|+|+.+|++|||++|++|||.-+
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 789999999999999999999999999999999999999999999999999999999999999999999743
No 16
>KOG0004|consensus
Probab=99.94 E-value=9.4e-28 Score=157.78 Aligned_cols=71 Identities=23% Similarity=0.297 Sum_probs=69.6
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
|+||||+++|+++.+++++++||.++|++|++.+|||++||||||+|++|+|++||+||+|+..+|+||+-
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l 71 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVL 71 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEE
Confidence 78999999999999999999999999999999999999999999999999999999999999999999974
No 17
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=99.94 E-value=1.4e-26 Score=136.68 Aligned_cols=70 Identities=23% Similarity=0.366 Sum_probs=68.2
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
|+|+||++.|+.++++++|++||++||++|+++.|+|+++|||+|+|+.|+|+ +|++|||++|++|||+.
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~ 71 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVP 71 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEe
Confidence 89999999999999999999999999999999999999999999999999999 99999999999999974
No 18
>KOG0003|consensus
Probab=99.94 E-value=3.1e-28 Score=153.14 Aligned_cols=71 Identities=24% Similarity=0.327 Sum_probs=69.0
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
||+|+|+++|++++++++||+||.+||++|++++||||++|||+|+||+|+|..||++|||+..||||++-
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~ 71 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVL 71 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999863
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=99.94 E-value=1.8e-26 Score=136.44 Aligned_cols=71 Identities=17% Similarity=0.181 Sum_probs=69.2
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE--EEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL--KKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL--if~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
|+|+||++.|++++++++|++||++||++|+++.|+|+++||| +|+|+.|+|+.||++|||++|++|||.-
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~ 75 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVV 75 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEE
Confidence 7999999999999999999999999999999999999999999 9999999999999999999999999975
No 20
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=99.93 E-value=3.9e-26 Score=132.65 Aligned_cols=68 Identities=21% Similarity=0.192 Sum_probs=65.1
Q ss_pred EEEEcC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCC-ccccccCCCCCCEEEEE
Q psy4181 4 ITCNDR-LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDH-IRIMDYEIHDGMNLELY 71 (73)
Q Consensus 4 i~vk~~-~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~-~tL~~y~I~~g~ti~L~ 71 (73)
|+||+. +|++++++|+|++||++||++|++++|+|+++|||+|+|++|+|+ .+|++|||++|++|||-
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 589999 999999999999999999999999999999999999999999987 68999999999999983
No 21
>KOG0005|consensus
Probab=99.93 E-value=1.2e-26 Score=132.83 Aligned_cols=70 Identities=19% Similarity=0.272 Sum_probs=68.4
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|.|.||+++|+.+.++++|+|+|+.+|+++++++||||.+|||||+|+++.|+.|-++|++.-||++||+
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 5789999999999999999999999999999999999999999999999999999999999999999985
No 22
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=99.92 E-value=8.3e-25 Score=124.75 Aligned_cols=67 Identities=33% Similarity=0.437 Sum_probs=65.0
Q ss_pred EcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 7 NDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 7 k~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
|+++|+.++++|++++||.+||++|+++.|+|+++|+|+|+|+.|+|+.||++|||++|++|+|..+
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k 67 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIK 67 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEES
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEe
Confidence 7899999999999999999999999999999999999999999999999999999999999999864
No 23
>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=99.91 E-value=2.2e-24 Score=123.44 Aligned_cols=69 Identities=23% Similarity=0.237 Sum_probs=66.9
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+||+. |+..++++++++||++||++|++..|+|+++|||+|+|+.|.|+.+|++|||++|++|++.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~ 69 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLL 69 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEe
Confidence 68999996 9999999999999999999999999999999999999999999999999999999999985
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=99.90 E-value=3.3e-23 Score=124.45 Aligned_cols=72 Identities=15% Similarity=0.198 Sum_probs=70.1
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
|+|+||+.+|+.+.++|.+++|+..||++++++.|+|+++|||+|+|+.|+|+.|+++|++++|++||++.+
T Consensus 12 i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~ 83 (87)
T cd01763 12 INLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLE 83 (87)
T ss_pred EEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence 799999999999999999999999999999999999999999999999999999999999999999999753
No 25
>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=99.89 E-value=2.9e-23 Score=121.64 Aligned_cols=64 Identities=22% Similarity=0.209 Sum_probs=62.2
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
++|+++++++++++||++||++|++..|+|+++|+|+|+|+.|+|+.||++|||++|++|||.-
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~ 68 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQL 68 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEE
Confidence 5899999999999999999999999999999999999999999999999999999999999975
No 26
>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=99.88 E-value=4.5e-23 Score=122.16 Aligned_cols=52 Identities=29% Similarity=0.273 Sum_probs=49.1
Q ss_pred CCCcHHHHHHHHHHH--hCCC-CccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 20 PDDTIGDLKKLIAAQ--TGTR-WEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 20 ~~~TV~~lK~~I~~~--~gip-~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
.++||++||++|+++ +|+| +++|||||+||+|+|+.||++|||++|+||||+
T Consensus 19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv 73 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHIL 73 (75)
T ss_pred ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEE
Confidence 489999999999999 5675 999999999999999999999999999999997
No 27
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.87 E-value=4.5e-22 Score=110.62 Aligned_cols=64 Identities=31% Similarity=0.438 Sum_probs=61.9
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGM 66 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ 66 (73)
|+|+||+.+ +...++|++++||++||++|+++.|+|+++|+|+|+|+.|.|+.||++|||++|+
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 789999998 7999999999999999999999999999999999999999999999999999986
No 28
>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=99.87 E-value=3.9e-22 Score=117.53 Aligned_cols=64 Identities=17% Similarity=0.132 Sum_probs=59.9
Q ss_pred EcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEec-CCccccccCCC-CCCEEEEE
Q psy4181 7 NDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFK-DHIRIMDYEIH-DGMNLELY 71 (73)
Q Consensus 7 k~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~-D~~tL~~y~I~-~g~ti~L~ 71 (73)
|...|.+++++|+|++||++||++|++++||||++||| |+|+.|. |..||++||++ +|+++||.
T Consensus 8 ~~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~ 73 (75)
T cd01799 8 AQSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLY 73 (75)
T ss_pred cccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEE
Confidence 44588999999999999999999999999999999999 9999995 77999999999 89999996
No 29
>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=99.87 E-value=6.4e-22 Score=116.12 Aligned_cols=69 Identities=20% Similarity=0.227 Sum_probs=65.5
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE---cceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK---WYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif---~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|.|.||- .|++++++|++++||++||++|++..|+||++|+|+| +|+.|+|+.+|++|||++|+.|+|.
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 5688886 8999999999999999999999999999999999996 9999999999999999999999984
No 30
>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=99.85 E-value=2.6e-21 Score=141.71 Aligned_cols=70 Identities=21% Similarity=0.315 Sum_probs=68.1
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC---CCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG---TRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~g---ip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+||++.|+++.++|++++||.+||++|++..| +|+++|||||+||+|+|+.||++|||++|++|++.
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvm 73 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVM 73 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEE
Confidence 79999999999999999999999999999999999 99999999999999999999999999999999875
No 31
>KOG0010|consensus
Probab=99.84 E-value=3.2e-21 Score=144.19 Aligned_cols=70 Identities=30% Similarity=0.393 Sum_probs=67.7
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
|.|.||+..+ +..|.|..+.||++||+.|+.++++|+|+|+|||.||+|||++||..|||+||+||||+-
T Consensus 16 irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVi 85 (493)
T KOG0010|consen 16 IRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVI 85 (493)
T ss_pred eEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEe
Confidence 6899999988 888999999999999999999999999999999999999999999999999999999983
No 32
>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=99.80 E-value=4e-19 Score=99.71 Aligned_cols=68 Identities=35% Similarity=0.472 Sum_probs=65.3
Q ss_pred EEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 6 CNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 6 vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
||..+|+.+.++++++.||++||++|+++.|+|++.|+|+|+|+.|+|..+|++|++.+|++|++.++
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~~ 69 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVLR 69 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEEC
Confidence 78889999999999999999999999999999999999999999999999999999999999998763
No 33
>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=99.80 E-value=8.9e-20 Score=115.01 Aligned_cols=73 Identities=14% Similarity=0.109 Sum_probs=64.7
Q ss_pred CEEEEEEcCCCCEE-EEEeCCCCcHHHHHHHHH-----HHhCCC--CccEEEEEcceEecCCccccccC------CCCCC
Q psy4181 1 MIEITCNDRLGKKV-RVKCNPDDTIGDLKKLIA-----AQTGTR--WEKIVLKKWYTIFKDHIRIMDYE------IHDGM 66 (73)
Q Consensus 1 ~~~i~vk~~~G~~~-~v~v~~~~TV~~lK~~I~-----~~~gip--~~~QrLif~Gk~L~D~~tL~~y~------I~~g~ 66 (73)
++.|.++-.+|..+ +..++|++||++||++|+ +++|+| +++|||||+||+|+|+.||++|+ ++...
T Consensus 4 ~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~ 83 (113)
T cd01814 4 QIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVI 83 (113)
T ss_pred cEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCce
Confidence 36778888888544 667899999999999999 667788 99999999999999999999999 88899
Q ss_pred EEEEEeC
Q psy4181 67 NLELYYQ 73 (73)
Q Consensus 67 ti~L~~~ 73 (73)
|+|++.|
T Consensus 84 TmHvvlr 90 (113)
T cd01814 84 TMHVVVQ 90 (113)
T ss_pred EEEEEec
Confidence 9999875
No 34
>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=99.75 E-value=8.4e-18 Score=96.59 Aligned_cols=70 Identities=23% Similarity=0.262 Sum_probs=66.4
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCC-ccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRW-EKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~-~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+|++.+|+.+.+.|.+++++..|++.++++.|+|+ ++.+|+|.|+.|.++.|+++||+++|++|++.
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~ 71 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVI 71 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEE
Confidence 79999999999999999999999999999999999999 99999999999999999999999999999975
No 35
>KOG0001|consensus
Probab=99.73 E-value=3.4e-17 Score=90.87 Aligned_cols=70 Identities=26% Similarity=0.328 Sum_probs=67.5
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
++++++..|++..+++.++++|..+|++|+...|+|+++|++.|+|+.|+|..+|.+|+|.++++++|+.
T Consensus 1 ~~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~ 70 (75)
T KOG0001|consen 1 QIFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVL 70 (75)
T ss_pred CEEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEE
Confidence 3789999999999999999999999999999999999999999999999999999999999999999875
No 36
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=99.67 E-value=7e-16 Score=92.23 Aligned_cols=70 Identities=19% Similarity=0.197 Sum_probs=59.5
Q ss_pred EEEEEEcCC-CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE-EEcce-----Ee-cCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRL-GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL-KKWYT-----IF-KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~-G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL-if~Gk-----~L-~D~~tL~~y~I~~g~ti~L~ 71 (73)
+.|+|+... .......++++.||.+||++++...|+||+.||| +|.|+ .| +|..+|++||+++|++||+.
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence 567888743 3334444999999999999999999999999999 58888 56 78889999999999999985
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=99.67 E-value=1.9e-16 Score=98.41 Aligned_cols=60 Identities=13% Similarity=-0.013 Sum_probs=56.0
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEec-CCccccccCCCCCCEEEEE
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFK-DHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~-D~~tL~~y~I~~g~ti~L~ 71 (73)
+..+++|+|++||++||.+|..++|+||++|+|+|.|+.|. |..||++|||..|++|+|.
T Consensus 15 ~~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Ll 75 (107)
T cd01795 15 GEKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLK 75 (107)
T ss_pred CCceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEE
Confidence 45678899999999999999999999999999999999996 4789999999999999985
No 38
>KOG0011|consensus
Probab=99.66 E-value=2e-16 Score=114.21 Aligned_cols=69 Identities=20% Similarity=0.321 Sum_probs=66.0
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC--CCCccEEEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG--TRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~g--ip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
|.|+||++.|.++++++.|++||.++|.+|+...| .|+++|.|||+||.|+|+.|+.+|+|.+++-|-+
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVv 71 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVV 71 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEE
Confidence 78999999999999999999999999999999999 9999999999999999999999999999987643
No 39
>KOG3493|consensus
Probab=99.62 E-value=1.4e-16 Score=92.38 Aligned_cols=73 Identities=89% Similarity=1.335 Sum_probs=71.4
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
||++.+++..|+++.+.|.|+|||+++|.-|+++.|..|+..+|--.+..++|+-||++|.|++|..+.|+|+
T Consensus 1 miev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lelyy~ 73 (73)
T KOG3493|consen 1 MIEVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELYYQ 73 (73)
T ss_pred CceehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEeeC
Confidence 8999999999999999999999999999999999999999999998899999999999999999999999996
No 40
>PLN02560 enoyl-CoA reductase
Probab=99.61 E-value=2.5e-15 Score=107.78 Aligned_cols=69 Identities=23% Similarity=0.330 Sum_probs=63.5
Q ss_pred EEEEEEcCCCCEE---EEEeCCCCcHHHHHHHHHHHhCC-CCccEEEEEc---c----eEecCCccccccCCCCCCEEEE
Q psy4181 2 IEITCNDRLGKKV---RVKCNPDDTIGDLKKLIAAQTGT-RWEKIVLKKW---Y----TIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 2 ~~i~vk~~~G~~~---~v~v~~~~TV~~lK~~I~~~~gi-p~~~QrLif~---G----k~L~D~~tL~~y~I~~g~ti~L 70 (73)
|+|.||..+|+.+ +++++|++||++||++|+++.|+ ++++|||++. | +.|+|+.||++||+++|++|++
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~ 80 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF 80 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence 6899999999998 89999999999999999999997 8999999983 4 4899999999999999999875
No 41
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=99.55 E-value=3.4e-14 Score=84.82 Aligned_cols=71 Identities=18% Similarity=0.280 Sum_probs=59.6
Q ss_pred CEEEEEEcCCC--CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEc----ce---Ee-cCCccccccCCCCCCEEEE
Q psy4181 1 MIEITCNDRLG--KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKW----YT---IF-KDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 1 ~~~i~vk~~~G--~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~----Gk---~L-~D~~tL~~y~I~~g~ti~L 70 (73)
|+.|+|..... ......++++.||.+||++|+...|+||+.|||.+. +. .+ .|..+|.+||+++|++||+
T Consensus 1 ~v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V 80 (87)
T PF14560_consen 1 VVKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHV 80 (87)
T ss_dssp EEEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEE
T ss_pred CEEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEE
Confidence 57888888766 488899999999999999999999999999999775 22 23 5789999999999999997
Q ss_pred E
Q psy4181 71 Y 71 (73)
Q Consensus 71 ~ 71 (73)
.
T Consensus 81 ~ 81 (87)
T PF14560_consen 81 V 81 (87)
T ss_dssp E
T ss_pred E
Confidence 4
No 42
>KOG4248|consensus
Probab=99.53 E-value=1.5e-14 Score=115.48 Aligned_cols=71 Identities=18% Similarity=0.199 Sum_probs=68.1
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEeC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~~ 73 (73)
+.|.|||++.++.++.|..-+||.++|..|.+..+|+.+.|||||+||.|.|+.++.+||| ||-+|||+=|
T Consensus 3 ~~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver 73 (1143)
T KOG4248|consen 3 PNVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred cceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 3589999999999999999999999999999999999999999999999999999999999 9999999843
No 43
>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=99.48 E-value=1.2e-13 Score=80.90 Aligned_cols=68 Identities=31% Similarity=0.340 Sum_probs=55.9
Q ss_pred EEEEEcCCCCEEE-EEe-CCCCcHHHHHHHHHHHhC-CCCccEEE--EEcceEecCCccccccCCCCCCEEEE
Q psy4181 3 EITCNDRLGKKVR-VKC-NPDDTIGDLKKLIAAQTG-TRWEKIVL--KKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 3 ~i~vk~~~G~~~~-v~v-~~~~TV~~lK~~I~~~~g-ip~~~QrL--if~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
+|.+|....+.+. +++ +|+.||++||..|+++.+ +|+++||| .+.|+.|.|+.||++||+++|++|++
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 5677764424443 444 488999999999999975 58999999 48999999999999999999999875
No 44
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=99.39 E-value=7.1e-12 Score=78.78 Aligned_cols=72 Identities=24% Similarity=0.233 Sum_probs=56.0
Q ss_pred EEEEEEcCCCC-EEEEEeCCCCcHHHHHHHHHHHh-------CCCCccEEEEEcceEecCCccccccCCCCCC------E
Q psy4181 2 IEITCNDRLGK-KVRVKCNPDDTIGDLKKLIAAQT-------GTRWEKIVLKKWYTIFKDHIRIMDYEIHDGM------N 67 (73)
Q Consensus 2 ~~i~vk~~~G~-~~~v~v~~~~TV~~lK~~I~~~~-------gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~------t 67 (73)
+.|.++-.+|+ ..++.+++++||.+||+.|.+.- -..+...||||.||.|+|..||+++++.-|. +
T Consensus 3 i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~v 82 (111)
T PF13881_consen 3 IELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTV 82 (111)
T ss_dssp EEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EE
T ss_pred EEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEE
Confidence 56667777999 89999999999999999998652 2345679999999999999999999999877 6
Q ss_pred EEEEeC
Q psy4181 68 LELYYQ 73 (73)
Q Consensus 68 i~L~~~ 73 (73)
+||+.|
T Consensus 83 mHlvvr 88 (111)
T PF13881_consen 83 MHLVVR 88 (111)
T ss_dssp EEEEE-
T ss_pred EEEEec
Confidence 799865
No 45
>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=99.36 E-value=9.3e-12 Score=65.15 Aligned_cols=66 Identities=29% Similarity=0.313 Sum_probs=61.4
Q ss_pred EcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 7 NDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 7 k~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
+..+|....+.+.++.|+.+||++|+++.|.+++.|+|.++|..+++...+.+|++.+|+++++.-
T Consensus 3 ~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 3 KLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred EecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 344789999999999999999999999999999999999999999999998999999999999864
No 46
>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=99.36 E-value=2.5e-12 Score=81.53 Aligned_cols=71 Identities=14% Similarity=0.120 Sum_probs=61.0
Q ss_pred EEEEEcCCC-CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCC-------CCCCEEEEEeC
Q psy4181 3 EITCNDRLG-KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEI-------HDGMNLELYYQ 73 (73)
Q Consensus 3 ~i~vk~~~G-~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I-------~~g~ti~L~~~ 73 (73)
-+|+.-.-. .++=+++.++.||.+||.+|+.-...||+.|||+-.+..|+|..||++||+ ++-.+|-|.||
T Consensus 2 dvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r 80 (119)
T cd01788 2 DVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR 80 (119)
T ss_pred ceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence 455555433 455568999999999999999999999999999977788999999999999 88889988875
No 47
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=99.11 E-value=1.3e-10 Score=69.19 Aligned_cols=69 Identities=23% Similarity=0.263 Sum_probs=43.4
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEc---ceEe--cCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKW---YTIF--KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~---Gk~L--~D~~tL~~y~I~~g~ti~L~ 71 (73)
|-|-|++..|.. .|+++|++|+.+||++|++..++|++.|.|..+ ...| .+..||+++||+.|+-|+|.
T Consensus 5 milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 5 MILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp -EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred EEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 567888887755 489999999999999999999999999998442 2245 46889999999999999874
No 48
>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=98.95 E-value=5.6e-09 Score=62.07 Aligned_cols=68 Identities=19% Similarity=0.175 Sum_probs=59.4
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE---cce--EecCCccccccCCCCCCEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK---WYT--IFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif---~Gk--~L~D~~tL~~y~I~~g~ti~L 70 (73)
|||.||-..+...++.|.|..+|..+|++|...-|++- +|||-| +|+ .|.+..||++|||=..-.|-|
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~l 73 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICL 73 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEE
Confidence 68999999999999999999999999999999999987 999999 343 368999999999976555544
No 49
>KOG0006|consensus
Probab=98.78 E-value=1.5e-08 Score=74.26 Aligned_cols=70 Identities=10% Similarity=0.159 Sum_probs=60.4
Q ss_pred EEEEEEcC---CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDR---LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~---~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|-++|... ....++++|+.+.+|.+||+-++.+.|+|+++.|.||.||.|.|..|++.+.+.--+.+|..
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~ 73 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIM 73 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhh
Confidence 34566554 56778899999999999999999999999999999999999999999998887777777754
No 50
>KOG1872|consensus
Probab=98.67 E-value=5.7e-08 Score=73.24 Aligned_cols=67 Identities=24% Similarity=0.157 Sum_probs=62.8
Q ss_pred EEEEcCCCCEEEEE-eCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 4 ITCNDRLGKKVRVK-CNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 4 i~vk~~~G~~~~v~-v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|.||- .|+..+++ ++.++|+..+|+++.+..|+||+.|++...|+.++|+--+...+|++|.||+|.
T Consensus 6 v~VKW-~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMm 73 (473)
T KOG1872|consen 6 VIVKW-GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMM 73 (473)
T ss_pred Eeeee-cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEee
Confidence 66775 89999998 999999999999999999999999999999999999988999999999999984
No 51
>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=98.55 E-value=4.6e-07 Score=53.14 Aligned_cols=69 Identities=19% Similarity=0.196 Sum_probs=50.2
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCcc------EEEE-EcceEecCCccccccCCCCCCEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEK------IVLK-KWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~------QrLi-f~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
+.|.|....|+.+.+.+..+.+|++|...|.+..+.+... .+|. -+|.+|.++.||+++||.||++++|
T Consensus 3 ~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 3 CRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 4567777568999999999999999999999988774433 4554 5799999999999999999999987
No 52
>KOG1769|consensus
Probab=98.51 E-value=1.7e-06 Score=53.64 Aligned_cols=70 Identities=17% Similarity=0.202 Sum_probs=65.8
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|++.|+.-.|..+.+.|.-+.+.+.|+.--+++.|++..+-|.+|.|+.+.+.+|=++.+.++|+.|..+
T Consensus 21 i~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~ 90 (99)
T KOG1769|consen 21 INLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVV 90 (99)
T ss_pred EEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEE
Confidence 5778888788888999999999999999999999999999999999999999999999999999999764
No 53
>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=98.38 E-value=2.4e-06 Score=49.25 Aligned_cols=63 Identities=16% Similarity=0.122 Sum_probs=47.7
Q ss_pred cCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 8 DRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 8 ~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
+.+|+..++.|.|+.|+.++=++...++|+++++-.|.|+++.|+-..+..-.|+.+|+.+.|
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 458999999999999999999999999999999999999999999899999999999999876
No 54
>KOG4495|consensus
Probab=98.36 E-value=8.2e-07 Score=55.24 Aligned_cols=60 Identities=13% Similarity=0.091 Sum_probs=48.9
Q ss_pred EEEEEcC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE-cc-eEecCCccccccCC
Q psy4181 3 EITCNDR-LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK-WY-TIFKDHIRIMDYEI 62 (73)
Q Consensus 3 ~i~vk~~-~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif-~G-k~L~D~~tL~~y~I 62 (73)
.+|++-. .-.++-++++++.||.+||.+++.-..-|++.|||.- .. ..|+|..||+++|.
T Consensus 2 ~~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gf 64 (110)
T KOG4495|consen 2 DVFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGF 64 (110)
T ss_pred ceeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhccc
Confidence 3455544 3445566899999999999999999999999999976 44 56899999999954
No 55
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=98.32 E-value=5.6e-06 Score=55.26 Aligned_cols=71 Identities=14% Similarity=0.110 Sum_probs=55.7
Q ss_pred EEEEEEcCCC----CEEEEEeCCCCcHHHHHHHHHHHhCCCCccE-EEEE-cceEe--cCCccccccCCCCCC----EEE
Q psy4181 2 IEITCNDRLG----KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI-VLKK-WYTIF--KDHIRIMDYEIHDGM----NLE 69 (73)
Q Consensus 2 ~~i~vk~~~G----~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q-rLif-~Gk~L--~D~~tL~~y~I~~g~----ti~ 69 (73)
|+|||++..| .++.+.+.++.||.+|+..|.+..++|+..| .|.+ .++.| .++..+..+.-.+.+ +++
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 6899999999 6999999999999999999999999999985 4555 46666 455566666544443 566
Q ss_pred EEe
Q psy4181 70 LYY 72 (73)
Q Consensus 70 L~~ 72 (73)
|.+
T Consensus 81 l~~ 83 (162)
T PF13019_consen 81 LSL 83 (162)
T ss_pred EEE
Confidence 655
No 56
>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=98.30 E-value=1.6e-05 Score=46.28 Aligned_cols=70 Identities=16% Similarity=0.113 Sum_probs=60.7
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCcc-EEEE--EcceEecCC--ccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEK-IVLK--KWYTIFKDH--IRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~-QrLi--f~Gk~L~D~--~tL~~y~I~~g~ti~L~ 71 (73)
..|-||.++|+.+.-...+++||.+|.+-|....+.+... -+|+ |--+.|.+. .||++.|+.+..+|++.
T Consensus 7 ~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 7 VRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp EEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred EEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence 4688999999999999999999999999999998877765 6675 566788654 59999999999999986
No 57
>KOG0013|consensus
Probab=98.28 E-value=1.2e-06 Score=60.88 Aligned_cols=57 Identities=16% Similarity=0.188 Sum_probs=54.9
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCC
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGM 66 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ 66 (73)
+++.+.+.+...||++++|.++.+++|+++-.||++|+|+.|-|..-|+.++|++|.
T Consensus 155 T~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~ 211 (231)
T KOG0013|consen 155 TREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQ 211 (231)
T ss_pred hhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCC
Confidence 788899999999999999999999999999999999999999999999999999993
No 58
>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=98.28 E-value=2.6e-06 Score=52.42 Aligned_cols=56 Identities=16% Similarity=0.096 Sum_probs=43.1
Q ss_pred EEEEcCC-CCEEEEEeC--CCCcHHHHHHHHHHHhCCCC--ccEEEEEcceEecCCccccc
Q psy4181 4 ITCNDRL-GKKVRVKCN--PDDTIGDLKKLIAAQTGTRW--EKIVLKKWYTIFKDHIRIMD 59 (73)
Q Consensus 4 i~vk~~~-G~~~~v~v~--~~~TV~~lK~~I~~~~gip~--~~QrLif~Gk~L~D~~tL~~ 59 (73)
|.|+..+ -..++++|. ++.||..||.+|.++-+-++ ..+||||+||.|.|+..|..
T Consensus 3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~ 63 (97)
T PF10302_consen 3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSS 63 (97)
T ss_pred EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhh
Confidence 4455544 355777877 89999999999999984444 45688999999999988764
No 59
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=97.82 E-value=0.00021 Score=41.73 Aligned_cols=70 Identities=11% Similarity=0.127 Sum_probs=58.6
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEE--EcceEecC---CccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLK--KWYTIFKD---HIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLi--f~Gk~L~D---~~tL~~y~I~~g~ti~L~ 71 (73)
..|-||.++|+.+.-...+++||.+|.+-+....+.+...-.|+ |-.+.|.+ ..||.+.|+.+..+|.+.
T Consensus 5 ~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v~ 79 (80)
T smart00166 5 CRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVLE 79 (80)
T ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEEe
Confidence 36889999999999999999999999999977777776677774 45667764 469999999999998875
No 60
>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=97.69 E-value=0.0005 Score=40.56 Aligned_cols=67 Identities=13% Similarity=0.151 Sum_probs=53.5
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCC-CccEEEE--EcceEecC-CccccccCCCCCCEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTR-WEKIVLK--KWYTIFKD-HIRIMDYEIHDGMNL 68 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip-~~~QrLi--f~Gk~L~D-~~tL~~y~I~~g~ti 68 (73)
-.|-||.++|+.+...+..++||++|.+-|....+-+ ...-.|. |=.|.|.| +.||++.|+.+...+
T Consensus 5 t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~ 75 (79)
T cd01770 5 TSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV 75 (79)
T ss_pred eEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence 3688999999999999999999999999999875432 3445664 66788854 789999999975554
No 61
>KOG1639|consensus
Probab=97.57 E-value=0.00019 Score=51.26 Aligned_cols=69 Identities=23% Similarity=0.273 Sum_probs=52.0
Q ss_pred EEEEEEcCCC-CEEE-EEeCCCCcHHHHHHHHHHH-hCCCCccE--EEEE--cceEecCCccccccCCCCCCEEEE
Q psy4181 2 IEITCNDRLG-KKVR-VKCNPDDTIGDLKKLIAAQ-TGTRWEKI--VLKK--WYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 2 ~~i~vk~~~G-~~~~-v~v~~~~TV~~lK~~I~~~-~gip~~~Q--rLif--~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
|.|.+++.++ -..+ ...+.+.||++++..|..+ ..+.+..+ +|-+ +|++|.|+.+|++|+..+|.|+.+
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYV 76 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEE
Confidence 5678888766 2333 4567789999999665555 57877444 4444 799999999999999999988854
No 62
>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=97.57 E-value=0.0016 Score=39.00 Aligned_cols=68 Identities=9% Similarity=0.122 Sum_probs=58.0
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcc--eEec--------CCccccccCCCCCCEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY--TIFK--------DHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~G--k~L~--------D~~tL~~y~I~~g~ti~L 70 (73)
+.|-||-++|+.+.-....++||++|.+=|... +-+++.-.|+.+= |.+. .+.||++.|+.+..+|.+
T Consensus 5 ~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~V 82 (85)
T cd01774 5 VKIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLFV 82 (85)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEEE
Confidence 578899999999999999999999999999754 5566889998877 7885 267999999999888765
No 63
>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=97.49 E-value=0.0016 Score=37.63 Aligned_cols=68 Identities=12% Similarity=0.152 Sum_probs=53.1
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEE--EcceEecC---CccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLK--KWYTIFKD---HIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLi--f~Gk~L~D---~~tL~~y~I~~g~ti~L~ 71 (73)
..|-||.++|+.+.-...+++||.+|.+-|.....- ...-.|+ |-.+.+.| +.||++.|+. .+++-+.
T Consensus 3 t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~-~s~~~~~ 75 (77)
T cd01767 3 TKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLV-NEVVFQR 75 (77)
T ss_pred EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCc-cceEEEE
Confidence 368899999999999999999999999999876543 4555665 44567754 7899999999 4555443
No 64
>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=97.42 E-value=0.002 Score=37.78 Aligned_cols=68 Identities=10% Similarity=0.147 Sum_probs=55.3
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEE--EcceEecC---CccccccCCCCCCEEEEE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLK--KWYTIFKD---HIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLi--f~Gk~L~D---~~tL~~y~I~~g~ti~L~ 71 (73)
.|-||.++|+.+.-...+++|+.+|.+-++...+-+ ..-.|+ |--|.+.+ ..||++.|+.+..+|.+.
T Consensus 6 ~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~ 78 (79)
T cd01772 6 RIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIVT 78 (79)
T ss_pred EEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEEe
Confidence 578999999999999999999999999998776543 445564 45667753 479999999999998863
No 65
>KOG3206|consensus
Probab=97.37 E-value=0.00099 Score=46.47 Aligned_cols=71 Identities=17% Similarity=0.280 Sum_probs=57.1
Q ss_pred CEEEEEEcCCCC-EEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE-EEcc-----eEec-CCccccccCCCCCCEEEEE
Q psy4181 1 MIEITCNDRLGK-KVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL-KKWY-----TIFK-DHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 1 ~~~i~vk~~~G~-~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL-if~G-----k~L~-D~~tL~~y~I~~g~ti~L~ 71 (73)
|+.|+|-+...+ ......+++.||.++|.+++-..|.+++..+| +|.| -.|. ++..|..|+..+|..||+.
T Consensus 1 ~v~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihvi 79 (234)
T KOG3206|consen 1 MVRVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVI 79 (234)
T ss_pred CeEEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEE
Confidence 677888765443 23345689999999999999999999999998 7766 2464 5779999999999999974
No 66
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=97.30 E-value=0.0039 Score=35.70 Aligned_cols=61 Identities=20% Similarity=0.286 Sum_probs=46.3
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
||.|+++.. +....+++++..||.+|-+++ |++++.-....+|+.+.. ++-+++|+.|.++
T Consensus 4 mm~v~vng~-~~~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~~-----~~~l~~gD~Veii 64 (70)
T PRK08364 4 MIRVKVIGR-GIEKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVALE-----DDPVKDGDYVEVI 64 (70)
T ss_pred EEEEEEecc-ccceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECCC-----CcCcCCCCEEEEE
Confidence 678888542 235678888889999888664 888877777789998853 5568999998775
No 67
>COG5417 Uncharacterized small protein [Function unknown]
Probab=97.13 E-value=0.0082 Score=35.84 Aligned_cols=66 Identities=17% Similarity=0.211 Sum_probs=55.2
Q ss_pred EEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCC-----ccEEEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 5 TCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRW-----EKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 5 ~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~-----~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
=++.-+|.++.+.++.--+|+.|-.-..+.+.++. .+.|..-.++.|.+++.|.+|+|.+|+.+.+
T Consensus 10 D~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 10 DFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 34566899999999999999999887777765542 4567778999999999999999999999875
No 68
>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=97.08 E-value=0.0027 Score=38.39 Aligned_cols=43 Identities=21% Similarity=0.343 Sum_probs=37.6
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCc---cEEEEE
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWE---KIVLKK 46 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~---~QrLif 46 (73)
..+|++.|+++.+.+.|+..+.+|++.|+.+.|++.+ .-.|.|
T Consensus 3 FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 3 FKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred EEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 4678999999999999999999999999999999985 444544
No 69
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=97.03 E-value=0.0014 Score=38.45 Aligned_cols=54 Identities=26% Similarity=0.429 Sum_probs=46.5
Q ss_pred eCCCCcHHHHHHHHHHHhC-CCCccEEEEEcceEecCCccccccC-CCCCCEEEEE
Q psy4181 18 CNPDDTIGDLKKLIAAQTG-TRWEKIVLKKWYTIFKDHIRIMDYE-IHDGMNLELY 71 (73)
Q Consensus 18 v~~~~TV~~lK~~I~~~~g-ip~~~QrLif~Gk~L~D~~tL~~y~-I~~g~ti~L~ 71 (73)
|.|+++|.++++-+.+... ..-..-.|.++|+.|.|...|.+.. +++|++++|+
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lv 56 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELV 56 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEE
Confidence 5789999999999999865 4555668899999999999998875 9999999986
No 70
>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=97.03 E-value=0.0067 Score=34.65 Aligned_cols=65 Identities=12% Similarity=0.062 Sum_probs=49.7
Q ss_pred EEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCcc-EEEEE----c--ceEecCCccccccCCCCCCEEEE
Q psy4181 6 CNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEK-IVLKK----W--YTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 6 vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~-QrLif----~--Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
|..++|...+++|+++.|+.+|=++|+++.|+.-.+ --|.| + ...|+.+.+|.++....+....|
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l 72 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTL 72 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEE
Confidence 567899999999999999999999999999997322 25666 2 34678899999998883443333
No 71
>PRK06437 hypothetical protein; Provisional
Probab=96.95 E-value=0.011 Score=33.73 Aligned_cols=53 Identities=13% Similarity=0.031 Sum_probs=43.8
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
.++...+++++..||.+|=++ .|++++.--+..+|+.+. .++-+++|+.|.++
T Consensus 9 g~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv 61 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLIL 61 (67)
T ss_pred CCcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEE
Confidence 567788888888999887655 699998888888999997 55678999999876
No 72
>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=96.78 E-value=0.028 Score=33.69 Aligned_cols=68 Identities=10% Similarity=0.058 Sum_probs=57.3
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE--cceEec---CCccccccCCCCCCEEEEE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK--WYTIFK---DHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif--~Gk~L~---D~~tL~~y~I~~g~ti~L~ 71 (73)
+|-||.++|+.+.-....++|+..|-.-++. .|.+++.-.|+- ==|.+. .+.||++.|+.+-.+|.+.
T Consensus 7 ~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 7 RLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 6889999999999999999999999998888 577889888874 344452 2579999999999998774
No 73
>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=96.75 E-value=0.0092 Score=35.75 Aligned_cols=44 Identities=14% Similarity=0.098 Sum_probs=38.8
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcce
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYT 49 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk 49 (73)
+.||.+ + ++.+.|.+..+..+|.++|.++.++|+++-.|-|.-.
T Consensus 5 vKV~f~---~-tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde 48 (80)
T cd06406 5 VKVHFK---Y-TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKSE 48 (80)
T ss_pred EEEEEE---E-EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccC
Confidence 466666 3 9999999999999999999999999999999998543
No 74
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=96.72 E-value=0.017 Score=33.53 Aligned_cols=66 Identities=17% Similarity=0.076 Sum_probs=45.5
Q ss_pred CEEEEEEcC------CC-CEEEEEeCCCCcHHHHHHHHHHHh-CCCC--ccEEEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 1 MIEITCNDR------LG-KKVRVKCNPDDTIGDLKKLIAAQT-GTRW--EKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 1 ~~~i~vk~~------~G-~~~~v~v~~~~TV~~lK~~I~~~~-gip~--~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
||.|.|+.. .| ....+++....||.+|.+.+.++. +... ..-.+.-+|+... .++-+++|++|.+
T Consensus 1 ~m~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai 75 (82)
T PLN02799 1 SVEIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT-----ESAALKDGDELAI 75 (82)
T ss_pred CeEEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEE
Confidence 788888864 55 567788888999999999998775 1111 1112445777754 3345799999876
Q ss_pred E
Q psy4181 71 Y 71 (73)
Q Consensus 71 ~ 71 (73)
.
T Consensus 76 ~ 76 (82)
T PLN02799 76 I 76 (82)
T ss_pred e
Confidence 4
No 75
>KOG4583|consensus
Probab=96.63 E-value=0.00086 Score=49.60 Aligned_cols=59 Identities=17% Similarity=0.142 Sum_probs=46.3
Q ss_pred EEEEEEcCCC--CEEEEEeCCCCcHHHHHHHHHHHh-CCC-CccEEEEEcceEecCCcccccc
Q psy4181 2 IEITCNDRLG--KKVRVKCNPDDTIGDLKKLIAAQT-GTR-WEKIVLKKWYTIFKDHIRIMDY 60 (73)
Q Consensus 2 ~~i~vk~~~G--~~~~v~v~~~~TV~~lK~~I~~~~-gip-~~~QrLif~Gk~L~D~~tL~~y 60 (73)
..++||.++- +..+++++-..||++||..++... +-| ...|||||+||.|-|+.-|.+.
T Consensus 10 v~lliks~Nq~y~dl~i~~dl~wtv~~Lk~hls~VyPskpl~~dqrliYsgkllld~qcl~d~ 72 (391)
T KOG4583|consen 10 VTLLIKSPNQSYKDLSISLDLKWTVGDLKVHLSQVYPSKPLELDQRLIYSGKLLLDHQCLTDW 72 (391)
T ss_pred eEEEecCCCccccceeeehhhhhhHHHHhhhHhhcCCCCCchhhHHHHhhccccccchhHHHH
Confidence 3578888865 556667788999999999998874 333 4579999999999998877664
No 76
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=96.53 E-value=0.019 Score=35.51 Aligned_cols=66 Identities=12% Similarity=0.096 Sum_probs=59.1
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNL 68 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti 68 (73)
.+.|-+-.|..+-+.|.-+.|-..|-...+.+.|-..+.-|..|.|+...-+.|=++++.++++.|
T Consensus 26 nLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~i 91 (103)
T COG5227 26 NLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEI 91 (103)
T ss_pred ceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHH
Confidence 344555588999999999999999999999999999999999999999999999999999998865
No 77
>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=96.51 E-value=0.042 Score=32.42 Aligned_cols=69 Identities=13% Similarity=0.130 Sum_probs=57.7
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEE--EcceEec--C-CccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLK--KWYTIFK--D-HIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLi--f~Gk~L~--D-~~tL~~y~I~~g~ti~L~ 71 (73)
.+|-||-++|+.+.-...+++|+.+|-.=+... |.+++.-+|+ |==|.+. | +.||++.|+.+..+|.++
T Consensus 5 ~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 5 SKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 478899999999999999999999999988764 8888888885 3445563 3 569999999999998875
No 78
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=96.47 E-value=0.028 Score=31.67 Aligned_cols=53 Identities=17% Similarity=0.195 Sum_probs=38.9
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
|+|+| +|+. ++++++.|..+||.++. -+++ .+|++|-+.+++.. +++|+.|.|
T Consensus 1 M~I~v---N~k~--~~~~~~~tl~~lr~~~k----~~~D--I~I~NGF~~~~d~~-----L~e~D~v~~ 53 (57)
T PF14453_consen 1 MKIKV---NEKE--IETEENTTLFELRKESK----PDAD--IVILNGFPTKEDIE-----LKEGDEVFL 53 (57)
T ss_pred CEEEE---CCEE--EEcCCCcCHHHHHHhhC----CCCC--EEEEcCcccCCccc-----cCCCCEEEE
Confidence 67777 4555 56677789999998743 3444 88999988887665 588888765
No 79
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=96.39 E-value=0.054 Score=32.94 Aligned_cols=60 Identities=18% Similarity=0.168 Sum_probs=42.8
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE-E-E--cce-EecC-CccccccCCCCCCEEEEE
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL-K-K--WYT-IFKD-HIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL-i-f--~Gk-~L~D-~~tL~~y~I~~g~ti~L~ 71 (73)
...++-.++..|||..++..+.+.+.| .+.-|| . | ++. .|.+ +.||++.||.+|-+|-|+
T Consensus 13 ~~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE 78 (88)
T PF14836_consen 13 QSVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIE 78 (88)
T ss_dssp CEEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEE
T ss_pred ccHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEE
Confidence 446778899999999999999999999 566788 3 2 232 4655 569999999999998776
No 80
>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=96.10 E-value=0.056 Score=30.67 Aligned_cols=57 Identities=16% Similarity=0.259 Sum_probs=42.1
Q ss_pred CCC-EEEEEeCCCCcHHHHHHHHHHHhCC----CCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 10 LGK-KVRVKCNPDDTIGDLKKLIAAQTGT----RWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 10 ~G~-~~~v~v~~~~TV~~lK~~I~~~~gi----p~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
.|+ ...+++++..||.+|.+.+.++.+- ....-++.-+|+... .++-+++|+.|.++
T Consensus 13 ~g~~~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ 74 (80)
T cd00754 13 AGKDEEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAII 74 (80)
T ss_pred hCCceEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEe
Confidence 344 3567777789999999999988642 334555666998887 34568999999875
No 81
>smart00455 RBD Raf-like Ras-binding domain.
Probab=96.09 E-value=0.042 Score=31.69 Aligned_cols=43 Identities=19% Similarity=0.102 Sum_probs=39.4
Q ss_pred EEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcc
Q psy4181 6 CNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY 48 (73)
Q Consensus 6 vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~G 48 (73)
|=.++|+...+.+.|+.||.++=+++.++.|+.++.-.+...|
T Consensus 4 v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g 46 (70)
T smart00455 4 VHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRG 46 (70)
T ss_pred EECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence 3457999999999999999999999999999999999998855
No 82
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=95.95 E-value=0.078 Score=29.58 Aligned_cols=59 Identities=10% Similarity=0.156 Sum_probs=42.3
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|.| +|+.+.+ ++ .|+.+|.+.+ +++++.-..-.+|+.+. ....++.-+++|+.|.++
T Consensus 1 m~i~~---Ng~~~~~--~~-~tl~~Ll~~l----~~~~~~vavavN~~iv~-~~~~~~~~L~dgD~Ieiv 59 (65)
T PRK06488 1 MKLFV---NGETLQT--EA-TTLALLLAEL----DYEGNWLATAVNGELVH-KEARAQFVLHEGDRIEIL 59 (65)
T ss_pred CEEEE---CCeEEEc--Cc-CcHHHHHHHc----CCCCCeEEEEECCEEcC-HHHcCccccCCCCEEEEE
Confidence 56666 6887776 33 5899888764 77776666677898875 334456678999999875
No 83
>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=95.84 E-value=0.024 Score=43.98 Aligned_cols=63 Identities=24% Similarity=0.322 Sum_probs=44.5
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHh--CCCCcc------EEE--EEc--ce-EecCCc-------------cccccCCC
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQT--GTRWEK------IVL--KKW--YT-IFKDHI-------------RIMDYEIH 63 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~--gip~~~------QrL--if~--Gk-~L~D~~-------------tL~~y~I~ 63 (73)
.+..+.|.|-.-|||.++|+||-+.. +.|..+ --| ..+ |+ .|.|.+ ||++|||.
T Consensus 200 ~~~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~wkrLNTL~HY~V~ 279 (539)
T PF08337_consen 200 GSEEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGGWKRLNTLAHYKVP 279 (539)
T ss_dssp SSTCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETTEEE--BHHHHT--
T ss_pred CCceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCCceEeccHhhcCCC
Confidence 34668899999999999999999883 655433 333 332 34 566653 79999999
Q ss_pred CCCEEEEEe
Q psy4181 64 DGMNLELYY 72 (73)
Q Consensus 64 ~g~ti~L~~ 72 (73)
||++|-|+-
T Consensus 280 dga~vaLv~ 288 (539)
T PF08337_consen 280 DGATVALVP 288 (539)
T ss_dssp TTEEEEEEE
T ss_pred CCceEEEee
Confidence 999998864
No 84
>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=95.57 E-value=0.073 Score=31.03 Aligned_cols=44 Identities=14% Similarity=0.020 Sum_probs=39.6
Q ss_pred EEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcc
Q psy4181 5 TCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY 48 (73)
Q Consensus 5 ~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~G 48 (73)
.|=.++|....+.|.|..||.++=+++.++-|++++.-.|.+.|
T Consensus 3 ~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~ 46 (72)
T cd01760 3 RVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLG 46 (72)
T ss_pred EEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEec
Confidence 44568999999999999999999999999999999999887754
No 85
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=95.54 E-value=0.16 Score=30.29 Aligned_cols=61 Identities=10% Similarity=0.125 Sum_probs=45.7
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
||+|.| +|+...+ ++..||.+|=+. .++|+..--+-.+|..+. ...-+++-+++|+.|.++
T Consensus 18 ~m~I~V---NG~~~~~--~~~~tl~~LL~~----l~~~~~~vAVevNg~iVp-r~~w~~t~L~egD~IEIv 78 (84)
T PRK06083 18 LITISI---NDQSIQV--DISSSLAQIIAQ----LSLPELGCVFAINNQVVP-RSEWQSTVLSSGDAISLF 78 (84)
T ss_pred eEEEEE---CCeEEEc--CCCCcHHHHHHH----cCCCCceEEEEECCEEeC-HHHcCcccCCCCCEEEEE
Confidence 577777 6776655 567788877654 588887777788999884 445566789999999876
No 86
>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=95.51 E-value=0.11 Score=29.70 Aligned_cols=46 Identities=20% Similarity=0.230 Sum_probs=39.1
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcc
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY 48 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~G 48 (73)
+.|.++. .|....+.++++.|-.+|+.+|+.+.+.+.+..+|-|..
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D 47 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQD 47 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence 3455555 678999999999999999999999999998888888863
No 87
>PRK07440 hypothetical protein; Provisional
Probab=95.35 E-value=0.25 Score=28.33 Aligned_cols=61 Identities=18% Similarity=0.235 Sum_probs=44.9
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
||+|.| +|+.. ++.+..||.+|-+ ..|++++.--.-.+|..+. ...-++.-+++|+.|.++
T Consensus 4 ~m~i~v---NG~~~--~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~-r~~w~~~~L~~gD~IEIv 64 (70)
T PRK07440 4 PITLQV---NGETR--TCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILH-RQFWEQTQVQPGDRLEIV 64 (70)
T ss_pred ceEEEE---CCEEE--EcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeC-HHHcCceecCCCCEEEEE
Confidence 577777 57764 5567788887764 4688988888888999885 223345668999999875
No 88
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=95.32 E-value=0.23 Score=27.53 Aligned_cols=60 Identities=12% Similarity=0.160 Sum_probs=42.7
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+| +|+.. ++.+..||.++-+. .|++++.--+-.+|..+.-. .-.+.-+++|+.|.++
T Consensus 1 m~i~v---NG~~~--~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~-~~~~~~l~~gD~vei~ 60 (66)
T PRK05659 1 MNIQL---NGEPR--ELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRS-QHASTALREGDVVEIV 60 (66)
T ss_pred CEEEE---CCeEE--EcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHH-HcCcccCCCCCEEEEE
Confidence 46666 67755 55677888877654 69999888888899777522 2234558999999875
No 89
>KOG0012|consensus
Probab=95.12 E-value=0.031 Score=41.70 Aligned_cols=61 Identities=20% Similarity=0.227 Sum_probs=54.9
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecC--CccccccCCCCCCEEEE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKD--HIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D--~~tL~~y~I~~g~ti~L 70 (73)
.-+.++++|...-...++++-++...|++.+..-|+|++++|.+ ..+|.+||..+|+++-|
T Consensus 11 ~~~~~~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~l 73 (380)
T KOG0012|consen 11 FEKKFPIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLAL 73 (380)
T ss_pred ceeeeccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEec
Confidence 55778888888888999999999999999999999999999975 57899999999999865
No 90
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=95.12 E-value=0.15 Score=28.60 Aligned_cols=57 Identities=19% Similarity=0.282 Sum_probs=42.2
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEec--CCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFK--DHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~--D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|.| +|+...+ .+..|+.+|=+. .|+|+..--+-.+|..+. ++. .+ +++|+.|.++
T Consensus 1 m~i~v---NG~~~~~--~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~~---~~-L~~gD~ieIv 59 (65)
T PRK05863 1 MIVVV---NEEQVEV--DEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDWA---TK-LRDGARLEVV 59 (65)
T ss_pred CEEEE---CCEEEEc--CCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHhh---hh-cCCCCEEEEE
Confidence 45666 6776655 467788777554 799999999999999774 333 35 9999999876
No 91
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=94.97 E-value=0.17 Score=29.64 Aligned_cols=63 Identities=21% Similarity=0.279 Sum_probs=53.0
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHH---hCCCCccEEEEE-cceEecCCccccccCCCCCCEEEEEe
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQ---TGTRWEKIVLKK-WYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~---~gip~~~QrLif-~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
+|....++..++...--+.++--+. .|-|++..-|.= +|..|+=++.++|||+.+|-++.|+.
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G~vlD~~kKveD~GftngvkLFLsL 70 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESGQVLDVNKKVEDFGFTNGVKLFLSL 70 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCCcEeeccchhhhccccccceEEEEe
Confidence 6888999998888877777766555 478999998865 78888889999999999999999864
No 92
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=94.97 E-value=0.16 Score=29.19 Aligned_cols=58 Identities=16% Similarity=0.270 Sum_probs=40.6
Q ss_pred CCCCE-EEEEeCCC-CcHHHHHHHHHHHhC-CC--CccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 9 RLGKK-VRVKCNPD-DTIGDLKKLIAAQTG-TR--WEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 9 ~~G~~-~~v~v~~~-~TV~~lK~~I~~~~g-ip--~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
..|+. ..+++.++ .||.+|++.+.++.+ .- ....++.-+|+...+ +.-+++|+.|.+.
T Consensus 12 ~~g~~~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~ 74 (80)
T TIGR01682 12 QAGTDEETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFI 74 (80)
T ss_pred HhCCCeEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEe
Confidence 45654 47888876 899999999999864 11 122345558887764 4568999998764
No 93
>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=94.87 E-value=0.17 Score=38.27 Aligned_cols=69 Identities=14% Similarity=0.085 Sum_probs=53.2
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCC----C--CccEEEE-EcceEecCCccccccCCCCCCEEEEEe
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGT----R--WEKIVLK-KWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gi----p--~~~QrLi-f~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
.|.|-.. .+.+.+-+..+..|.++--.|-+..|- + +..-+|- -+|.+|+-+.||++.||.||++++|.-
T Consensus 4 RVtV~~~-~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p 79 (452)
T TIGR02958 4 RVTVLAG-RRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP 79 (452)
T ss_pred EEEEeeC-CeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence 4566654 355778888999999999988888765 2 2233442 288999999999999999999999964
No 94
>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=94.87 E-value=0.12 Score=33.60 Aligned_cols=62 Identities=11% Similarity=0.104 Sum_probs=45.5
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE-EEEE--c-c---eEecCCccccccCCC
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI-VLKK--W-Y---TIFKDHIRIMDYEIH 63 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q-rLif--~-G---k~L~D~~tL~~y~I~ 63 (73)
+.+.|-.++|....+.++++.|+.++-+.++.+.|++..+- -|.+ . + ..|....+|.+....
T Consensus 4 ~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 4 RVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred EEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 45677788999999999999999999999999999954221 3332 1 1 355556676666544
No 95
>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=94.82 E-value=0.12 Score=31.48 Aligned_cols=59 Identities=14% Similarity=0.149 Sum_probs=42.2
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
+...++-..++..||..++.+.|++.+.--..-...+|+++.+|-+-+++-.-+|++.-
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnv 63 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNV 63 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEE
Confidence 44566777889999999999999999988887788889999999999999999988764
No 96
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=94.74 E-value=0.24 Score=29.38 Aligned_cols=52 Identities=19% Similarity=0.233 Sum_probs=42.1
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE-cceEecCCccccccCCCCCCEEEEE
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK-WYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif-~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
+..+.+.+++..||+++-+. .|+|..+--+++ +|+.-.= +|-+++|+.|.++
T Consensus 22 ~~~~~~~~~~~~tvkd~IEs----LGVP~tEV~~i~vNG~~v~~-----~~~~~~Gd~v~V~ 74 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIES----LGVPHTEVGLILVNGRPVDF-----DYRLKDGDRVAVY 74 (81)
T ss_pred CCceEEecCCCCcHHHHHHH----cCCChHHeEEEEECCEECCC-----cccCCCCCEEEEE
Confidence 56788999999999987655 899999998877 8877642 3678999998764
No 97
>KOG0007|consensus
Probab=94.65 E-value=0.014 Score=42.47 Aligned_cols=51 Identities=18% Similarity=0.236 Sum_probs=44.8
Q ss_pred cCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcccc
Q psy4181 8 DRLGKKVRVKCN-PDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIM 58 (73)
Q Consensus 8 ~~~G~~~~v~v~-~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~ 58 (73)
..+|....+.+. -+..+..+|.++.+..+|+++.|.+.|.|..|+|..+++
T Consensus 289 ~~dg~~~~~~~~~~~~~~~~~k~k~~~~~~i~~~~q~~~~~~~~l~d~~~~~ 340 (341)
T KOG0007|consen 289 PADGQVIKITVQSLSENVASLKEKIADESQIPANKQKLRGEGAFLKDNRSLA 340 (341)
T ss_pred CCCCceeeeccccccccccccccccccccccchhheeeccCCcccCcccccc
Confidence 457888888777 678899999999999999999999999999999986553
No 98
>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=94.42 E-value=0.011 Score=43.08 Aligned_cols=62 Identities=16% Similarity=0.167 Sum_probs=0.0
Q ss_pred EEEEEEcCCCCEEEEEe--C-C--CCcHHHHHHHHHH----------HhCCCCccEE-----EEEcceEecCCccccccC
Q psy4181 2 IEITCNDRLGKKVRVKC--N-P--DDTIGDLKKLIAA----------QTGTRWEKIV-----LKKWYTIFKDHIRIMDYE 61 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v--~-~--~~TV~~lK~~I~~----------~~gip~~~Qr-----Lif~Gk~L~D~~tL~~y~ 61 (73)
|.|.+|.+-+-.+.+.+ . | +.||.++|..++. ..++|.+..+ |.|+-|++-|..||.+..
T Consensus 79 ItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~e~l 158 (309)
T PF12754_consen 79 ITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLAEVL 158 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred EEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHHHHH
Confidence 34566666554443332 2 3 6899999999999 8999999999 999999999999998865
Q ss_pred CC
Q psy4181 62 IH 63 (73)
Q Consensus 62 I~ 63 (73)
-.
T Consensus 159 ~~ 160 (309)
T PF12754_consen 159 AD 160 (309)
T ss_dssp --
T ss_pred hc
Confidence 44
No 99
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=94.32 E-value=0.36 Score=26.80 Aligned_cols=55 Identities=16% Similarity=0.169 Sum_probs=39.8
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
+|+...+ ++..||.+|.++ .+++++.-....+|+.+..+ .-+++-+++|+.|.++
T Consensus 5 Ng~~~~~--~~~~tv~~ll~~----l~~~~~~i~V~vNg~~v~~~-~~~~~~L~~gD~V~ii 59 (65)
T cd00565 5 NGEPREV--EEGATLAELLEE----LGLDPRGVAVALNGEIVPRS-EWASTPLQDGDRIEIV 59 (65)
T ss_pred CCeEEEc--CCCCCHHHHHHH----cCCCCCcEEEEECCEEcCHH-HcCceecCCCCEEEEE
Confidence 4666544 567899988877 46888888888899987532 2233568999999875
No 100
>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=94.05 E-value=0.58 Score=28.32 Aligned_cols=60 Identities=13% Similarity=0.210 Sum_probs=45.4
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHh-CCC----Cc-cEEEEEcc--eEecCCccccccCCCCCCEEEEEe
Q psy4181 13 KVRVKCNPDDTIGDLKKLIAAQT-GTR----WE-KIVLKKWY--TIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 13 ~~~v~v~~~~TV~~lK~~I~~~~-gip----~~-~QrLif~G--k~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
..-+.|+..||+.++=++++... |.- ++ --|+.+.| +.+..+.|+++.||++-+.|...|
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 34578899999999999999873 543 23 45777888 999999999999999999999988
No 101
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=94.02 E-value=0.59 Score=26.41 Aligned_cols=60 Identities=17% Similarity=0.292 Sum_probs=42.7
Q ss_pred EEEEEEcCCCCEEEEEeCCC-CcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPD-DTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~-~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+| +|+...+ +.. .||.+|-+ ..|+++..--.-.+|..+. ...-+++-+++|+.|.++
T Consensus 1 m~I~v---NG~~~~~--~~~~~tv~~lL~----~l~~~~~~vav~vN~~iv~-r~~w~~~~L~~gD~iEIv 61 (67)
T PRK07696 1 MNLKI---NGNQIEV--PESVKTVAELLT----HLELDNKIVVVERNKDILQ-KDDHTDTSVFDGDQIEIV 61 (67)
T ss_pred CEEEE---CCEEEEc--CCCcccHHHHHH----HcCCCCCeEEEEECCEEeC-HHHcCceecCCCCEEEEE
Confidence 55666 6776655 444 57877654 4788988888888999885 233445679999999876
No 102
>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=93.99 E-value=0.39 Score=28.47 Aligned_cols=37 Identities=24% Similarity=0.165 Sum_probs=32.0
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCC-ccEEEEE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRW-EKIVLKK 46 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~-~~QrLif 46 (73)
.|..+.+.+.|+.+..+|+++|+++.+++. ..-.|-|
T Consensus 8 ~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY 45 (82)
T cd06407 8 GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY 45 (82)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence 778999999999999999999999999975 4556655
No 103
>KOG4250|consensus
Probab=93.93 E-value=0.22 Score=40.05 Aligned_cols=42 Identities=21% Similarity=0.060 Sum_probs=38.7
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceE
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTI 50 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~ 50 (73)
.++..+.+-++++.|+..+++.|+...|+|.+.|-|+|.|..
T Consensus 322 ~~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~ 363 (732)
T KOG4250|consen 322 VQATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGL 363 (732)
T ss_pred ccceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCc
Confidence 377888999999999999999999999999999999998764
No 104
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=93.54 E-value=0.7 Score=25.76 Aligned_cols=59 Identities=17% Similarity=0.258 Sum_probs=45.8
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCC--CCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGT--RWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gi--p~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
.| ...+.+....||.+|.+++.++..- ..+.-++..+|+...+ .-.+.-+++|++|.+.
T Consensus 11 ~g-~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ 71 (77)
T PF02597_consen 11 AG-EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAIL 71 (77)
T ss_dssp HT-EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEE
T ss_pred hC-CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEE
Confidence 45 6778889999999999999887631 2356677779999988 3556678999999875
No 105
>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=93.31 E-value=0.54 Score=26.55 Aligned_cols=43 Identities=21% Similarity=0.103 Sum_probs=34.4
Q ss_pred EEEEcCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCCCccEEEEEc
Q psy4181 4 ITCNDRLGKKVRVKCN-PDDTIGDLKKLIAAQTGTRWEKIVLKKW 47 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~-~~~TV~~lK~~I~~~~gip~~~QrLif~ 47 (73)
|.++. .|....+.+. ++.|..+|+++|+++.+.+...-++-|.
T Consensus 3 vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~ 46 (81)
T cd05992 3 VKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYP 46 (81)
T ss_pred EEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEee
Confidence 44444 4678888888 8999999999999999998756666664
No 106
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=93.31 E-value=0.71 Score=25.56 Aligned_cols=55 Identities=18% Similarity=0.167 Sum_probs=39.6
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
+|+...+ ..+.||.+|.+. .+++++.-.+-.+|+.+. ...-+++-+++|+.|.++
T Consensus 4 Ng~~~~~--~~~~tv~~ll~~----l~~~~~~v~v~vN~~iv~-~~~~~~~~L~~gD~veii 58 (64)
T TIGR01683 4 NGEPVEV--EDGLTLAALLES----LGLDPRRVAVAVNGEIVP-RSEWDDTILKEGDRIEIV 58 (64)
T ss_pred CCeEEEc--CCCCcHHHHHHH----cCCCCCeEEEEECCEEcC-HHHcCceecCCCCEEEEE
Confidence 5666655 567789988876 578888878888998874 122234568999999875
No 107
>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=93.20 E-value=0.71 Score=26.24 Aligned_cols=45 Identities=22% Similarity=0.168 Sum_probs=35.4
Q ss_pred EEEEEcCCCCEEE-EEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcc
Q psy4181 3 EITCNDRLGKKVR-VKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY 48 (73)
Q Consensus 3 ~i~vk~~~G~~~~-v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~G 48 (73)
.|.+.. .|.... +.+.++.|..+|+++|+++.|.+...-+|.|..
T Consensus 3 ~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D 48 (84)
T PF00564_consen 3 RVKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKD 48 (84)
T ss_dssp EEEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred EEEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence 344444 444444 889999999999999999999998888888853
No 108
>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=93.10 E-value=0.13 Score=35.83 Aligned_cols=68 Identities=16% Similarity=0.101 Sum_probs=45.7
Q ss_pred EEEEEEcCC--CCEE----EEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcc------eEecCCccccccCCCCCCEEE
Q psy4181 2 IEITCNDRL--GKKV----RVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY------TIFKDHIRIMDYEIHDGMNLE 69 (73)
Q Consensus 2 ~~i~vk~~~--G~~~----~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~G------k~L~D~~tL~~y~I~~g~ti~ 69 (73)
+-||+|--+ .+++ .+-|..+++|.++=..|.++.|.|++..-++|.- .+++...|++.+.+++|+.|-
T Consensus 69 iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~ 148 (249)
T PF12436_consen 69 ILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDGDIIC 148 (249)
T ss_dssp EEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TTEEEE
T ss_pred EEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCCCEEE
Confidence 456777542 2222 2457899999999999999999999999888854 347789999999999999874
No 109
>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=92.54 E-value=0.5 Score=28.26 Aligned_cols=38 Identities=8% Similarity=0.132 Sum_probs=31.6
Q ss_pred CCCEEEEEeCC--CCcHHHHHHHHHHHhCCCCccEEEEEcceEecC
Q psy4181 10 LGKKVRVKCNP--DDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKD 53 (73)
Q Consensus 10 ~G~~~~v~v~~--~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D 53 (73)
.|.++.+.++| +.|-.+|+++++.+.+++ -|.=|.|.|
T Consensus 8 ~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~------~f~lKYlDd 47 (81)
T cd06396 8 NGESQSFLVSDSENTTWASVEAMVKVSFGLN------DIQIKYVDE 47 (81)
T ss_pred CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC------cceeEEEcC
Confidence 78999999999 669999999999999999 345555643
No 110
>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=92.45 E-value=0.84 Score=26.17 Aligned_cols=43 Identities=19% Similarity=0.085 Sum_probs=34.1
Q ss_pred EEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcc
Q psy4181 6 CNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY 48 (73)
Q Consensus 6 vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~G 48 (73)
|=-++|....+.+.|+.||.++=+++.++-|+.++.-.+...|
T Consensus 5 v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~ 47 (71)
T PF02196_consen 5 VHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVG 47 (71)
T ss_dssp EEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEE
T ss_pred EECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence 3347999999999999999999999999999999887765433
No 111
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=92.34 E-value=1.1 Score=24.93 Aligned_cols=60 Identities=13% Similarity=0.138 Sum_probs=41.6
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+| +|+...+ .+..||.+|-+. .+.++..-.+-.+|+.+. ...-+++-+++|+.|.++
T Consensus 1 m~i~v---Ng~~~~~--~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~-r~~w~~~~L~~gD~Ieii 60 (66)
T PRK08053 1 MQILF---NDQPMQC--AAGQTVHELLEQ----LNQLQPGAALAINQQIIP-REQWAQHIVQDGDQILLF 60 (66)
T ss_pred CEEEE---CCeEEEc--CCCCCHHHHHHH----cCCCCCcEEEEECCEEeC-hHHcCccccCCCCEEEEE
Confidence 56666 6777766 566789988765 566666677778998884 122233568999999775
No 112
>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=92.13 E-value=1.1 Score=27.02 Aligned_cols=52 Identities=17% Similarity=0.224 Sum_probs=38.1
Q ss_pred EEEEcC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcccc
Q psy4181 4 ITCNDR-LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIM 58 (73)
Q Consensus 4 i~vk~~-~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~ 58 (73)
|.||.. .|....+.|+|+-+-.+|.++|.++.|+. ..-++-|.-. -|..|+.
T Consensus 3 ikVKv~~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKykDE--GD~iti~ 55 (86)
T cd06408 3 IRVKVHAQDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMKDD--GDMITMG 55 (86)
T ss_pred EEEEEEecCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEEcC--CCCcccc
Confidence 344544 78899999999999999999999999995 3445555433 3444543
No 113
>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=92.06 E-value=1.4 Score=25.35 Aligned_cols=46 Identities=15% Similarity=0.121 Sum_probs=35.5
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCC--CccEEEEE------cceEecCCc
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTR--WEKIVLKK------WYTIFKDHI 55 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip--~~~QrLif------~Gk~L~D~~ 55 (73)
.|...++.|.+++|..++-+.+.++.|++ +..-.|+= ..|.|.|++
T Consensus 11 ~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~~~~er~L~~~e 64 (87)
T cd01768 11 GGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGDGGLERLLLPDE 64 (87)
T ss_pred CccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECCceEEEEeCCCC
Confidence 37789999999999999999999999998 44445532 345676654
No 114
>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=91.90 E-value=1.5 Score=25.37 Aligned_cols=59 Identities=17% Similarity=0.203 Sum_probs=40.4
Q ss_pred CCCC-EEEEEeCCCCcHHHHHHHHHHHhCC-----------CCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 9 RLGK-KVRVKCNPDDTIGDLKKLIAAQTGT-----------RWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 9 ~~G~-~~~v~v~~~~TV~~lK~~I~~~~gi-----------p~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
..|+ ...++++ ..||.+|.+.+.++..- .....+..-+|+...+... .-+++|+.|.+.
T Consensus 12 ~~g~~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~ 82 (88)
T TIGR01687 12 ITGKKSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIF 82 (88)
T ss_pred HhCCceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEe
Confidence 3564 5677776 88999999999988631 1123445558887754432 568999999875
No 115
>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=91.86 E-value=0.77 Score=27.04 Aligned_cols=42 Identities=19% Similarity=0.172 Sum_probs=37.8
Q ss_pred cCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcce
Q psy4181 8 DRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYT 49 (73)
Q Consensus 8 ~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk 49 (73)
-++|....+.+.|..||.++=.++.++-|++++---++..|+
T Consensus 6 LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~ 47 (73)
T cd01817 6 LPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGG 47 (73)
T ss_pred CCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecC
Confidence 478999999999999999999999999999999998877553
No 116
>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=91.84 E-value=1.5 Score=25.08 Aligned_cols=42 Identities=14% Similarity=0.191 Sum_probs=33.4
Q ss_pred EEEEEEcCCCC----EEEEEeCCCCcHHHHHHHHHHHhCC--CCccEEEE
Q psy4181 2 IEITCNDRLGK----KVRVKCNPDDTIGDLKKLIAAQTGT--RWEKIVLK 45 (73)
Q Consensus 2 ~~i~vk~~~G~----~~~v~v~~~~TV~~lK~~I~~~~gi--p~~~QrLi 45 (73)
++|+.-+ +. ..++.|.+++|+.+|-+++.++.|+ +|..-.|.
T Consensus 5 lrVy~~~--~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~ 52 (93)
T PF00788_consen 5 LRVYDGD--GSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLV 52 (93)
T ss_dssp EEEEETT--SSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEE
T ss_pred EEEEcCC--CCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEE
Confidence 4555544 44 8899999999999999999999999 55556773
No 117
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=91.69 E-value=0.8 Score=35.25 Aligned_cols=70 Identities=21% Similarity=0.218 Sum_probs=52.9
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHh--CCCCccEEEEE----cceE--ecCCccccccCCCCCCEEEEEe
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQT--GTRWEKIVLKK----WYTI--FKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~--gip~~~QrLif----~Gk~--L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
|-+-+++..|.. .++|.++|+.+.|-++|-+-. +-+|++..+.- .|.. +-.++|+.+.|+..|..+.|.|
T Consensus 1 Mi~rfRsk~G~~-Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 1 MIFRFRSKEGQR-RVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred CeEEEecCCCce-eeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 345667766654 599999999999999988775 55666666543 2222 3457899999999999999998
No 118
>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=91.27 E-value=2.3 Score=26.16 Aligned_cols=62 Identities=15% Similarity=0.117 Sum_probs=43.6
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHH------hCCCCc-cEEEEEcceE--ecCCccccccC-----CCCCCEEEEEe
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQ------TGTRWE-KIVLKKWYTI--FKDHIRIMDYE-----IHDGMNLELYY 72 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~------~gip~~-~QrLif~Gk~--L~D~~tL~~y~-----I~~g~ti~L~~ 72 (73)
-..+++.|++++|+.+|.+.+-.+ ..-+++ +-.|-=.|+. |-.+..|.+|. ++.|.++||..
T Consensus 28 ~~~~t~~v~~~~~p~~li~~~l~k~~~~~~~~~~~~~dyvLkV~G~~Eyl~~~~~L~~~~yIr~cl~~~~~~~L~L 103 (108)
T smart00144 28 QQTKTLKVNPNCTPDSVLAQAFTKMLSLHDQVDPTSEDYILKVCGRDEYLLGDHPLGSFEYIRNCLKNGREPHLVL 103 (108)
T ss_pred ceeEEEEECCCCCHHHHHHHHHHHHHhccccccCCCCcEEEEecCcEEEEeCCeeeechHHHHHHHhcCCCceEEE
Confidence 467899999999999999977776 222233 4566556663 66677777775 66677777764
No 119
>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=91.16 E-value=1.9 Score=25.02 Aligned_cols=53 Identities=13% Similarity=0.122 Sum_probs=39.1
Q ss_pred EEEEEEc-CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCc--cEEEE--E-cc--eEecCC
Q psy4181 2 IEITCND-RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWE--KIVLK--K-WY--TIFKDH 54 (73)
Q Consensus 2 ~~i~vk~-~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~--~QrLi--f-~G--k~L~D~ 54 (73)
++||.-+ ..+...++.|.+++|..++-..+.++.|++.+ .-.|+ . +| +.|.|+
T Consensus 5 lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~ 65 (90)
T smart00314 5 LRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDD 65 (90)
T ss_pred EEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCC
Confidence 4555544 45788999999999999999999999999853 44553 2 34 567653
No 120
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=90.86 E-value=0.57 Score=27.94 Aligned_cols=53 Identities=25% Similarity=0.317 Sum_probs=29.1
Q ss_pred EEeCC-CCcHHHHHHHHH-HHhCCCCccEEEEEcceEecC----------CccccccCCCCCCEEEE
Q psy4181 16 VKCNP-DDTIGDLKKLIA-AQTGTRWEKIVLKKWYTIFKD----------HIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 16 v~v~~-~~TV~~lK~~I~-~~~gip~~~QrLif~Gk~L~D----------~~tL~~y~I~~g~ti~L 70 (73)
+.+++ ..|+.+|-++|- .+.|.....-.+ +|+.|-| +.+|+++||.+|+.+.+
T Consensus 2 v~~d~~~~TL~~lv~~Vlk~~Lg~~~P~v~~--~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v 66 (87)
T PF14732_consen 2 VKVDTKKMTLGDLVEKVLKKKLGMNEPDVSV--GGTILYDSDEEEYDDNLPKKLSELGIVNGSILTV 66 (87)
T ss_dssp EEE-TTT-BHHHHHHHCCCCCS--SSEEEEE--S-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEE
T ss_pred EEEechhCcHHHHHHHHHHhccCCCCCEEEe--CCCEEEcCCcchhhhcccCChhHcCCCCCCEEEE
Confidence 34443 679999988764 456666533322 5555522 46899999999998865
No 121
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=90.61 E-value=2.1 Score=29.17 Aligned_cols=48 Identities=19% Similarity=0.185 Sum_probs=30.2
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCc---cEEE--EEcceE---ecCCcccccc
Q psy4181 13 KVRVKCNPDDTIGDLKKLIAAQTGTRWE---KIVL--KKWYTI---FKDHIRIMDY 60 (73)
Q Consensus 13 ~~~v~v~~~~TV~~lK~~I~~~~gip~~---~QrL--if~Gk~---L~D~~tL~~y 60 (73)
.+.+-|..+.||.+|.+.++.+.+++.+ ..|| +++||. +..+.+|++.
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 4677789999999999999999999876 4555 557775 5667777655
No 122
>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=90.45 E-value=1.3 Score=26.71 Aligned_cols=56 Identities=13% Similarity=0.184 Sum_probs=41.3
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE-------cceEecCCccccc
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK-------WYTIFKDHIRIMD 59 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif-------~Gk~L~D~~tL~~ 59 (73)
++||. .+|.+.++.|+++.|+.++=+.+.++-+...+.=--++ -.|.++|++.|.+
T Consensus 5 vkv~~--~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l~lER~~EDHE~vvd 67 (85)
T cd01787 5 VKVYS--EDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHLQLERLFEDHELVVE 67 (85)
T ss_pred EEEEe--cCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecchhhhhhhccchHHHHH
Confidence 34444 67999999999999999999999999887765432223 2566777776543
No 123
>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=90.43 E-value=1.7 Score=26.62 Aligned_cols=40 Identities=15% Similarity=0.077 Sum_probs=35.0
Q ss_pred EEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE
Q psy4181 6 CNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK 46 (73)
Q Consensus 6 vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif 46 (73)
++...|.+..+.|+.+.|-.+|+.++++..+++.. ..|-|
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky 56 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY 56 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence 35568999999999999999999999999999987 66655
No 124
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=90.21 E-value=1.9 Score=31.78 Aligned_cols=60 Identities=18% Similarity=0.201 Sum_probs=44.7
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+| +|+.. ++.+..||.+|-+. .|++++.--+-.+|+.+. ...-.++-+++|+.|.++
T Consensus 1 M~I~V---NGk~~--el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVp-r~~w~~t~LkeGD~IEII 60 (326)
T PRK11840 1 MRIRL---NGEPR--QVPAGLTIAALLAE----LGLAPKKVAVERNLEIVP-RSEYGQVALEEGDELEIV 60 (326)
T ss_pred CEEEE---CCEEE--ecCCCCcHHHHHHH----cCCCCCeEEEEECCEECC-HHHcCccccCCCCEEEEE
Confidence 56666 57765 44677788877654 699999999999999984 333355779999999875
No 125
>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=90.00 E-value=1 Score=26.81 Aligned_cols=35 Identities=11% Similarity=0.169 Sum_probs=32.8
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEc
Q psy4181 13 KVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKW 47 (73)
Q Consensus 13 ~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~ 47 (73)
++.+.+.+..+..+|.++|+++.+.|++.-.|-|.
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~ 42 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYR 42 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEec
Confidence 77888999999999999999999999999999884
No 126
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=89.95 E-value=2 Score=23.45 Aligned_cols=59 Identities=14% Similarity=0.134 Sum_probs=38.0
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+|+| +|+...+ .+..|+.+|-+.+ |+++ .-..-.+|+..... .-++.-+++|++|.++
T Consensus 1 m~i~v---Ng~~~~~--~~~~tl~~ll~~l----~~~~-~~~v~vN~~~v~~~-~~~~~~L~~gD~vei~ 59 (65)
T PRK06944 1 MDIQL---NQQTLSL--PDGATVADALAAY----GARP-PFAVAVNGDFVART-QHAARALAAGDRLDLV 59 (65)
T ss_pred CEEEE---CCEEEEC--CCCCcHHHHHHhh----CCCC-CeEEEECCEEcCch-hcccccCCCCCEEEEE
Confidence 45666 5776644 5678999888764 4543 34556788877421 1223448999999875
No 127
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=89.77 E-value=2.5 Score=24.26 Aligned_cols=61 Identities=23% Similarity=0.250 Sum_probs=44.3
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
||+|.++ |+.. +++...|+.+|=++ .|++++.--...+|.++-. .--++.-+++|+-|.++
T Consensus 2 ~m~i~~n---g~~~--e~~~~~tv~dLL~~----l~~~~~~vav~vNg~iVpr-~~~~~~~l~~gD~ievv 62 (68)
T COG2104 2 PMTIQLN---GKEV--EIAEGTTVADLLAQ----LGLNPEGVAVAVNGEIVPR-SQWADTILKEGDRIEVV 62 (68)
T ss_pred cEEEEEC---CEEE--EcCCCCcHHHHHHH----hCCCCceEEEEECCEEccc-hhhhhccccCCCEEEEE
Confidence 5666664 6554 55666899988765 8999999999999998852 22345678888887664
No 128
>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=89.73 E-value=1.3 Score=26.92 Aligned_cols=42 Identities=14% Similarity=0.093 Sum_probs=36.7
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
++-|=-++|.+++++|..+++..++=+.++.+.|+|.+-.+-
T Consensus 3 ~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~Y 44 (87)
T cd01777 3 ELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQNY 44 (87)
T ss_pred EEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhh
Confidence 344445789999999999999999999999999999998764
No 129
>PRK01777 hypothetical protein; Validated
Probab=89.09 E-value=3.5 Score=25.05 Aligned_cols=62 Identities=18% Similarity=0.147 Sum_probs=39.8
Q ss_pred CEEEEEEcCC---CCEEEEEeCCCCcHHHHHHHHHHHhCCCCc--cE-----EEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 1 MIEITCNDRL---GKKVRVKCNPDDTIGDLKKLIAAQTGTRWE--KI-----VLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 1 ~~~i~vk~~~---G~~~~v~v~~~~TV~~lK~~I~~~~gip~~--~Q-----rLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
||+|.|=... .....+++.+..||.++=.. .||+.+ +. .+.-+|+...- +.-+++|+.|.+
T Consensus 3 ~i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~----sgi~~~~pei~~~~~~vgI~Gk~v~~-----d~~L~dGDRVeI 73 (95)
T PRK01777 3 KIRVEVVYALPERQYLQRLTLQEGATVEEAIRA----SGLLELRTDIDLAKNKVGIYSRPAKL-----TDVLRDGDRVEI 73 (95)
T ss_pred eeEEEEEEECCCceEEEEEEcCCCCcHHHHHHH----cCCCccCcccccccceEEEeCeECCC-----CCcCCCCCEEEE
Confidence 5666654432 23467788999999987655 588776 32 34346665543 345799999987
Q ss_pred E
Q psy4181 71 Y 71 (73)
Q Consensus 71 ~ 71 (73)
+
T Consensus 74 y 74 (95)
T PRK01777 74 Y 74 (95)
T ss_pred e
Confidence 5
No 130
>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=87.78 E-value=4.1 Score=24.26 Aligned_cols=39 Identities=10% Similarity=-0.049 Sum_probs=35.6
Q ss_pred EEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 6 CNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 6 vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
|=-++|...++.+.|++|++++=+-...+-|..|..-.|
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~L 42 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYL 42 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHhee
Confidence 445799999999999999999999999999999998866
No 131
>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=86.56 E-value=2.2 Score=28.40 Aligned_cols=52 Identities=15% Similarity=0.328 Sum_probs=39.3
Q ss_pred EEEEEEcCCCCEEEEEeCC-CCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcccccc
Q psy4181 2 IEITCNDRLGKKVRVKCNP-DDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDY 60 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~-~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y 60 (73)
+.+.|+. |+.+ ++++. .+.+..+++-+.+..-.+.+- .-|+-++...|+.||
T Consensus 68 veL~V~v--Gri~-lele~~~~~ie~I~~iCee~lpf~y~i----~~G~f~r~~~TvtDY 120 (153)
T PF02505_consen 68 VELTVKV--GRII-LELEDEEDVIEKIREICEEVLPFGYDI----KEGKFIRTKPTVTDY 120 (153)
T ss_pred EEEEEEE--eEEE-EEecCcHHHHHHHHHHHHHhCCCceEe----eeeEEeccCCchhhh
Confidence 4455554 6655 88888 889999998888877555543 469999999999987
No 132
>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=86.45 E-value=3.5 Score=23.82 Aligned_cols=51 Identities=29% Similarity=0.356 Sum_probs=34.8
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+.+.+ | +|+.+|.+..++++|++ ..-.+.-.|-..+|=.. |.||+.+.++
T Consensus 19 GKvi~l---P-~SleeLl~ia~~kfg~~-~~~v~~~dgaeIdDI~~-----IRDgD~L~~~ 69 (69)
T PF11834_consen 19 GKVIWL---P-DSLEELLKIASEKFGFS-ATKVLNEDGAEIDDIDV-----IRDGDHLYLV 69 (69)
T ss_pred CEEEEc---C-ccHHHHHHHHHHHhCCC-ceEEEcCCCCEEeEEEE-----EEcCCEEEEC
Confidence 555554 3 69999999999999997 33334445555554433 7888887763
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=86.16 E-value=3.6 Score=24.74 Aligned_cols=54 Identities=20% Similarity=0.189 Sum_probs=35.3
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCccEEEEEc-c------eEecC---Cccc--cccCCCCCCEEEEE
Q psy4181 16 VKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKW-Y------TIFKD---HIRI--MDYEIHDGMNLELY 71 (73)
Q Consensus 16 v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~-G------k~L~D---~~tL--~~y~I~~g~ti~L~ 71 (73)
+++++..||.+|=+.+.++. |+..-+|+.. | ..|-+ .+.| .++-+++|+.|.++
T Consensus 23 ~~~~~~~tV~dll~~L~~~~--~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t~L~dgD~v~i~ 88 (94)
T cd01764 23 LDGEKPVTVGDLLDYVASNL--LEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDYILEDGDHVVFI 88 (94)
T ss_pred ccCCCCCcHHHHHHHHHHhC--chhhhhhEecCCcccCCEEEEECCccccccCCcccCCCCcCEEEEE
Confidence 44546789999999998877 4445555442 2 22332 3344 36889999999875
No 134
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=86.07 E-value=0.76 Score=31.33 Aligned_cols=31 Identities=19% Similarity=0.291 Sum_probs=22.7
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
|-.+.+.|.|..|..++|++|+++.|+|-.+
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlgv~~ke 162 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLGVSDKE 162 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH---HHH
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhCCChhh
Confidence 5677788999999999999999999999654
No 135
>KOG3439|consensus
Probab=85.11 E-value=5.4 Score=25.38 Aligned_cols=50 Identities=16% Similarity=0.141 Sum_probs=39.2
Q ss_pred EEEEEEcCCC----CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEe
Q psy4181 2 IEITCNDRLG----KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIF 51 (73)
Q Consensus 2 ~~i~vk~~~G----~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L 51 (73)
++|..|...+ |.....|+|++|++.+-..|....++++..|-.+|-..-.
T Consensus 31 V~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sF 84 (116)
T KOG3439|consen 31 VQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSF 84 (116)
T ss_pred EEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCcc
Confidence 4556665333 4556789999999999999999999999999998855443
No 136
>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=84.94 E-value=6.4 Score=23.70 Aligned_cols=42 Identities=12% Similarity=0.066 Sum_probs=32.5
Q ss_pred EEEEcCCCCEEEEEeCC-----CCcHHHHHHHHHHHhCCCC-ccEEEEE
Q psy4181 4 ITCNDRLGKKVRVKCNP-----DDTIGDLKKLIAAQTGTRW-EKIVLKK 46 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~-----~~TV~~lK~~I~~~~gip~-~~QrLif 46 (73)
|.|+. .|....+.+.. +.+-..|+++|++...+|+ ..-.|.|
T Consensus 3 vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y 50 (91)
T cd06398 3 VKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTY 50 (91)
T ss_pred EEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEE
Confidence 44444 67777788874 7999999999999999998 4445666
No 137
>KOG2982|consensus
Probab=84.27 E-value=1.3 Score=33.29 Aligned_cols=52 Identities=15% Similarity=0.193 Sum_probs=41.9
Q ss_pred eCCCCcHHHHHHHHHHHhCCCCccEEEEE---cceEe-----cCCccccccCCCCCCEEE
Q psy4181 18 CNPDDTIGDLKKLIAAQTGTRWEKIVLKK---WYTIF-----KDHIRIMDYEIHDGMNLE 69 (73)
Q Consensus 18 v~~~~TV~~lK~~I~~~~gip~~~QrLif---~Gk~L-----~D~~tL~~y~I~~g~ti~ 69 (73)
|.-+-||.++|.++.-+-|.-+...||++ .||.- .-...|-.|+|++|+.+-
T Consensus 354 I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~l 413 (418)
T KOG2982|consen 354 ICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFL 413 (418)
T ss_pred EEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEee
Confidence 45667999999999999999999999987 45432 235678889999999763
No 138
>KOG2086|consensus
Probab=84.18 E-value=1.7 Score=32.64 Aligned_cols=66 Identities=15% Similarity=0.214 Sum_probs=50.6
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHh-CCCCccEEEEE--cceEecC-CccccccCCCCCCEEE
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQT-GTRWEKIVLKK--WYTIFKD-HIRIMDYEIHDGMNLE 69 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~-gip~~~QrLif--~Gk~L~D-~~tL~~y~I~~g~ti~ 69 (73)
|-||-.+|+-....+.-+.||.+++.-|...- +-+..-+.|+. =-|+|.| ..||++.|+.+-..|.
T Consensus 308 IQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvlvq 377 (380)
T KOG2086|consen 308 IQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVLVQ 377 (380)
T ss_pred EEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhhhh
Confidence 34566789999999999999999999998775 55555677754 4577865 7799999998765543
No 139
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=84.01 E-value=1.7 Score=27.84 Aligned_cols=46 Identities=17% Similarity=0.039 Sum_probs=34.3
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE-cceEecCCcccc
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK-WYTIFKDHIRIM 58 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif-~Gk~L~D~~tL~ 58 (73)
+..-+-|..+.||+++..-|..+.++++++ -.+| ++..+.-..|+.
T Consensus 41 K~KfllVP~d~tV~qF~~iIRkrl~l~~~k-~flfVnn~lp~~s~~mg 87 (121)
T PTZ00380 41 KVHFLALPRDATVAELEAAVRQALGTSAKK-VTLAIEGSTPAVTATVG 87 (121)
T ss_pred ceEEEEcCCCCcHHHHHHHHHHHcCCChhH-EEEEECCccCCccchHH
Confidence 333236899999999999999999999999 4445 554555555654
No 140
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=83.49 E-value=4 Score=26.24 Aligned_cols=59 Identities=14% Similarity=0.259 Sum_probs=39.7
Q ss_pred EEEE-EeCC-CCcHHHHHHHHHHH----hCCCCcc------EEEEEc-----------------ceEe---cCCcccccc
Q psy4181 13 KVRV-KCNP-DDTIGDLKKLIAAQ----TGTRWEK------IVLKKW-----------------YTIF---KDHIRIMDY 60 (73)
Q Consensus 13 ~~~v-~v~~-~~TV~~lK~~I~~~----~gip~~~------QrLif~-----------------Gk~L---~D~~tL~~y 60 (73)
.+.+ .|+. +.||++|++.+.+. .|+||-+ ..+++. ...| +|+.||.++
T Consensus 16 ~~Vl~~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~ 95 (122)
T PF10209_consen 16 NLVLHNVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKEL 95 (122)
T ss_pred eeeeecCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHc
Confidence 3334 3676 88999988876665 4666533 333321 1356 788899999
Q ss_pred CCCCCCEEEEE
Q psy4181 61 EIHDGMNLELY 71 (73)
Q Consensus 61 ~I~~g~ti~L~ 71 (73)
||.++.-|-++
T Consensus 96 gv~nETEiSfF 106 (122)
T PF10209_consen 96 GVENETEISFF 106 (122)
T ss_pred CCCccceeeee
Confidence 99999887664
No 141
>COG5272 UBI4 Ubiquitin [Posttranslational modification, protein turnover, chaperones]
Probab=83.07 E-value=0.2 Score=27.56 Aligned_cols=54 Identities=6% Similarity=-0.006 Sum_probs=43.3
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcc
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIR 56 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~t 56 (73)
..+++..++....++.....+-.......++..+..++++++++.|+.+...+.
T Consensus 2 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 (57)
T COG5272 2 AKPIKKATGGAAKPESQLAKAKDTRPEKQYAEQDSQLNEMALMDCERNLEASRI 55 (57)
T ss_pred CccccccccccccccchHHHHhhccchhhhhhhccChhhhhccccccccccccc
Confidence 346677788888888777777776666778889999999999999998876654
No 142
>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=81.51 E-value=9.2 Score=22.97 Aligned_cols=68 Identities=15% Similarity=0.168 Sum_probs=40.8
Q ss_pred EEEEEcC-CCCEEEEEeCCCCcHHHHHHHHHHH--hCCCCc----cEEEEEcce--EecCCccccccC-----CCCCCEE
Q psy4181 3 EITCNDR-LGKKVRVKCNPDDTIGDLKKLIAAQ--TGTRWE----KIVLKKWYT--IFKDHIRIMDYE-----IHDGMNL 68 (73)
Q Consensus 3 ~i~vk~~-~G~~~~v~v~~~~TV~~lK~~I~~~--~gip~~----~QrLif~Gk--~L~D~~tL~~y~-----I~~g~ti 68 (73)
.|.|... .+..+++.|+++.|+.+|-+++-.+ .+..+. +=.|-=.|+ -|..+..|.+|. ++.+-.+
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 3445555 6788999999999999999887766 222222 345544565 366777788775 3344444
Q ss_pred EE
Q psy4181 69 EL 70 (73)
Q Consensus 69 ~L 70 (73)
+|
T Consensus 98 ~L 99 (106)
T PF00794_consen 98 HL 99 (106)
T ss_dssp EE
T ss_pred EE
Confidence 44
No 143
>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=81.45 E-value=7 Score=27.21 Aligned_cols=37 Identities=11% Similarity=0.012 Sum_probs=28.8
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEE
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLK 45 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLi 45 (73)
..+..++++++..+|-.+|-++|+++.|++|+..||.
T Consensus 187 ~~~~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~ 223 (249)
T PF12436_consen 187 PNDPEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFF 223 (249)
T ss_dssp TT---EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE
T ss_pred CCCCCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEE
Confidence 3556899999999999999999999999999999985
No 144
>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=78.64 E-value=6.8 Score=26.01 Aligned_cols=52 Identities=12% Similarity=0.328 Sum_probs=38.6
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcccccc
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDY 60 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y 60 (73)
|.+.|+. |+.+ ++++..+.+.++++-+.+..-.+.+ +.-|+-+++..|+.||
T Consensus 67 veL~V~V--GrI~-le~~~~~~i~~I~eiC~e~~pF~y~----i~~g~f~r~~~TvtDY 118 (150)
T TIGR03260 67 VELRVQV--GRII-LELEDEDIVEEIEEICKEMLPFGYE----VRVGKFLRTKPTVTDY 118 (150)
T ss_pred EEEEEEE--eEEE-EEecCHHHHHHHHHHHHhhCCCceE----eeeeeEeecCCchhhh
Confidence 4455554 6655 7777888999998888877765554 4578889999999987
No 145
>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=78.21 E-value=4.6 Score=22.83 Aligned_cols=53 Identities=19% Similarity=0.124 Sum_probs=39.0
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcccccc--CCCCCCEEEEEe
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDY--EIHDGMNLELYY 72 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y--~I~~g~ti~L~~ 72 (73)
...-.+|.+.. =+++.|+.+....+-.+|+...+...+..+ .-++|+++.|.+
T Consensus 15 g~~V~~V~~~s--------pA~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v 69 (82)
T PF13180_consen 15 GVVVVSVIPGS--------PAAKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTV 69 (82)
T ss_dssp SEEEEEESTTS--------HHHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEE
T ss_pred eEEEEEeCCCC--------cHHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEE
Confidence 44445566653 356789999999999999999877766544 678999988865
No 146
>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=77.93 E-value=11 Score=22.53 Aligned_cols=42 Identities=14% Similarity=0.125 Sum_probs=35.5
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE-EEcceEec
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL-KKWYTIFK 52 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL-if~Gk~L~ 52 (73)
.+..++.|+++.|=.++|+-|+...|+++..-+- ++.|+.=.
T Consensus 20 ~n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt~~~~gk~kR 62 (91)
T PF00276_consen 20 PNQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNTMNYPGKKKR 62 (91)
T ss_dssp SSEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEEEEETSEEEE
T ss_pred CCEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEEeEeCCCceE
Confidence 3678999999999999999999999999987754 66776543
No 147
>PRK05841 flgE flagellar hook protein FlgE; Validated
Probab=72.38 E-value=6.4 Score=31.27 Aligned_cols=42 Identities=36% Similarity=0.442 Sum_probs=34.9
Q ss_pred EEEEEEcCCCCEEEEEeCCC---------CcHHHHHHHHHHHhCCCCccEE
Q psy4181 2 IEITCNDRLGKKVRVKCNPD---------DTIGDLKKLIAAQTGTRWEKIV 43 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~---------~TV~~lK~~I~~~~gip~~~Qr 43 (73)
+.|.|+..+|++..+..... .|+.+||..|+++.|...+--|
T Consensus 249 ~~i~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~l~~~~~~~~~~~~~~~~ 299 (603)
T PRK05841 249 LNITIQKEDGKKEDFVFTYGDAEKGENQFKTLGDLKKLLKEKTGLDLNLIR 299 (603)
T ss_pred EEEEEecCCCcEEEEEEeecCccccCCceeechhhhhhhhhcccccccccc
Confidence 57889999999998887666 5789999999999988776544
No 148
>KOG4248|consensus
Probab=72.38 E-value=1.2 Score=37.48 Aligned_cols=63 Identities=10% Similarity=-0.203 Sum_probs=49.8
Q ss_pred cCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 8 DRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 8 ~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
++.....+.-+-+.-++...|.++..+.|||...++|+|-|..++++..+..|+.+.+.+.+.
T Consensus 331 ~l~~p~~~~~~~~~~~~~~~~p~~~~qtgipi~~~~l~~vg~~~n~d~P~s~~~~e~~~~~p~ 393 (1143)
T KOG4248|consen 331 NLACPPPRHLHVVRPMSHYTTPMVLQQTGIPIQINVLTTVGMTGNGDRPPSTPNAEAPPPGPG 393 (1143)
T ss_pred cccCCCCceeeecchhhhccCceeeecccccccccceeeecccccCCCCCCccccccCCCCCc
Confidence 344444444455556677778999999999999999999999999999999888887776554
No 149
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=71.38 E-value=14 Score=22.17 Aligned_cols=40 Identities=20% Similarity=0.203 Sum_probs=34.3
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEE-EEEcceE
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIV-LKKWYTI 50 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Qr-Lif~Gk~ 50 (73)
.+.+++.|++..|=.++|+-++..+|+++..-+ ++..|+.
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~~~~gk~ 60 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVKGKT 60 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEEEeCCce
Confidence 578999999999999999999999999998874 4556544
No 150
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=71.31 E-value=16 Score=22.70 Aligned_cols=36 Identities=22% Similarity=0.237 Sum_probs=27.9
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
|+|++.++.|+..++++.+..|+.+. ..+.|++++.
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~tLl~a----~~~~gi~i~~ 36 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGMSLLEA----AHENDIELEG 36 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCCcHHHH----HHHcCCCCCc
Confidence 56888889999999999999888765 4446776643
No 151
>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=71.30 E-value=9.1 Score=22.36 Aligned_cols=52 Identities=17% Similarity=0.186 Sum_probs=33.5
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHh-CCCCccEEEEEcceEecCCccccccCCCCCCEE
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQT-GTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNL 68 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~-gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti 68 (73)
+.+-.-.+|+.|+.+|+..|.++. ..-|...-+. =..|+|.. .|.+.+..+|
T Consensus 3 kKFLhlt~~~~tl~~L~~eI~~~f~kLYP~~~~~~--I~~LQD~~---~cDLD~d~~V 55 (73)
T PF10407_consen 3 KKFLHLTDPNNTLSQLKEEIEERFKKLYPNEPELE--ILSLQDSD---GCDLDPDFLV 55 (73)
T ss_pred cEEEEEeCCCCcHHHHHHHHHHHHHHHCCCCCCce--EEEeecCC---CCCCCcccEe
Confidence 455566899999999999999996 4455554332 33455543 2445554444
No 152
>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=70.98 E-value=19 Score=21.32 Aligned_cols=37 Identities=22% Similarity=0.277 Sum_probs=28.5
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
++|.++.+.|+...+++.+..|+.+. ..+.|+++...
T Consensus 3 ~~v~~~~~~~~~~~~~~~~g~tLLda----~~~~Gi~i~~~ 39 (97)
T TIGR02008 3 YKVTLVNPDGGEETIECPDDQYILDA----AEEAGIDLPYS 39 (97)
T ss_pred EEEEEEECCCCEEEEEECCCCcHHHH----HHHcCCCCCcC
Confidence 56788778998999999999999876 34467766544
No 153
>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=70.97 E-value=7 Score=23.03 Aligned_cols=22 Identities=14% Similarity=0.386 Sum_probs=17.9
Q ss_pred EEEEeCCCCcHHHHHHHHHHHh
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQT 35 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~ 35 (73)
++++|+.++|+.++|+.+-++.
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 5789999999999999876654
No 154
>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=70.73 E-value=11 Score=23.28 Aligned_cols=42 Identities=14% Similarity=0.064 Sum_probs=29.7
Q ss_pred eCCCCcHHHHHHHHHHHhCCCCccEEEEE-cceEecCCccccc
Q psy4181 18 CNPDDTIGDLKKLIAAQTGTRWEKIVLKK-WYTIFKDHIRIMD 59 (73)
Q Consensus 18 v~~~~TV~~lK~~I~~~~gip~~~QrLif-~Gk~L~D~~tL~~ 59 (73)
|..+.||.++..-|..+..+++++=-.+| ++.......|+++
T Consensus 39 vp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~e 81 (104)
T PF02991_consen 39 VPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGE 81 (104)
T ss_dssp EETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHH
T ss_pred EcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHH
Confidence 67889999999999999999998643344 6655566777653
No 155
>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=68.65 E-value=14 Score=22.98 Aligned_cols=57 Identities=18% Similarity=0.130 Sum_probs=40.7
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEe-cCCcccc----ccCCCCCCEEEEEe
Q psy4181 15 RVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIF-KDHIRIM----DYEIHDGMNLELYY 72 (73)
Q Consensus 15 ~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L-~D~~tL~----~y~I~~g~ti~L~~ 72 (73)
.+-|.++.||.++..-|..+..+++++--.+|-|..+ .-+.++. .|+-.| .-|+|.|
T Consensus 44 KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~D-GfLyl~Y 105 (112)
T cd01611 44 KYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEEHKDED-GFLYMTY 105 (112)
T ss_pred eEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHHhCCCC-CEEEEEE
Confidence 3458899999999999999999999886666644433 4556664 355443 4666666
No 156
>KOG4572|consensus
Probab=68.54 E-value=12 Score=31.61 Aligned_cols=52 Identities=15% Similarity=0.238 Sum_probs=44.4
Q ss_pred CCCEEEEEeCC-CCcHHHHHHHHHHHhCCCCccEEEEE-cceEecCCccccccC
Q psy4181 10 LGKKVRVKCNP-DDTIGDLKKLIAAQTGTRWEKIVLKK-WYTIFKDHIRIMDYE 61 (73)
Q Consensus 10 ~G~~~~v~v~~-~~TV~~lK~~I~~~~gip~~~QrLif-~Gk~L~D~~tL~~y~ 61 (73)
+|.+.+++.+. +.|+.+||..|+...|+....|.+.- +|..+.-+..|..|.
T Consensus 3 rGqaltFDleaetqT~adLk~aiqke~~~aIq~~tfl~egGecmaadkrl~e~S 56 (1424)
T KOG4572|consen 3 RGQALTFDLEAETQTFADLKDAIQKEVGHAIQDLTFLDEGGECMAADKRLAEIS 56 (1424)
T ss_pred CCceeEEeecceeehHHHHHHHHHHHhchhhceeeeeecCCcCcccccchhhhc
Confidence 58888888765 67999999999999999999998866 777888888888876
No 157
>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=68.06 E-value=21 Score=25.87 Aligned_cols=60 Identities=10% Similarity=0.072 Sum_probs=46.2
Q ss_pred EEEEeCCCCcHHHHHHHHHHHh--------------C-CCCccEEEEEcceEecCCccccccC---CCCCCEEEEEeC
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQT--------------G-TRWEKIVLKKWYTIFKDHIRIMDYE---IHDGMNLELYYQ 73 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~--------------g-ip~~~QrLif~Gk~L~D~~tL~~y~---I~~g~ti~L~~~ 73 (73)
..|.+..---|..+++-|.++. . .|.+..-|.++|..|..+.||+... =+.|.-|.|.||
T Consensus 250 ~rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR 327 (331)
T PF11816_consen 250 SRLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYR 327 (331)
T ss_pred ceecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEE
Confidence 3455555667788888888888 2 5666778999999999999998654 567778888886
No 158
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=67.54 E-value=21 Score=20.40 Aligned_cols=57 Identities=16% Similarity=0.230 Sum_probs=33.0
Q ss_pred CCCCEEEEEeCC-CCcHHHHHHHHHHHhC-----CCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 9 RLGKKVRVKCNP-DDTIGDLKKLIAAQTG-----TRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 9 ~~G~~~~v~v~~-~~TV~~lK~~I~~~~g-----ip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
..|+. .+++++ ..||.+|++.+.++.. ...+.-+.--+++.-. . +.-+++|+.|-+.
T Consensus 13 ~~g~~-~~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~-~----~~~l~dgDeVai~ 75 (81)
T PRK11130 13 LVGTD-ALELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVS-F----DHPLTDGDEVAFF 75 (81)
T ss_pred HhCCc-eEEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcC-C----CCCCCCCCEEEEe
Confidence 36653 345544 4799999999988852 1112223222553322 2 3458999988764
No 159
>cd01778 RASSF1_RA Ubiquitin-like domain of RASSF1 tumour supproessor protein. RASSF1 (also known as RASSF3 and NORE1) is a tumour suppressor protein with a C-terminal Ras-associating (RA) domain that binds Ras. RASSF1 also binds the proapoptotic protein kinase MST1 and is thus thought to regulate the proapoptotic signalling pathway. RASSF1 also associates with microtubule-associated proteins like MAP1B and regulates tubulin polymerization. RASSF1 also binds CDC20 and regulates mitosis by inhibiting the anaphase-promoting complex and preventing degradation of cyclin A and cyclin B until the spindle checkpoint becomes fully operational.
Probab=67.44 E-value=26 Score=21.58 Aligned_cols=35 Identities=3% Similarity=-0.084 Sum_probs=29.1
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEE
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIV 43 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Qr 43 (73)
+-|....|.|+++.|+.++-+.+-+++.+--.-|.
T Consensus 14 p~~s~k~v~IsS~tTt~eVI~~LL~KF~v~~nP~k 48 (96)
T cd01778 14 PKDTAKHLHISSKTTVREVIEALLKKFLVVDNPRK 48 (96)
T ss_pred cCCceeEEEEecCCcHHHHHHHHHHhheeccCCcc
Confidence 46778889999999999999999999887655543
No 160
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=66.66 E-value=9 Score=22.69 Aligned_cols=25 Identities=16% Similarity=0.222 Sum_probs=19.9
Q ss_pred EEEEeCCCCcHHHHHHHHHHHh-CCC
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQT-GTR 38 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~-gip 38 (73)
+.+.|..+.|+.++|+++-++. .-|
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A~~~P 27 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQARKMP 27 (78)
T ss_pred eeEEccccccHHHHHHHHHHHHHhCC
Confidence 5688999999999999886654 444
No 161
>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=66.16 E-value=13 Score=22.05 Aligned_cols=54 Identities=15% Similarity=0.294 Sum_probs=33.9
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEe--------cC------CccccccCCCCCCEEEE
Q psy4181 16 VKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIF--------KD------HIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 16 v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L--------~D------~~tL~~y~I~~g~ti~L 70 (73)
++|+++.|..+|-+.++++..+....=-|-.+|+.| +. ..+|.+. +++|.-|.+
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~V 68 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITV 68 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEE
Confidence 578999999999999999854443333333444433 11 3566677 777766654
No 162
>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=65.97 E-value=29 Score=21.45 Aligned_cols=31 Identities=16% Similarity=0.150 Sum_probs=28.2
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCc
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWE 40 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~ 40 (73)
+|.-.++.+..+.||.++-.+++.+...+.+
T Consensus 11 D~Tf~Tls~~l~tTv~eli~~L~rK~~l~~~ 41 (97)
T cd01775 11 DGTFTTLSCPLNTTVSELIPQLAKKFYLPSG 41 (97)
T ss_pred CCcEEEEEcCCcCcHHHHHHHHHHhhcCCCC
Confidence 6777899999999999999999999988884
No 163
>PRK11872 antC anthranilate dioxygenase reductase; Provisional
Probab=65.83 E-value=17 Score=25.99 Aligned_cols=37 Identities=16% Similarity=0.103 Sum_probs=28.2
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
.+|.+++..|+.+.++|.+..|+.+. ..+.|+++.-.
T Consensus 3 ~~v~~~~~~~~~~~~~~~~g~tlL~a----~~~~g~~~p~~ 39 (340)
T PRK11872 3 HKVALSFADGKTLFFPVGKDELLLDA----ALRNGINLPLD 39 (340)
T ss_pred eEEEEEecCCcEEEEEeCCCCcHHHH----HHHcCCCCcCC
Confidence 47888777899999999999999876 34466666443
No 164
>KOG3309|consensus
Probab=65.30 E-value=13 Score=24.88 Aligned_cols=28 Identities=32% Similarity=0.430 Sum_probs=25.3
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHH
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKK 29 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~ 29 (73)
|.|+..+.+|..+++.....+||.++=.
T Consensus 44 i~Itfv~~dG~~~~i~g~vGdtlLd~ah 71 (159)
T KOG3309|consen 44 IKITFVDPDGEEIKIKGKVGDTLLDAAH 71 (159)
T ss_pred EEEEEECCCCCEEEeeeecchHHHHHHH
Confidence 6899999999999999999999998743
No 165
>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=65.08 E-value=16 Score=21.38 Aligned_cols=34 Identities=12% Similarity=-0.009 Sum_probs=22.0
Q ss_pred EEEEeC-CCCcHHHHHHHHHHHhCC--CCccEEEEEc
Q psy4181 14 VRVKCN-PDDTIGDLKKLIAAQTGT--RWEKIVLKKW 47 (73)
Q Consensus 14 ~~v~v~-~~~TV~~lK~~I~~~~gi--p~~~QrLif~ 47 (73)
-++.++ +..+|.+||..|.++.+. ..+-.-.+|+
T Consensus 12 ~~i~fdG~~Isv~dLKr~I~~~~~lg~~~dfdL~i~n 48 (74)
T PF08783_consen 12 DTITFDGTSISVFDLKREIIEKKKLGKGTDFDLVIYN 48 (74)
T ss_dssp EEEEESSSEEEHHHHHHHHHHHHT---TTTEEEEEEE
T ss_pred cEEEECCCeeEHHHHHHHHHHHhCCCcCCcCCEEEEC
Confidence 344553 578999999999777655 4454444553
No 166
>COG4055 McrD Methyl coenzyme M reductase, subunit D [Coenzyme metabolism]
Probab=64.83 E-value=28 Score=23.33 Aligned_cols=51 Identities=14% Similarity=0.293 Sum_probs=35.4
Q ss_pred EEEEEcCCCCEEEEEeCCCC-cHHHHHHHHHHHhCCCCccEEEEEcceEecCCcccccc
Q psy4181 3 EITCNDRLGKKVRVKCNPDD-TIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDY 60 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~-TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y 60 (73)
.+.||+ |+.+ +++++.+ |++.+++-+.+..-...+ ++-|+.+++.-|..||
T Consensus 77 eL~Vkv--Gri~-~eie~e~~~~e~ie~ic~e~lPf~y~----v~vG~F~r~kpTVTDy 128 (165)
T COG4055 77 ELKVKV--GRII-LEIEDEDETMEKIEEICDEMLPFGYE----VRVGKFTRRKPTVTDY 128 (165)
T ss_pred EEEEEe--eEEE-EEecCcHhHHHHHHHHHHHhCCCcee----eeeeeeeccCCcchhh
Confidence 344553 6655 7887775 888887666665544433 4689999999999887
No 167
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=63.47 E-value=14 Score=21.26 Aligned_cols=43 Identities=16% Similarity=0.092 Sum_probs=33.3
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCC---ccEEE-EEcceEec
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRW---EKIVL-KKWYTIFK 52 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~---~~QrL-if~Gk~L~ 52 (73)
+|+.+.+.+|..+++.=+-++...+.|.|+ ..+++ -++|..+.
T Consensus 8 ng~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~ 54 (91)
T cd05484 8 NGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLS 54 (91)
T ss_pred CCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEee
Confidence 799999999999999988888888888663 33455 55776654
No 168
>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=63.22 E-value=31 Score=20.76 Aligned_cols=42 Identities=14% Similarity=0.004 Sum_probs=34.3
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK 46 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif 46 (73)
-.||. .|.+..+.++..-|-+.|+++|+.-..+|++.--+.|
T Consensus 3 fKv~~-~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtY 44 (82)
T cd06397 3 FKSSF-LGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTY 44 (82)
T ss_pred EEEEe-CCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEE
Confidence 34543 7777788877778889999999999999998877766
No 169
>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=63.12 E-value=4.7 Score=22.82 Aligned_cols=20 Identities=35% Similarity=0.411 Sum_probs=15.0
Q ss_pred cHHHHHHHHHHHhCCCCccE
Q psy4181 23 TIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 23 TV~~lK~~I~~~~gip~~~Q 42 (73)
|+.++.+.+++..|+|++..
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 78999999999999998753
No 170
>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=62.92 E-value=25 Score=20.55 Aligned_cols=34 Identities=21% Similarity=0.286 Sum_probs=30.9
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
.++.++.|++..|=.++|+-++..+|+.+..-+-
T Consensus 14 ~n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt 47 (77)
T TIGR03636 14 ENKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNT 47 (77)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEe
Confidence 3689999999999999999999999999988765
No 171
>KOG1364|consensus
Probab=62.84 E-value=8 Score=28.96 Aligned_cols=64 Identities=9% Similarity=0.079 Sum_probs=51.6
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHH-HhCCCCccEEEEEcc---eEec--CCccccccCCCCCCE
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAA-QTGTRWEKIVLKKWY---TIFK--DHIRIMDYEIHDGMN 67 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~-~~gip~~~QrLif~G---k~L~--D~~tL~~y~I~~g~t 67 (73)
|-||.++|+-......++++|..|-.-+.- ..|-+-+.-.|+++= |-|. -+.|+.++||.+-.+
T Consensus 280 i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 280 IQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred EEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 779999999888888999999998875444 468887777888876 5553 477999999998765
No 172
>KOG4842|consensus
Probab=62.79 E-value=0.78 Score=33.07 Aligned_cols=57 Identities=14% Similarity=0.137 Sum_probs=44.0
Q ss_pred CEEEEEEcC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcccc
Q psy4181 1 MIEITCNDR-LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIM 58 (73)
Q Consensus 1 ~~~i~vk~~-~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~ 58 (73)
|+.|.++.. .|..+.++++.+++|.+.+..++...++.+.--+|++.+ .|++...|.
T Consensus 1 ~~~i~~~~~~~gn~i~ls~~~~~ri~D~~~~l~K~~~vss~~~kll~~~-llk~iahl~ 58 (278)
T KOG4842|consen 1 MIAIKTEGIKSGNAIYLSMAGSQRIPDKNPHLQKVAVVSSKPNKLLALN-LLKEIAHLV 58 (278)
T ss_pred CccEEEEEEecCcEEEEEeccccccCCCCcccceeeeeccchHHHHhhh-hhhhhhhhh
Confidence 455555444 689999999999999999999999999999998888765 344443333
No 173
>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=61.99 E-value=28 Score=21.29 Aligned_cols=40 Identities=18% Similarity=0.025 Sum_probs=30.8
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHh-CCCCccEEEE----EcceEe
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQT-GTRWEKIVLK----KWYTIF 51 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~-gip~~~QrLi----f~Gk~L 51 (73)
...++...+.++..++++++++.. .++.+++.++ |+|.+-
T Consensus 29 ~i~~i~~~~~~~~~~~~~~l~~~i~~~~~~~~vivltDl~GGSp~ 73 (116)
T TIGR00824 29 NVGAVPFVPGENAETLQEKYNAALADLDTEEEVLFLVDIFGGSPY 73 (116)
T ss_pred CeEEEEcCCCcCHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCHH
Confidence 467788999999999999998774 6777777774 467663
No 174
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=61.65 E-value=36 Score=21.05 Aligned_cols=37 Identities=14% Similarity=0.004 Sum_probs=29.2
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCC
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~ 39 (73)
-|+|-..+|.+.+|.|.-=.+=.++|.++-.+.|.+.
T Consensus 2 vi~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~ 38 (105)
T PF14847_consen 2 VIRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPE 38 (105)
T ss_dssp EEEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS-
T ss_pred EEEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCcc
Confidence 3677888999999999988899999999999999998
No 175
>PRK06959 putative threonine-phosphate decarboxylase; Provisional
Probab=61.58 E-value=11 Score=26.78 Aligned_cols=30 Identities=23% Similarity=0.100 Sum_probs=24.2
Q ss_pred CCCCcHHHHHHHHHHHhCCCCccEEEEEcce
Q psy4181 19 NPDDTIGDLKKLIAAQTGTRWEKIVLKKWYT 49 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk 49 (73)
.|+.. .+|++.|++..|++..+|.++-+|-
T Consensus 51 Yp~~~-~~L~~~ia~~~~~~~~~~I~i~~Gs 80 (339)
T PRK06959 51 LPEDD-DGLAACAARYYGAPDAAHVLPVAGS 80 (339)
T ss_pred CCCch-HHHHHHHHHHhCCCCcccEEECcCH
Confidence 46666 8999999999999865677777764
No 176
>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=60.99 E-value=28 Score=21.11 Aligned_cols=60 Identities=17% Similarity=0.053 Sum_probs=40.1
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCC-CccEEEEE--cce--EecCCccccccCCC-------CCCEEEEEeC
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTR-WEKIVLKK--WYT--IFKDHIRIMDYEIH-------DGMNLELYYQ 73 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip-~~~QrLif--~Gk--~L~D~~tL~~y~I~-------~g~ti~L~~~ 73 (73)
...++.|.|..|+++|=.++++++++. |+.-.|++ +|. +|.|+. +- ..|+ .-.+-|++||
T Consensus 14 t~KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd~-~P-q~ika~L~~~~~~~~fhfvYr 85 (87)
T cd01776 14 TGKTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPDT-YP-QRIKAELHSRPQPNTFHFVYR 85 (87)
T ss_pred eeeeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCccc-cc-ceechhhccCCCCcceEEEEe
Confidence 456778899999999999999999885 55567754 443 455432 11 1233 2346777775
No 177
>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=60.92 E-value=5.2 Score=22.77 Aligned_cols=17 Identities=6% Similarity=0.157 Sum_probs=11.1
Q ss_pred CccccccCCCCCCEEEE
Q psy4181 54 HIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 54 ~~tL~~y~I~~g~ti~L 70 (73)
.+.|...|+++|+||.+
T Consensus 46 ~~~L~~~G~~~GD~V~I 62 (69)
T PF09269_consen 46 EKALRKAGAKEGDTVRI 62 (69)
T ss_dssp HHHHHTTT--TT-EEEE
T ss_pred HHHHHHcCCCCCCEEEE
Confidence 35688899999999965
No 178
>COG3760 Uncharacterized conserved protein [Function unknown]
Probab=60.68 E-value=15 Score=24.70 Aligned_cols=55 Identities=18% Similarity=0.122 Sum_probs=39.7
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMN 67 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~t 67 (73)
.+|+|+.-|+-+-+.++.. ++-+|| +|.+..|.. ||-|+- .++-++..|+.+|++
T Consensus 47 nLfLkdkK~q~~lv~~~e~-~~vDLk-~ih~~IG~~----RlsFg~----~E~l~E~LGv~pG~V 101 (164)
T COG3760 47 NLFLKDKKDQFFLVTVDED-AVVDLK-SIHETIGAA----RLSFGS----PERLMEYLGVIPGSV 101 (164)
T ss_pred eeEeecCCCCEEEEEeccc-ceecHH-HHHHHhcee----eeecCC----HHHHHHHhCCCcCce
Confidence 5799999998888888776 445776 677777765 888764 244555667888874
No 179
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=60.55 E-value=30 Score=20.58 Aligned_cols=34 Identities=18% Similarity=0.202 Sum_probs=31.1
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
.++.++.|++..|=.++|+-|+..+|+++..-+-
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 4789999999999999999999999999988765
No 180
>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=59.87 E-value=42 Score=21.27 Aligned_cols=37 Identities=11% Similarity=0.120 Sum_probs=30.5
Q ss_pred EEEEEEcCCCC--EEEEEeCCCCcHHHHHHHHHHHhCCC
Q psy4181 2 IEITCNDRLGK--KVRVKCNPDDTIGDLKKLIAAQTGTR 38 (73)
Q Consensus 2 ~~i~vk~~~G~--~~~v~v~~~~TV~~lK~~I~~~~gip 38 (73)
|..|..+..++ +..|.|++++|+.++-+.+-+++-++
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 67788886664 45678999999999999999999855
No 181
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=59.69 E-value=34 Score=20.16 Aligned_cols=55 Identities=15% Similarity=0.033 Sum_probs=39.6
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEc--ce---EecCCcccc
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKW--YT---IFKDHIRIM 58 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~--Gk---~L~D~~tL~ 58 (73)
+.+|. ++..-..|+|.|..|+.+.-.|.-..-|+.|+.....-. |+ ..-|++|..
T Consensus 2 ir~~L--PnqQrT~V~vrpG~tl~daL~KaLk~R~l~pe~C~V~~~~~~~~~~~~i~W~td~ 61 (74)
T cd01816 2 IRVFL--PNKQRTVVNVRPGMTLRDALAKALKVRGLQPECCAVFRLGDGSSKKLRIDWDTDI 61 (74)
T ss_pred eeEEC--CCCCeEEEEecCCcCHHHHHHHHHHHcCCChhHeEEEEcCCCcccccccchhhhh
Confidence 44454 565666799999999999999999999999977655433 42 344555543
No 182
>PTZ00490 Ferredoxin superfamily; Provisional
Probab=59.66 E-value=25 Score=22.89 Aligned_cols=26 Identities=12% Similarity=0.193 Sum_probs=23.3
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHH
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDL 27 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~l 27 (73)
+.|+|.+.+|+..++++.+..|+.+.
T Consensus 36 v~I~~~~~dG~~~~v~~~~G~sLLea 61 (143)
T PTZ00490 36 VKVCVKKRDGTHCDVEVPVGMSLMHA 61 (143)
T ss_pred EEEEEEcCCCCEEEEEECCCccHHHH
Confidence 57899999999999999999998875
No 183
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=59.44 E-value=4.5 Score=23.05 Aligned_cols=17 Identities=12% Similarity=0.163 Sum_probs=14.7
Q ss_pred CccccccCCCCCCEEEE
Q psy4181 54 HIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 54 ~~tL~~y~I~~g~ti~L 70 (73)
.+.|...|+++|+||.+
T Consensus 46 ~~~L~~~G~~~GD~V~I 62 (69)
T TIGR03595 46 EDALRKAGAKDGDTVRI 62 (69)
T ss_pred HHHHHHcCCCCCCEEEE
Confidence 56789999999999975
No 184
>COG0274 DeoC Deoxyribose-phosphate aldolase [Nucleotide transport and metabolism]
Probab=56.46 E-value=14 Score=26.01 Aligned_cols=25 Identities=16% Similarity=0.143 Sum_probs=20.1
Q ss_pred EEEcCCCCEEEEEeCCCCcHHHHHHHHHHH
Q psy4181 5 TCNDRLGKKVRVKCNPDDTIGDLKKLIAAQ 34 (73)
Q Consensus 5 ~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~ 34 (73)
||||+||.. .-..|+++++-+-+.-
T Consensus 156 FVKTSTGf~-----~~gAT~edv~lM~~~v 180 (228)
T COG0274 156 FVKTSTGFS-----AGGATVEDVKLMKETV 180 (228)
T ss_pred EEEcCCCCC-----CCCCCHHHHHHHHHHh
Confidence 899999988 6788999988765543
No 185
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=56.34 E-value=39 Score=20.65 Aligned_cols=60 Identities=15% Similarity=0.248 Sum_probs=42.7
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE-EEcceE---------ecCCccccccCCCCCCEEEE
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL-KKWYTI---------FKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL-if~Gk~---------L~D~~tL~~y~I~~g~ti~L 70 (73)
.++.++.|++.+|=.++|+-+++.+|+-++.-.- +.-|+. +..+..-+.--+..|+.|.+
T Consensus 21 ~nk~vF~V~~~AtK~~IK~AvE~lF~VkV~kVNTl~~k~k~KR~~~k~~G~~~~~kka~V~l~~G~~i~~ 90 (94)
T COG0089 21 ENKYVFIVDPDATKPEIKAAVEELFGVKVEKVNTLNTKGKTKRAGVKRIGLRKDYKKAYVTLKEGQSIDF 90 (94)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEeCCcceEEeccccccCcccceeEEEccCCCEEee
Confidence 4788999999999999999999999999988754 444321 33444444445566665543
No 186
>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=56.04 E-value=32 Score=18.69 Aligned_cols=59 Identities=19% Similarity=0.115 Sum_probs=37.2
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|.|.++.|+...+ +...|+.++=..|....+-.. -.-..+|+...= +|-+++|++|.+.
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 IRVYLPDGSIKEL--PEGSTVLDVAYSIHSSLAKRA--VAAKVNGQLVDL-----DHPLEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEEE--ETTBBHHHHHHHHSHHHHHCE--EEEEETTEEEET-----TSBB-SSEEEEEE
T ss_pred CEEECCCCCeeeC--CCCCCHHHHHHHHCHHHHhhe--eEEEEcCEECCC-----CCCcCCCCEEEEE
Confidence 4566688998875 577889999888776543211 122457755432 3457888888763
No 187
>PF04584 Pox_A28: Poxvirus A28 family; InterPro: IPR007664 The poxvirus A28 protein is expressed at late times during the virus replication cycle and is a membrane component of the intracellular mature virion. Repression of A28 inhibits cell-to-cell spread, suggesting that all poxviruses use a common A28-dependent mechanism of cell penetration []. An N-terminal hydrophobic sequence, present in all poxvirus A28 orthologues, anchors the protein in the virion surface membrane so that most of it is exposed to the cytoplasm [].; GO: 0016032 viral reproduction, 0019031 viral envelope
Probab=56.00 E-value=6 Score=25.97 Aligned_cols=26 Identities=19% Similarity=0.332 Sum_probs=20.7
Q ss_pred EEEcCCCCEEEEEe-CCCCcHHHHHHH
Q psy4181 5 TCNDRLGKKVRVKC-NPDDTIGDLKKL 30 (73)
Q Consensus 5 ~vk~~~G~~~~v~v-~~~~TV~~lK~~ 30 (73)
+.|+.+|-.+.-.| +|+|+|-++|+|
T Consensus 45 Yskt~g~~~iDr~V~DPND~~~DvkqK 71 (140)
T PF04584_consen 45 YSKTIGGNYIDRRVFDPNDEVYDVKQK 71 (140)
T ss_pred EeecCCCccccceeeCCCCcccChhhc
Confidence 46788886666655 899999999987
No 188
>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=55.69 E-value=40 Score=19.68 Aligned_cols=26 Identities=15% Similarity=0.170 Sum_probs=22.4
Q ss_pred CCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 19 NPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
....++.+|++.++...|++..+...
T Consensus 47 ~~G~~i~~L~~~L~k~~~~~~~~i~v 72 (81)
T cd02413 47 EKGRRIRELTSLVQKRFNFPEGSVEL 72 (81)
T ss_pred CCchhHHHHHHHHHHHhCCCCCeEEE
Confidence 35688999999999999998887766
No 189
>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=54.80 E-value=9.3 Score=20.91 Aligned_cols=33 Identities=9% Similarity=0.161 Sum_probs=23.6
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHH
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQ 34 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~ 34 (73)
|-|.+.+.+|..+.++.+.-.--.-+|.+++..
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~~ 33 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNMLEDL 33 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHHHHCT
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHHHhhh
Confidence 467889999999999965544446667777653
No 190
>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=54.74 E-value=43 Score=19.84 Aligned_cols=56 Identities=5% Similarity=0.005 Sum_probs=40.0
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceE-e-cCCcccc----ccCCCCCCEEEEEe
Q psy4181 15 RVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTI-F-KDHIRIM----DYEIHDGMNLELYY 72 (73)
Q Consensus 15 ~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~-L-~D~~tL~----~y~I~~g~ti~L~~ 72 (73)
.+-|+++.|++++..-|..+.++++++--..|-+.. + ..+.++. .| .++.-+.+.|
T Consensus 19 kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~--~~dGfLyi~Y 80 (87)
T cd01612 19 VFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF--GTNGELIVSY 80 (87)
T ss_pred EEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc--CCCCEEEEEE
Confidence 456899999999999999999999887666665543 2 3345554 23 4566677766
No 191
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=54.21 E-value=6.5 Score=24.38 Aligned_cols=19 Identities=16% Similarity=-0.017 Sum_probs=16.8
Q ss_pred EEEEcceEecCCccccccC
Q psy4181 43 VLKKWYTIFKDHIRIMDYE 61 (73)
Q Consensus 43 rLif~Gk~L~D~~tL~~y~ 61 (73)
.|-|+||.|.++.+|.+|-
T Consensus 3 ~LW~aGK~l~~~k~l~dy~ 21 (98)
T PF11069_consen 3 QLWWAGKELQRGKKLSDYI 21 (98)
T ss_pred eEEeccccccCCCcHHHhc
Confidence 4679999999999999993
No 192
>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=54.06 E-value=31 Score=20.37 Aligned_cols=26 Identities=19% Similarity=0.299 Sum_probs=20.1
Q ss_pred CCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 19 NPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
.|+-+-.++|++|++..|++++...+
T Consensus 10 ~~Tpsr~ei~~klA~~~~~~~~~ivv 35 (84)
T PF01282_consen 10 KPTPSRKEIREKLAAMLNVDPDLIVV 35 (84)
T ss_dssp SSS--HHHHHHHHHHHHTSTGCCEEE
T ss_pred CCCCCHHHHHHHHHHHhCCCCCeEEE
Confidence 36777889999999999998876655
No 193
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=53.45 E-value=42 Score=20.17 Aligned_cols=36 Identities=8% Similarity=0.101 Sum_probs=30.0
Q ss_pred EEcC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 6 CNDR-LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 6 vk~~-~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
+|.. .|......++++.|-.+|.+++.+....+.++
T Consensus 3 ~K~~y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q 39 (83)
T cd06404 3 VKAAYNGDIMITSIDPSISLEELCNEVRDMCRFHNDQ 39 (83)
T ss_pred EEEEecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCC
Confidence 3443 77888889999999999999999999887753
No 194
>TIGR01916 F420_cofE F420-0:gamma-glutamyl ligase. This model represents an enzyme of coenzyme F(420) biosynthesis, as catalyzed by MJ0768 of Methanococcus jannaschii and by the N-terminal half of FbiB of Mycobacterium bovis strain BCG. Note that only two glutamates are ligated in M. jannaschii, but five to six in the Mycobacterium lineage. In M. jannaschii, CofE catalyzes the GTP-dependent addition of two L-glutamates.
Probab=53.26 E-value=19 Score=25.53 Aligned_cols=46 Identities=15% Similarity=0.182 Sum_probs=36.9
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE--cceEecCCcc
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK--WYTIFKDHIR 56 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif--~Gk~L~D~~t 56 (73)
..|....+..+|+.+-..|++.|.++.|..+. .+|. .||++....|
T Consensus 113 ~~g~v~LLP~DPd~sA~~ir~~l~~~~g~~v~--VIItDt~gr~~R~G~~ 160 (243)
T TIGR01916 113 GNGELLLLPEDPDASAEKIRRGLRELTGVDVG--VIITDTNGRPFREGQV 160 (243)
T ss_pred CCCeEEecCCChHHHHHHHHHHHHHHHCCCEE--EEEECCCCCccccCCC
Confidence 34666678899999999999999999999765 5665 6788876554
No 195
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=52.90 E-value=11 Score=20.43 Aligned_cols=20 Identities=25% Similarity=0.366 Sum_probs=17.4
Q ss_pred cHHHHHHHHHHHhCCCCccE
Q psy4181 23 TIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 23 TV~~lK~~I~~~~gip~~~Q 42 (73)
|+.++.+.+++.+|+++++.
T Consensus 1 ~~~~I~~~Va~~~~i~~~~i 20 (60)
T smart00760 1 TIEEIIEAVAEYFGVKPEDL 20 (60)
T ss_pred CHHHHHHHHHHHhCCCHHHH
Confidence 57889999999999998873
No 196
>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=52.64 E-value=32 Score=20.32 Aligned_cols=34 Identities=15% Similarity=-0.020 Sum_probs=26.5
Q ss_pred CcHHHHHHHHHHHhCCCCccEEEEE--cceEecCCc
Q psy4181 22 DTIGDLKKLIAAQTGTRWEKIVLKK--WYTIFKDHI 55 (73)
Q Consensus 22 ~TV~~lK~~I~~~~gip~~~QrLif--~Gk~L~D~~ 55 (73)
.|..+|+.+..++.+++.+.-+|.- .|-..+|++
T Consensus 21 ~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEe 56 (78)
T PF02017_consen 21 SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEE 56 (78)
T ss_dssp SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCH
T ss_pred CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHH
Confidence 5899999999999999987777754 677776553
No 197
>PF13439 Glyco_transf_4: Glycosyltransferase Family 4; PDB: 2JJM_E 3MBO_C 2GEJ_A 2GEK_A.
Probab=52.02 E-value=19 Score=21.56 Aligned_cols=27 Identities=19% Similarity=-0.102 Sum_probs=15.8
Q ss_pred HHHHHHHHHHhCCCCccEEEEEcceEec
Q psy4181 25 GDLKKLIAAQTGTRWEKIVLKKWYTIFK 52 (73)
Q Consensus 25 ~~lK~~I~~~~gip~~~QrLif~Gk~L~ 52 (73)
..+|+.+.+ .|+|+++-..|++|-.++
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 578888999 999999999999996554
No 198
>CHL00030 rpl23 ribosomal protein L23
Probab=51.31 E-value=36 Score=20.62 Aligned_cols=40 Identities=10% Similarity=0.028 Sum_probs=33.3
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE-EEcce
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL-KKWYT 49 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL-if~Gk 49 (73)
..+..++.|+++.|=.++|+-|+..+|+.+..-+- +..|+
T Consensus 18 e~n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~~~~k 58 (93)
T CHL00030 18 EKNQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHRLPRK 58 (93)
T ss_pred HCCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEcCCC
Confidence 35789999999999999999999999999887754 44444
No 199
>KOG3076|consensus
Probab=50.10 E-value=22 Score=24.76 Aligned_cols=22 Identities=23% Similarity=0.329 Sum_probs=19.0
Q ss_pred EEEeCCCCcHHHHHHHHHHHhC
Q psy4181 15 RVKCNPDDTIGDLKKLIAAQTG 36 (73)
Q Consensus 15 ~v~v~~~~TV~~lK~~I~~~~g 36 (73)
.+.|.++||+++|-+++.+.|.
T Consensus 161 ~v~V~~~Dt~esl~qrv~~aEH 182 (206)
T KOG3076|consen 161 AVPVIPGDTLESLEQRVHDAEH 182 (206)
T ss_pred eeeecCCCCHHHHHHHHHHHHH
Confidence 4578899999999999998874
No 200
>KOG2561|consensus
Probab=49.89 E-value=18 Score=28.42 Aligned_cols=50 Identities=18% Similarity=0.133 Sum_probs=41.8
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCC
Q psy4181 15 RVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHD 64 (73)
Q Consensus 15 ~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~ 64 (73)
.++++-.-|=.++.+.|+++.||+-..-..|-+||+|.-..||++=|++.
T Consensus 53 l~k~sL~i~Gselqa~iakklgi~enhvKci~~~Kils~~ktlaeQglk~ 102 (568)
T KOG2561|consen 53 LKKCSLHITGSELQALIAKKLGIKENHVKCIINGKILSCRKTLAEQGLKI 102 (568)
T ss_pred hhhcccccccHHHHHHHHHHcCCchhhhheeeccceeecccchhhhhhhh
Confidence 34555555667899999999999999888899999999999999887653
No 201
>cd05864 Ig2_VEGFR-2 Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 2 (VEGFR-2). Ig2_VEGF-2: Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 2 (VEGFR-2). The VEGFRs have an extracellular component with seven Ig-like domains, a transmembrane segment, and an intracellular tyrosine kinase domain interrupted by a kinase-insert domain. VEGFRs bind VEGFs with high affinity at the Ig-like domains. VEGFR-2 (KDR/Flk-1) is a major mediator of the mitogenic, angiogenic and microvascular permeability-enhancing effects of VEGF-A; VEGF-A is important to the growth and maintenance of vascular endothelial cells and to the development of new blood- and lymphatic-vessels in physiological and pathological states. VEGF-A also interacts with VEGFR-1, which it binds more strongly than VEGFR-2. VEGFR-2 and -1 may mediate a chemotactic and a survival signal in hematopoietic stem cells or leukemia cells.
Probab=48.60 E-value=28 Score=19.21 Aligned_cols=21 Identities=10% Similarity=-0.165 Sum_probs=17.8
Q ss_pred HhCCCCccEEEEEcceEecCC
Q psy4181 34 QTGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 34 ~~gip~~~QrLif~Gk~L~D~ 54 (73)
..|.|+-.-.|.++|++|.+.
T Consensus 7 v~G~P~P~v~W~k~g~~l~~~ 27 (70)
T cd05864 7 YYGYPPPEVKWYKNGQLIVLN 27 (70)
T ss_pred EEEeCCCEEEEEECCEECCCC
Confidence 368899999999999999754
No 202
>PF07984 DUF1693: Domain of unknown function (DUF1693) ; InterPro: IPR012937 This domain occurs in many hypothetical proteins. It also occurs in some prion-like proteins.
Probab=48.28 E-value=18 Score=26.74 Aligned_cols=35 Identities=14% Similarity=0.212 Sum_probs=31.7
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLK 45 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLi 45 (73)
.|+--+++|.|.+-|..|+++++++ ||++..-||-
T Consensus 22 rgnfPTl~v~l~~LI~~Vr~~L~~~-GI~VkdVRLN 56 (320)
T PF07984_consen 22 RGNFPTLEVRLKDLIQVVRDRLEER-GIPVKDVRLN 56 (320)
T ss_pred CCCceeEEeeHHHHHHHHHHHHHHc-CCCccceEEe
Confidence 4677789999999999999999988 9999999994
No 203
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=47.68 E-value=29 Score=24.76 Aligned_cols=22 Identities=9% Similarity=-0.156 Sum_probs=19.4
Q ss_pred EEEEeCCCCcHHHHHHHHHHHh
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQT 35 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~ 35 (73)
..+.|.|+||.++|.+++.+.|
T Consensus 238 ~~v~I~~~dt~~~L~~r~~~~E 259 (286)
T PRK13011 238 DVERVDHAYSPEDLVAKGRDVE 259 (286)
T ss_pred EEEEcCCCCCHHHHHHHHHHHH
Confidence 4578999999999999998876
No 204
>KOG2660|consensus
Probab=47.41 E-value=16 Score=27.09 Aligned_cols=44 Identities=18% Similarity=0.289 Sum_probs=36.3
Q ss_pred EEeCCCCcHHHHHHHHHHHhC-CC-CccEEEEEcceEecCCccccc
Q psy4181 16 VKCNPDDTIGDLKKLIAAQTG-TR-WEKIVLKKWYTIFKDHIRIMD 59 (73)
Q Consensus 16 v~v~~~~TV~~lK~~I~~~~g-ip-~~~QrLif~Gk~L~D~~tL~~ 59 (73)
+.++...||..||.-+..+.+ .+ .-+.-++|++..|.+..||.+
T Consensus 168 vrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~ 213 (331)
T KOG2660|consen 168 LRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKD 213 (331)
T ss_pred EeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhh
Confidence 577888999999999999999 44 444467889999999999873
No 205
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=47.15 E-value=25 Score=24.37 Aligned_cols=35 Identities=20% Similarity=0.019 Sum_probs=25.3
Q ss_pred EEEeCCCCcHHHHHHHHHHHh-CCCCccEEEEEcce
Q psy4181 15 RVKCNPDDTIGDLKKLIAAQT-GTRWEKIVLKKWYT 49 (73)
Q Consensus 15 ~v~v~~~~TV~~lK~~I~~~~-gip~~~QrLif~Gk 49 (73)
.++|.+.||.+.|.++|.+.| -+-|.--+++..|+
T Consensus 153 ~Vpv~~~Dt~etl~~RV~~~Eh~lyp~~v~~~~~g~ 188 (200)
T COG0299 153 AVPVLPGDTAETLEARVLEQEHRLYPLAVKLLAEGR 188 (200)
T ss_pred eeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCc
Confidence 578899999999999999887 34444444444443
No 206
>cd05748 Ig_Titin_like Immunoglobulin (Ig)-like domain of titin and similar proteins. Ig_Titin_like: immunoglobulin (Ig)-like domain found in titin-like proteins. Titin (also called connectin) is a fibrous sarcomeric protein specifically found in vertebrate striated muscle. Titin is gigantic, depending on isoform composition it ranges from 2970 to 3700 kDa, and is of a length that spans half a sarcomere. Titin largely consists of multiple repeats of Ig-like and fibronectin type 3 (FN-III)-like domains. Titin connects the ends of myosin thick filaments to Z disks and extends along the thick filament to the H zone. It appears to function similarly to an elastic band, keeping the myosin filaments centered in the sarcomere during muscle contraction or stretching. Within the sarcomere, titin is also attached to or is associated with myosin binding protein C (MyBP-C). MyBP-C appears to contribute to the generation of passive tension by titin, and similar to titin has repeated Ig-like and FN-
Probab=47.09 E-value=36 Score=18.24 Aligned_cols=21 Identities=14% Similarity=-0.057 Sum_probs=16.6
Q ss_pred HhCCCCccEEEEEcceEecCC
Q psy4181 34 QTGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 34 ~~gip~~~QrLif~Gk~L~D~ 54 (73)
..|.|+-.-.|..+|+.|.+.
T Consensus 8 ~~G~P~p~v~W~k~g~~l~~~ 28 (74)
T cd05748 8 ISGRPTPTVTWSKDGKPLKLS 28 (74)
T ss_pred EeeeCCCeEEEEECCEEcCCC
Confidence 358888889999999998544
No 207
>PHA02090 hypothetical protein
Probab=46.92 E-value=2.2 Score=24.90 Aligned_cols=40 Identities=8% Similarity=0.027 Sum_probs=27.8
Q ss_pred EEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEE
Q psy4181 6 CNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLK 45 (73)
Q Consensus 6 vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLi 45 (73)
.|+..|.-..+++-|+-+-+.=-.-+--..|||.+.||.+
T Consensus 32 lksk~g~lrv~e~m~dg~~ktna~flgy~igip~~eq~~f 71 (79)
T PHA02090 32 LKSKEGDLRVIEVMEDGGWKTNAEFLGYAIGIPVNEQKFF 71 (79)
T ss_pred hhccCCceEEEEeccCCCccccceeeeeeeCccchHHHHH
Confidence 4566787778888887665544344555679999999863
No 208
>PF03610 EIIA-man: PTS system fructose IIA component; InterPro: IPR004701 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. 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 Escherichia 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 IIA and IIB components.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane; PDB: 3GDW_B 2JZN_A 1VSQ_A 2JZO_B 1VRC_A 1PDO_A 3GX1_A 3B48_B 3BED_B 3IPR_C ....
Probab=46.74 E-value=63 Score=19.35 Aligned_cols=35 Identities=20% Similarity=0.170 Sum_probs=29.4
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHh-CCCCccEEEEE
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQT-GTRWEKIVLKK 46 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~-gip~~~QrLif 46 (73)
....+...+..++.++++++++.. .++.++..|++
T Consensus 28 ~i~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~vlil 63 (116)
T PF03610_consen 28 NIEAVDLYPDESIEDFEEKLEEAIEELDEGDGVLIL 63 (116)
T ss_dssp SEEEEEETTTSCHHHHHHHHHHHHHHCCTTSEEEEE
T ss_pred cEEEEECcCCCCHHHHHHHHHHHHHhccCCCcEEEE
Confidence 466788899999999999999886 77778888876
No 209
>cd05730 Ig3_NCAM-1_like Third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM). Ig3_NCAM-1_like: domain similar to the third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM). NCAM plays important roles in the development and regeneration of the central nervous system, in synaptogenesis and neural migration. NCAM mediates cell-cell and cell-substratum recognition and adhesion via homophilic (NCAM-NCAM), and heterophilic (NCAM-non-NCAM), interactions. NCAM is expressed as three major isoforms having different intracellular extensions. The extracellular portion of NCAM has five N-terminal Ig-like domains and two fibronectin type III domains. The double zipper adhesion complex model for NCAM homophilic binding involves Ig1, Ig2, and Ig3. By this model, Ig1,and Ig2 mediate dimerization of NCAM molecules situated on the same cell surface (cis interactions), and Ig3 domains mediate interactions between NCAM molecules expressed on the
Probab=45.12 E-value=56 Score=18.36 Aligned_cols=33 Identities=21% Similarity=0.293 Sum_probs=25.7
Q ss_pred cCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCC
Q psy4181 8 DRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 8 ~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~ 54 (73)
...|.++.+.|..+ |.|+-...|.++|+.+...
T Consensus 15 ~~~G~~v~L~C~~~--------------g~P~p~v~W~k~g~~~~~~ 47 (95)
T cd05730 15 ANLGQSVTLACDAD--------------GFPEPTMTWTKDGEPIESG 47 (95)
T ss_pred EeCCCCEEEEEecc--------------EeCCCEEEEEECCEECcCC
Confidence 34688888887754 7888889999999988654
No 210
>PF09776 Mitoc_L55: Mitochondrial ribosomal protein L55; InterPro: IPR018615 Members of this family are involved in mitochondrial biogenesis and G2/M phase cell cycle progression. They form a component of the mitochondrial ribosome large subunit (39S) which comprises a 16S rRNA and about 50 distinct proteins.
Probab=45.04 E-value=16 Score=23.23 Aligned_cols=11 Identities=27% Similarity=0.697 Sum_probs=9.4
Q ss_pred CCCCEEEEEeC
Q psy4181 63 HDGMNLELYYQ 73 (73)
Q Consensus 63 ~~g~ti~L~~~ 73 (73)
+||||||+-|.
T Consensus 52 pDGSTI~Iry~ 62 (116)
T PF09776_consen 52 PDGSTINIRYH 62 (116)
T ss_pred cCCCEEEEecc
Confidence 79999999874
No 211
>cd05762 Ig8_MLCK Eighth immunoglobulin (Ig)-like domain of human myosin light-chain kinase (MLCK). Ig8_MLCK: the eighth immunoglobulin (Ig)-like domain of human myosin light-chain kinase (MLCK). MLCK is a key regulator of different forms of cell motility involving actin and myosin II. Agonist stimulation of smooth muscle cells increases cytosolic Ca2+, which binds calmodulin. This Ca2+-calmodulin complex in turn binds to and activates MLCK. Activated MLCK leads to the phosphorylation of the 20 kDa myosin regulatory light chain (RLC) of myosin II and the stimulation of actin-activated myosin MgATPase activity. MLCK is widely present in vertebrate tissues; it phosphorylates the 20 kDa RLC of both smooth and nonmuscle myosin II. Phosphorylation leads to the activation of the myosin motor domain and altered structural properties of myosin II. In smooth muscle MLCK it is involved in initiating contraction. In nonmuscle cells, MLCK may participate in cell division and cell motility; it has
Probab=44.77 E-value=63 Score=18.79 Aligned_cols=32 Identities=19% Similarity=0.248 Sum_probs=24.8
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCc
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHI 55 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~ 55 (73)
.|..+.+.|..+ |-|+-.-.|..+|+.|.+..
T Consensus 14 ~G~~v~l~C~~~--------------G~p~p~v~W~kdg~~l~~~~ 45 (98)
T cd05762 14 AGESVELFCKVT--------------GTQPITCTWMKFRKQIQEGE 45 (98)
T ss_pred CCCEEEEEEEEc--------------ccCCCceEEEECCEEecCCC
Confidence 577777777643 77888899999999997654
No 212
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=44.65 E-value=62 Score=18.72 Aligned_cols=49 Identities=14% Similarity=0.274 Sum_probs=30.4
Q ss_pred CCCCcHHHHHHHHHHHhC---CCCccEE-EEE-cceEecCCccccccCCCCCCEEEEE
Q psy4181 19 NPDDTIGDLKKLIAAQTG---TRWEKIV-LKK-WYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~g---ip~~~Qr-Lif-~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
...+|+.+|.+++.++.. .--..++ +.. +...+.+.. +.+++|++|-++
T Consensus 25 ~~~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~~----t~L~dGDeVa~~ 78 (84)
T COG1977 25 TVGATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGLD----TPLKDGDEVAFF 78 (84)
T ss_pred cHHHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeecccc----ccCCCCCEEEEe
Confidence 446899999999866654 2222233 222 334555555 369999999764
No 213
>cd00006 PTS_IIA_man PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. IIA subunits receive phosphoryl groups from HPr and transfer them to IIB subunits, which in turn phosphorylate the substrate.
Probab=44.39 E-value=67 Score=19.50 Aligned_cols=40 Identities=18% Similarity=0.012 Sum_probs=29.8
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHH-hCCCCccEEEEE----cceEe
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQ-TGTRWEKIVLKK----WYTIF 51 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~-~gip~~~QrLif----~Gk~L 51 (73)
....+...+.+++.++++++.+. ..++.++..|++ +|.+.
T Consensus 28 ~i~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~viil~Dl~GGSp~ 72 (122)
T cd00006 28 NVEAIDFPPGESPDDLLEKIKAALAELDSGEGVLILTDLFGGSPN 72 (122)
T ss_pred CeEEEEeCCCCCHHHHHHHHHHHHHHhCCCCcEEEEEeCCCCCHH
Confidence 45677889999999999999885 466666666644 67664
No 214
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=43.43 E-value=38 Score=24.17 Aligned_cols=23 Identities=17% Similarity=0.138 Sum_probs=19.8
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhC
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQTG 36 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~g 36 (73)
..+.|.++||.++|.+++.+.|.
T Consensus 233 ~~v~I~~~dt~~~L~~ri~~~E~ 255 (280)
T TIGR00655 233 DVVRVDHTDNVEDLIRAGRDIEK 255 (280)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHH
Confidence 45788999999999999988764
No 215
>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=43.32 E-value=70 Score=18.90 Aligned_cols=44 Identities=9% Similarity=-0.020 Sum_probs=31.2
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE--cceEecCCc
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK--WYTIFKDHI 55 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif--~Gk~L~D~~ 55 (73)
.++...-|.++ |..+|+.|..++.++|...-+|.. .|-.++|++
T Consensus 11 ~r~~k~GV~A~-sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEe 56 (78)
T cd01615 11 DRSRKKGVAAS-SLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEE 56 (78)
T ss_pred CCCeeEEEEcC-CHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHH
Confidence 34444555444 889999999999999766666643 787776654
No 216
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=43.27 E-value=64 Score=19.56 Aligned_cols=34 Identities=18% Similarity=0.103 Sum_probs=28.5
Q ss_pred CC-CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 9 RL-GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 9 ~~-G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
+. |....|.|.+++|+.++.+.+-+++-+.-.-+
T Consensus 9 P~~gs~~~v~VsS~~tt~eVI~~LL~KFkv~~~p~ 43 (87)
T cd01784 9 PAYGSVTNVRINSTMTTPQVLKLLLNKFKIENSAE 43 (87)
T ss_pred CCCCceeEEEEecCCCHHHHHHHHHHhccccCCHH
Confidence 44 88888999999999999999999987764444
No 217
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=42.90 E-value=69 Score=18.76 Aligned_cols=43 Identities=16% Similarity=0.146 Sum_probs=31.2
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEE--EcceEecCCc
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLK--KWYTIFKDHI 55 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLi--f~Gk~L~D~~ 55 (73)
++...-|.++ |..+|+.+..++.++|...-+|. -.|-.++|++
T Consensus 10 r~~k~GV~A~-sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEe 54 (74)
T smart00266 10 RNVRKGVAAS-SLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEE 54 (74)
T ss_pred CCeeEEEEcC-CHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHH
Confidence 3444555443 88999999999999997666653 3788887654
No 218
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=42.61 E-value=93 Score=20.16 Aligned_cols=36 Identities=17% Similarity=0.076 Sum_probs=24.5
Q ss_pred CCEEEEEe----CCCCcHHHHHHHHHHHhC-CCCccEEEEEc
Q psy4181 11 GKKVRVKC----NPDDTIGDLKKLIAAQTG-TRWEKIVLKKW 47 (73)
Q Consensus 11 G~~~~v~v----~~~~TV~~lK~~I~~~~g-ip~~~QrLif~ 47 (73)
-+.+.++| .++-+-.+++++|++..+ .+++. ..+|+
T Consensus 21 RkE~~~~v~Hpg~~TpSr~eirekLA~~~~v~d~~~-Vvv~~ 61 (132)
T PTZ00071 21 RKQFVVEVLHPGKGTVSKKDIKEKLAKQYKVADART-IVLFG 61 (132)
T ss_pred cEEEEEEEEeCCCCCCCHHHHHHHHHHHhCCCCCCE-EEEEc
Confidence 34555665 256677899999999999 46554 44443
No 219
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=42.59 E-value=18 Score=19.27 Aligned_cols=22 Identities=9% Similarity=0.108 Sum_probs=14.5
Q ss_pred CCcHHHHHHHHHHHhCCCCccE
Q psy4181 21 DDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 21 ~~TV~~lK~~I~~~~gip~~~Q 42 (73)
+.|...++++++++.|++...+
T Consensus 20 ~vT~k~vr~~Le~~~~~dL~~~ 41 (54)
T PF08766_consen 20 TVTKKQVREQLEERFGVDLSSR 41 (54)
T ss_dssp G--HHHHHHHHHHH-SS--SHH
T ss_pred HhhHHHHHHHHHHHHCCCcHHH
Confidence 5688999999999999987643
No 220
>PF01191 RNA_pol_Rpb5_C: RNA polymerase Rpb5, C-terminal domain; InterPro: IPR000783 Prokaryotes contain a single DNA-dependent RNA polymerase (RNAP; 2.7.7.6 from EC) that is responsible for the transcription of all genes, while eukaryotes have three classes of RNAPs (I-III) that transcribe different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. Certain subunits of RNAPs, including RPB5 (POLR2E in mammals), are common to all three eukaryotic polymerases. RPB5 plays a role in the transcription activation process. Eukaryotic RPB5 has a bipartite structure consisting of a unique N-terminal region (IPR005571 from INTERPRO), plus a C-terminal region that is structurally homologous to the prokaryotic RPB5 homologue, subunit H (gene rpoH) [, , , ]. This entry represents prokaryotic subunit H and the C-terminal domain of eukaryotic RPB5, which share a two-layer alpha/beta fold, with a core structure of beta/alpha/beta/alpha/beta(2). ; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1EIK_A 2Y0S_Z 1DZF_A 3GTG_E 2VUM_E 3GTP_E 3GTO_E 3S17_E 3S1R_E 1I3Q_E ....
Probab=42.15 E-value=66 Score=18.74 Aligned_cols=39 Identities=13% Similarity=0.069 Sum_probs=24.5
Q ss_pred HHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 28 KKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 28 K~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
|+++-++.++.++|-=. .+.++--...||.+.|+.|...
T Consensus 20 ~~~lL~~y~i~~~qLP~-----I~~~DPv~r~~g~k~GdVvkI~ 58 (74)
T PF01191_consen 20 KKELLKKYNIKPEQLPK-----ILSSDPVARYLGAKPGDVVKII 58 (74)
T ss_dssp HHHHHHHTT--TTCSSE-----EETTSHHHHHTT--TTSEEEEE
T ss_pred HHHHHHHhCCChhhCCc-----ccccChhhhhcCCCCCCEEEEE
Confidence 45667778998877443 3455666678899999999764
No 221
>cd05736 Ig2_Follistatin_like Second immunoglobulin (Ig)-like domain of a follistatin-like molecule encoded by the Mahya gene and similar proteins. Ig2_Follistatin_like: domain similar to the second immunoglobulin (Ig)-like domain found in a follistatin-like molecule encoded by the CNS-related Mahya gene. Mahya genes have been retained in certain Bilaterian branches during evolution. They are conserved in Hymenoptera and Deuterostomes, but are absent from other metazoan species such as fruit fly and nematode. Mahya proteins are secretory, with a follistatin-like domain (Kazal-type serine/threonine protease inhibitor domain and EF-hand calcium-binding domain), two Ig-like domains, and a novel C-terminal domain. Mahya may be involved in learning and memory and in processing of sensory information in Hymenoptera and vertebrates. Follistatin is a secreted, multidomain protein that binds activins with high affinity and antagonizes their signaling.
Probab=41.71 E-value=57 Score=17.51 Aligned_cols=21 Identities=10% Similarity=-0.021 Sum_probs=15.6
Q ss_pred HhCCCCccEEEEEcceEecCC
Q psy4181 34 QTGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 34 ~~gip~~~QrLif~Gk~L~D~ 54 (73)
..|.|+-.-+|..+|+.|...
T Consensus 7 v~g~P~p~v~W~k~~~~l~~~ 27 (76)
T cd05736 7 AEGIPLPRLTWLKNGMDITPK 27 (76)
T ss_pred eeecCCCEEEEEECCEECCCC
Confidence 457788788888888887543
No 222
>PRK13293 F420-0--gamma-glutamyl ligase; Reviewed
Probab=41.60 E-value=31 Score=24.55 Aligned_cols=46 Identities=20% Similarity=0.246 Sum_probs=36.3
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEE--cceEecCCcc
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKK--WYTIFKDHIR 56 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif--~Gk~L~D~~t 56 (73)
..|....+..+|+.|-..|++.|.++.|..+. .+|. .||++....|
T Consensus 114 ~~g~~~LLP~DPd~SA~~ir~~l~~~~g~~v~--VIItDt~gr~~R~G~t 161 (245)
T PRK13293 114 PDGDLLLLPENPDESAERIREGLEELTGKKVG--VIITDTNGRPFRKGQR 161 (245)
T ss_pred CCCeEEecCCCHHHHHHHHHHHHHHHHCCCEE--EEEEcCCCcccccCCc
Confidence 34667778899999999999999999998665 4554 6788876554
No 223
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=41.57 E-value=60 Score=19.22 Aligned_cols=40 Identities=10% Similarity=0.037 Sum_probs=29.7
Q ss_pred HHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 28 KKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 28 K~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
|+.+-++.++.++|-=.| +.++--...||.+.|+.|.+.+
T Consensus 23 ~~~lL~~y~i~~~qLP~I-----~~~DPv~r~~g~k~GdVvkI~R 62 (79)
T PRK09570 23 AKKLLKEYGIKPEQLPKI-----KASDPVVKAIGAKPGDVIKIVR 62 (79)
T ss_pred HHHHHHHcCCCHHHCCce-----eccChhhhhcCCCCCCEEEEEE
Confidence 467778889998885443 4555666788999999998753
No 224
>PF06487 SAP18: Sin3 associated polypeptide p18 (SAP18); InterPro: IPR010516 This family consists of several eukaryotic Sin3 associated polypeptide p18 (SAP18) sequences. SAP18 is known to be a component of the Sin3-containing complex, which is responsible for the repression of transcription via the modification of histone polypeptides []. SAP18 is also present in the ASAP complex which is thought to be involved in the regulation of splicing during the execution of programmed cell death [].; PDB: 2HDE_A 4A90_A 4A6Q_A 4A8X_C.
Probab=41.53 E-value=38 Score=21.45 Aligned_cols=58 Identities=21% Similarity=0.195 Sum_probs=31.0
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHh------CCCCccEEEEE-----------------cceE-ecCCccccccCCCCCCEE
Q psy4181 13 KVRVKCNPDDTIGDLKKLIAAQT------GTRWEKIVLKK-----------------WYTI-FKDHIRIMDYEIHDGMNL 68 (73)
Q Consensus 13 ~~~v~v~~~~TV~~lK~~I~~~~------gip~~~QrLif-----------------~Gk~-L~D~~tL~~y~I~~g~ti 68 (73)
.+.+=.=+++|..+|=..|.+.. |.-. .-|++| .|+. -.|..||++++.+-|+-|
T Consensus 38 elqIYtW~d~TLrEL~~Lik~~~~~~r~~~tr~-~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGDyi 116 (120)
T PF06487_consen 38 ELQIYTWMDATLRELADLIKDVNPPARRRGTRL-SFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGDYI 116 (120)
T ss_dssp EEEEEE-TT-BHHHHHHHHHHH-HHHHSTT-EE-EEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-EE
T ss_pred eeEEEEcccCCHHHHHHHHHHhCcccCCCCCEE-EEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCCEE
Confidence 34444457888888877776621 1100 123333 2333 257889999999999988
Q ss_pred EEE
Q psy4181 69 ELY 71 (73)
Q Consensus 69 ~L~ 71 (73)
.++
T Consensus 117 dva 119 (120)
T PF06487_consen 117 DVA 119 (120)
T ss_dssp EEE
T ss_pred EEe
Confidence 764
No 225
>KOG3784|consensus
Probab=40.53 E-value=72 Score=24.44 Aligned_cols=34 Identities=21% Similarity=0.339 Sum_probs=31.1
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCC
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTR 38 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip 38 (73)
-|++ ++|..+++++.-++|-..+=+-++++.|.|
T Consensus 111 ~v~l--png~~i~i~~~~s~tt~~vl~~v~~kl~l~ 144 (407)
T KOG3784|consen 111 DVFL--PNGEKITINCLVSDTASLVLKSVCRKLGLP 144 (407)
T ss_pred EEEc--cCCceEEEEEEecccHHHHHHHHHhhcCCc
Confidence 3555 899999999999999999999999999999
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=40.35 E-value=19 Score=23.85 Aligned_cols=43 Identities=9% Similarity=-0.033 Sum_probs=36.8
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcc
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIR 56 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~t 56 (73)
+-+.+-|+..|+.|-.+.+-....+.+.=...++|+.|++++.
T Consensus 17 ilvt~lPt~vVe~liskfe~H~kL~~~~~tVti~G~~Lege~K 59 (149)
T PF10787_consen 17 ILVTSLPTSVVEWLISKFELHPKLDEENTTVTIDGKRLEGEDK 59 (149)
T ss_pred HheecCcHHHHHHHHHHheecccccccceEEEECCeecCchHH
Confidence 3466778999999999999888889888899999999998764
No 227
>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=40.00 E-value=63 Score=20.06 Aligned_cols=25 Identities=20% Similarity=0.258 Sum_probs=21.1
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhC
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTG 36 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~g 36 (73)
.++.++++++.||.++=.+|.+...
T Consensus 19 ~~y~v~~~~~~tVLd~L~~Ik~~~D 43 (110)
T PF13085_consen 19 QEYEVPVEPGMTVLDALNYIKEEQD 43 (110)
T ss_dssp EEEEEEGGSTSBHHHHHHHHHHHT-
T ss_pred EEEEecCCCCCcHHHHHHHHHhccC
Confidence 3678888999999999999999863
No 228
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=39.81 E-value=41 Score=16.40 Aligned_cols=19 Identities=21% Similarity=0.296 Sum_probs=12.5
Q ss_pred CCCcHHHHHHHHHHHhCCCC
Q psy4181 20 PDDTIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 20 ~~~TV~~lK~~I~~~~gip~ 39 (73)
.+.||.+||+.+ .+.|+|.
T Consensus 2 ~~l~v~eLk~~l-~~~gL~~ 20 (35)
T PF02037_consen 2 SKLTVAELKEEL-KERGLST 20 (35)
T ss_dssp TTSHHHHHHHHH-HHTTS-S
T ss_pred CcCcHHHHHHHH-HHCCCCC
Confidence 467899998654 4566665
No 229
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=39.56 E-value=33 Score=21.34 Aligned_cols=29 Identities=14% Similarity=0.201 Sum_probs=23.1
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHH
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLI 31 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I 31 (73)
|+|.|.. .|+.+..+...+.|..+|.+++
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 6777776 5899999999898888887764
No 230
>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=39.30 E-value=97 Score=21.98 Aligned_cols=48 Identities=10% Similarity=-0.035 Sum_probs=28.8
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCC
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEI 62 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I 62 (73)
.+|+...+. |+.|.-=.+ .++.+.. ...||.|.|+.+......-+.||
T Consensus 58 ~~Gr~laLR--pD~T~~iAR-~~a~~~~---~~~Rl~Y~g~VfR~~~~~~Q~Gv 105 (272)
T PRK12294 58 HEHQIYALR--NDFTDQLLR-YYSMYPT---AATKVAYAGLIIRNNEAAVQVGI 105 (272)
T ss_pred CCCCEEEEc--CCCCHHHHH-HHHhcCC---CCceEEEeccEeccCCCcceece
Confidence 478888776 555544333 2333321 22499999999987665444444
No 231
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=39.26 E-value=48 Score=23.79 Aligned_cols=38 Identities=5% Similarity=-0.226 Sum_probs=25.6
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCC-CCccEEEEEcceE
Q psy4181 13 KVRVKCNPDDTIGDLKKLIAAQTGT-RWEKIVLKKWYTI 50 (73)
Q Consensus 13 ~~~v~v~~~~TV~~lK~~I~~~~gi-p~~~QrLif~Gk~ 50 (73)
...+.|.++||.++|.+++.+.|.. =|.--+++..|+.
T Consensus 241 Q~~v~V~~~dt~e~L~~r~~~~E~~~l~~ai~~~~~~~~ 279 (289)
T PRK13010 241 QDVERVDHSYSPEDLVAKGRDVECLTLARAVKAFIEHRV 279 (289)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCE
Confidence 3467899999999999999987642 2333344444443
No 232
>COG3900 Predicted periplasmic protein [Function unknown]
Probab=39.23 E-value=56 Score=23.41 Aligned_cols=29 Identities=21% Similarity=0.174 Sum_probs=23.2
Q ss_pred EeCCCCcHHHHHHHHHHHhCCCCccEEEE
Q psy4181 17 KCNPDDTIGDLKKLIAAQTGTRWEKIVLK 45 (73)
Q Consensus 17 ~v~~~~TV~~lK~~I~~~~gip~~~QrLi 45 (73)
.+++-.||.++-++|.++.|++.--=-|+
T Consensus 120 qieapgTiD~lvdei~~kyG~~lp~adll 148 (262)
T COG3900 120 QIEAPGTIDELVDEIDDKYGITLPGADLL 148 (262)
T ss_pred eccCCCcHHHHHHHHHhhcCCCccchhhh
Confidence 35666799999999999999997655543
No 233
>PF12085 DUF3562: Protein of unknown function (DUF3562); InterPro: IPR021945 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 62 to 84 amino acids in length. This protein has two completely conserved residues (A and Y) that may be functionally important.
Probab=39.17 E-value=28 Score=20.08 Aligned_cols=23 Identities=30% Similarity=0.469 Sum_probs=19.3
Q ss_pred CCcHHHHHHHHHHHhCCCCccEE
Q psy4181 21 DDTIGDLKKLIAAQTGTRWEKIV 43 (73)
Q Consensus 21 ~~TV~~lK~~I~~~~gip~~~Qr 43 (73)
.+++.++-.+|++..|+|.+.-+
T Consensus 3 ~~~~~e~i~~iA~~t~~P~e~V~ 25 (66)
T PF12085_consen 3 QDNVDEVIRSIAEETGTPAETVR 25 (66)
T ss_pred cccHHHHHHHHHHHHCCCHHHHH
Confidence 46788889999999999998643
No 234
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=39.06 E-value=51 Score=21.95 Aligned_cols=53 Identities=13% Similarity=0.176 Sum_probs=32.0
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCC-------CCcc---EEEEEcceEecCCccc
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGT-------RWEK---IVLKKWYTIFKDHIRI 57 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gi-------p~~~---QrLif~Gk~L~D~~tL 57 (73)
||.|.++ ++|+.+.++++|..+..++ +.+..|. ...+ -..+++|+...-.-++
T Consensus 1 ~~~i~lt-vNG~~~~~~~~p~~~Ll~~---LRd~l~ltgtk~GC~~g~CGACtVlvDG~~v~SCl~~ 63 (156)
T COG2080 1 KMPITLT-VNGEPVELDVDPRTPLLDV---LRDELGLTGTKKGCGHGQCGACTVLVDGEAVNSCLTL 63 (156)
T ss_pred CCcEEEE-ECCeEEEEEeCCCChHHHH---HHHhcCCCCcCCCCCCccCCceEEEECCeEehHHHHH
Confidence 3445554 4899999999999888765 3333332 2222 3456677766544443
No 235
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=38.98 E-value=26 Score=18.94 Aligned_cols=23 Identities=13% Similarity=0.177 Sum_probs=16.3
Q ss_pred CCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 19 NPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
+...|+.++-+.++++.+.++++
T Consensus 27 ~g~~t~~ei~~~l~~~y~~~~~~ 49 (68)
T PF05402_consen 27 DGPRTVEEIVDALAEEYDVDPEE 49 (68)
T ss_dssp -SSS-HHHHHHHHHHHTT--HHH
T ss_pred cCCCCHHHHHHHHHHHcCCCHHH
Confidence 44579999999999999998863
No 236
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=38.73 E-value=53 Score=21.45 Aligned_cols=38 Identities=16% Similarity=0.139 Sum_probs=30.1
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTI 50 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~ 50 (73)
-|+.+.++ ...+.++...+++..|..++..+|.|.|..
T Consensus 106 CGki~~i~---~~~l~~~~~~~~~~~gf~i~~~~l~~~GiC 143 (169)
T PRK11639 106 CGAVKEEC---AEGVEDIMHTLAAKMGFALRHNVIEAHGLC 143 (169)
T ss_pred CCCEEEec---ccHHHHHHHHHHHHcCCEEeccEEEEEEEC
Confidence 56776664 345778888899999999999999998854
No 237
>cd01783 DAGK_delta_RA Ubiquitin-like domain of Diacylgylcerol kinase (DAGK). DAGK_delta_RA Diacylgylcerol kinase (DAGK) phosphorylates the second messenger diacylglycerol to phosphatidic acid as part of a protein kinase C pathway. Nine mammalian DAGK isotypes have been identified, which are classified into five subgroups according to their domain architecture and the DAGK-delta and -theta isozymes, which fall into one such group, contain an RA (Ras-associated) domain. DAGKs also contain a conserved catalytic domain (DAGKc), an assesory domain (DAGKa), and an array of conserved motifs that are likely to play a role in lipid-protein and protein-protein interactions in various DAG/PA-dependent signalling pathways.
Probab=38.65 E-value=67 Score=19.75 Aligned_cols=28 Identities=25% Similarity=0.280 Sum_probs=24.7
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
.++.|+.+.|+.++-...-+++|..-++
T Consensus 19 ~sv~V~~~tt~~dvv~eaL~kfGl~~~~ 46 (97)
T cd01783 19 VSIRVNKDTTVQDVILEVLPLFGLQAEC 46 (97)
T ss_pred EEEEecccchHHHHHHHHHHHhCcccCC
Confidence 5788999999999999999999988755
No 238
>PF00111 Fer2: 2Fe-2S iron-sulfur cluster binding domain; InterPro: IPR001041 The ferredoxin protein family are electron carrier proteins with an iron-sulphur cofactor that act in a wide variety of metabolic reactions. Ferredoxins can be divided into several subgroups depending upon the physiological nature of the iron-sulphur cluster(s) and according to sequence similarities. This entry represents members of the 2Fe-2S ferredoxin family that have a general core structure consisting of beta(2)-alpha-beta(2), which includes putidaredoxin and terpredoxin, and adrenodoxin [, , , ]. They are proteins of around one hundred amino acids with four conserved cysteine residues to which the 2Fe-2S cluster is ligated. This conserved region is also found as a domain in various metabolic enzymes and in multidomain proteins, such as aldehyde oxidoreductase (N-terminal), xanthine oxidase (N-terminal), phthalate dioxygenase reductase (C-terminal), succinate dehydrogenase iron-sulphur protein (N-terminal), and methane monooxygenase reductase (N-terminal).; GO: 0009055 electron carrier activity, 0051536 iron-sulfur cluster binding; PDB: 3M9S_C 2FUG_L 3IAS_L 2YBB_3 3IAM_3 3I9V_3 1JQ4_A 1DOX_A 1DOY_A 2KAJ_A ....
Probab=38.61 E-value=35 Score=18.73 Aligned_cols=22 Identities=32% Similarity=0.366 Sum_probs=17.9
Q ss_pred cCCCCEEEEEeCCCCc-HHHHHH
Q psy4181 8 DRLGKKVRVKCNPDDT-IGDLKK 29 (73)
Q Consensus 8 ~~~G~~~~v~v~~~~T-V~~lK~ 29 (73)
+.+|+..++++.+..| +.+.=.
T Consensus 2 ~i~g~~~~~~~~~~~~~ll~~~~ 24 (78)
T PF00111_consen 2 TINGKGVTVEVPPGETLLLDALE 24 (78)
T ss_dssp ETTTEEEEEEEETTSBBHHHHHH
T ss_pred EECCeEEEEEeCCCccHHHHHHH
Confidence 3589999999999999 887643
No 239
>PRK14432 acylphosphatase; Provisional
Probab=38.59 E-value=50 Score=19.68 Aligned_cols=35 Identities=14% Similarity=0.216 Sum_probs=24.6
Q ss_pred EEEcCCCCEEEEEe--CCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 5 TCNDRLGKKVRVKC--NPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 5 ~vk~~~G~~~~v~v--~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
+||...+-++.+.+ .+.+.|.+++..+.+ | |+-.+
T Consensus 33 ~V~N~~dG~Vei~~~~G~~~~v~~f~~~l~~--g-p~~a~ 69 (93)
T PRK14432 33 FVKNLNDGRVEIVAFFNTKEQMKKFEKLLKN--G-NKYSN 69 (93)
T ss_pred EEEECCCCCEEEEEEECCHHHHHHHHHHHHh--C-CCccE
Confidence 57777666666766 478889999987774 6 55433
No 240
>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=38.57 E-value=66 Score=18.76 Aligned_cols=41 Identities=15% Similarity=0.196 Sum_probs=31.8
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE--EEcceEec
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL--KKWYTIFK 52 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL--if~Gk~L~ 52 (73)
+.+++.++...+..++.+-|....+--.+.-.+ +|.|..+.
T Consensus 8 RDiS~~v~~~~~~~~i~~~i~~~~~~~l~~v~l~D~y~~~~l~ 50 (94)
T PF03147_consen 8 RDISFVVPEDVPFADIEEVIRSAGGPLLESVELFDVYRGEKLP 50 (94)
T ss_dssp EEEEEEEETTS-HHHHHHHHHHHHTTTEEEEEEEEEEESTTSG
T ss_pred ccEEEEECCCCCHHHHHHHHHHhCccceeEEEEEEEEcCCCCC
Confidence 467888999999999999999988777777776 67775554
No 241
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=38.54 E-value=48 Score=15.97 Aligned_cols=19 Identities=16% Similarity=0.165 Sum_probs=13.3
Q ss_pred CCCcHHHHHHHHHHHhCCCC
Q psy4181 20 PDDTIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 20 ~~~TV~~lK~~I~~~~gip~ 39 (73)
++.|+.+||+. ....|+|.
T Consensus 2 ~~l~~~~Lk~~-l~~~gl~~ 20 (35)
T smart00513 2 AKLKVSELKDE-LKKRGLST 20 (35)
T ss_pred CcCcHHHHHHH-HHHcCCCC
Confidence 46789999854 55567775
No 242
>TIGR01941 nqrF NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit. This model represents the NqrF subunit of the six-protein, Na(+)-pumping NADH-quinone reductase of a number of marine and pathogenic Gram-negative bacteria. This oxidoreductase complex functions primarily as a sodium ion pump.
Probab=38.22 E-value=62 Score=23.76 Aligned_cols=37 Identities=11% Similarity=0.018 Sum_probs=26.3
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
-+|.|....|...++++.+..|+.+. +.+.|++....
T Consensus 30 ~~v~v~~~~~~~~~~~~~~g~tlL~a----~~~~gi~i~~~ 66 (405)
T TIGR01941 30 GDITIGINDDEEKSITVPAGGKLLNT----LASNGIFISSA 66 (405)
T ss_pred ccEEEEEcCCCceEEEECCCChHHHH----HHHcCCCCccc
Confidence 35666666777788999999999876 44467765443
No 243
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=38.14 E-value=32 Score=20.98 Aligned_cols=52 Identities=6% Similarity=-0.043 Sum_probs=33.8
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecC-CccccccCCC
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKD-HIRIMDYEIH 63 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D-~~tL~~y~I~ 63 (73)
.-+.+......+...+++-+..-..-.++.-.++.+|...++ ...|.++|+.
T Consensus 52 d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~~~~~~~~~~~G~d 104 (122)
T cd02071 52 DVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGIIPPEDYELLKEMGVA 104 (122)
T ss_pred CEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCC
Confidence 344555555667777777665544444447778889887764 6677788854
No 244
>cd04976 Ig2_VEGFR Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor (VEGFR). Ig2_VEGFR: Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor (VEGFR). The VEGFRs have an extracellular component with seven Ig-like domains, a transmembrane segment, and an intracellular tyrosine kinase domain interrupted by a kinase-insert domain. The VEGFR family consists of three members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and VEGFR-3 (Flt-4). VEGFRs bind VEGFs with high affinity at the Ig-like domains. VEGF-A is important to the growth and maintenance of vascular endothelial cells and to the development of new blood- and lymphatic-vessels in physiological and pathological states. VEGFR-2 is a major mediator of the mitogenic, angiogenic and microvascular permeability-enhancing effects of VEGF-A. VEGFR-1 may play an inhibitory part in these processes by binding VEGF and interfering with its interaction with VEGFR-2. VEGFR-1 has a signa
Probab=37.71 E-value=56 Score=17.68 Aligned_cols=21 Identities=10% Similarity=-0.083 Sum_probs=17.0
Q ss_pred HhCCCCccEEEEEcceEecCC
Q psy4181 34 QTGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 34 ~~gip~~~QrLif~Gk~L~D~ 54 (73)
..|.|+-...|..+|+.|.+.
T Consensus 7 v~g~P~p~v~W~k~g~~l~~~ 27 (71)
T cd04976 7 VKAYPPPEIQWYKNGKLISEK 27 (71)
T ss_pred EEEeCCCEEEEEECCEECCCC
Confidence 357888788999999998765
No 245
>PF09631 Sen15: Sen15 protein; InterPro: IPR018593 The Sen15 subunit of the tRNA intron-splicing endonuclease is one of the two structural subunits of this heterotetrameric enzyme. Residues 36-157 of this subunit possess a novel homodimeric fold. Each monomer consists of three alpha-helices and a mixed antiparallel/parallel beta-sheet. Two monomers of Sen15 fold with two monomers of Sen34, one of the two catalytic subunits, to form an alpha2-beta2 tetramer as part of the functional endonuclease assembly []. ; PDB: 2GW6_B.
Probab=37.66 E-value=34 Score=20.55 Aligned_cols=51 Identities=18% Similarity=0.278 Sum_probs=27.5
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCC
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGM 66 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ 66 (73)
+++....+.|.+.+.+-..+-...+.+-.|++-+ ...|+.|+-.|.+.+|-
T Consensus 45 lP~~~~~~ls~~~i~~~f~~l~~~~~~~~ri~LA--iv~~DsTiVYY~i~~Gi 95 (101)
T PF09631_consen 45 LPVPLTEKLSLEQIDEVFDSLPNPSGDPKRILLA--IVDDDSTIVYYKIHDGI 95 (101)
T ss_dssp EEEETT-EEEHHHHHHHHHHHHHHCT---EEEEE--EE-TTS-EEEEEEE---
T ss_pred EeeccCCCcCHHHHHHHHHHhcccCCCCcEEEEE--EEcCCCCEEEEEEeCCc
Confidence 4555667788888876555544444334444332 34688899999998885
No 246
>KOG2013|consensus
Probab=37.39 E-value=19 Score=28.50 Aligned_cols=56 Identities=20% Similarity=0.211 Sum_probs=34.0
Q ss_pred EEEEeCC-CCcHHHHHHHHH-HHhCC----CCccEEEEEcceEecC--CccccccCCCCCCEEEE
Q psy4181 14 VRVKCNP-DDTIGDLKKLIA-AQTGT----RWEKIVLKKWYTIFKD--HIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 14 ~~v~v~~-~~TV~~lK~~I~-~~~gi----p~~~QrLif~Gk~L~D--~~tL~~y~I~~g~ti~L 70 (73)
..+++.. ..|+..|-.+|- .++|. +...++|+|.- -.+| +.||++.||-+|+-+.+
T Consensus 445 ~~l~ln~~~~~~~~L~D~ivk~r~~~~pdvsll~~~Li~~~-d~e~n~~k~lsel~i~ngsli~~ 508 (603)
T KOG2013|consen 445 LVLELNTRKSTLRDLVDKIVKTRLGYLPDVSLLDDDLIDDM-DFEDNLDKTLSELGILNGSLINV 508 (603)
T ss_pred eEEEeccccchHHHHHHHHHHHHhccCcccchhhhhhcccc-cchhhhhhhHHhhCCCCCceEee
Confidence 3344432 446666655432 33444 44456777765 3433 78999999999997765
No 247
>PRK09462 fur ferric uptake regulator; Provisional
Probab=37.38 E-value=78 Score=19.92 Aligned_cols=39 Identities=26% Similarity=0.301 Sum_probs=30.6
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEe
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIF 51 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L 51 (73)
-|+.+.++ ...+..+...+++..|..++..+|.+.|..-
T Consensus 96 Cg~i~~i~---~~~~~~~~~~~~~~~gf~i~~~~l~i~GiC~ 134 (148)
T PRK09462 96 CGKVIEFS---DDSIEARQREIAAKHGIKLTNHSLYLYGHCA 134 (148)
T ss_pred CCCEEEeC---CcHHHHHHHHHHHHcCCEEeeeEEEEEEEcC
Confidence 35666553 3356788889999999999999999999764
No 248
>PF06071 YchF-GTPase_C: Protein of unknown function (DUF933); InterPro: IPR013029 This domain is found at the C terminus of family of conserved hypothetical proteins found in both prokaryotes and eukaryotes. While the function of these proteins is not known, the crystal structure of P44681 from SWISSPROT from Haemophilus influenzae has been determined []. This protein consists of three domains: an N-terminal domain which has a mononucleotide binding fold typical for the P-loop NTPases, a central domain which forms an alpha-helical coiled coil, and this C-terminal domain which is composed of a six-stranded half-barrel curved around an alpha helix. The central domain and this domain are topologically similar to RNA-binding proteins, while the N-terminal region contains the features typical of GTP-dependent molecular switches. The purified protein was capable of binding both double-stranded nucleic acid and GTP. It was suggested, therefore, that this protein might be part of a nucleoprotein complex and could function as a GTP-dependent translation factor.; PDB: 1NI3_A 1JAL_A 2DWQ_B 2DBY_A 2OHF_A.
Probab=37.27 E-value=25 Score=21.10 Aligned_cols=14 Identities=29% Similarity=0.669 Sum_probs=9.5
Q ss_pred ccCCCCCCEEEEEe
Q psy4181 59 DYEIHDGMNLELYY 72 (73)
Q Consensus 59 ~y~I~~g~ti~L~~ 72 (73)
+|-++||+.||.-|
T Consensus 70 ~YivqDGDIi~f~f 83 (84)
T PF06071_consen 70 DYIVQDGDIIHFRF 83 (84)
T ss_dssp T-B--TTEEEEEEE
T ss_pred ceeEeCCCEEEEEc
Confidence 58899999999876
No 249
>cd07857 STKc_MPK1 Catalytic domain of the Serine/Threonine Kinase, Fungal Mitogen-Activated Protein Kinase MPK1. Serine/Threonine Kinases (STKs), Fungal Mitogen-Activated Protein Kinase (MAPK) MPK1 subfamily, catalytic (c) domain. STKs catalyze the transfer of the gamma-phosphoryl group from ATP to serine/threonine residues on protein substrates. The MPK1 subfamily is part of a larger superfamily that includes the catalytic domains of other protein STKs, protein tyrosine kinases, RIO kinases, aminoglycoside phosphotransferase, choline kinase, and phosphoinositide 3-kinase. This subfamily is composed of the MAPKs MPK1 from Saccharomyces cerevisiae, Pmk1 from Schizosaccharomyces pombe, and similar proteins. MAPKs are important mediators of cellular responses to extracellular signals. MPK1 (also called Slt2) and Pmk1 (also called Spm1) are stress-activated MAPKs that regulate the cell wall integrity (CWI) pathway, and are therefore important in the maintainance of cell shape, cell wall co
Probab=37.08 E-value=21 Score=24.58 Aligned_cols=24 Identities=17% Similarity=0.422 Sum_probs=20.8
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHH
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQ 34 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~ 34 (73)
++..++++.+.+|..+||++|.+.
T Consensus 308 ~~~~~~~~~~~~~~~~~~~~~~~~ 331 (332)
T cd07857 308 QKPFDFSFESEDSMEELRDMIIEE 331 (332)
T ss_pred cccccCCccccccHHHHHHHHhhc
Confidence 567788999999999999999763
No 250
>cd04972 Ig_TrkABC_d4 Fourth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB and TrkC. TrkABC_d4: the fourth domain of Trk receptors TrkA, TrkB and TrkC, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors. They are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkA, TrkB, and TrkC share significant sequence homology and domain organization. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrkA, Band C mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. TrkA is recognized by NGF. TrKB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. TrkC is recognized by NT-3. NT-3 is promiscuous as in some cell systems it activates TrkA and TrkB receptors. TrkA is a receptor fo
Probab=36.71 E-value=80 Score=17.66 Aligned_cols=31 Identities=16% Similarity=0.246 Sum_probs=24.4
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCC
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~ 54 (73)
.|..+.+.|..+ |-|+-.-.|..+|..+...
T Consensus 14 ~G~~v~l~C~~~--------------G~P~p~v~W~~~g~~~~~~ 44 (90)
T cd04972 14 EGGTATIRCTAE--------------GSPLPKVEWIIAGLIVIQT 44 (90)
T ss_pred CCCcEEEEEEEE--------------EcCCCeEEEEECCEEccCC
Confidence 577777777654 8899999999999988643
No 251
>PRK05283 deoxyribose-phosphate aldolase; Provisional
Probab=36.59 E-value=53 Score=23.42 Aligned_cols=24 Identities=13% Similarity=0.177 Sum_probs=18.5
Q ss_pred EEEcCCCCEEEEEeCCCCcHHHHHHHHHH
Q psy4181 5 TCNDRLGKKVRVKCNPDDTIGDLKKLIAA 33 (73)
Q Consensus 5 ~vk~~~G~~~~v~v~~~~TV~~lK~~I~~ 33 (73)
||||+||.. .+..|+++++-+.+.
T Consensus 163 FVKTSTGf~-----~~gAt~edv~lm~~~ 186 (257)
T PRK05283 163 FIKTSTGKV-----PVNATLEAARIMLEV 186 (257)
T ss_pred EEEcCCCCC-----CCCCCHHHHHHHHHH
Confidence 899999974 366888888776555
No 252
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=36.42 E-value=1e+02 Score=20.57 Aligned_cols=40 Identities=10% Similarity=-0.040 Sum_probs=33.9
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE-EEcce
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL-KKWYT 49 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL-if~Gk 49 (73)
..+.+++.|++..|=-++|.-|+..+|+.+..-+- +..|+
T Consensus 21 e~N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~~~~K 61 (158)
T PRK12280 21 SKNVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFNVDKK 61 (158)
T ss_pred hCCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEecCCc
Confidence 34789999999999999999999999999988755 44553
No 253
>PF13579 Glyco_trans_4_4: Glycosyl transferase 4-like domain; PDB: 3C4Q_B 3C4V_A 3C48_B 1Z2T_A.
Probab=36.03 E-value=41 Score=19.64 Aligned_cols=23 Identities=9% Similarity=0.095 Sum_probs=12.4
Q ss_pred HHHHHHHHHHhCCCCccEEEEEcc
Q psy4181 25 GDLKKLIAAQTGTRWEKIVLKKWY 48 (73)
Q Consensus 25 ~~lK~~I~~~~gip~~~QrLif~G 48 (73)
...++.+.+ .|+|+++.+.+.+|
T Consensus 138 ~~~~~~l~~-~g~~~~ri~vipnG 160 (160)
T PF13579_consen 138 EAMRRYLRR-YGVPPDRIHVIPNG 160 (160)
T ss_dssp HHHHHHHHH-H---GGGEEE----
T ss_pred HHHHHHHHH-hCCCCCcEEEeCcC
Confidence 456667777 89999999998887
No 254
>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=35.67 E-value=44 Score=20.41 Aligned_cols=30 Identities=30% Similarity=0.372 Sum_probs=17.5
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHH
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIA 32 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~ 32 (73)
|.-|.+ .+|.++.|+|.-+.-+..-|.-|+
T Consensus 37 m~iitf--~ngatfqvevpgsqhi~sqkk~ie 66 (102)
T PF01376_consen 37 MVIITF--KNGATFQVEVPGSQHIDSQKKAIE 66 (102)
T ss_dssp EEEEEE--TTS-EEEE--SSTTSTTTHHHHHH
T ss_pred EEEEEe--cCCcEEEEecCCccchhhhHHHHH
Confidence 334444 479999999988877665555444
No 255
>cd04978 Ig4_L1-NrCAM_like Fourth immunoglobulin (Ig)-like domain of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule), and NrCAM (Ng-CAM-related). Ig4_L1-NrCAM_like: fourth immunoglobulin (Ig)-like domain of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule), and NrCAM (Ng-CAM-related). These proteins belong to the L1 subfamily of cell adhesion molecules (CAMs) and are comprised of an extracellular region having six Ig-like domains and five fibronectin type III domains, a transmembrane region and an intracellular domain. These molecules are primarily expressed in the nervous system. L1 is associated with an X-linked recessive disorder, X-linked hydrocephalus, MASA syndrome, or spastic paraplegia type 1, that involves abnormalities of axonal growth.
Probab=35.19 E-value=74 Score=16.84 Aligned_cols=19 Identities=11% Similarity=-0.020 Sum_probs=15.1
Q ss_pred CCCCccEEEEEcceEecCC
Q psy4181 36 GTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 36 gip~~~QrLif~Gk~L~D~ 54 (73)
|-|.-...|.++|+.+.+.
T Consensus 12 g~P~p~i~W~~~g~~~~~~ 30 (76)
T cd04978 12 GIPQPTITWRLNGVPIEEL 30 (76)
T ss_pred eeCCCEEEEEECCEECCCC
Confidence 6777778999999988654
No 256
>cd05868 Ig4_NrCAM Fourth immunoglobulin (Ig)-like domain of NrCAM (NgCAM-related cell adhesion molecule). Ig4_ NrCAM: fourth immunoglobulin (Ig)-like domain of NrCAM (NgCAM-related cell adhesion molecule). NrCAM belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six IG-like domains and five fibronectin type III domains, a transmembrane region and an intracellular domain. NrCAM is primarily expressed in the nervous system.
Probab=34.99 E-value=67 Score=17.56 Aligned_cols=20 Identities=10% Similarity=-0.145 Sum_probs=16.3
Q ss_pred HhCCCCccEEEEEcceEecC
Q psy4181 34 QTGTRWEKIVLKKWYTIFKD 53 (73)
Q Consensus 34 ~~gip~~~QrLif~Gk~L~D 53 (73)
..|-|+-.-+|..+|+++.+
T Consensus 10 a~G~P~P~i~W~k~g~~i~~ 29 (76)
T cd05868 10 ANGNPKPSISWLTNGVPIEI 29 (76)
T ss_pred eeEeCCCeEEEEECCEEccc
Confidence 35788888999999999864
No 257
>CHL00134 petF ferredoxin; Validated
Probab=34.90 E-value=1e+02 Score=18.31 Aligned_cols=37 Identities=24% Similarity=0.264 Sum_probs=27.5
Q ss_pred EEEEEEcC-CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 2 IEITCNDR-LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 2 ~~i~vk~~-~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
.+|+++.+ .|....+++.+..|+.+. +.+.|+++...
T Consensus 4 ~~v~~~~~~~~~~~~~~~~~~~tLL~a----~~~~Gi~i~~~ 41 (99)
T CHL00134 4 YKVTLLSEEEGIDVTIDCPDDVYILDA----AEEQGIDLPYS 41 (99)
T ss_pred EEEEEEecCCCCeEEEEECCCCcHHHH----HHHcCCCCCcC
Confidence 46788663 788888999999999865 44477777555
No 258
>cd05479 RP_DDI RP_DDI; retropepsin-like domain of DNA damage inducible protein. The family represents the retropepsin-like domain of DNA damage inducible protein. DNA damage inducible protein has a retropepsin-like domain and an amino-terminal ubiquitin-like domain and/or a UBA (ubiquitin-associated) domain. This CD represents the retropepsin-like domain of DDI.
Probab=34.76 E-value=35 Score=20.94 Aligned_cols=39 Identities=15% Similarity=0.090 Sum_probs=31.6
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
|.+.++- +|....+=||+.+|..-+-...+++.|++++.
T Consensus 17 ~~v~~~I-ng~~~~~LvDTGAs~s~Is~~~a~~lgl~~~~ 55 (124)
T cd05479 17 LYINVEI-NGVPVKAFVDSGAQMTIMSKACAEKCGLMRLI 55 (124)
T ss_pred EEEEEEE-CCEEEEEEEeCCCceEEeCHHHHHHcCCcccc
Confidence 4455554 78889899999999998999999999998753
No 259
>PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function []. However, it seems likely that these proteins act as aspartic peptidases.
Probab=34.52 E-value=1.2e+02 Score=19.17 Aligned_cols=40 Identities=8% Similarity=0.046 Sum_probs=34.1
Q ss_pred EEEEcCCCCEEEEE--eCCCCcHHHHHHHHHHHhCCCCccEE
Q psy4181 4 ITCNDRLGKKVRVK--CNPDDTIGDLKKLIAAQTGTRWEKIV 43 (73)
Q Consensus 4 i~vk~~~G~~~~v~--v~~~~TV~~lK~~I~~~~gip~~~Qr 43 (73)
|.|+.+.|+...+. +|+.....-+.+.++++.+.|....+
T Consensus 1 v~V~n~~g~~~~~~~LlDsGSq~SfIt~~la~~L~L~~~~~~ 42 (164)
T PF05585_consen 1 VNVFNPNGNQVEARALLDSGSQRSFITESLANKLNLPGTGEK 42 (164)
T ss_pred CEEECCCCCEEEEEEEEecCCchhHHhHHHHHHhCCCCCCce
Confidence 57899999877775 48999999999999999999977665
No 260
>cd05746 Ig4_Peroxidasin Fourth immunoglobulin (Ig)-like domain of peroxidasin. Ig4_Peroxidasin: the fourth immunoglobulin (Ig)-like domain in peroxidasin. Peroxidasin has a peroxidase domain and interacting extracellular motifs containing four Ig-like domains. It has been suggested that peroxidasin is secreted, and has functions related to the stabilization of the extracellular matrix. It may play a part in various other important processes such as removal and destruction of cells, which have undergone programmed cell death, and protection of the organism against non-self.
Probab=34.41 E-value=76 Score=16.83 Aligned_cols=34 Identities=15% Similarity=0.055 Sum_probs=21.5
Q ss_pred HhCCCCccEEEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 34 QTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 34 ~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
..|.|+-.-.|...|+.+.+.. .|.+.++++|.+
T Consensus 7 ~~g~P~p~i~W~k~g~~~~~~~---~~~~~~~~~L~I 40 (69)
T cd05746 7 AQGDPEPTITWNKDGVQVTESG---KFHISPEGYLAI 40 (69)
T ss_pred ceEeCCCEEEEEECCEECCCCC---CEEECCCCEEEE
Confidence 3577877889988998875432 244444555543
No 261
>PRK00982 acpP acyl carrier protein; Provisional
Probab=34.24 E-value=33 Score=19.00 Aligned_cols=31 Identities=23% Similarity=0.253 Sum_probs=21.2
Q ss_pred cHHHHHHHHHHHhCCCCccEEEEEcceEecCCccc-cccCC
Q psy4181 23 TIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRI-MDYEI 62 (73)
Q Consensus 23 TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL-~~y~I 62 (73)
....+++.+++..|+|++. +.++.+| .++|+
T Consensus 4 i~~~l~~~l~~~l~~~~~~---------i~~d~~l~~dlgl 35 (78)
T PRK00982 4 IFEKVKKIIVEQLGVDEEE---------VTPEASFVDDLGA 35 (78)
T ss_pred HHHHHHHHHHHHHCCCHHH---------CCCCcchHhhcCC
Confidence 3467888888888887653 4556666 66666
No 262
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=34.14 E-value=17 Score=21.28 Aligned_cols=21 Identities=14% Similarity=0.029 Sum_probs=15.3
Q ss_pred ecCCccccccCCCCCCEEEEE
Q psy4181 51 FKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 51 L~D~~tL~~y~I~~g~ti~L~ 71 (73)
+-+..+.+.+||++|+.|.+.
T Consensus 33 ~inp~dA~~~Gi~~Gd~V~v~ 53 (110)
T PF01568_consen 33 EINPEDAAKLGIKDGDWVRVS 53 (110)
T ss_dssp EEEHHHHHHCT--TTCEEEEE
T ss_pred EEcHHHHHHhcCcCCCEEEEE
Confidence 345778889999999999875
No 263
>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=33.81 E-value=27 Score=20.85 Aligned_cols=35 Identities=17% Similarity=0.022 Sum_probs=21.3
Q ss_pred HHHHhCCCCccEEEEE---cceEecCCccccccCCCCC
Q psy4181 31 IAAQTGTRWEKIVLKK---WYTIFKDHIRIMDYEIHDG 65 (73)
Q Consensus 31 I~~~~gip~~~QrLif---~Gk~L~D~~tL~~y~I~~g 65 (73)
|.++-..+|+.-.|.- ++.+|+=..+|.+|||.+-
T Consensus 3 IC~KCEfdp~htvLLrD~~s~e~LdLsKSLndlGirEL 40 (79)
T PF09469_consen 3 ICEKCEFDPEHTVLLRDYQSGEELDLSKSLNDLGIREL 40 (79)
T ss_dssp HHHHTT--TTSEEEES-SS---B--TTS-HHHHT-SEE
T ss_pred cccccccCcceEEEeecCCCCCcccccccHHHhhHHHH
Confidence 6778888888888865 6678888999999999864
No 264
>PF09014 Sushi_2: Beta-2-glycoprotein-1 fifth domain; InterPro: IPR015104 The fifth domain of beta-2-glycoprotein-1 (b2GP-1) is composed of four well-defined anti-parallel beta-strands and two short alpha-helices, as well as a long highly flexible loop. It plays an important role in the binding of b2GP-1 to negatively charged compounds and subsequent capture for binding of anti-b2GP-1 antibodies []. ; PDB: 1C1Z_A 3OP8_B 2KRI_A 1QUB_A 1G4G_A 1G4F_A.
Probab=33.35 E-value=57 Score=19.70 Aligned_cols=35 Identities=3% Similarity=-0.097 Sum_probs=21.9
Q ss_pred CCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 36 GTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 36 gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
-||+..=|.+|+|+.+.= .-+..-+|.-|++|..+
T Consensus 5 ~i~vkra~Vly~g~k~~i-~d~~~~~v~Hge~Vsff 39 (85)
T PF09014_consen 5 KIPVKRARVLYNGEKVWI-QDLFKNGVLHGEIVSFF 39 (85)
T ss_dssp --SSSS-EEEETTEEEEH-HHHTTT-BETT-EEEEE
T ss_pred ccceeEEEEEECCEEech-hhcccCceeeCCEEEEE
Confidence 478888899999998752 22345678888888754
No 265
>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=32.77 E-value=71 Score=19.29 Aligned_cols=24 Identities=8% Similarity=0.219 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhCCCCccEEEEEc
Q psy4181 24 IGDLKKLIAAQTGTRWEKIVLKKW 47 (73)
Q Consensus 24 V~~lK~~I~~~~gip~~~QrLif~ 47 (73)
.+.+-+-++++.|||+++..+.|.
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 346667788899999999999875
No 266
>cd05747 Ig5_Titin_like M5, fifth immunoglobulin (Ig)-like domain of human titin C terminus and similar proteins. Ig5_Titin_like: domain similar to the M5, fifth immunoglobulin (Ig)-like domain from the human titin C terminus. Titin (also called connectin) is a fibrous sarcomeric protein specifically found in vertebrate striated muscle. Titin is gigantic; depending on isoform composition it ranges from 2970 to 3700 kDa, and is of a length that spans half a sarcomere. Titin largely consists of multiple repeats of Ig-like and fibronectin type 3 (FN-III)-like domains. Titin connects the ends of myosin thick filaments to Z disks and extends along the thick filament to the H zone, and appears to function similar to an elastic band, keeping the myosin filaments centered in the sarcomere during muscle contraction or stretching.
Probab=32.44 E-value=83 Score=17.65 Aligned_cols=32 Identities=16% Similarity=0.238 Sum_probs=22.9
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCC
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~ 54 (73)
..|.++.++|. ..|-|.-...|.++|+.|.+.
T Consensus 16 ~~G~~~~L~C~--------------~~g~P~p~v~W~k~g~~l~~~ 47 (92)
T cd05747 16 SEGESARFSCD--------------VDGEPAPTVTWMREGQIIVSS 47 (92)
T ss_pred eCCCcEEEEEE--------------EeecCCCEEEEEECCEECCCC
Confidence 35667777663 257777778999999988654
No 267
>PLN00036 40S ribosomal protein S4; Provisional
Probab=32.39 E-value=20 Score=25.76 Aligned_cols=68 Identities=21% Similarity=0.113 Sum_probs=44.0
Q ss_pred EEEEcCCCCEEEE---EeCCCCcHH-HHHH-HHHHHhCCCCccEEEEEcceEecCCccccccCCCCCC--EEEEE
Q psy4181 4 ITCNDRLGKKVRV---KCNPDDTIG-DLKK-LIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGM--NLELY 71 (73)
Q Consensus 4 i~vk~~~G~~~~v---~v~~~~TV~-~lK~-~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~--ti~L~ 71 (73)
+.+.+.+|+++.+ .+...|||. +|.. +|.+.....+....++.+|+-+-.--++.+..-..|+ .||+.
T Consensus 137 ~ql~~hDGrni~~~d~~~k~~Dtv~i~l~~~kI~~~ikfe~G~l~~vtgG~n~GrvG~I~~i~~~~~~~~iV~i~ 211 (261)
T PLN00036 137 PYLNTHDGRTIRYPDPLIKANDTIKIDLETNKIVDFIKFDVGNLVMVTGGRNRGRVGVIKNREKHKGSFEIIHVK 211 (261)
T ss_pred EEEEecCCceeccCCCccccCCEEEEeCCCCceeeEEecCCCCEEEEECCeeceeEEEEEEEEecCCCCCEEEEE
Confidence 3456677888665 345666665 4433 5888999999999999999877544444443333332 55553
No 268
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=32.11 E-value=42 Score=17.18 Aligned_cols=16 Identities=13% Similarity=0.146 Sum_probs=11.2
Q ss_pred ccccCCCCCCEEEEEe
Q psy4181 57 IMDYEIHDGMNLELYY 72 (73)
Q Consensus 57 L~~y~I~~g~ti~L~~ 72 (73)
+..++|++|+.|.+.+
T Consensus 16 ~~~l~l~~Gd~v~i~~ 31 (47)
T PF04014_consen 16 REKLGLKPGDEVEIEV 31 (47)
T ss_dssp HHHTTSSTTTEEEEEE
T ss_pred HHHcCCCCCCEEEEEE
Confidence 3456788888877764
No 269
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=32.11 E-value=1.2e+02 Score=21.07 Aligned_cols=25 Identities=12% Similarity=0.013 Sum_probs=20.9
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhC
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTG 36 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~g 36 (73)
.++.|++++..||.++=..|.++..
T Consensus 24 ~~y~v~~~~~~tvLdaL~~Ik~~~D 48 (239)
T PRK13552 24 VTYQLEETPGMTLFIALNRIREEQD 48 (239)
T ss_pred EEEEecCCCCCCHHHHHHHHHhcCC
Confidence 5577888899999999999998643
No 270
>COG2004 RPS24A Ribosomal protein S24E [Translation, ribosomal structure and biogenesis]
Probab=31.93 E-value=64 Score=20.24 Aligned_cols=33 Identities=21% Similarity=0.350 Sum_probs=25.5
Q ss_pred CEEEEEe----CCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 12 KKVRVKC----NPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 12 ~~~~v~v----~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
+.+.+.| .|+=|-.++|++|++..|.+.+.-..
T Consensus 18 kEi~~~v~h~g~~TPSr~evrekla~~l~~d~e~VvV 54 (107)
T COG2004 18 KEIVFVVYHEGSPTPSRKEVREKLAAMLGADKELVVV 54 (107)
T ss_pred eEEEEEEEeCCCCCCCHHHHHHHHHHHHCCCcceEEE
Confidence 4455554 36778899999999999999987544
No 271
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=31.40 E-value=82 Score=17.07 Aligned_cols=37 Identities=8% Similarity=-0.178 Sum_probs=27.1
Q ss_pred CCCcHHHHHHHHHHHhCCCCccEEEEE--cceEecCCccc
Q psy4181 20 PDDTIGDLKKLIAAQTGTRWEKIVLKK--WYTIFKDHIRI 57 (73)
Q Consensus 20 ~~~TV~~lK~~I~~~~gip~~~QrLif--~Gk~L~D~~tL 57 (73)
..-|...|.+.|.++.+.|.. -|=+| .|+.+.+-.-|
T Consensus 7 ~~~s~e~lL~~it~~v~l~~g-Vr~lyt~~G~~V~~l~~l 45 (60)
T PF03607_consen 7 RFRSFEQLLDEITEKVQLPSG-VRKLYTLDGKRVKSLDEL 45 (60)
T ss_dssp THSSHHHHHHHHHHSSSSTTS--SEEEETTSSEESSGGGS
T ss_pred hhcCHHHHHHHHHhhcCCCcc-cceEECCCCCEeCCHHHH
Confidence 345788999999999999987 55556 78888654433
No 272
>PF00551 Formyl_trans_N: Formyl transferase; InterPro: IPR002376 A number of formyl transferases belong to this group. Methionyl-tRNA formyltransferase transfers a formyl group onto the amino terminus of the acyl moiety of the methionyl aminoacyl-tRNA. The formyl group appears to play a dual role in the initiator identity of N-formylmethionyl-tRNA by promoting its recognition by IF2 and by impairing its binding to EFTU-GTP. Formyltetrahydrofolate dehydrogenase produces formate from formyl- tetrahydrofolate. This is the N-terminal domain of these enzymes and is found upstream of the C-terminal domain (IPR005793 from INTERPRO). The trifunctional glycinamide ribonucleotide synthetase-aminoimidazole ribonucleotide synthetase-glycinamide ribonucleotide transformylase catalyses the second, third and fifth steps in de novo purine biosynthesis. The glycinamide ribonucleotide transformylase belongs to this group.; GO: 0016742 hydroxymethyl-, formyl- and related transferase activity, 0009058 biosynthetic process; PDB: 3P9X_B 3OBI_A 3R8X_A 3KCQ_C 3RFO_D 3AV3_A 3N0V_D 3LOU_A 3O1L_A 4DS3_A ....
Probab=31.30 E-value=78 Score=20.56 Aligned_cols=22 Identities=27% Similarity=0.373 Sum_probs=14.6
Q ss_pred EEEEeCCCCcHHHHHHHHHHHh
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQT 35 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~ 35 (73)
..+.+.+++|..+|.+++.+.+
T Consensus 152 ~~~~i~~~dt~~~l~~r~~~~~ 173 (181)
T PF00551_consen 152 KKFPIEPDDTAESLYERLAEAE 173 (181)
T ss_dssp EEEE--TT--HHHHHHHHHHHH
T ss_pred EEEEcCCCCCHHHHHHHHHHHH
Confidence 3467899999999999998764
No 273
>cd00989 PDZ_metalloprotease PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=31.22 E-value=59 Score=17.49 Aligned_cols=42 Identities=21% Similarity=0.112 Sum_probs=26.6
Q ss_pred HHHHhCCCCccEEEEEcceEecCCccccccC-CCCCCEEEEEe
Q psy4181 31 IAAQTGTRWEKIVLKKWYTIFKDHIRIMDYE-IHDGMNLELYY 72 (73)
Q Consensus 31 I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~-I~~g~ti~L~~ 72 (73)
.+++.|+.+....+-.+|+...+...+..+= -..+..+.+.+
T Consensus 24 ~a~~~gl~~GD~I~~ing~~i~~~~~~~~~l~~~~~~~~~l~v 66 (79)
T cd00989 24 PAAKAGLKAGDRILAINGQKIKSWEDLVDAVQENPGKPLTLTV 66 (79)
T ss_pred HHHHcCCCCCCEEEEECCEECCCHHHHHHHHHHCCCceEEEEE
Confidence 4556789999998888999887755553221 11255555543
No 274
>PRK08453 fliD flagellar capping protein; Validated
Probab=31.18 E-value=48 Score=26.82 Aligned_cols=26 Identities=27% Similarity=0.408 Sum_probs=23.6
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHh
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQT 35 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~ 35 (73)
.|++++++|.+..|+.+|+.+|-+..
T Consensus 136 ~G~~~sIdi~~gtTL~~L~~~INd~~ 161 (673)
T PRK08453 136 QGKDYAIDIKAGMTLGDVAQSITDAT 161 (673)
T ss_pred CCEEEEEEeCCCCcHHHHHHHhcCCC
Confidence 59999999999999999999999543
No 275
>TIGR00126 deoC deoxyribose-phosphate aldolase. Deoxyribose-phosphate aldolase is involved in the catabolism of nucleotides and deoxyriibonucleotides. The catalytic process is as follows: 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde. It is found in both gram-postive and gram-negative bacteria.
Probab=31.13 E-value=1.3e+02 Score=20.55 Aligned_cols=26 Identities=12% Similarity=0.095 Sum_probs=19.4
Q ss_pred EEEcCCCCEEEEEeCCCCcHHHHHHHHHHHh
Q psy4181 5 TCNDRLGKKVRVKCNPDDTIGDLKKLIAAQT 35 (73)
Q Consensus 5 ~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~ 35 (73)
||||+||.. .+..|+++++.+-+...
T Consensus 148 fvKTsTGf~-----~~gat~~dv~~m~~~v~ 173 (211)
T TIGR00126 148 FVKTSTGFG-----AGGATVEDVRLMRNTVG 173 (211)
T ss_pred EEEeCCCCC-----CCCCCHHHHHHHHHHhc
Confidence 899999975 46789998876654443
No 276
>PLN02828 formyltetrahydrofolate deformylase
Probab=30.91 E-value=79 Score=22.58 Aligned_cols=23 Identities=4% Similarity=0.034 Sum_probs=19.4
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhC
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQTG 36 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~g 36 (73)
..+.|++++|.++|.+++.+.|.
T Consensus 220 ~~v~V~~~dt~~~L~~r~~~~E~ 242 (268)
T PLN02828 220 MVERVSHRDNLRSFVQKSENLEK 242 (268)
T ss_pred EEEecCCCCCHHHHHHHHHHHHH
Confidence 45788999999999998888764
No 277
>TIGR03193 4hydroxCoAred 4-hydroxybenzoyl-CoA reductase, gamma subunit. 4-hydroxybenzoyl-CoA reductase converts 4-hydroxybenzoyl-CoA to benzoyl-CoA, a common intermediate in the degradation of aromatic compounds. This protein family represents the gamma chain of this three-subunit enzyme.
Probab=30.78 E-value=88 Score=20.54 Aligned_cols=23 Identities=13% Similarity=0.111 Sum_probs=18.2
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHH
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDL 27 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~l 27 (73)
|+++| +|+.++++++|+.+..++
T Consensus 2 i~~~v---NG~~~~~~~~~~~~Ll~~ 24 (148)
T TIGR03193 2 LRLTV---NGRWREDAVADNMLLVDY 24 (148)
T ss_pred EEEEE---CCEEEEeecCCCCcHHHH
Confidence 44444 799999999999988765
No 278
>PRK11347 antitoxin ChpS; Provisional
Probab=30.75 E-value=37 Score=20.01 Aligned_cols=17 Identities=18% Similarity=0.374 Sum_probs=13.1
Q ss_pred ccccccCCCCCCEEEEE
Q psy4181 55 IRIMDYEIHDGMNLELY 71 (73)
Q Consensus 55 ~tL~~y~I~~g~ti~L~ 71 (73)
.-|+++|++.|++|.+.
T Consensus 19 ~il~~l~l~~G~~v~i~ 35 (83)
T PRK11347 19 IVMKELNLQPGQSVEAQ 35 (83)
T ss_pred HHHHHcCCCCCCEEEEE
Confidence 45677888888888775
No 279
>cd00508 MopB_CT_Fdh-Nap-like This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. Formate dehydrogenase N (alpha subunit) is the major electron donor to the bacterial nitrate respiratory chain and nitrate reductases, Nap and Nas, catalyze the reduction of nitrate to nitrite. This CD (MopB_CT_Fdh-Nap-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=30.71 E-value=28 Score=20.46 Aligned_cols=22 Identities=14% Similarity=0.045 Sum_probs=17.8
Q ss_pred EecCCccccccCCCCCCEEEEE
Q psy4181 50 IFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 50 ~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
..-+..+.+.+||++|+.|.+.
T Consensus 37 v~inp~dA~~lgi~~Gd~V~v~ 58 (120)
T cd00508 37 VEIHPEDAARLGIKDGDLVRVS 58 (120)
T ss_pred EEECHHHHHHcCCCCCCEEEEE
Confidence 3446778889999999999875
No 280
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=30.56 E-value=84 Score=21.42 Aligned_cols=22 Identities=18% Similarity=0.098 Sum_probs=18.4
Q ss_pred EEEEeCCCCcHHHHHHHHHHHh
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQT 35 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~ 35 (73)
..+.+.|+||..+|-+++.+.+
T Consensus 156 ~~~~I~~~dt~~~L~~r~~~~e 177 (207)
T PLN02331 156 RVVPVLATDTPEELAARVLHEE 177 (207)
T ss_pred EEEecCCCCCHHHHHHHHHHHH
Confidence 3578899999999999888764
No 281
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=30.53 E-value=89 Score=18.73 Aligned_cols=46 Identities=7% Similarity=0.056 Sum_probs=29.2
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEe--cCCcccc
Q psy4181 13 KVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIF--KDHIRIM 58 (73)
Q Consensus 13 ~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L--~D~~tL~ 58 (73)
.-.+.|++++|++.+-+-+..+.++++.+.-..|=.... .-+++++
T Consensus 17 ~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg 64 (87)
T PF04110_consen 17 QKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVG 64 (87)
T ss_dssp --EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHH
T ss_pred CcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHH
Confidence 445788999999999999999999988777777754433 2344444
No 282
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=30.43 E-value=64 Score=16.32 Aligned_cols=15 Identities=40% Similarity=0.552 Sum_probs=9.3
Q ss_pred EEEEEcCCCCEEEEE
Q psy4181 3 EITCNDRLGKKVRVK 17 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~ 17 (73)
.+.|++.+|++.++.
T Consensus 25 ~vtV~~~~G~~~tv~ 39 (42)
T PF02736_consen 25 KVTVKTEDGKEVTVK 39 (42)
T ss_dssp EEEEEETTTEEEEEE
T ss_pred EEEEEECCCCEEEeC
Confidence 356677777666553
No 283
>KOG3391|consensus
Probab=30.14 E-value=40 Score=22.32 Aligned_cols=22 Identities=14% Similarity=0.134 Sum_probs=18.7
Q ss_pred EecCCccccccCCCCCCEEEEE
Q psy4181 50 IFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 50 ~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
...|..||.+.+++-|+-|.+.
T Consensus 113 g~ddnktL~~~kf~iGD~lDVa 134 (151)
T KOG3391|consen 113 GIDDNKTLQQTKFEIGDYLDVA 134 (151)
T ss_pred cCCccchhhhCCccccceEEEE
Confidence 3578999999999999988764
No 284
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=30.11 E-value=1.1e+02 Score=17.29 Aligned_cols=20 Identities=40% Similarity=0.640 Sum_probs=16.4
Q ss_pred EEEEEcCCCCEEEEEeCCCC
Q psy4181 3 EITCNDRLGKKVRVKCNPDD 22 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~ 22 (73)
+|.+.+.+|+.+.+.++|..
T Consensus 57 ev~~~~~dG~~~ev~vD~~t 76 (83)
T PF13670_consen 57 EVEARDKDGKKVEVYVDPAT 76 (83)
T ss_pred EEEEEECCCCEEEEEEcCCC
Confidence 56677889999999999853
No 285
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=30.02 E-value=83 Score=22.40 Aligned_cols=23 Identities=17% Similarity=0.151 Sum_probs=19.7
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHh
Q psy4181 13 KVRVKCNPDDTIGDLKKLIAAQT 35 (73)
Q Consensus 13 ~~~v~v~~~~TV~~lK~~I~~~~ 35 (73)
...+.|.++||.++|.+++.+.|
T Consensus 237 Q~~v~i~~~dt~~~L~~ri~~~E 259 (286)
T PRK06027 237 QDVIRVDHRDTAEDLVRAGRDVE 259 (286)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHH
Confidence 34678899999999999998876
No 286
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=30.00 E-value=39 Score=19.23 Aligned_cols=17 Identities=12% Similarity=0.126 Sum_probs=11.9
Q ss_pred ccccccCCCCCCEEEEE
Q psy4181 55 IRIMDYEIHDGMNLELY 71 (73)
Q Consensus 55 ~tL~~y~I~~g~ti~L~ 71 (73)
.-++.+|++.|+.|.+.
T Consensus 17 ~i~~~lgl~~Gd~v~v~ 33 (74)
T TIGR02609 17 EVLESLGLKEGDTLYVD 33 (74)
T ss_pred HHHHHcCcCCCCEEEEE
Confidence 34567788888888664
No 287
>PF07971 Glyco_hydro_92: Glycosyl hydrolase family 92; InterPro: IPR012939 This domain occurs within alpha-1,2-mannosidases, which remove alpha-1,2-linked mannose residues from Man(9)(GlcNAc)(2) by hydrolysis. They are critical for the maturation of N-linked oligosaccharides and ER-associated degradation [].; PDB: 2WW2_C 2WVY_B 2WVZ_B 2WW0_H 2WZS_D 2WVX_B 2WW1_D 2WW3_C.
Probab=29.93 E-value=1.3e+02 Score=23.32 Aligned_cols=55 Identities=15% Similarity=0.093 Sum_probs=34.3
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
++.|+-.+|++++|.+.... .-.+==|.+..+|+.|.-.. |..-.|.+|-||++.
T Consensus 443 ~~~i~l~~g~~~~I~a~n~s-------------~~n~YIqsv~lNGk~~~~~~-i~~~~i~~GG~L~f~ 497 (502)
T PF07971_consen 443 KVTIHLGNGKTFTIEAKNNS-------------AENIYIQSVTLNGKPLTRPW-ITHDDIMNGGTLEFE 497 (502)
T ss_dssp EEEEE-CCC-EEEEE-TT-B-------------TTB-EEEEEEETTEEE-SSE-EEHHHHHC-EEEEEE
T ss_pred eEEEEcCCCCEEEEEecCCC-------------CCCceEeEEEECCEECcCCE-EeHHHHhCCCEEEEE
Confidence 35666679999999886553 11133588889999997543 555568899999875
No 288
>PF12747 DdrB: DdrB-like protein; InterPro: IPR024305 This family includes the Deinococcus DdrB protein, a ssDNA binding protein induced by ionizing radiation which has a role in genome reconstitution []. The structure of DdrB is known []. This family also includes some possibly distantly related cyanobacterial proteins.; PDB: 3KDV_D.
Probab=29.90 E-value=1.6e+02 Score=18.99 Aligned_cols=33 Identities=21% Similarity=0.336 Sum_probs=26.5
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHH
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTIGDLKKLIAA 33 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~ 33 (73)
|.+|-..+..|...++++....-+.+++.....
T Consensus 1 ~~~~~~~t~~~~~~t~~l~~~~~L~dV~r~~g~ 33 (123)
T PF12747_consen 1 MLKLLFPTDSGAKVTVELEDTVLLRDVQRLYGR 33 (123)
T ss_dssp -EEEEEE-TTS-EEEEEESSGGGHHHHHHHHHT
T ss_pred CceeEeeeeccCceeEEecchhHHHHHHHHHhh
Confidence 778888999999999999999999999877655
No 289
>PF13650 Asp_protease_2: Aspartyl protease
Probab=29.68 E-value=42 Score=18.36 Aligned_cols=33 Identities=21% Similarity=0.259 Sum_probs=28.8
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
+|+.+.+-+|+.++..-+-...+++.|.++...
T Consensus 6 ng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~ 38 (90)
T PF13650_consen 6 NGKPVRFLIDTGASISVISRSLAKKLGLKPRPK 38 (90)
T ss_pred CCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCC
Confidence 688999999999998888889999999988765
No 290
>cd05867 Ig4_L1-CAM_like Fourth immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM). Ig4_L1-CAM_like: fourth immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM). L1 is comprised of an extracellular region having six Ig-like domains and five fibronectin type III domains, a transmembrane region and an intracellular domain. L1 is primarily expressed in the nervous system and is involved in its development and function. L1 is associated with an X-linked recessive disorder, X-linked hydrocephalus, MASA syndrome, or spastic paraplegia type 1, that involves abnormalities of axonal growth. This group also contains the chicken neuron-glia cell adhesion molecule, Ng-CAM.
Probab=29.62 E-value=57 Score=17.67 Aligned_cols=21 Identities=10% Similarity=-0.129 Sum_probs=16.1
Q ss_pred hCCCCccEEEEEcceEecCCc
Q psy4181 35 TGTRWEKIVLKKWYTIFKDHI 55 (73)
Q Consensus 35 ~gip~~~QrLif~Gk~L~D~~ 55 (73)
.|.|+-...|..+|.++.+..
T Consensus 11 ~G~P~p~i~W~k~g~~i~~~~ 31 (76)
T cd05867 11 EGIPTPNITWSINGAPIEGTD 31 (76)
T ss_pred eEeCCCeEEEEECCEECCCCC
Confidence 477777889999999886543
No 291
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=29.58 E-value=1.2e+02 Score=19.92 Aligned_cols=34 Identities=9% Similarity=0.071 Sum_probs=30.6
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
.+++++.|++..+=.++|+-|+..+|+.+..-+-
T Consensus 82 ~N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNT 115 (145)
T PTZ00191 82 NNTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNT 115 (145)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEe
Confidence 4789999999999999999999999999987743
No 292
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=29.32 E-value=1.1e+02 Score=16.95 Aligned_cols=41 Identities=10% Similarity=-0.021 Sum_probs=26.4
Q ss_pred HHHhCCCCccEEEEEcceEecCCcccccc--CCCCCCEEEEEe
Q psy4181 32 AAQTGTRWEKIVLKKWYTIFKDHIRIMDY--EIHDGMNLELYY 72 (73)
Q Consensus 32 ~~~~gip~~~QrLif~Gk~L~D~~tL~~y--~I~~g~ti~L~~ 72 (73)
+++.|+.+..+.+-.+|+...+...+... .-..|.++.+.+
T Consensus 23 a~~aGL~~GDiI~~Ing~~v~~~~d~~~~l~~~~~g~~v~l~v 65 (79)
T cd00991 23 AENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTV 65 (79)
T ss_pred HHhcCCCCCCEEEEECCEEcCCHHHHHHHHhcCCCCCEEEEEE
Confidence 45678999999888899888764444321 122466666554
No 293
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=29.10 E-value=43 Score=16.82 Aligned_cols=15 Identities=20% Similarity=0.430 Sum_probs=9.9
Q ss_pred CCCcHHHHHHHHHHH
Q psy4181 20 PDDTIGDLKKLIAAQ 34 (73)
Q Consensus 20 ~~~TV~~lK~~I~~~ 34 (73)
.+.||.+||..+.+.
T Consensus 2 ~sltV~~Lk~iL~~~ 16 (35)
T PF12949_consen 2 KSLTVAQLKRILDEH 16 (35)
T ss_dssp TT--SHHHHHHHHHH
T ss_pred CcCcHHHHHHHHHHc
Confidence 467999999777664
No 294
>KOG2689|consensus
Probab=28.92 E-value=1.5e+02 Score=21.67 Aligned_cols=67 Identities=12% Similarity=0.138 Sum_probs=48.4
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcc---eEec-C--CccccccCCCCCCEEEE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY---TIFK-D--HIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~G---k~L~-D--~~tL~~y~I~~g~ti~L 70 (73)
.+-||-++|.++.-.+.+..|...|+.-++..-|..++== .+..| +.+. | ..+|+..++-+-+++-|
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 RLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPY-SFHTGFPRVTFTEDDELKPLQELDLVPSAVLIL 284 (290)
T ss_pred EEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCe-eeecCCCceecccccccccHHHhccccchheec
Confidence 3567888999999999999999999999999977655221 12222 2232 2 45888888887777654
No 295
>cd02788 MopB_CT_NDH-1_NuoG2-N7 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as a redox pump that uses the redox energy to translocate H+ ions across the membrane, resulting in a significant contribution to energy production. In Escherichia coli NDH-1, the largest subunit is encoded by the nuoG gene, and is part of the 14 distinct subunits constituting the functional enzyme. The NuoG subunit is made of two domains: the first contains three binding sites for FeS clusters (the fer2 domain), the second domain, is of unknown function or, as postulated, has lost an ancestral formate dehydrogenase activity that became redundant during the evolution of the complex I enzyme. Unique to this group, compared to the other prokaryotic and eukaryotic groups
Probab=28.91 E-value=32 Score=20.08 Aligned_cols=20 Identities=15% Similarity=0.109 Sum_probs=16.6
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-+..+.+.+||++|+.|.+.
T Consensus 33 inp~dA~~lGi~~Gd~V~v~ 52 (96)
T cd02788 33 LSPADAARLGLADGDLVEFS 52 (96)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 36778899999999998764
No 296
>cd02785 MopB_CT_4 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=28.75 E-value=31 Score=20.83 Aligned_cols=20 Identities=25% Similarity=0.293 Sum_probs=16.8
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-..++.+.+||++|+.|.++
T Consensus 36 i~p~dA~~~gi~~Gd~V~v~ 55 (124)
T cd02785 36 INPIDAAARGIAHGDLVEVY 55 (124)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 36788899999999998764
No 297
>PF01556 CTDII: DnaJ C terminal domain; InterPro: IPR002939 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolizing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. Besides stimulating the ATPase activity of DnaK through its J-domain, DnaJ also associates with unfolded polypeptide chains and prevents their aggregation []. Thus, DnaK and DnaJ may bind to one and the same polypeptide chain to form a ternary complex. The formation of a ternary complex may result in cis-interaction of the J-domain of DnaJ with the ATPase domain of DnaK. An unfolded polypeptide may enter the chaperone cycle by associating first either with ATP-liganded DnaK or with DnaJ. DnaK interacts with both the backbone and side chains of a peptide substrate; it thus shows binding polarity and admits only L-peptide segments. In contrast, DnaJ has been shown to bind both L- and D-peptides and is assumed to interact only with the side chains of the substrate. This domain consists of the C-terminal region of the DnaJ protein. The function of this domain is unknown. It is found associated with IPR001623 from INTERPRO and IPR001305 from INTERPRO. ; GO: 0051082 unfolded protein binding, 0006457 protein folding; PDB: 2Q2G_A 2QLD_A 3AGX_A 3AGZ_A 3AGY_A 3I38_J 3LZ8_B 2B26_B 1C3G_A 1XAO_B ....
Probab=28.44 E-value=1e+02 Score=17.39 Aligned_cols=19 Identities=26% Similarity=0.438 Sum_probs=13.3
Q ss_pred EEEEEcCCCCEEEEEeCCC
Q psy4181 3 EITCNDRLGKKVRVKCNPD 21 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~ 21 (73)
.+.|+++.|+++.+.+.+.
T Consensus 18 ~i~i~~l~g~~~~i~ip~~ 36 (81)
T PF01556_consen 18 TISIPTLDGKTIKIKIPPG 36 (81)
T ss_dssp EEEEE-TTS-EEEEEETST
T ss_pred EEEEECCCCCEEEEeccCc
Confidence 4678999999999987654
No 298
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=28.36 E-value=83 Score=17.24 Aligned_cols=41 Identities=20% Similarity=0.167 Sum_probs=26.5
Q ss_pred HHHhCCCCccEEEEEcceEecCCcccccc--CCCCCCEEEEEe
Q psy4181 32 AAQTGTRWEKIVLKKWYTIFKDHIRIMDY--EIHDGMNLELYY 72 (73)
Q Consensus 32 ~~~~gip~~~QrLif~Gk~L~D~~tL~~y--~I~~g~ti~L~~ 72 (73)
+++.|+.+..+.+-.+|....+...+... ....|..+.+.+
T Consensus 37 a~~~gl~~GD~I~~Ing~~i~~~~~~~~~l~~~~~~~~i~l~v 79 (90)
T cd00987 37 AAKAGLKPGDVILAVNGKPVKSVADLRRALAELKPGDKVTLTV 79 (90)
T ss_pred HHHcCCCcCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEEE
Confidence 44578999999998899988775544321 122356665543
No 299
>PRK12385 fumarate reductase iron-sulfur subunit; Provisional
Probab=28.08 E-value=1.8e+02 Score=20.18 Aligned_cols=26 Identities=12% Similarity=0.110 Sum_probs=20.7
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCC
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGT 37 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gi 37 (73)
..+.+++++..||.++=..|.+....
T Consensus 25 ~~~~v~~~~~~tvl~~L~~ik~~~d~ 50 (244)
T PRK12385 25 QTYEVPYDETTSLLDALGYIKDNLAP 50 (244)
T ss_pred EEEEeeCCCCCcHHHHHHHHHHhcCC
Confidence 45677788999999999999876543
No 300
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=27.99 E-value=34 Score=20.06 Aligned_cols=22 Identities=14% Similarity=0.131 Sum_probs=17.5
Q ss_pred EecCCccccccCCCCCCEEEEE
Q psy4181 50 IFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 50 ~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
..-+..+.+.+||++|+.|.+.
T Consensus 37 v~in~~dA~~lgi~~Gd~V~v~ 58 (116)
T cd02790 37 VEINPEDAKRLGIEDGEKVRVS 58 (116)
T ss_pred EEECHHHHHHcCCCCCCEEEEE
Confidence 3346788899999999998764
No 301
>cd02776 MopB_CT_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. This CD (MopB_CT_Nitrate-R-NarG-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=27.99 E-value=34 Score=21.71 Aligned_cols=20 Identities=15% Similarity=0.220 Sum_probs=16.5
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-...+.+.+||++|+.|.+.
T Consensus 35 inp~dA~~lgI~dGd~V~v~ 54 (141)
T cd02776 35 MNPKDAAELGIKDNDWVEVF 54 (141)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 45678899999999998764
No 302
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors. ; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
Probab=27.90 E-value=49 Score=17.93 Aligned_cols=22 Identities=18% Similarity=0.329 Sum_probs=15.3
Q ss_pred EEEEEEcC-CCCEEEEEeCCCCc
Q psy4181 2 IEITCNDR-LGKKVRVKCNPDDT 23 (73)
Q Consensus 2 ~~i~vk~~-~G~~~~v~v~~~~T 23 (73)
+++.+|++ +|..+.....++|+
T Consensus 35 v~~klknl~tG~~~e~tf~s~d~ 57 (58)
T PF08207_consen 35 VRVKLKNLRTGSKVEKTFRSGDK 57 (58)
T ss_dssp EEEEEEETTTTEEEEEEEETT-E
T ss_pred EEEEEEECCCCCEEEEEECCCCc
Confidence 56667776 78888777777765
No 303
>cd05743 Ig_Perlecan_D2_like Immunoglobulin (Ig)-like domain II (D2) of the human basement membrane heparan sulfate proteoglycan perlecan, also known as HSPG2. Ig_Perlecan_D2_like: the immunoglobulin (Ig)-like domain II (D2) of the human basement membrane heparan sulfate proteoglycan perlecan, also known as HSPG2. Perlecan consists of five domains. Domain I has three putative heparan sulfate attachment sites; domain II has four LDL receptor-like repeats, and one Ig-like repeat; domain III resembles the short arm of laminin chains; domain IV has multiple Ig-like repeats (21 repeats in human perlecan); and domain V resembles the globular G domain of the laminin A chain and internal repeats of EGF. Perlecan may participate in a variety of biological functions including cell binding, LDL-metabolism, basement membrane assembly and selective permeability, calcium binding, and growth- and neurite-promoting activities.
Probab=27.81 E-value=1.1e+02 Score=16.58 Aligned_cols=21 Identities=19% Similarity=0.069 Sum_probs=15.6
Q ss_pred hCCCCccEEEEEcceEecCCc
Q psy4181 35 TGTRWEKIVLKKWYTIFKDHI 55 (73)
Q Consensus 35 ~gip~~~QrLif~Gk~L~D~~ 55 (73)
.|-|.-.-.|..+|..+.+..
T Consensus 11 ~g~P~p~v~W~~~~~~~~~~~ 31 (78)
T cd05743 11 TGVPTPIINWRLNWGHVPDSA 31 (78)
T ss_pred EEecCCEEEEEECCeECCCCC
Confidence 467877888988888876543
No 304
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=27.73 E-value=34 Score=20.24 Aligned_cols=19 Identities=16% Similarity=0.162 Sum_probs=15.9
Q ss_pred CCccccccCCCCCCEEEEE
Q psy4181 53 DHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 53 D~~tL~~y~I~~g~ti~L~ 71 (73)
...+.+.+||++|+.|.++
T Consensus 36 ~p~dA~~lgi~~Gd~V~v~ 54 (116)
T cd02786 36 HPADAAARGIADGDLVVVF 54 (116)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 5677888999999998765
No 305
>PLN03136 Ferredoxin; Provisional
Probab=27.69 E-value=1.8e+02 Score=18.95 Aligned_cols=60 Identities=18% Similarity=0.133 Sum_probs=33.9
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE-----------EEEEcceEecCCccccccCCCCCCEE
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI-----------VLKKWYTIFKDHIRIMDYEIHDGMNL 68 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q-----------rLif~Gk~L~D~~tL~~y~I~~g~ti 68 (73)
|.+.... ....+++.+..||.+. .++.|++..-+ +++-+.-...+...|.+-.+.+|..+
T Consensus 57 V~l~~~~-~~~~~~~~~g~tILdA----a~~~Gi~lp~sCr~G~CGtC~~~l~~G~V~~~~~~~L~~~e~~~G~~L 127 (148)
T PLN03136 57 VKFITPE-GEQEVECEEDVYVLDA----AEEAGIDLPYSCRAGSCSSCAGKVVSGSIDQSDQSFLDDEQISEGYVL 127 (148)
T ss_pred EEEecCC-CcEEEEeCCCCcHHHH----HHHcCCCCCcCCCCccCCCCEEEEecCcCccCcccCCCHHHhcCCEEE
Confidence 4443333 3567889999999876 44577877666 34322222333344555555555544
No 306
>PF09581 Spore_III_AF: Stage III sporulation protein AF (Spore_III_AF); InterPro: IPR014245 This family represents the stage III sporulation protein AF (SpoIIIAF) of the bacterial endospore formation program, which exists in some but not all members of the Firmicutes (formerly called low-GC Gram-positives). The C-terminal region of these proteins is poorly conserved.
Probab=27.67 E-value=52 Score=21.39 Aligned_cols=24 Identities=21% Similarity=0.282 Sum_probs=20.6
Q ss_pred CCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 21 DDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 21 ~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
+....++|+.+++..|+|+++...
T Consensus 163 ~~~~~~i~~~la~~~~i~~~~I~V 186 (188)
T PF09581_consen 163 SEEEEEIKQYLADFYGISPEQIKV 186 (188)
T ss_pred hHHHHHHHHHHHHHhCCCHHHeEE
Confidence 556789999999999999998754
No 307
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=27.39 E-value=1.4e+02 Score=17.54 Aligned_cols=37 Identities=24% Similarity=0.295 Sum_probs=28.0
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcce
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYT 49 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk 49 (73)
-|+...++ .+.+.++...+++..|..+....+.+.|.
T Consensus 79 Cg~i~~~~---~~~~~~~~~~~~~~~gf~v~~~~~~~~G~ 115 (116)
T cd07153 79 CGKVIDFE---DCPLEELLEELAAKTGFKITSHRLELYGI 115 (116)
T ss_pred CCCEEEec---CccHHHHHHHHHHHcCCEEeeeEEEEEEE
Confidence 46666664 23467788888889999999999988774
No 308
>cd05848 Ig1_Contactin-5 First Ig domain of contactin-5. Ig1_Contactin-5: First Ig domain of the neural cell adhesion molecule contactin-5. Contactins are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains, anchored to the membrane by glycosylphosphatidylinositol. The different contactins show different expression patterns in the central nervous system. In rats, a lack of contactin-5 (NB-2) results in an impairment of the neuronal activity in the auditory system. Contactin-5 is expressed specifically in the postnatal nervous system, peaking at about 3 weeks postnatal. Contactin-5 is highly expressed in the adult human brain in the occipital lobe and in the amygdala; lower levels of expression have been detected in the corpus callosum, caudate nucleus, and spinal cord.
Probab=27.37 E-value=1.3e+02 Score=17.18 Aligned_cols=30 Identities=20% Similarity=0.132 Sum_probs=23.8
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecC
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKD 53 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D 53 (73)
.|+.+.+.|..+ |.|+-.-.|..+|+.|..
T Consensus 18 ~g~~v~l~C~~~--------------G~P~P~i~W~k~g~~l~~ 47 (94)
T cd05848 18 DEKKVILNCEAR--------------GNPVPTYRWLRNGTEIDT 47 (94)
T ss_pred CCCEEEEEEEee--------------ecCCCEEEEEECCeECcc
Confidence 467777777654 888889999999999864
No 309
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=27.21 E-value=1.4e+02 Score=18.27 Aligned_cols=34 Identities=18% Similarity=0.306 Sum_probs=24.4
Q ss_pred CCEEEEEe----CCCCcHHHHHHHHHHHhCCCCccEEE
Q psy4181 11 GKKVRVKC----NPDDTIGDLKKLIAAQTGTRWEKIVL 44 (73)
Q Consensus 11 G~~~~v~v----~~~~TV~~lK~~I~~~~gip~~~QrL 44 (73)
-+.+.++| .++=+-.++|++|++..+.+++.-.+
T Consensus 16 Rke~~~~v~h~g~~tpsr~eirekLa~~~~~~~~~vvv 53 (99)
T PRK01178 16 RREIKFEVYHEGSATPSRKDVRKKLAAMLNADKELVVV 53 (99)
T ss_pred cEEEEEEEEeCCCCCCCHHHHHHHHHHHHCcCCCEEEE
Confidence 34555555 25667789999999999977765444
No 310
>KOG3751|consensus
Probab=27.14 E-value=1e+02 Score=24.69 Aligned_cols=53 Identities=17% Similarity=0.167 Sum_probs=36.9
Q ss_pred EEEEc--CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCc-cEEEEE------cceEecCCcc
Q psy4181 4 ITCND--RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWE-KIVLKK------WYTIFKDHIR 56 (73)
Q Consensus 4 i~vk~--~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~-~QrLif------~Gk~L~D~~t 56 (73)
+|||. -+|.+..+.|+...|.+++=+.++++-.+.-+ ...|+= --|.+||++.
T Consensus 189 lvVKvfseDgasksL~Vder~tardV~~lL~eKnH~~~d~~W~LvEh~P~L~iER~fEDHEl 250 (622)
T KOG3751|consen 189 LVVKVFSEDGASKSLLVDERMTARDVCQLLAEKNHCADDEDWCLVEHYPHLQIERVFEDHEL 250 (622)
T ss_pred eeEEEEccCCceeeEeecccccHHHHHHHHHHhhhhhcccceeeeeecchhhhhhhhhhHHH
Confidence 34443 37999999999999999999999998766543 344421 2344566653
No 311
>KOG3157|consensus
Probab=27.10 E-value=41 Score=23.92 Aligned_cols=24 Identities=17% Similarity=0.275 Sum_probs=20.2
Q ss_pred cHHHHHHHHHHHhCCCCccEEEEE
Q psy4181 23 TIGDLKKLIAAQTGTRWEKIVLKK 46 (73)
Q Consensus 23 TV~~lK~~I~~~~gip~~~QrLif 46 (73)
+..++++.|+++.|+|+|+--|-.
T Consensus 187 ~L~~~r~~ic~~lg~~~dq~eLSM 210 (244)
T KOG3157|consen 187 VLVKLRESICKKLGIPADQVELSM 210 (244)
T ss_pred HHHHHHHHHHHHhCCChHHhhhhc
Confidence 456899999999999999887743
No 312
>cd02783 MopB_CT_2 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=27.06 E-value=35 Score=21.88 Aligned_cols=20 Identities=15% Similarity=0.023 Sum_probs=17.2
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-+.++.+.+||++|+.|.++
T Consensus 36 inp~dA~~~GI~dGd~V~v~ 55 (156)
T cd02783 36 MHPKTAKELGIKDGDWVWVE 55 (156)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 46788999999999999875
No 313
>cd02784 MopB_CT_PHLH The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=26.99 E-value=35 Score=21.76 Aligned_cols=22 Identities=5% Similarity=-0.016 Sum_probs=18.1
Q ss_pred EecCCccccccCCCCCCEEEEE
Q psy4181 50 IFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 50 ~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
..-+..+.+.+||++|+.|.++
T Consensus 40 v~InP~dA~~lGI~dGD~V~V~ 61 (137)
T cd02784 40 ALVSPRTAEALGLLQGDVVRIR 61 (137)
T ss_pred EEECHHHHHHcCCCCCCEEEEE
Confidence 3446789999999999999775
No 314
>cd02775 MopB_CT Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=26.98 E-value=37 Score=19.22 Aligned_cols=22 Identities=14% Similarity=0.060 Sum_probs=17.2
Q ss_pred EecCCccccccCCCCCCEEEEE
Q psy4181 50 IFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 50 ~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
.+-+..+.+.+||++|+.|.+.
T Consensus 25 v~~~~~da~~lgl~~Gd~v~v~ 46 (101)
T cd02775 25 VEINPEDAAALGIKDGDLVRVE 46 (101)
T ss_pred EEECHHHHHHcCCCCCCEEEEE
Confidence 3446777888999999998775
No 315
>cd05885 Ig2_Necl-4 Second immunoglobulin (Ig)-like domain of nectin-like molecule-4 (Necl-4, also known as cell adhesion molecule 4 (CADM4)). Ig2_Necl-4: second immunoglobulin (Ig)-like domain of nectin-like molecule-4 (Necl-4, also known as cell adhesion molecule 4 (CADM4)). Nectin-like molecules have similar domain structures to those of nectins. At least five nectin-like molecules have been identified (Necl-1-Necl-5). These have an extracellular region containing three Ig-like domains, one transmembrane region, and one cytoplasmic region. Ig domains are likely to participate in ligand binding and recognition. Necl-4 is expressed on Schwann cells, and plays a key part in initiating peripheral nervous system (PNS) myelination. In injured peripheral nerve cells, the mRNA signal for both Necl-4 and Necl-5 was observed to be elevated. Necl-4 participates in cell-cell adhesion and is proposed to play a role in tumor suppression.
Probab=26.89 E-value=60 Score=18.81 Aligned_cols=22 Identities=5% Similarity=-0.130 Sum_probs=18.6
Q ss_pred HHhCCCCccEEEEEcceEecCC
Q psy4181 33 AQTGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 33 ~~~gip~~~QrLif~Gk~L~D~ 54 (73)
+..|-|+.+.+|+-+|++|...
T Consensus 8 s~~skP~a~i~W~k~~~~l~~~ 29 (80)
T cd05885 8 SPRSKPAATLRWYRDRKELKGV 29 (80)
T ss_pred CCCccCCCeEEEEECCEECCCC
Confidence 3468899999999999999753
No 316
>PRK12464 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional
Probab=26.80 E-value=89 Score=23.66 Aligned_cols=53 Identities=17% Similarity=0.196 Sum_probs=38.0
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHH--hCCCCcc-------EEEEEcceEecCCccccccCCCC
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQ--TGTRWEK-------IVLKKWYTIFKDHIRIMDYEIHD 64 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~--~gip~~~-------QrLif~Gk~L~D~~tL~~y~I~~ 64 (73)
+|++++++ +..-+-..=+-|+++ +|+|+++ |-++++.-.+.|+..+++.+..|
T Consensus 197 MG~KITID--SATmmNKglEvIEA~~LF~i~~d~I~vvIHPqSiVHsmVef~DGSv~aql~~pD 258 (383)
T PRK12464 197 MGAKLTID--SATLMNKGFEVIEAHWLFDIPYEKIDVLIHKESIIHSLVEFIDGSVLAQLGAPD 258 (383)
T ss_pred CCCeeeee--hHhhhhhhHHHHHHHHHcCCCHHHeEEEECCCCceeEEEEEcCccEEEEeCCCC
Confidence 68887764 444555566788887 6999766 55677888888888887776544
No 317
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=26.69 E-value=1.2e+02 Score=16.41 Aligned_cols=40 Identities=18% Similarity=0.081 Sum_probs=26.8
Q ss_pred HHHHhCCCCccEEEEEcceEecCCc-cccccCCCCCCEEEEEe
Q psy4181 31 IAAQTGTRWEKIVLKKWYTIFKDHI-RIMDYEIHDGMNLELYY 72 (73)
Q Consensus 31 I~~~~gip~~~QrLif~Gk~L~D~~-tL~~y~I~~g~ti~L~~ 72 (73)
-++..|+.+....+--+|+...+.. -|..+ +.|..+.+.+
T Consensus 24 ~a~~aGl~~GD~I~~Ing~~v~~~~~~l~~~--~~~~~v~l~v 64 (80)
T cd00990 24 PADKAGLVAGDELVAVNGWRVDALQDRLKEY--QAGDPVELTV 64 (80)
T ss_pred hHHHhCCCCCCEEEEECCEEhHHHHHHHHhc--CCCCEEEEEE
Confidence 3456799999999988999887622 23333 4566666544
No 318
>cd04975 Ig4_SCFR_like Fourth immunoglobulin (Ig)-like domain of stem cell factor receptor (SCFR) and similar proteins. Ig4_SCFR_like; fourth immunoglobulin (Ig)-like domain of stem cell factor receptor (SCFR). In addition to SCFR this group also includes the fourth Ig domain of platelet-derived growth factor receptors (PDGFR), alpha and beta, the fourth Ig domain of macrophage colony stimulating factor (M-CSF), and the Ig domain of the receptor tyrosine kinase KIT. SCFR and the PDGFR alpha and beta have similar organization: an extracellular component having five Ig-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. SCFR and its ligand SCF are critical for normal hematopoiesis, mast cell development, melanocytes and gametogenesis. SCF binds to the second and third Ig-like domains of SCFR, this fourth Ig-like domain participates in SCFR dimerization, which follows ligand binding. Deletion of this fourth SCFR_Ig-like domain abolishes
Probab=26.35 E-value=60 Score=19.22 Aligned_cols=21 Identities=5% Similarity=-0.159 Sum_probs=17.6
Q ss_pred HhC-CCCccEEEEEcceEecCC
Q psy4181 34 QTG-TRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 34 ~~g-ip~~~QrLif~Gk~L~D~ 54 (73)
.+| .|+-..+|...|++|.+.
T Consensus 27 v~g~~P~p~v~W~Kdg~~i~~~ 48 (101)
T cd04975 27 VEAYPPPPHINWTYDNRTLTNK 48 (101)
T ss_pred EEecCCCCccEEEeCCeeCCCC
Confidence 367 888899999999999743
No 319
>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=26.13 E-value=40 Score=20.22 Aligned_cols=14 Identities=29% Similarity=0.579 Sum_probs=11.8
Q ss_pred ccCCCCCCEEEEEe
Q psy4181 59 DYEIHDGMNLELYY 72 (73)
Q Consensus 59 ~y~I~~g~ti~L~~ 72 (73)
+|-++||+.+|.-|
T Consensus 70 ~Yiv~DGDi~~f~f 83 (83)
T cd04867 70 DYVVQDGDIIFFKF 83 (83)
T ss_pred ceEeeCCeEEEEEC
Confidence 68899999998754
No 320
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=25.91 E-value=37 Score=20.12 Aligned_cols=20 Identities=15% Similarity=0.179 Sum_probs=16.4
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-+.++.+.+||++|+.|-++
T Consensus 35 i~p~dA~~lgI~dGd~V~v~ 54 (112)
T cd02787 35 MNPDDIARLGLKAGDRVDLE 54 (112)
T ss_pred ECHHHHHHhCCCCCCEEEEE
Confidence 46778889999999998764
No 321
>cd02781 MopB_CT_Acetylene-hydratase The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=25.87 E-value=39 Score=20.38 Aligned_cols=20 Identities=15% Similarity=-0.017 Sum_probs=16.8
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-...+.+.+||++|+.|.+.
T Consensus 37 inp~dA~~~gi~~Gd~V~v~ 56 (130)
T cd02781 37 INPETAAKLGIADGDWVWVE 56 (130)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 36778899999999999775
No 322
>cd01781 AF6_RA_repeat2 Ubiquitin domain of AT-6, second 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=25.68 E-value=1.7e+02 Score=18.07 Aligned_cols=28 Identities=7% Similarity=0.003 Sum_probs=24.5
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
.++-|.+++|+.++-...-++.|.+.++
T Consensus 18 KSIlvt~~~~a~~vV~eALeKygL~~e~ 45 (100)
T cd01781 18 KTILLSINDNADRIVGEALEKYGLEKSD 45 (100)
T ss_pred EEEEecCCccHHHHHHHHHHHhCCCccC
Confidence 4677889999999999999999998774
No 323
>PF03459 TOBE: TOBE domain; InterPro: IPR005116 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. It is probably involved in the recognition of small ligands such as molybdenum (P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT), and is found in ABC transporters immediately after the ATPase domain.; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1G29_2 1H9M_B 1H9J_A 1H9K_A 1H9R_B 1O7L_C 1H9S_A 1B9N_A 1B9M_A 1GUS_C ....
Probab=25.66 E-value=44 Score=17.66 Aligned_cols=21 Identities=5% Similarity=-0.012 Sum_probs=13.7
Q ss_pred CCccccccCCCCCCEEEEEeC
Q psy4181 53 DHIRIMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 53 D~~tL~~y~I~~g~ti~L~~~ 73 (73)
..+..+..+++.|+.+++.+.
T Consensus 38 t~~~~~~L~L~~G~~V~~~ik 58 (64)
T PF03459_consen 38 TPESAEELGLKPGDEVYASIK 58 (64)
T ss_dssp EHHHHHHCT-STT-EEEEEE-
T ss_pred cHHHHHHcCCCCCCEEEEEEe
Confidence 345677788899999988763
No 324
>PF03461 TRCF: TRCF domain; InterPro: IPR005118 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli. A lesion in the template strand blocks the RNA polymerase complex (RNAP). The RNAP-DNA-RNA complex is specifically recognised by the transcription-repair-coupling factor (TRCF) which releases RNAP and the truncated transcript.; GO: 0003684 damaged DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0006281 DNA repair; PDB: 2QSR_A 2EYQ_A.
Probab=25.63 E-value=32 Score=20.64 Aligned_cols=24 Identities=17% Similarity=0.374 Sum_probs=15.7
Q ss_pred CCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 19 NPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
...+-+.++++.+.+++|-+|+.=
T Consensus 30 ~~~~el~~l~~El~DRFG~~P~ev 53 (101)
T PF03461_consen 30 ESEEELEDLREELIDRFGPLPEEV 53 (101)
T ss_dssp -SHHHHHHHHHHHHHHH-S--HHH
T ss_pred CCHHHHHHHHHHHHHHcCCCcHHH
Confidence 344567888999999999988754
No 325
>cd05855 Ig_TrkB_d5 Fifth domain (immunoglobulin-like) of Trk receptor TrkB. TrkB_d5: the fifth domain of Trk receptor TrkB, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors, which mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. The Trks are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkB shares significant sequence homology and domain organization with TrkA, and TrkC. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrKB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. In some cell systems NT-3 can activate TrkA and TrkB receptors. TrKB transcripts are found throughout multiple structures of the central and peripheral nervous systems.
Probab=25.57 E-value=71 Score=18.24 Aligned_cols=21 Identities=10% Similarity=-0.010 Sum_probs=18.0
Q ss_pred hCCCCccEEEEEcceEecCCc
Q psy4181 35 TGTRWEKIVLKKWYTIFKDHI 55 (73)
Q Consensus 35 ~gip~~~QrLif~Gk~L~D~~ 55 (73)
.|-|+-.-.|..+|+.|++..
T Consensus 8 ~G~P~Pti~W~kng~~l~~~~ 28 (79)
T cd05855 8 KGNPKPTLQWFHEGAILNESE 28 (79)
T ss_pred eEeCCCceEEEECCEECCCCc
Confidence 588999999999999997654
No 326
>cd00992 PDZ_signaling PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of PDZ domains an N-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in proteases.
Probab=25.47 E-value=1.1e+02 Score=16.43 Aligned_cols=21 Identities=19% Similarity=0.098 Sum_probs=17.9
Q ss_pred HHHhCCCCccEEEEEcceEec
Q psy4181 32 AAQTGTRWEKIVLKKWYTIFK 52 (73)
Q Consensus 32 ~~~~gip~~~QrLif~Gk~L~ 52 (73)
+++.|+.+..+.+-.+|+.+.
T Consensus 39 a~~~gl~~GD~I~~ing~~i~ 59 (82)
T cd00992 39 AERGGLRVGDRILEVNGVSVE 59 (82)
T ss_pred HHhCCCCCCCEEEEECCEEcC
Confidence 455789999999999999987
No 327
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=25.43 E-value=3.9e+02 Score=22.06 Aligned_cols=61 Identities=20% Similarity=0.172 Sum_probs=44.1
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
+|||=|+.|+.+ .+....|+.++=..|.-..|--.--= ..+|+... -+|.+++|++|.+..
T Consensus 405 ~V~VfTPkG~~~--~Lp~gaT~lDfAy~iHt~iG~~~~gA--kvng~~v~-----l~~~L~~GD~VeIit 465 (743)
T PRK10872 405 RVYVFTPKGDVV--DLPAGSTPLDFAYHIHSDVGHRCIGA--KIGGRIVP-----FTYQLQMGDQIEIIT 465 (743)
T ss_pred eEEEECCCCCeE--EcCCCCcHHHHHHHHhHHHHhhceEE--EECCEECC-----CCcCCCCCCEEEEEe
Confidence 589999999965 45688999999888877666443222 35776543 356789999998764
No 328
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=25.42 E-value=3.6e+02 Score=21.72 Aligned_cols=61 Identities=21% Similarity=0.219 Sum_probs=44.1
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEEEe
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
+|||=|+.|..+.+ ....|+.++=..|.-..|--.--= .-+|+... -+|.+++|++|.+.+
T Consensus 361 ~i~vfTPkG~~~~l--p~gst~~DfAy~ih~~~g~~~~~a--~vng~~v~-----l~~~l~~gd~vei~t 421 (683)
T TIGR00691 361 EIYVFTPKGDVVEL--PSGSTPVDFAYAVHTDVGNKCTGA--KVNGKIVP-----LDKELENGDVVEIIT 421 (683)
T ss_pred ceEEECCCCeEEEc--CCCCCHHHHHHHHhHHhHhceeEE--EECCEECC-----CCccCCCCCEEEEEe
Confidence 58898999998766 578999999888876666543211 24676443 456789999998875
No 329
>cd05894 Ig_C5_MyBP-C C5 immunoglobulin (Ig) domain of cardiac myosin binding protein C (MyBP-C). Ig_C5_MyBP_C : the C5 immunoglobulin (Ig) domain of cardiac myosin binding protein C (MyBP-C). MyBP_C consists of repeated domains, Ig and fibronectin type 3, and various linkers. Three isoforms of MYBP_C exist and are included in this group: cardiac(c), and fast and slow skeletal muscle (s) MyBP_C. cMYBP_C has insertions between and inside domains and an additional cardiac-specific Ig domain at the N-terminus. For cMYBP_C an interaction has been demonstrated between this C5 domain and the Ig C8 domain.
Probab=25.37 E-value=1.4e+02 Score=16.81 Aligned_cols=31 Identities=16% Similarity=0.273 Sum_probs=24.9
Q ss_pred CCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecC
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKD 53 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D 53 (73)
.-|.++.+.| ...|-|+-.-.|..+|+.+.+
T Consensus 8 ~~G~~v~l~c--------------~~~G~P~P~v~W~k~~~~i~~ 38 (86)
T cd05894 8 VAGNKLRLDV--------------PISGEPAPTVTWSRGDKAFTE 38 (86)
T ss_pred EcCCEEEEEe--------------eEeecCCCeEEEEECCEECcc
Confidence 3588888887 335889889999999999964
No 330
>PRK11433 aldehyde oxidoreductase 2Fe-2S subunit; Provisional
Probab=25.36 E-value=99 Score=21.59 Aligned_cols=24 Identities=21% Similarity=0.234 Sum_probs=19.0
Q ss_pred EEEEcCCCCEEEEEeCCCCcHHHHH
Q psy4181 4 ITCNDRLGKKVRVKCNPDDTIGDLK 28 (73)
Q Consensus 4 i~vk~~~G~~~~v~v~~~~TV~~lK 28 (73)
|.++ .+|+.++++++|..|+.++=
T Consensus 52 i~~~-VNG~~~~~~v~~~~tLLd~L 75 (217)
T PRK11433 52 VTLK-VNGKTEQLEVDTRTTLLDAL 75 (217)
T ss_pred EEEE-ECCEEEEEecCCCCcHHHHH
Confidence 4443 58999999999999988653
No 331
>COG2029 Uncharacterized conserved protein [Function unknown]
Probab=25.15 E-value=20 Score=24.51 Aligned_cols=26 Identities=8% Similarity=-0.019 Sum_probs=19.7
Q ss_pred EEEEcceEecCCccccccCCCCCCEE
Q psy4181 43 VLKKWYTIFKDHIRIMDYEIHDGMNL 68 (73)
Q Consensus 43 rLif~Gk~L~D~~tL~~y~I~~g~ti 68 (73)
||-|.|.+++-......|||+..|.|
T Consensus 12 ~ldYdGSqI~~~wA~~~fgI~gdSiV 37 (189)
T COG2029 12 RLDYDGSQIRSAWAYRNFGIKGDSIV 37 (189)
T ss_pred cccCchhhhhhhHhHhhcCcCCceEE
Confidence 46678888887778888888877665
No 332
>cd02794 MopB_CT_DmsA-EC The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=24.94 E-value=41 Score=20.19 Aligned_cols=20 Identities=15% Similarity=0.272 Sum_probs=16.6
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-+..+.+.+||++|+.|.+.
T Consensus 34 i~p~~A~~~gi~~Gd~V~v~ 53 (121)
T cd02794 34 INPLDAAARGIKDGDRVLVF 53 (121)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 36778899999999998764
No 333
>cd05852 Ig5_Contactin-1 Fifth Ig domain of contactin-1. Ig5_Contactin-1: fifth Ig domain of the neural cell adhesion molecule contactin-1. Contactins are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. Contactin-1 is differentially expressed in tumor tissues and may through a RhoA mechanism, facilitate invasion and metastasis of human lung adenocarcinoma.
Probab=24.93 E-value=1.2e+02 Score=16.49 Aligned_cols=32 Identities=19% Similarity=0.138 Sum_probs=19.6
Q ss_pred hCCCCccEEEEEcceEecCCccccccCCCCCCEEE
Q psy4181 35 TGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLE 69 (73)
Q Consensus 35 ~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~ 69 (73)
.|.|+-.-.|..+|+.|.+.. .|.+.++.+|.
T Consensus 11 ~g~P~p~v~W~k~~~~l~~~~---r~~~~~~g~L~ 42 (73)
T cd05852 11 KAAPKPKFSWSKGTELLVNNS---RISIWDDGSLE 42 (73)
T ss_pred ceeCCCEEEEEeCCEecccCC---CEEEcCCCEEE
Confidence 467777778888888775443 23444444444
No 334
>PLN02696 1-deoxy-D-xylulose-5-phosphate reductoisomerase
Probab=24.78 E-value=1.1e+02 Score=23.72 Aligned_cols=53 Identities=17% Similarity=0.235 Sum_probs=38.2
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHH--hCCCCcc-------EEEEEcceEecCCccccccCCCC
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQ--TGTRWEK-------IVLKKWYTIFKDHIRIMDYEIHD 64 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~--~gip~~~-------QrLif~Gk~L~D~~tL~~y~I~~ 64 (73)
+|++++++ +..-+-..=+-|+++ +|+|+++ |-++++--.+.|...+++.+-.|
T Consensus 260 MG~KITID--SATmmNKglEvIEA~~LF~~~~d~I~vvIHPqSiIHsmVef~DGS~~Aql~~pD 321 (454)
T PLN02696 260 MGKKITVD--SATLMNKGLEVIEAHYLFGADYDDIDIVIHPQSIIHSMVETQDSSVLAQLGWPD 321 (454)
T ss_pred CCCeeeee--hHhhhhhhHHHHHHHHHcCCCHHHeEEEECcCCeeeEEEEEcCCcEEEEecCCC
Confidence 68887774 444455566788887 6998766 56778888888888888777543
No 335
>PF13565 HTH_32: Homeodomain-like domain
Probab=24.75 E-value=1.1e+02 Score=16.59 Aligned_cols=21 Identities=14% Similarity=0.224 Sum_probs=16.6
Q ss_pred CCCCcHHHHHHHHHHHhCCCC
Q psy4181 19 NPDDTIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~gip~ 39 (73)
.|..|..++.+.|+++.|+.+
T Consensus 46 ~p~wt~~~i~~~L~~~~g~~~ 66 (77)
T PF13565_consen 46 HPRWTPREIAEYLEEEFGISV 66 (77)
T ss_pred CCCCCHHHHHHHHHHHhCCCC
Confidence 357788888888888888754
No 336
>PF10678 DUF2492: Protein of unknown function (DUF2492); InterPro: IPR019620 This entry describes a family of small cytosolic proteins, about 80 amino acids in length, in which the eight invariant residues include three His residues and two Cys residues. Two pairs of these invariant residues occur in motifs HxH (where x is A or G) and CxH, both of which suggest metal-binding activity. This protein family was identified by searching with a phylogenetic profile based on an anaerobic sulphatase-maturase enzyme, which contains multiple 4Fe-4S clusters. The linkages by phylogenetic profiling and by iron-sulphur cluster-related motifs together suggest this protein may be an accessory protein to certain maturases in sulphatase/maturase systems.
Probab=24.72 E-value=1e+02 Score=18.20 Aligned_cols=21 Identities=24% Similarity=0.145 Sum_probs=17.6
Q ss_pred CCCCcHHHHHHHHHHHhCCCC
Q psy4181 19 NPDDTIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~gip~ 39 (73)
....|..+|++.|.+++|-.+
T Consensus 17 ~~~~t~~~L~~ai~~~FG~~a 37 (78)
T PF10678_consen 17 GNPYTKEELKAAIIEKFGEDA 37 (78)
T ss_pred CCCcCHHHHHHHHHHHhCCCc
Confidence 345689999999999999765
No 337
>COG1978 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.67 E-value=2.2e+02 Score=18.91 Aligned_cols=38 Identities=21% Similarity=0.236 Sum_probs=30.6
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCc
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWE 40 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~ 40 (73)
.+..++-.|-..-+.+..-.-|.+|+++|.+....+.+
T Consensus 51 a~~~r~gsGa~~f~~v~~v~ki~slrqrI~~Eta~Sle 88 (152)
T COG1978 51 AVHHRSGSGAKVFYNVEKVPKINSLRQRIMEETARSLE 88 (152)
T ss_pred EEEEEcCCCcEEEEEeEEcCchhhHHHHHHHHHHHHHH
Confidence 34668888999999998888899999999887655443
No 338
>PRK09908 xanthine dehydrogenase subunit XdhC; Provisional
Probab=24.46 E-value=1.3e+02 Score=20.01 Aligned_cols=22 Identities=14% Similarity=0.288 Sum_probs=18.4
Q ss_pred CCCCEEEEEeCCCCcHHHHHHH
Q psy4181 9 RLGKKVRVKCNPDDTIGDLKKL 30 (73)
Q Consensus 9 ~~G~~~~v~v~~~~TV~~lK~~ 30 (73)
++|+.++++++|..+..++=..
T Consensus 13 vNG~~~~~~~~~~~~Ll~~LR~ 34 (159)
T PRK09908 13 INGMPFQLHAAPGTPLSELLRE 34 (159)
T ss_pred ECCEEEEEecCCCCcHHHHHHH
Confidence 4899999999999998876543
No 339
>PF14552 Tautomerase_2: Tautomerase enzyme; PDB: 2AAG_C 2AAL_A 2AAJ_A 1MWW_C.
Probab=24.39 E-value=1.1e+02 Score=17.82 Aligned_cols=28 Identities=21% Similarity=0.198 Sum_probs=15.7
Q ss_pred HHHHHHHHHhCCCCccEEEEEcceEecC
Q psy4181 26 DLKKLIAAQTGTRWEKIVLKKWYTIFKD 53 (73)
Q Consensus 26 ~lK~~I~~~~gip~~~QrLif~Gk~L~D 53 (73)
.|-+.++++.||+|+.--....--..+|
T Consensus 51 ~l~~~L~~~~gi~p~Dv~I~l~e~~~ed 78 (82)
T PF14552_consen 51 ALAERLAEKLGIRPEDVMIVLVENPRED 78 (82)
T ss_dssp HHHHHHHHHH---GGGEEEEEEEE-GGG
T ss_pred HHHHHHHHHcCCCHHHEEEEEEECCccc
Confidence 4455777889999999876554444444
No 340
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=24.25 E-value=1.1e+02 Score=24.59 Aligned_cols=28 Identities=21% Similarity=0.150 Sum_probs=25.2
Q ss_pred CCCcHHHHHHHHHHHhCCCCccEEEEEc
Q psy4181 20 PDDTIGDLKKLIAAQTGTRWEKIVLKKW 47 (73)
Q Consensus 20 ~~~TV~~lK~~I~~~~gip~~~QrLif~ 47 (73)
|+.-+..+|++|++..|++++.-.++.+
T Consensus 141 P~Adpervk~eIe~~iGid~~dav~~SA 168 (603)
T COG0481 141 PAADPERVKQEIEDIIGIDASDAVLVSA 168 (603)
T ss_pred CCCCHHHHHHHHHHHhCCCcchheeEec
Confidence 7888999999999999999999888753
No 341
>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=24.19 E-value=1.7e+02 Score=17.36 Aligned_cols=41 Identities=10% Similarity=-0.035 Sum_probs=29.0
Q ss_pred EEEEeCCCCcHHHHHHHHHHHhCCCCccEEE--EEcceEecCCc
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL--KKWYTIFKDHI 55 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL--if~Gk~L~D~~ 55 (73)
...-|-+ .+..+|+.|..+..+++.+.-+| --.|..++|++
T Consensus 14 ~k~GV~A-~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~Ee 56 (78)
T cd06539 14 SRRGVMA-SSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEE 56 (78)
T ss_pred ceEEEEe-cCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHH
Confidence 3344433 37899999999999998765555 44787776654
No 342
>PRK13294 F420-0--gamma-glutamyl ligase; Provisional
Probab=24.19 E-value=83 Score=24.01 Aligned_cols=47 Identities=13% Similarity=0.206 Sum_probs=35.5
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCcc
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIR 56 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~t 56 (73)
.|....+..+|+.+-..|++.|.++.|..+.=..-=-.||++....|
T Consensus 115 ~~~~~llP~dp~~sa~~l~~~l~~~~g~~v~vii~Dt~gr~~r~g~~ 161 (448)
T PRK13294 115 RGELALLPVDPDASAAALRAGLRERLGVDVAVVVTDTMGRAWRNGQT 161 (448)
T ss_pred CCeEEeCCCChHHHHHHHHHHHHHHHCCCEEEEEecCCCCccccCcc
Confidence 46667789999999999999999999997653322237777766543
No 343
>cd05863 Ig2_VEGFR-3 Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 3 (VEGFR-3). Ig2_VEGFR-3: Second immunoglobulin (Ig)-like domain of vascular endothelial growth factor receptor 3 (VEGFR-3). The VEGFRs have an extracellular component with seven Ig-like domains, a transmembrane segment, and an intracellular tyrosine kinase domain interrupted by a kinase-insert domain. VEGFRs bind VEGFs with high affinity at the Ig-like domains. VEGFR-3 (Flt-4) binds two members of the VEGF family (VEGF-C and -D) and is involved in tumor angiogenesis and growth.
Probab=24.01 E-value=63 Score=17.77 Aligned_cols=19 Identities=5% Similarity=-0.193 Sum_probs=16.1
Q ss_pred hCCCCccEEEEEcceEecC
Q psy4181 35 TGTRWEKIVLKKWYTIFKD 53 (73)
Q Consensus 35 ~gip~~~QrLif~Gk~L~D 53 (73)
.|.|+-...|..+|++|..
T Consensus 8 ~g~P~P~v~W~kdg~~l~~ 26 (67)
T cd05863 8 AAYPPPEFQWYKDGKLISG 26 (67)
T ss_pred EEeCCCEEEEEECCEECcc
Confidence 5788888999999999973
No 344
>PF12977 DUF3861: Domain of Unknown Function with PDB structure (DUF3861); InterPro: IPR024476 This entry represents a family of proteins of unknown function which are found predominantly in the proteobacteria. The structurally characterised member of this family (Q6D5X8 from SWISSPROT) adopts a novel fold consisting of a long N-terminal beta-hairpin followed by three alpha helices. This structure shows some resemblance to three-helical bundle folds such as the serum albumin-like fold.; PDB: 3CJL_B.
Probab=23.87 E-value=1e+02 Score=18.73 Aligned_cols=29 Identities=7% Similarity=0.099 Sum_probs=23.5
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCc
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWE 40 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~ 40 (73)
.++.+++...|-+.++=+++..+.+.+++
T Consensus 22 ~~l~Fe~~nHDDi~~Ive~v~~k~~~~~~ 50 (94)
T PF12977_consen 22 APLQFEFENHDDIFEIVERVKQKGDFDED 50 (94)
T ss_dssp -EEEEEEEESS-HHHHHHHHTTTSSS-HH
T ss_pred CceEEeccChHHHHHHHHHHHhcCCCCHH
Confidence 48889999999999999999999988854
No 345
>PRK06425 histidinol-phosphate aminotransferase; Validated
Probab=23.75 E-value=1.2e+02 Score=21.26 Aligned_cols=29 Identities=24% Similarity=0.047 Sum_probs=23.1
Q ss_pred CCCCcHHHHHHHHHHHhCCCCccEEEEEcc
Q psy4181 19 NPDDTIGDLKKLIAAQTGTRWEKIVLKKWY 48 (73)
Q Consensus 19 ~~~~TV~~lK~~I~~~~gip~~~QrLif~G 48 (73)
.|+..-.+|++.|++..|+++++ .++-+|
T Consensus 37 Yp~~~~~~lr~~ia~~~~~~~~~-I~it~G 65 (332)
T PRK06425 37 YPEISYTDIEDQIKIYTQGLKIK-VLIGPG 65 (332)
T ss_pred CcCcCHHHHHHHHHHHhCCCcce-EEECCC
Confidence 47777899999999999999877 444444
No 346
>PRK14444 acylphosphatase; Provisional
Probab=23.68 E-value=1.7e+02 Score=17.26 Aligned_cols=35 Identities=6% Similarity=0.074 Sum_probs=23.4
Q ss_pred EEEcCCCCEEEEEe-CCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 5 TCNDRLGKKVRVKC-NPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 5 ~vk~~~G~~~~v~v-~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
+||...+-++.+.+ .+.+.|.++++.|. .|.|..+
T Consensus 35 ~V~N~~dG~Vei~~qG~~~~i~~f~~~l~--~gp~~a~ 70 (92)
T PRK14444 35 WVRNLSDGRVEAVFEGSRPAVQKMISWCY--SGPSHAR 70 (92)
T ss_pred EEEECCCCcEEEEEEcCHHHHHHHHHHHH--hCCCCcE
Confidence 57777666666665 45667999998887 4655433
No 347
>PF04411 DUF524: Protein of unknown function (DUF524); InterPro: IPR007505 This domain has been identified as a member of the PD-(D/E)XK nuclease superfamily through transitive meta profile searches []. The domain has two additional beta-strands inserted to the core fold after the first core alpha-helix. It has been speculated that it could function as s methylation-dependent restriction [].
Probab=23.59 E-value=1.9e+02 Score=17.97 Aligned_cols=50 Identities=18% Similarity=0.266 Sum_probs=32.2
Q ss_pred cHHHHHHHHHHHhCCCCccEEEEEc---c--eEecCCcc--ccccCCCCCCEEEEEeC
Q psy4181 23 TIGDLKKLIAAQTGTRWEKIVLKKW---Y--TIFKDHIR--IMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 23 TV~~lK~~I~~~~gip~~~QrLif~---G--k~L~D~~t--L~~y~I~~g~ti~L~~~ 73 (73)
+...|.+.+.+..|.++..+.++-. | ..|.+... +.-.. .++..|+|.|+
T Consensus 7 cfl~l~~~L~~~~g~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~i~l~Yn 63 (154)
T PF04411_consen 7 CFLKLIKILKEVLGFEVKSQDIFEINEDGLRVSLRKGRESKFIFFN-RDGERIELYYN 63 (154)
T ss_pred HHHHHHHHHHHhhCCcccccceeeccCCCeeEeeccCCceeEEEEc-CCCcEEEEEEC
Confidence 4456777888888988888877432 2 23343333 33334 78889999985
No 348
>PF09273 Rubis-subs-bind: Rubisco LSMT substrate-binding; InterPro: IPR015353 This domain adopts a multihelical structure, with an irregular array of long and short alpha-helices. It allows binding of the protein to substrate, such as the N-terminal tails of histones H3 and H4 and the large subunit of the Rubisco holoenzyme complex []. ; PDB: 3QXY_A 3RC0_A 1P0Y_A 2H2E_C 2H23_A 1MLV_C 2H2J_B 2H21_B 1OZV_C 3SMT_A.
Probab=23.54 E-value=1.2e+02 Score=17.81 Aligned_cols=31 Identities=16% Similarity=0.138 Sum_probs=22.0
Q ss_pred eCCCCcHHHHHHHHHHHhCCCCccEEEEEcc
Q psy4181 18 CNPDDTIGDLKKLIAAQTGTRWEKIVLKKWY 48 (73)
Q Consensus 18 v~~~~TV~~lK~~I~~~~gip~~~QrLif~G 48 (73)
++++|-..+-|.++-+..|++.++.--++.+
T Consensus 1 l~~~D~l~~~K~~lL~~~gl~~~~~f~l~~~ 31 (128)
T PF09273_consen 1 LSPSDPLFEEKKQLLEEHGLSGDQTFDLRAD 31 (128)
T ss_dssp --TTSTTHHHHHHHHHHTTS-SEEEEEEECC
T ss_pred CCchhhhHHHHHHHHHHCCCCCCceeeeeCC
Confidence 4688899999999999999999933324433
No 349
>PRK14433 acylphosphatase; Provisional
Probab=23.52 E-value=1.4e+02 Score=17.43 Aligned_cols=33 Identities=18% Similarity=0.335 Sum_probs=22.2
Q ss_pred EEEcCCCCEEEEEe-CCCCcHHHHHHHHHHHhCCCC
Q psy4181 5 TCNDRLGKKVRVKC-NPDDTIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 5 ~vk~~~G~~~~v~v-~~~~TV~~lK~~I~~~~gip~ 39 (73)
+||...+.++.+.+ .+...|..+++.|. .|.|.
T Consensus 32 ~V~N~~dG~Vei~~~G~~~~i~~f~~~l~--~gP~~ 65 (87)
T PRK14433 32 YAENLSDGRVEVVAEGPKEALERLLHWLR--RGPRH 65 (87)
T ss_pred EEEECCCCCEEEEEEECHHHHHHHHHHHh--hCCCC
Confidence 57777666566655 34568889988885 56443
No 350
>TIGR00243 Dxr 1-deoxy-D-xylulose 5-phosphate reductoisomerase. 1-deoxy-D-xylulose 5-phosphate is converted to 2-C-methyl-D-erythritol 4-phosphate in the presence of NADPH. It is involved in the synthesis of isopentenyl diphosphate (IPP), a basic building block in isoprenoid, thiamin, and pyridoxal biosynthesis.
Probab=23.50 E-value=1.2e+02 Score=23.06 Aligned_cols=53 Identities=19% Similarity=0.241 Sum_probs=37.4
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHH--hCCCCcc-------EEEEEcceEecCCccccccCCCC
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQ--TGTRWEK-------IVLKKWYTIFKDHIRIMDYEIHD 64 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~--~gip~~~-------QrLif~Gk~L~D~~tL~~y~I~~ 64 (73)
+|++++++ +..-+-..=+-|+++ +|+|+++ |-++++--...|+..+++.+-.|
T Consensus 205 MG~KITID--SATmmNKglEvIEA~~LF~~~~d~I~vvIHpqSiIHsmVef~DGSv~aql~~pD 266 (389)
T TIGR00243 205 MGRKITID--SATMMNKGLEYIEARWLFGASAEQIDVLIHPQSIIHSMVEFQDGSVIAQLGEPD 266 (389)
T ss_pred CCCeeeee--hHhhhhhhHHHHHHHHHcCCCHHHeEEEECCCCceeEEEEEcCccEEEEeCCCC
Confidence 68887764 444555666788887 6999776 55677777788888877766543
No 351
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=23.44 E-value=1.6e+02 Score=17.70 Aligned_cols=25 Identities=12% Similarity=0.212 Sum_probs=18.8
Q ss_pred HHHHHHHHHHhCCCCccEEEEEcce
Q psy4181 25 GDLKKLIAAQTGTRWEKIVLKKWYT 49 (73)
Q Consensus 25 ~~lK~~I~~~~gip~~~QrLif~Gk 49 (73)
+.+=+.+++..|+|++.-...|..-
T Consensus 79 ~~i~~~l~~~lgi~~~rv~I~f~~~ 103 (116)
T PTZ00397 79 AAITKILASHLKVKSERVYIEFKDC 103 (116)
T ss_pred HHHHHHHHHHhCcCcccEEEEEEEC
Confidence 3455567778999999998887543
No 352
>COG2853 VacJ Surface lipoprotein [Cell envelope biogenesis, outer membrane]
Probab=23.43 E-value=61 Score=23.24 Aligned_cols=31 Identities=16% Similarity=0.216 Sum_probs=24.5
Q ss_pred HHHHhCCCCccEEEEEcceEecCCccccccCCCCCCEEEE
Q psy4181 31 IAAQTGTRWEKIVLKKWYTIFKDHIRIMDYEIHDGMNLEL 70 (73)
Q Consensus 31 I~~~~gip~~~QrLif~Gk~L~D~~tL~~y~I~~g~ti~L 70 (73)
++.+.|+|.+.+++ ..||..||+.+|--|.|
T Consensus 121 vAs~~gl~~~~~dF---------G~TLg~yGvg~G~YivL 151 (250)
T COG2853 121 VASKMGLPKNPEDF---------GQTLGHYGVGNGPYIVL 151 (250)
T ss_pred hHhhcCCCCChhhh---------hhhhhhcccCCCCeEEE
Confidence 45556888877776 68999999999987765
No 353
>cd00986 PDZ_LON_protease PDZ domain of ATP-dependent LON serine proteases. Most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this bacterial subfamily of protease-associated PDZ domains a C-terminal beta-strand is thought to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=23.39 E-value=1.4e+02 Score=16.24 Aligned_cols=37 Identities=16% Similarity=0.211 Sum_probs=25.2
Q ss_pred CCCCccEEEEEcceEecCCcccccc--CCCCCCEEEEEe
Q psy4181 36 GTRWEKIVLKKWYTIFKDHIRIMDY--EIHDGMNLELYY 72 (73)
Q Consensus 36 gip~~~QrLif~Gk~L~D~~tL~~y--~I~~g~ti~L~~ 72 (73)
|+.+....+-.+|+.+.+...+... ....|+.+.+.+
T Consensus 24 gL~~GD~I~~Ing~~v~~~~~~~~~l~~~~~~~~v~l~v 62 (79)
T cd00986 24 KLKAGDHIIAVDGKPFKEAEELIDYIQSKKEGDTVKLKV 62 (79)
T ss_pred CCCCCCEEEEECCEECCCHHHHHHHHHhCCCCCEEEEEE
Confidence 7999999998899988765444321 134566766654
No 354
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=23.31 E-value=1.4e+02 Score=17.67 Aligned_cols=50 Identities=8% Similarity=0.024 Sum_probs=32.3
Q ss_pred EEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecC-CccccccCC
Q psy4181 13 KVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKD-HIRIMDYEI 62 (73)
Q Consensus 13 ~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D-~~tL~~y~I 62 (73)
-+-+++..+.....+++-+++....+++.-+++.+|..... .+.+.+.|+
T Consensus 53 vV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~~~~~~~~~~~~G~ 103 (119)
T cd02067 53 AIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAIVTRDFKFLKEIGV 103 (119)
T ss_pred EEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCCCChhHHHHHHcCC
Confidence 34455555667777777666655555556778889987754 556666664
No 355
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=23.20 E-value=68 Score=19.39 Aligned_cols=26 Identities=8% Similarity=0.070 Sum_probs=21.9
Q ss_pred cceEecCCccccccCCCCCCEEEEEe
Q psy4181 47 WYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 47 ~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
.++.|.|+.-|+-++|.--+.-|++|
T Consensus 30 ~k~~L~dDde~aIfnI~gT~Sy~V~F 55 (88)
T COG4009 30 AKVDLNDDDELAIFNIEGTSSYYVVF 55 (88)
T ss_pred cccccCCCCcEEEEEecCceeEEEEE
Confidence 57889999999999998877777766
No 356
>cd02793 MopB_CT_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO.This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=23.17 E-value=47 Score=20.29 Aligned_cols=19 Identities=16% Similarity=0.237 Sum_probs=15.8
Q ss_pred CCccccccCCCCCCEEEEE
Q psy4181 53 DHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 53 D~~tL~~y~I~~g~ti~L~ 71 (73)
+..+.+.+||++|+.|.+.
T Consensus 38 ~p~dA~~~gi~~Gd~V~v~ 56 (129)
T cd02793 38 NPADAAARGIADGDIVRVF 56 (129)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 5678889999999988764
No 357
>PF12689 Acid_PPase: Acid Phosphatase; InterPro: IPR010036 This entry represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterised as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues [, ].; GO: 0016791 phosphatase activity; PDB: 1U7P_A 1U7O_A 2WM8_A.
Probab=23.17 E-value=1.6e+02 Score=19.46 Aligned_cols=33 Identities=18% Similarity=0.201 Sum_probs=21.9
Q ss_pred EEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcce
Q psy4181 15 RVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYT 49 (73)
Q Consensus 15 ~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk 49 (73)
.+++.|+.-+..++ +|.++.|||.++ .|+|.-.
T Consensus 101 ~~eI~~gsK~~Hf~-~i~~~tgI~y~e-MlFFDDe 133 (169)
T PF12689_consen 101 YLEIYPGSKTTHFR-RIHRKTGIPYEE-MLFFDDE 133 (169)
T ss_dssp EEEESSS-HHHHHH-HHHHHH---GGG-EEEEES-
T ss_pred hhheecCchHHHHH-HHHHhcCCChhH-EEEecCc
Confidence 37889998888885 788899999988 5666543
No 358
>cd04860 AE_Prim_S AE_Prim_S: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. Primases are DNA-dependent RNA polymerases which synthesis the short RNA primers required for DNA replication. In addition to its catalytic role in replication, DNA primase may play a role in coupling replication to DNA damage repair and in checkpoint control during S phase. In eukaryotes, this small catalytically active primase subunit (p50) and a larger primase subunit (p60), referred to jointly as the core primase, associate with the B subunit and the DNA polymerase alpha subunit in a complex, called Pol alpha-pri. The function of the larger primase subunit is unclear. Included in this group are Pfu41 and Pfu46, these two proteins comprise the primase complex of the archaea Pyrococcus furiosus; Pfu41 and Pfu46 have sequence identity to the eukaryotic p50 and p60 primase proteins respectively. Pfu41 preferentially uses dNTPs as substrate. Pfu46 regulat
Probab=23.06 E-value=2.3e+02 Score=19.73 Aligned_cols=41 Identities=17% Similarity=0.237 Sum_probs=28.1
Q ss_pred EcCCCCEEEEEeCCCCc-----------------------HHHHHHHHHHHhCCCCccEEEEEcce
Q psy4181 7 NDRLGKKVRVKCNPDDT-----------------------IGDLKKLIAAQTGTRWEKIVLKKWYT 49 (73)
Q Consensus 7 k~~~G~~~~v~v~~~~T-----------------------V~~lK~~I~~~~gip~~~QrLif~Gk 49 (73)
|..-|+...++++.++. +.-|...+.+-+|... .++.|+|+
T Consensus 73 ~~~~~rElVFDID~~d~d~~r~cc~~~~ic~kCw~~~~~a~~~l~~~L~~dFGf~~--i~~vfSG~ 136 (232)
T cd04860 73 KGWLGRELVFDIDADDYDDVRTCCSGATICEKCWKFAKEAVKILDDILREDFGFKH--ILWVFSGR 136 (232)
T ss_pred CCccccceEEEccCCcCCCcccccccccHHHHHHHHHHHHHHHHHHHHHHHcCCce--EEEEEECC
Confidence 33457888888887532 2334455666788886 99999994
No 359
>PRK14429 acylphosphatase; Provisional
Probab=23.04 E-value=1.7e+02 Score=17.09 Aligned_cols=32 Identities=13% Similarity=0.173 Sum_probs=21.9
Q ss_pred EEEcCCCCEEEEEe-CCCCcHHHHHHHHHHHhCCC
Q psy4181 5 TCNDRLGKKVRVKC-NPDDTIGDLKKLIAAQTGTR 38 (73)
Q Consensus 5 ~vk~~~G~~~~v~v-~~~~TV~~lK~~I~~~~gip 38 (73)
+|+...+-++.+.+ .+.+.|.++++.+. .|.|
T Consensus 33 ~V~N~~dG~Vei~~qG~~~~i~~f~~~l~--~gp~ 65 (90)
T PRK14429 33 YVTNCEDGSVEILAQGSDPAVDNLIAWCE--VGVP 65 (90)
T ss_pred EEEECCCCeEEEEEEeCHHHHHHHHHHHh--hCCC
Confidence 67777666666665 45556888888887 4633
No 360
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=23.02 E-value=80 Score=19.44 Aligned_cols=17 Identities=29% Similarity=0.503 Sum_probs=15.0
Q ss_pred cHHHHHHHHHHHhCCCC
Q psy4181 23 TIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 23 TV~~lK~~I~~~~gip~ 39 (73)
.+.++++.|+++.|+++
T Consensus 86 ~~~~~~~~I~~~~gi~V 102 (107)
T PF08821_consen 86 HIDEIKKIIEEKFGIEV 102 (107)
T ss_pred CHHHHHHHHHHHhCCCE
Confidence 48999999999999875
No 361
>cd03061 GST_N_CLIC GST_N family, Chloride Intracellular Channel (CLIC) subfamily; composed of CLIC1-5, p64, parchorin and similar proteins. They are auto-inserting, self-assembling intracellular anion channels involved in a wide variety of functions including regulated secretion, cell division and apoptosis. They can exist in both water-soluble and membrane-bound states, and are found in various vesicles and membranes. Biochemical studies of the C. elegans homolog, EXC-4, show that the membrane localization domain is present in the N-terminal part of the protein. The structure of soluble human CLIC1 reveals that it is monomeric and it adopts a fold similar to GSTs, containing an N-terminal domain with a TRX fold and a C-terminal alpha helical domain. Upon oxidation, the N-terminal domain of CLIC1 undergoes a structural change to form a non-covalent dimer stabilized by the formation of an intramolecular disulfide bond between two cysteines that are far apart in the reduced form. The CLI
Probab=23.01 E-value=1.6e+02 Score=17.47 Aligned_cols=37 Identities=14% Similarity=0.132 Sum_probs=17.9
Q ss_pred EEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 2 IEITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 2 ~~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
+.+|||...+..- +...| -...++--++++ |++.+..
T Consensus 6 ~el~vka~~~~~~-~g~cp--f~~rvrl~L~eK-gi~ye~~ 42 (91)
T cd03061 6 IELFVKASSDGES-IGNCP--FCQRLFMVLWLK-GVVFNVT 42 (91)
T ss_pred EEEEEEeccCCCC-CCCCh--hHHHHHHHHHHC-CCceEEE
Confidence 4678887654333 32222 334444333333 6665543
No 362
>cd08347 PcpA_C_like C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins. The C-terminal domain of Sphingobium chlorophenolicum (formerly Sphingomonas chlorophenolica) 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins. PcpA is a key enzyme in the pentachlorophenol (PCP) degradation pathway, catalyzing the conversion of 2,6-dichloro-p-hydroquinone to 2-chloromaleylacetate. This domain belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases.
Probab=22.80 E-value=84 Score=19.83 Aligned_cols=37 Identities=8% Similarity=0.057 Sum_probs=26.6
Q ss_pred EEEEEcCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCCC
Q psy4181 3 EITCNDRLGKKVRVKCN-PDDTIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~-~~~TV~~lK~~I~~~~gip~ 39 (73)
.+++++++|..+.+..+ |.+++.+--+.+-++...||
T Consensus 104 s~yf~DPdG~~iEl~~~~~~~~~~~~~~~~~~~~~~~~ 141 (157)
T cd08347 104 SLYFREPGGILFEIATDGPGFTVDEPLEELGERLKLPP 141 (157)
T ss_pred EEEEECCCCcEEEEEECCCCccccCChhHcCCccCCCh
Confidence 47899999999998774 45667765555555555555
No 363
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=22.77 E-value=1.4e+02 Score=16.16 Aligned_cols=41 Identities=15% Similarity=0.120 Sum_probs=27.4
Q ss_pred HHHhCCCCccEEEEEcceEecCC--ccccc-cCCCCCCEEEEEe
Q psy4181 32 AAQTGTRWEKIVLKKWYTIFKDH--IRIMD-YEIHDGMNLELYY 72 (73)
Q Consensus 32 ~~~~gip~~~QrLif~Gk~L~D~--~tL~~-y~I~~g~ti~L~~ 72 (73)
+++.|+.+..+.+-.+|....+. ..+.+ ..=..|+.+.|.+
T Consensus 26 a~~~gl~~GD~I~~vng~~i~~~~~~~~~~~l~~~~~~~i~l~v 69 (85)
T cd00988 26 AAKAGIKAGDIIVAIDGEPVDGLSLEDVVKLLRGKAGTKVRLTL 69 (85)
T ss_pred HHHcCCCCCCEEEEECCEEcCCCCHHHHHHHhcCCCCCEEEEEE
Confidence 44569999999999999998875 33322 1113567776654
No 364
>cd00118 LysM Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function.
Probab=22.76 E-value=91 Score=13.88 Aligned_cols=22 Identities=27% Similarity=0.365 Sum_probs=15.3
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCcc
Q psy4181 16 VKCNPDDTIGDLKKLIAAQTGTRWEK 41 (73)
Q Consensus 16 v~v~~~~TV~~lK~~I~~~~gip~~~ 41 (73)
+.+.+.||+.. |+++.|+++.+
T Consensus 3 ~~v~~gdt~~~----ia~~~~~~~~~ 24 (46)
T cd00118 3 YTVKKGDTLSS----IAQRYGISVEE 24 (46)
T ss_pred EEECCCCCHHH----HHHHHCcCHHH
Confidence 56678888775 55666888764
No 365
>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=22.45 E-value=1.8e+02 Score=17.22 Aligned_cols=43 Identities=16% Similarity=0.145 Sum_probs=29.5
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCcc--EEE--EEcceEecCCc
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWEK--IVL--KKWYTIFKDHI 55 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~~--QrL--if~Gk~L~D~~ 55 (73)
++...-|.+ .|..+|+.|..++.++|... -+| --.|-.++|++
T Consensus 12 r~~k~GV~A-~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDGT~VddEe 58 (80)
T cd06536 12 RQKQHGVAA-SSLEELRIKACESLGFDSSSAPITLVLAEDGTIVEDED 58 (80)
T ss_pred CCeeEeEEc-CCHHHHHHHHHHHhCCCCCCCceEEEEecCCcEEccHH
Confidence 444455544 38899999999999999432 444 34788886654
No 366
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=22.36 E-value=85 Score=15.98 Aligned_cols=17 Identities=29% Similarity=0.444 Sum_probs=11.7
Q ss_pred CCcHHHHHHHHHHHhCCC
Q psy4181 21 DDTIGDLKKLIAAQTGTR 38 (73)
Q Consensus 21 ~~TV~~lK~~I~~~~gip 38 (73)
+.|+.+|+ .|++..||+
T Consensus 4 ~~~~~eL~-~iAk~lgI~ 20 (43)
T PF07498_consen 4 SMTLSELR-EIAKELGIE 20 (43)
T ss_dssp CS-HHHHH-HHHHCTT-T
T ss_pred cCCHHHHH-HHHHHcCCC
Confidence 46888886 678888886
No 367
>COG1709 Predicted transcriptional regulator [Transcription]
Probab=22.18 E-value=2.2e+02 Score=20.32 Aligned_cols=20 Identities=25% Similarity=0.312 Sum_probs=17.8
Q ss_pred CCCcHHHHHHHHHHHhCCCC
Q psy4181 20 PDDTIGDLKKLIAAQTGTRW 39 (73)
Q Consensus 20 ~~~TV~~lK~~I~~~~gip~ 39 (73)
+.+-|.+|--+|++.+|||.
T Consensus 204 ~~~~vD~lAikiAe~e~IpL 223 (241)
T COG1709 204 PPDNVDELAIKIAEIERIPL 223 (241)
T ss_pred CccchhHHHHHHHhhcCCce
Confidence 67789999999999999995
No 368
>PF00571 CBS: CBS domain CBS domain web page. Mutations in the CBS domain of Swiss:P35520 lead to homocystinuria.; InterPro: IPR000644 CBS (cystathionine-beta-synthase) domains are small intracellular modules, mostly found in two or four copies within a protein, that occur in a variety of proteins in bacteria, archaea, and eukaryotes [, ]. Tandem pairs of CBS domains can act as binding domains for adenosine derivatives and may regulate the activity of attached enzymatic or other domains []. In some cases, CBS domains may act as sensors of cellular energy status by being activated by AMP and inhibited by ATP []. In chloride ion channels, the CBS domains have been implicated in intracellular targeting and trafficking, as well as in protein-protein interactions, but results vary with different channels: in the CLC-5 channel, the CBS domain was shown to be required for trafficking [], while in the CLC-1 channel, the CBS domain was shown to be critical for channel function, but not necessary for trafficking []. Recent experiments revealing that CBS domains can bind adenosine-containing ligands such ATP, AMP, or S-adenosylmethionine have led to the hypothesis that CBS domains function as sensors of intracellular metabolites [, ]. Crystallographic studies of CBS domains have shown that pairs of CBS sequences form a globular domain where each CBS unit adopts a beta-alpha-beta-beta-alpha pattern []. Crystal structure of the CBS domains of the AMP-activated protein kinase in complexes with AMP and ATP shows that the phosphate groups of AMP/ATP lie in a surface pocket at the interface of two CBS domains, which is lined with basic residues, many of which are associated with disease-causing mutations []. In humans, mutations in conserved residues within CBS domains cause a variety of human hereditary diseases, including (with the gene mutated in parentheses): homocystinuria (cystathionine beta-synthase); Wolff-Parkinson-White syndrome (gamma 2 subunit of AMP-activated protein kinase); retinitis pigmentosa (IMP dehydrogenase-1); congenital myotonia, idiopathic generalized epilepsy, hypercalciuric nephrolithiasis, and classic Bartter syndrome (CLC chloride channel family members).; GO: 0005515 protein binding; PDB: 3JTF_A 3TE5_C 3TDH_C 3T4N_C 2QLV_C 3OI8_A 3LV9_A 2QH1_B 1PVM_B 3LQN_A ....
Probab=22.18 E-value=1.2e+02 Score=15.07 Aligned_cols=20 Identities=15% Similarity=0.486 Sum_probs=16.6
Q ss_pred EEeCCCCcHHHHHHHHHHHh
Q psy4181 16 VKCNPDDTIGDLKKLIAAQT 35 (73)
Q Consensus 16 v~v~~~~TV~~lK~~I~~~~ 35 (73)
+.+++++|+.++.+.+.+..
T Consensus 10 ~~v~~~~~l~~~~~~~~~~~ 29 (57)
T PF00571_consen 10 ITVSPDDSLEEALEIMRKNG 29 (57)
T ss_dssp EEEETTSBHHHHHHHHHHHT
T ss_pred EEEcCcCcHHHHHHHHHHcC
Confidence 46789999999998888765
No 369
>cd05857 Ig2_FGFR Second immunoglobulin (Ig)-like domain of fibroblast growth factor (FGF) receptor. Ig2_FGFR: second immunoglobulin (Ig)-like domain of fibroblast growth factor (FGF) receptor. FGF receptors bind FGF signaling polypeptides. FGFs participate in multiple processes such as morphogenesis, development, and angiogenesis. FGFs bind to four FGF receptor tyrosine kinases (FGFR1, -2, -3, -4). Receptor diversity is controlled by alternative splicing producing splice variants with different ligand binding characteristics and different expression patterns. FGFRs have an extracellular region comprised of three IG-like domains, a single transmembrane helix, and an intracellular tyrosine kinase domain. Ligand binding and specificity reside in the Ig-like domains 2 and 3, and the linker region that connects these two. FGFR activation and signaling depend on FGF-induced dimerization, a process involving cell surface heparin or heparin sulfate proteoglycans.
Probab=22.02 E-value=1.5e+02 Score=16.01 Aligned_cols=34 Identities=24% Similarity=0.311 Sum_probs=25.2
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEecCCccc
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFKDHIRI 57 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~D~~tL 57 (73)
.|..+.+.|.. .|-|+-...|+.+|+.+.+....
T Consensus 8 ~G~~~~L~C~~--------------~g~P~p~i~W~k~g~~l~~~~~~ 41 (85)
T cd05857 8 AANTVKFRCPA--------------AGNPTPTMRWLKNGKEFKQEHRI 41 (85)
T ss_pred CCCEEEEEEEc--------------CCCCCCEEEEEECCEECCCCCce
Confidence 57788888753 36677789999999999765443
No 370
>PF05370 DUF749: Domain of unknown function (DUF749); InterPro: IPR008032 This is a family of unknown function found in archaebacterial proteins. The family has been solved via structural genomics techniques and comprises of segregated helical and anti-parallel beta sheet regions. It is a putative metal-binding protein. ; PDB: 1IQS_A 1IQO_A.
Probab=22.01 E-value=71 Score=19.39 Aligned_cols=26 Identities=12% Similarity=0.198 Sum_probs=15.8
Q ss_pred cceEecCCccccccCCCCCCEEEEEe
Q psy4181 47 WYTIFKDHIRIMDYEIHDGMNLELYY 72 (73)
Q Consensus 47 ~Gk~L~D~~tL~~y~I~~g~ti~L~~ 72 (73)
.+|.|+|+++++-.+|+.-..=|.+|
T Consensus 29 ekreL~~dd~vAIlnI~gTtSy~v~F 54 (87)
T PF05370_consen 29 EKRELKDDDEVAILNIQGTTSYQVFF 54 (87)
T ss_dssp TT---SS--EEEEEE-TTTT-EEEEE
T ss_pred ccccCCCCCcEEEEEecCCceEEEEE
Confidence 57889999999999999888777776
No 371
>PF06543 Lac_bphage_repr: Lactococcus bacteriophage repressor; InterPro: IPR009498 This entry represents the C terminus of various Lactococcus bacteriophage repressor proteins.
Probab=21.99 E-value=38 Score=18.46 Aligned_cols=19 Identities=16% Similarity=0.178 Sum_probs=12.0
Q ss_pred hCCCCccEEEEEcceEecCC
Q psy4181 35 TGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 35 ~gip~~~QrLif~Gk~L~D~ 54 (73)
-.+.++. -+-|+||+|.|+
T Consensus 16 ~kvdWd~-wvSf~GrPltde 34 (49)
T PF06543_consen 16 PKVDWDK-WVSFDGRPLTDE 34 (49)
T ss_pred cccchHH-heeeCCeeCCHH
Confidence 3344443 246899999764
No 372
>CHL00192 syfB phenylalanyl-tRNA synthetase beta chain; Provisional
Probab=21.85 E-value=1.8e+02 Score=23.38 Aligned_cols=43 Identities=16% Similarity=0.096 Sum_probs=33.0
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccEEE--EEcceEec
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKIVL--KKWYTIFK 52 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~QrL--if~Gk~L~ 52 (73)
.-+.+++.|+.+.++.++.+.|....+--.+.-.| +|.|+.+.
T Consensus 615 v~RDia~vv~~~i~~~~i~~~i~~~~~~ll~~v~lfDvY~g~~i~ 659 (704)
T CHL00192 615 IIRDLSFIIKKSISISKIKELIYQNGDNLLESITLFDYYKGKSIP 659 (704)
T ss_pred ccceEEEEECCCCCHHHHHHHHHHhCcceEEEEEEEEEecCCCCC
Confidence 45788999999999999999998765544566666 67777663
No 373
>cd02782 MopB_CT_1 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=21.79 E-value=52 Score=19.90 Aligned_cols=19 Identities=11% Similarity=0.104 Sum_probs=16.0
Q ss_pred CCccccccCCCCCCEEEEE
Q psy4181 53 DHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 53 D~~tL~~y~I~~g~ti~L~ 71 (73)
+..+.+.+||++|+.|.+.
T Consensus 38 ~p~dA~~~gi~~Gd~V~v~ 56 (129)
T cd02782 38 HPDDAAALGLADGDKVRVT 56 (129)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 5678889999999998764
No 374
>cd05859 Ig4_PDGFR-alpha Fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. IG4_PDGFR-alpha: The fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. PDGF is a potent mitogen for connective tissue cells. PDGF-stimulated processes are mediated by three different PDGFs (PDGF-A,-B, and C). PDGFR alpha binds to all three PDGFs, whereas the PDGFR beta (not included in this group) binds only to PDGF-B. PDGF alpha is organized as an extracellular component having five Ig-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. In mice, PDGFR alpha and PDGFR beta are essential for normal development.
Probab=21.71 E-value=84 Score=18.51 Aligned_cols=21 Identities=10% Similarity=-0.073 Sum_probs=17.5
Q ss_pred hCCCCccEEEEEcceEecCCc
Q psy4181 35 TGTRWEKIVLKKWYTIFKDHI 55 (73)
Q Consensus 35 ~gip~~~QrLif~Gk~L~D~~ 55 (73)
.|-|+-..+|..+|++|.+..
T Consensus 28 ~g~P~P~v~W~kdg~~l~~~~ 48 (101)
T cd05859 28 EAYPPPQIRWLKDNRTLIENL 48 (101)
T ss_pred EEeCCCceEEEECCEECcCCc
Confidence 577888999999999997554
No 375
>cd02778 MopB_CT_Thiosulfate-R-like The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Also included in this CD is the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), which has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. The MopB_CT_Thiosulfate-R-like CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=21.65 E-value=52 Score=19.57 Aligned_cols=20 Identities=20% Similarity=0.202 Sum_probs=16.3
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-..++.+.+||++|+.|.+.
T Consensus 34 i~p~dA~~~gi~~Gd~V~v~ 53 (123)
T cd02778 34 INPETAARLGIKDGDRVEVS 53 (123)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 35678889999999998764
No 376
>cd02789 MopB_CT_FmdC-FwdD The MopB_FmdC-FwdD CD includes the C-terminus of subunit C of molybdenum formylmethanofuran dehydrogenase (FmdC) and subunit D of tungsten formylmethanofuran dehydrogenase (FwdD), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea and some eubacteria. Members of this CD belong to the molybdopterin_binding superfamily of proteins. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=21.54 E-value=54 Score=19.57 Aligned_cols=22 Identities=5% Similarity=-0.135 Sum_probs=17.4
Q ss_pred EecCCccccccCCCCCCEEEEE
Q psy4181 50 IFKDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 50 ~L~D~~tL~~y~I~~g~ti~L~ 71 (73)
..-+.++.+.+||++|+.|-+.
T Consensus 33 v~i~p~dA~~lgi~~Gd~V~v~ 54 (106)
T cd02789 33 CEINPEDYKLLGKPEGDKVKVT 54 (106)
T ss_pred EEECHHHHHHcCCCCCCEEEEE
Confidence 3456788999999999988654
No 377
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=21.53 E-value=53 Score=19.62 Aligned_cols=19 Identities=16% Similarity=0.235 Sum_probs=15.9
Q ss_pred CCccccccCCCCCCEEEEE
Q psy4181 53 DHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 53 D~~tL~~y~I~~g~ti~L~ 71 (73)
+..+.+.+||++|+.|.++
T Consensus 38 n~~dA~~lgi~~Gd~V~v~ 56 (115)
T cd02779 38 NPEDAKREGLKNGDLVEVY 56 (115)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 5678888999999998775
No 378
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=21.34 E-value=25 Score=18.80 Aligned_cols=29 Identities=7% Similarity=-0.049 Sum_probs=20.3
Q ss_pred EEEEEcceEecCCccc-c-ccCCCCCCEEEE
Q psy4181 42 IVLKKWYTIFKDHIRI-M-DYEIHDGMNLEL 70 (73)
Q Consensus 42 QrLif~Gk~L~D~~tL-~-~y~I~~g~ti~L 70 (73)
|.||=.|..+-|+... . .|.++.|++|.+
T Consensus 28 k~li~~G~V~VNg~~~~~~~~~l~~Gd~v~i 58 (59)
T TIGR02988 28 KWFLQENEVLVNGELENRRGKKLYPGDVIEI 58 (59)
T ss_pred HHHHHcCCEEECCEEccCCCCCCCCCCEEEe
Confidence 3455577777666655 3 788999999864
No 379
>PF12969 DUF3857: Domain of Unknown Function with PDB structure (DUF3857); InterPro: IPR024618 This domain is based on the first domain of the PDB structure 3KD4 (residues 1-228). It is structurally similar to domains in other hydrolases, eg. M1 family aminopeptidase, despite lack of any significant sequence similarity. The domain is N-terminal to a transglutaminase domain, which is found in many proteins known to have transglutaminase activity. The function of this domain is unknown. ; PDB: 3KD4_A.
Probab=21.29 E-value=75 Score=19.85 Aligned_cols=17 Identities=18% Similarity=0.184 Sum_probs=9.4
Q ss_pred ccccCCCCCCEEEEEeC
Q psy4181 57 IMDYEIHDGMNLELYYQ 73 (73)
Q Consensus 57 L~~y~I~~g~ti~L~~~ 73 (73)
+.--+++.|++|++.|.
T Consensus 85 ~~~p~v~~GdiIe~~y~ 101 (177)
T PF12969_consen 85 FAFPDVRVGDIIEYSYT 101 (177)
T ss_dssp EE--S--TT-EEEEEEE
T ss_pred EEcCCCCCCcEEEEEEE
Confidence 44457899999999883
No 380
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=21.10 E-value=53 Score=19.87 Aligned_cols=20 Identities=15% Similarity=0.273 Sum_probs=16.5
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-+.++.+.+||++|+.|-+.
T Consensus 38 i~p~dA~~lgi~~Gd~V~v~ 57 (127)
T cd02777 38 INPLDAAARGIKDGDIVRVF 57 (127)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 35778889999999988765
No 381
>COG4352 RPL13 Ribosomal protein L13E [Translation, ribosomal structure and biogenesis]
Probab=20.96 E-value=1.3e+02 Score=19.10 Aligned_cols=28 Identities=21% Similarity=0.240 Sum_probs=21.3
Q ss_pred EEeCCCCcHHHHHH-----HHHHHhCCCCccEE
Q psy4181 16 VKCNPDDTIGDLKK-----LIAAQTGTRWEKIV 43 (73)
Q Consensus 16 v~v~~~~TV~~lK~-----~I~~~~gip~~~Qr 43 (73)
+...-..|+++|++ .-+...||++|.-|
T Consensus 55 ~R~GRGFslgEl~aAGL~~~~AR~LGI~VD~RR 87 (113)
T COG4352 55 VRAGRGFSLGELKAAGLSARKARTLGIAVDHRR 87 (113)
T ss_pred eeccCCccHHHHHHcCcCHHHHHhhCcceehhh
Confidence 56667889999987 56667899988654
No 382
>cd05745 Ig3_Peroxidasin Third immunoglobulin (Ig)-like domain of peroxidasin. Ig3_Peroxidasin: the third immunoglobulin (Ig)-like domain in peroxidasin. Peroxidasin has a peroxidase domain and interacting extracellular motifs containing four Ig-like domains. It has been suggested that peroxidasin is secreted and has functions related to the stabilization of the extracellular matrix. It may play a part in various other important processes such as removal and destruction of cells which have undergone programmed cell death, and protection of the organism against non-self.
Probab=20.93 E-value=1.5e+02 Score=15.76 Aligned_cols=20 Identities=15% Similarity=-0.051 Sum_probs=15.6
Q ss_pred hCCCCccEEEEEcceEecCC
Q psy4181 35 TGTRWEKIVLKKWYTIFKDH 54 (73)
Q Consensus 35 ~gip~~~QrLif~Gk~L~D~ 54 (73)
.|-|+-...|..+|+.+...
T Consensus 12 ~g~P~p~i~W~k~g~~~~~~ 31 (74)
T cd05745 12 QGYPQPVIAWTKGGSQLSVD 31 (74)
T ss_pred CEecCCEEEEEECCEECCCC
Confidence 47787788999999988643
No 383
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=20.92 E-value=1.2e+02 Score=15.19 Aligned_cols=13 Identities=0% Similarity=-0.189 Sum_probs=9.7
Q ss_pred CccEEEEEcceEe
Q psy4181 39 WEKIVLKKWYTIF 51 (73)
Q Consensus 39 ~~~QrLif~Gk~L 51 (73)
..|-.++|+|+..
T Consensus 5 ~~qLTIfY~G~V~ 17 (36)
T PF06200_consen 5 TAQLTIFYGGQVC 17 (36)
T ss_pred CCcEEEEECCEEE
Confidence 3455788999976
No 384
>PTZ00223 40S ribosomal protein S4; Provisional
Probab=20.92 E-value=35 Score=24.69 Aligned_cols=49 Identities=18% Similarity=0.174 Sum_probs=35.0
Q ss_pred EEEcCCCCEEEE---EeCCCCcHH-HHH-HHHHHHhCCCCccEEEEEcceEecC
Q psy4181 5 TCNDRLGKKVRV---KCNPDDTIG-DLK-KLIAAQTGTRWEKIVLKKWYTIFKD 53 (73)
Q Consensus 5 ~vk~~~G~~~~v---~v~~~~TV~-~lK-~~I~~~~gip~~~QrLif~Gk~L~D 53 (73)
.+.+.+|+++.+ .+...|||. +|. .+|.+.....+....++.+|+-.--
T Consensus 135 ql~~hDGrnI~~~d~~~k~~Dtv~i~l~~~kI~~~ikfe~G~l~~vtgG~n~Gr 188 (273)
T PTZ00223 135 VAVTHDGHRIRYPDPRTSRGDTLVYNVKEKKVVDLIKNRNGKVVMVTGGANRGR 188 (273)
T ss_pred EEEecCCceeccCCccccCCCEEEEECCCCeeeEEEecCCCCEEEEECCeecee
Confidence 455667888655 344666665 444 3588899999999999999986543
No 385
>COG3019 Predicted metal-binding protein [General function prediction only]
Probab=20.84 E-value=1.9e+02 Score=19.18 Aligned_cols=43 Identities=19% Similarity=0.100 Sum_probs=30.8
Q ss_pred CEEEEEeCCCCcHHHHHHHHHHHhCCCCccE---EEEEcceEecCCcccc
Q psy4181 12 KKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI---VLKKWYTIFKDHIRIM 58 (73)
Q Consensus 12 ~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q---rLif~Gk~L~D~~tL~ 58 (73)
+-+.|.+...+--..||++ .|||.+.| .-+-+|+..|-+-.++
T Consensus 49 ~Gf~Vk~~~~~d~~alK~~----~gIp~e~~SCHT~VI~Gy~vEGHVPa~ 94 (149)
T COG3019 49 NGFEVKVVETDDFLALKRR----LGIPYEMQSCHTAVINGYYVEGHVPAE 94 (149)
T ss_pred CCcEEEEeecCcHHHHHHh----cCCChhhccccEEEEcCEEEeccCCHH
Confidence 3455666666677778776 99999998 4566888887766554
No 386
>PTZ00038 ferredoxin; Provisional
Probab=20.79 E-value=2.9e+02 Score=18.88 Aligned_cols=35 Identities=26% Similarity=0.360 Sum_probs=24.1
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
+|.+....|. ..+++.+..||.+. +++.||++...
T Consensus 97 ~Vt~~~~~g~-~~~~v~~geTILdA----ae~aGI~lp~s 131 (191)
T PTZ00038 97 NITLQTPDGE-KVIECDEDEYILDA----AERQGVELPYS 131 (191)
T ss_pred EEEEEeCCCc-EEEEeCCCCcHHHH----HHHcCCCCCcC
Confidence 5666655563 56888999999876 45577777554
No 387
>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=20.75 E-value=2.3e+02 Score=17.71 Aligned_cols=35 Identities=17% Similarity=0.260 Sum_probs=23.0
Q ss_pred EEeCCCCcHHHHHHHHHHHhCCCCccEEEEEcceEec
Q psy4181 16 VKCNPDDTIGDLKKLIAAQTGTRWEKIVLKKWYTIFK 52 (73)
Q Consensus 16 v~v~~~~TV~~lK~~I~~~~gip~~~QrLif~Gk~L~ 52 (73)
++|+-..|+.+|-..++++.|..+. .|.++.+.|-
T Consensus 37 ~~v~~~~Tl~~li~~~~~~~~lev~--ml~~g~~~LY 71 (125)
T PF09358_consen 37 IEVNGDMTLQELIDYFKEKYGLEVT--MLSQGVSLLY 71 (125)
T ss_dssp EEEES--BHHHHHHHHHHTTS-EEE--EEEETTEEEE
T ss_pred EEEcCCCCHHHHHHHHHHHhCceEE--EEEeCCEEEE
Confidence 3455589999999999999997764 4555555553
No 388
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=20.70 E-value=1.8e+02 Score=16.59 Aligned_cols=37 Identities=19% Similarity=0.192 Sum_probs=26.2
Q ss_pred EEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCCccE
Q psy4181 3 EITCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRWEKI 42 (73)
Q Consensus 3 ~i~vk~~~G~~~~v~v~~~~TV~~lK~~I~~~~gip~~~Q 42 (73)
+-+|---.|+.+.+--.|+ .+-=.+.+++-|+|++..
T Consensus 38 ~s~v~~d~~k~~Cly~Ap~---~eaV~~~~~~aG~p~d~I 74 (77)
T PF14026_consen 38 RSYVSEDDGKIFCLYEAPD---EEAVREHARRAGLPADRI 74 (77)
T ss_pred EEEEecCCCeEEEEEECCC---HHHHHHHHHHcCCCcceE
Confidence 3455555789999987776 444456677779999875
No 389
>PRK12277 50S ribosomal protein L13e; Provisional
Probab=20.36 E-value=1.2e+02 Score=18.18 Aligned_cols=29 Identities=24% Similarity=0.243 Sum_probs=21.7
Q ss_pred EEEeCCCCcHHHHHH-----HHHHHhCCCCccEE
Q psy4181 15 RVKCNPDDTIGDLKK-----LIAAQTGTRWEKIV 43 (73)
Q Consensus 15 ~v~v~~~~TV~~lK~-----~I~~~~gip~~~Qr 43 (73)
.+...-..|.++||+ +.+...||++|.-|
T Consensus 27 k~R~GRGFsl~ELkaaGi~~~~ArtiGI~VD~RR 60 (83)
T PRK12277 27 DKRIGRGFSIGELEAAGLDIKNARKLGIRVDKRR 60 (83)
T ss_pred ceeecCCcCHHHHHHcCCCHHHhcccCeeecccc
Confidence 577788899999998 34555788877544
No 390
>PRK15088 PTS system mannose-specific transporter subunits IIAB; Provisional
Probab=20.35 E-value=2.9e+02 Score=20.08 Aligned_cols=41 Identities=20% Similarity=0.032 Sum_probs=31.0
Q ss_pred CCEEEEEeCCCCcHHHHHHHHHHH-hCCCCccEEEE----EcceEe
Q psy4181 11 GKKVRVKCNPDDTIGDLKKLIAAQ-TGTRWEKIVLK----KWYTIF 51 (73)
Q Consensus 11 G~~~~v~v~~~~TV~~lK~~I~~~-~gip~~~QrLi----f~Gk~L 51 (73)
....++.+.++++..++++++++. +.++.+...|| |+|.+-
T Consensus 29 ~~v~~v~~~~~~~~~~~~~~l~~~i~~~~~~d~vlILtDl~GGSP~ 74 (322)
T PRK15088 29 ENVAWIDFVPGENAETLIEKYNAQLAKLDTSKGVLFLVDTWGGSPF 74 (322)
T ss_pred CCeEEEEccCCCCHHHHHHHHHHHHHhcCCCCCEEEEEeCCCCCHH
Confidence 356778899999999999999887 56666565564 577764
No 391
>PF03587 EMG1: EMG1/NEP1 methyltransferase; InterPro: IPR005304 Members of this family are essential for 40S ribosomal biogenesis. They play a role in the methylation reaction of pre-rRNA processing. The structure of EMG1 has revealed that it is a novel member of the superfamily of alpha/beta knot fold methyltransferases [, ].; GO: 0008168 methyltransferase activity; PDB: 3BBE_B 3BBD_B 3BBH_B 2V3K_A 3OII_B 3OIJ_B 3OIN_A 2V3J_A 3O7B_A.
Probab=20.34 E-value=97 Score=21.20 Aligned_cols=43 Identities=14% Similarity=0.101 Sum_probs=27.5
Q ss_pred CEEEEEEcCCCCEEEEEeCCCCcH----H---HHHHHHHHHhCCCCc--cEEEE
Q psy4181 1 MIEITCNDRLGKKVRVKCNPDDTI----G---DLKKLIAAQTGTRWE--KIVLK 45 (73)
Q Consensus 1 ~~~i~vk~~~G~~~~v~v~~~~TV----~---~lK~~I~~~~gip~~--~QrLi 45 (73)
+++|+|.|.+|..+.| +|...| . .|-+++-.+.-||++ ...|+
T Consensus 61 ~L~VYIhT~~~~lI~V--~p~~RiPR~y~rF~gLm~qLL~~~~I~~~~~~~~Ll 112 (202)
T PF03587_consen 61 KLQVYIHTIDNVLIEV--SPQTRIPRNYNRFVGLMEQLLKKGKIPAEESGEPLL 112 (202)
T ss_dssp -EEEEEEETTSEEEEE---TT----SSHHHHHHHHHHHHHHSEEEETTSTCEEE
T ss_pred cEEEEEEecCCEEEEE--CCCCcCCcCHHHHHHHHHHHHhcCcccCCCCCCeeE
Confidence 5799999988887655 455443 3 444677777788887 45654
No 392
>PF14535 AMP-binding_C_2: AMP-binding enzyme C-terminal domain; PDB: 2Y27_A 2Y4N_A 3QOV_B 3S89_D 3LAX_A 2Y4O_B.
Probab=20.28 E-value=1.9e+02 Score=16.71 Aligned_cols=23 Identities=13% Similarity=0.111 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHhCCCCccEEEEEc
Q psy4181 24 IGDLKKLIAAQTGTRWEKIVLKKW 47 (73)
Q Consensus 24 V~~lK~~I~~~~gip~~~QrLif~ 47 (73)
...+.+++.++.|+.+ .-.|.=-
T Consensus 57 ~~~i~~~lk~~lgv~~-~V~lv~~ 79 (96)
T PF14535_consen 57 AERIAERLKERLGVRP-EVELVPP 79 (96)
T ss_dssp HHHHHHHHHHHHSS-E-EEEEE-T
T ss_pred HHHHHHHHHhhcCceE-EEEEECC
Confidence 3467777778899988 4444433
No 393
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=20.21 E-value=58 Score=19.27 Aligned_cols=20 Identities=10% Similarity=-0.054 Sum_probs=16.2
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-+..+.+.+||++|+.|.++
T Consensus 39 i~p~dA~~lgi~~Gd~V~v~ 58 (122)
T cd02792 39 ISPELAAERGIKNGDMVWVS 58 (122)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 35678888999999998764
No 394
>COG3812 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.11 E-value=66 Score=21.88 Aligned_cols=32 Identities=19% Similarity=0.247 Sum_probs=23.4
Q ss_pred CCCEEEEEeCCCCcHHHHHHHHHHH----hCCCCcc
Q psy4181 10 LGKKVRVKCNPDDTIGDLKKLIAAQ----TGTRWEK 41 (73)
Q Consensus 10 ~G~~~~v~v~~~~TV~~lK~~I~~~----~gip~~~ 41 (73)
.|..++=--+...|..+|+++|+.. +||+|.+
T Consensus 97 aG~EvP~y~D~Etsf~eL~ARIaktla~v~gi~~a~ 132 (193)
T COG3812 97 AGREVPKYEDVETSFAELEARIAKTLAFVEGIDPAD 132 (193)
T ss_pred ccCcCCCCccccccHHHHHHHHHHHHHHHccCCHHH
Confidence 4555554445668999999998765 7888865
No 395
>cd02791 MopB_CT_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. This CD (MopB_CT_Nitrate-R-Nap) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs
Probab=20.06 E-value=59 Score=19.25 Aligned_cols=20 Identities=5% Similarity=0.009 Sum_probs=16.4
Q ss_pred cCCccccccCCCCCCEEEEE
Q psy4181 52 KDHIRIMDYEIHDGMNLELY 71 (73)
Q Consensus 52 ~D~~tL~~y~I~~g~ti~L~ 71 (73)
-...+.+.+||++|+.|.+.
T Consensus 39 in~~dA~~lgi~~Gd~V~v~ 58 (122)
T cd02791 39 IHPEDAARLGLKEGDLVRVT 58 (122)
T ss_pred ECHHHHHHcCCCCCCEEEEE
Confidence 35678889999999998765
No 396
>PF07687 M20_dimer: Peptidase dimerisation domain This family only corresponds to M20 family; InterPro: IPR011650 This domain consists of 4 beta strands and two alpha helices which make up the dimerisation surface of members of the MEROPS peptidase family M20 []. This family includes a range of zinc exopeptidases: carboxypeptidases, dipeptidases and specialised aminopeptidases [].; GO: 0016787 hydrolase activity; PDB: 3GB0_A 2F7V_A 1R3N_C 2VL1_D 2V8V_C 1R43_B 2V8G_B 2V8H_D 2V8D_A 3PFE_A ....
Probab=20.05 E-value=1.6e+02 Score=16.65 Aligned_cols=21 Identities=24% Similarity=0.502 Sum_probs=16.7
Q ss_pred EEEEeCCCCcHHHHHHHHHHH
Q psy4181 14 VRVKCNPDDTIGDLKKLIAAQ 34 (73)
Q Consensus 14 ~~v~v~~~~TV~~lK~~I~~~ 34 (73)
+.+...|..+.+++++.|++.
T Consensus 83 ~~~R~~p~~~~~~i~~~i~~~ 103 (111)
T PF07687_consen 83 VDIRYPPGEDLEEIKAEIEAA 103 (111)
T ss_dssp EEEEESTCHHHHHHHHHHHHH
T ss_pred EEEECCCcchHHHHHHHHHHH
Confidence 445667899999999988875
No 397
>cd05481 retropepsin_like_LTR_1 Retropepsins_like_LTR; pepsin-like aspartate protease from retrotransposons with long terminal repeats. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N and C-terminals, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identifi
Probab=20.02 E-value=1.4e+02 Score=17.50 Aligned_cols=43 Identities=14% Similarity=0.001 Sum_probs=30.2
Q ss_pred CC-CEEEEEeCCCCcHHHHHHHHHHHhC------CCCccEEE-EEcceEec
Q psy4181 10 LG-KKVRVKCNPDDTIGDLKKLIAAQTG------TRWEKIVL-KKWYTIFK 52 (73)
Q Consensus 10 ~G-~~~~v~v~~~~TV~~lK~~I~~~~g------ip~~~QrL-if~Gk~L~ 52 (73)
+| ..+.+.+|..++|.-+=.+...+.| +.+..++| -|+|..+.
T Consensus 6 ~g~~~v~~~vDtGA~vnllp~~~~~~l~~~~~~~L~~t~~~L~~~~g~~~~ 56 (93)
T cd05481 6 NGKQSVKFQLDTGATCNVLPLRWLKSLTPDKDPELRPSPVRLTAYGGSTIP 56 (93)
T ss_pred CCceeEEEEEecCCEEEeccHHHHhhhccCCCCcCccCCeEEEeeCCCEee
Confidence 45 7777788877777666666666655 78888888 46666553
Done!