Query 048514
Match_columns 89
No_of_seqs 120 out of 524
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 10:11:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048514.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048514hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1769 Ubiquitin-like protein 100.0 7.1E-35 1.5E-39 181.4 10.5 79 11-89 18-96 (99)
2 COG5227 SMT3 Ubiquitin-like pr 100.0 3.4E-32 7.4E-37 167.1 5.4 86 4-89 15-100 (103)
3 cd01763 Sumo Small ubiquitin-r 100.0 5E-29 1.1E-33 152.7 11.1 83 7-89 5-87 (87)
4 PF11976 Rad60-SLD: Ubiquitin- 99.9 5.9E-25 1.3E-29 129.4 7.5 71 14-84 1-72 (72)
5 cd01806 Nedd8 Nebb8-like ubiq 99.7 3.9E-16 8.4E-21 91.9 9.2 76 14-89 1-76 (76)
6 PTZ00044 ubiquitin; Provisiona 99.5 9.7E-14 2.1E-18 82.1 9.2 76 14-89 1-76 (76)
7 cd01803 Ubiquitin Ubiquitin. U 99.5 1.1E-13 2.3E-18 81.4 9.0 76 14-89 1-76 (76)
8 cd01810 ISG15_repeat2 ISG15 ub 99.5 4E-13 8.8E-18 79.5 8.7 74 16-89 1-74 (74)
9 cd01802 AN1_N ubiquitin-like d 99.5 6.2E-13 1.3E-17 83.8 9.8 80 10-89 24-103 (103)
10 cd01793 Fubi Fubi ubiquitin-li 99.5 8.6E-13 1.9E-17 78.1 8.9 74 14-89 1-74 (74)
11 cd01804 midnolin_N Ubiquitin-l 99.5 1.3E-12 2.8E-17 78.3 9.3 76 13-89 1-76 (78)
12 cd01807 GDX_N ubiquitin-like d 99.4 1E-12 2.3E-17 77.7 8.6 73 14-86 1-73 (74)
13 cd01809 Scythe_N Ubiquitin-lik 99.4 1.9E-12 4.1E-17 75.3 8.6 71 14-84 1-71 (72)
14 PF00240 ubiquitin: Ubiquitin 99.4 2.2E-12 4.7E-17 74.8 7.8 68 20-87 2-69 (69)
15 cd01791 Ubl5 UBL5 ubiquitin-li 99.4 6.5E-12 1.4E-16 74.7 8.5 71 14-84 2-72 (73)
16 cd01805 RAD23_N Ubiquitin-like 99.4 9.6E-12 2.1E-16 73.5 9.0 73 14-86 1-75 (77)
17 cd01798 parkin_N amino-termina 99.3 1.1E-11 2.4E-16 72.5 8.0 69 16-84 1-69 (70)
18 cd01797 NIRF_N amino-terminal 99.3 1.6E-11 3.5E-16 73.7 8.2 74 14-87 1-76 (78)
19 cd01812 BAG1_N Ubiquitin-like 99.3 1.3E-11 2.7E-16 71.8 7.3 70 14-84 1-70 (71)
20 cd01792 ISG15_repeat1 ISG15 ub 99.3 4.8E-11 1E-15 71.6 8.0 73 14-86 3-77 (80)
21 cd01794 DC_UbP_C dendritic cel 99.3 4.9E-11 1.1E-15 70.3 7.8 69 16-84 1-69 (70)
22 cd01808 hPLIC_N Ubiquitin-like 99.3 6.3E-11 1.4E-15 69.5 8.3 71 14-85 1-71 (71)
23 cd01800 SF3a120_C Ubiquitin-li 99.2 5.5E-11 1.2E-15 70.7 7.7 68 22-89 6-73 (76)
24 smart00213 UBQ Ubiquitin homol 99.2 1.7E-10 3.7E-15 65.1 7.1 64 14-78 1-64 (64)
25 cd01769 UBL Ubiquitin-like dom 99.1 9.8E-10 2.1E-14 62.7 7.9 67 18-84 2-68 (69)
26 KOG0005 Ubiquitin-like protein 99.1 1.5E-10 3.3E-15 66.6 4.4 69 14-82 1-69 (70)
27 cd01796 DDI1_N DNA damage indu 99.1 8.9E-10 1.9E-14 64.8 7.4 67 17-83 2-70 (71)
28 TIGR00601 rad23 UV excision re 98.9 1.1E-08 2.5E-13 76.9 8.6 73 14-86 1-76 (378)
29 cd01799 Hoil1_N Ubiquitin-like 98.9 2.2E-08 4.7E-13 59.8 7.8 62 22-84 11-74 (75)
30 KOG0003 Ubiquitin/60s ribosoma 98.8 5.9E-10 1.3E-14 70.9 0.4 74 16-89 3-76 (128)
31 cd01790 Herp_N Homocysteine-re 98.8 3.1E-08 6.8E-13 59.9 7.6 72 13-84 1-78 (79)
32 cd01813 UBP_N UBP ubiquitin pr 98.8 6.5E-08 1.4E-12 57.5 7.5 69 14-83 1-72 (74)
33 KOG0010 Ubiquitin-like protein 98.7 1.2E-07 2.7E-12 73.0 8.3 74 12-86 14-87 (493)
34 cd01815 BMSC_UbP_N Ubiquitin-l 98.5 3E-07 6.4E-12 55.1 5.1 53 32-84 19-74 (75)
35 cd00196 UBQ Ubiquitin-like pro 98.5 2.1E-06 4.6E-11 45.7 7.4 63 22-84 6-68 (69)
36 cd01814 NTGP5 Ubiquitin-like N 98.4 8.1E-07 1.8E-11 56.9 6.1 75 12-86 3-91 (113)
37 cd01789 Alp11_N Ubiquitin-like 98.4 3.6E-06 7.7E-11 51.0 8.2 71 14-84 2-80 (84)
38 PF11543 UN_NPL4: Nuclear pore 98.4 8.2E-07 1.8E-11 53.6 4.9 70 12-82 3-77 (80)
39 KOG0004 Ubiquitin/40S ribosoma 98.3 1.1E-06 2.4E-11 58.9 4.2 75 15-89 2-76 (156)
40 PF14560 Ubiquitin_2: Ubiquiti 98.1 2.7E-05 5.8E-10 47.1 7.7 70 14-83 2-81 (87)
41 PLN02560 enoyl-CoA reductase 98.1 2E-05 4.4E-10 58.1 7.8 70 14-83 1-81 (308)
42 KOG0011 Nucleotide excision re 98.0 2.5E-05 5.3E-10 58.0 7.0 74 14-87 1-76 (340)
43 PF11470 TUG-UBL1: GLUT4 regul 97.9 5.1E-05 1.1E-09 44.2 5.9 64 18-81 1-64 (65)
44 cd01801 Tsc13_N Ubiquitin-like 97.8 9.8E-05 2.1E-09 43.7 6.2 53 31-83 20-75 (77)
45 PF13881 Rad60-SLD_2: Ubiquiti 97.7 0.00072 1.6E-08 43.1 9.3 74 12-85 1-88 (111)
46 cd01795 USP48_C USP ubiquitin- 97.7 0.00023 5.1E-09 44.9 6.6 62 24-85 15-77 (107)
47 KOG4248 Ubiquitin-like protein 97.7 0.00011 2.4E-09 61.1 6.4 70 15-85 4-73 (1143)
48 KOG0001 Ubiquitin and ubiquiti 97.7 0.0019 4.1E-08 35.8 9.7 72 17-88 3-74 (75)
49 PF00789 UBX: UBX domain; Int 97.5 0.0023 5.1E-08 37.8 9.0 73 10-82 3-80 (82)
50 PF08817 YukD: WXG100 protein 97.5 0.00048 1E-08 41.0 5.6 70 13-82 2-78 (79)
51 PRK08364 sulfur carrier protei 97.2 0.0058 1.2E-07 35.6 8.1 66 14-89 5-70 (70)
52 PRK07440 hypothetical protein; 96.8 0.016 3.5E-07 33.8 7.6 68 12-89 3-70 (70)
53 PRK06488 sulfur carrier protei 96.7 0.015 3.2E-07 33.2 6.8 60 22-89 6-65 (65)
54 PRK06437 hypothetical protein; 96.7 0.02 4.4E-07 33.1 7.4 58 23-89 10-67 (67)
55 cd00754 MoaD Ubiquitin domain 96.7 0.012 2.6E-07 34.3 6.5 60 25-89 17-80 (80)
56 cd01774 Faf1_like2_UBX Faf1 ik 96.7 0.047 1E-06 33.1 9.0 72 11-83 2-83 (85)
57 PRK05659 sulfur carrier protei 96.5 0.028 6.1E-07 31.9 7.0 61 22-89 6-66 (66)
58 smart00166 UBX Domain present 96.5 0.065 1.4E-06 31.6 8.6 71 12-82 3-78 (80)
59 PRK06944 sulfur carrier protei 96.4 0.044 9.6E-07 30.9 7.4 60 22-89 6-65 (65)
60 PRK05863 sulfur carrier protei 96.3 0.029 6.3E-07 32.1 6.2 60 22-89 6-65 (65)
61 COG5417 Uncharacterized small 96.3 0.073 1.6E-06 32.0 7.8 69 14-82 7-80 (81)
62 KOG0006 E3 ubiquitin-protein l 96.2 0.014 3E-07 43.9 5.7 57 25-81 15-71 (446)
63 smart00455 RBD Raf-like Ras-bi 96.2 0.05 1.1E-06 31.9 6.8 57 16-72 2-60 (70)
64 PRK06083 sulfur carrier protei 96.1 0.072 1.6E-06 32.3 7.5 67 13-89 18-84 (84)
65 cd01767 UBX UBX (ubiquitin reg 96.0 0.14 3E-06 29.9 8.4 67 13-80 2-73 (77)
66 PRK08053 sulfur carrier protei 96.0 0.092 2E-06 30.0 7.3 61 22-89 6-66 (66)
67 TIGR01687 moaD_arch MoaD famil 95.8 0.092 2E-06 31.3 7.1 62 24-89 16-88 (88)
68 PF13019 Telomere_Sde2: Telome 95.7 0.1 2.2E-06 35.5 7.5 76 14-89 1-88 (162)
69 PRK07696 sulfur carrier protei 95.7 0.14 3.1E-06 29.5 7.2 61 22-89 6-67 (67)
70 cd01771 Faf1_UBX Faf1 UBX doma 95.5 0.25 5.4E-06 29.6 8.0 71 12-83 3-78 (80)
71 cd06409 PB1_MUG70 The MUG70 pr 95.5 0.068 1.5E-06 32.7 5.5 50 15-64 2-57 (86)
72 cd01770 p47_UBX p47-like ubiqu 95.5 0.22 4.7E-06 29.7 7.6 68 13-80 4-75 (79)
73 cd00565 ThiS ThiaminS ubiquiti 95.3 0.098 2.1E-06 29.7 5.6 61 22-89 5-65 (65)
74 PF12436 USP7_ICP0_bdg: ICP0-b 95.1 0.073 1.6E-06 38.0 5.6 76 10-85 65-152 (249)
75 cd01811 OASL_repeat1 2'-5' oli 95.0 0.32 7E-06 29.2 7.3 69 14-83 1-74 (80)
76 TIGR01683 thiS thiamine biosyn 95.0 0.19 4E-06 28.5 6.2 61 22-89 4-64 (64)
77 TIGR01682 moaD molybdopterin c 95.0 0.3 6.5E-06 28.6 7.3 60 25-89 17-80 (80)
78 cd01760 RBD Ubiquitin-like dom 94.9 0.26 5.7E-06 29.1 6.8 44 16-59 2-45 (72)
79 PLN02799 Molybdopterin synthas 94.9 0.14 3E-06 30.2 5.6 61 24-89 19-82 (82)
80 KOG3493 Ubiquitin-like protein 94.8 0.016 3.5E-07 34.0 1.4 71 14-84 2-72 (73)
81 cd01788 ElonginB Ubiquitin-lik 94.6 0.41 9E-06 30.9 7.6 60 14-74 3-62 (119)
82 PF02597 ThiS: ThiS family; I 94.6 0.13 2.8E-06 29.5 4.9 63 25-89 13-77 (77)
83 cd06407 PB1_NLP A PB1 domain i 94.5 0.2 4.4E-06 30.2 5.7 44 14-58 1-45 (82)
84 smart00666 PB1 PB1 domain. Pho 94.4 0.25 5.3E-06 28.8 5.9 45 14-59 2-46 (81)
85 cd01772 SAKS1_UBX SAKS1-like U 94.4 0.56 1.2E-05 27.7 9.0 70 13-83 4-78 (79)
86 cd06406 PB1_P67 A PB1 domain i 93.9 0.18 3.9E-06 30.5 4.6 45 14-60 3-47 (80)
87 cd01773 Faf1_like1_UBX Faf1 ik 93.8 0.86 1.9E-05 27.6 8.7 72 11-83 3-79 (82)
88 cd06408 PB1_NoxR The PB1 domai 93.2 0.7 1.5E-05 28.3 6.4 45 13-59 2-46 (86)
89 cd01777 SNX27_RA Ubiquitin dom 92.9 0.28 6.2E-06 30.1 4.4 60 14-73 2-69 (87)
90 KOG3439 Protein conjugation fa 92.7 1 2.2E-05 29.0 6.7 64 11-74 28-97 (116)
91 cd06396 PB1_NBR1 The PB1 domai 92.6 0.63 1.4E-05 28.2 5.5 42 14-58 1-44 (81)
92 PRK11840 bifunctional sulfur c 92.6 0.76 1.7E-05 34.5 7.1 61 22-89 6-66 (326)
93 PF02196 RBD: Raf-like Ras-bin 92.5 0.76 1.7E-05 26.8 5.8 57 16-72 3-61 (71)
94 PF12754 Blt1: Cell-cycle cont 92.2 0.041 8.9E-07 40.8 0.0 66 10-75 75-160 (309)
95 PF00564 PB1: PB1 domain; Int 92.0 1.3 2.9E-05 25.7 6.4 44 14-58 2-46 (84)
96 smart00295 B41 Band 4.1 homolo 92.0 1.1 2.4E-05 29.8 6.8 47 12-58 2-49 (207)
97 PF10302 DUF2407: DUF2407 ubiq 91.8 0.65 1.4E-05 28.9 5.1 55 13-68 2-60 (97)
98 cd05992 PB1 The PB1 domain is 91.8 1 2.2E-05 26.0 5.7 44 14-58 1-45 (81)
99 cd01766 Ufm1 Urm1-like ubiquit 91.4 1.6 3.5E-05 26.2 6.2 60 27-86 19-79 (82)
100 PF08825 E2_bind: E2 binding d 91.4 0.17 3.6E-06 30.8 2.0 55 28-83 1-69 (84)
101 PF03671 Ufm1: Ubiquitin fold 91.2 1.2 2.6E-05 26.6 5.5 69 13-81 2-74 (76)
102 PF09379 FERM_N: FERM N-termin 91.1 0.93 2E-05 26.1 5.1 40 19-58 2-42 (80)
103 cd01817 RGS12_RBD Ubiquitin do 90.5 2 4.3E-05 25.5 6.0 52 18-69 4-56 (73)
104 PRK11130 moaD molybdopterin sy 90.1 2 4.4E-05 25.2 6.0 52 33-89 25-81 (81)
105 PF15044 CLU_N: Mitochondrial 89.8 1.1 2.3E-05 26.6 4.6 57 30-86 1-59 (76)
106 COG2104 ThiS Sulfur transfer p 87.9 3.3 7.2E-05 24.1 5.6 61 22-89 8-68 (68)
107 cd01818 TIAM1_RBD Ubiquitin do 86.3 2.2 4.8E-05 25.6 4.3 43 17-59 3-47 (77)
108 cd06398 PB1_Joka2 The PB1 doma 85.8 4.8 0.0001 24.7 5.8 44 15-59 2-51 (91)
109 PF04110 APG12: Ubiquitin-like 85.1 3.2 6.9E-05 25.4 4.8 60 13-72 1-66 (87)
110 PF00788 RA: Ras association ( 84.9 5.7 0.00012 23.1 6.9 60 14-73 3-74 (93)
111 PF11620 GABP-alpha: GA-bindin 84.8 4.3 9.4E-05 24.9 5.2 60 26-85 5-64 (88)
112 TIGR02958 sec_mycoba_snm4 secr 83.3 11 0.00024 29.3 8.1 70 14-84 3-79 (452)
113 cd01612 APG12_C Ubiquitin-like 82.4 6.8 0.00015 23.7 5.4 59 14-72 2-66 (87)
114 PF06234 TmoB: Toluene-4-monoo 80.2 11 0.00024 23.0 6.2 61 25-85 16-84 (85)
115 cd01768 RA RA (Ras-associating 79.6 9.9 0.00021 22.2 5.7 56 16-71 2-68 (87)
116 cd06410 PB1_UP2 Uncharacterize 77.3 12 0.00025 23.2 5.4 46 18-64 17-64 (97)
117 PHA01623 hypothetical protein 76.8 2.7 5.8E-05 23.5 2.2 29 24-52 12-40 (56)
118 PF03607 DCX: Doublecortin; I 76.1 6.8 0.00015 21.9 3.8 46 31-82 6-53 (60)
119 COG5100 NPL4 Nuclear pore prot 75.9 17 0.00036 28.7 6.9 69 15-84 2-78 (571)
120 PF14451 Ub-Mut7C: Mut7-C ubiq 73.8 17 0.00036 21.8 5.9 54 23-85 22-76 (81)
121 PF14453 ThiS-like: ThiS-like 73.7 14 0.0003 20.9 5.2 47 27-84 9-55 (57)
122 KOG0013 Uncharacterized conser 73.0 8 0.00017 27.6 4.2 74 13-86 145-221 (231)
123 COG2080 CoxS Aerobic-type carb 71.5 11 0.00024 25.5 4.5 51 21-71 8-65 (156)
124 PF12143 PPO1_KFDV: Protein of 71.3 3 6.4E-05 27.3 1.7 29 61-89 89-117 (130)
125 KOG3483 Uncharacterized conser 71.2 20 0.00044 21.7 5.4 59 27-85 30-89 (94)
126 PRK01777 hypothetical protein; 70.8 22 0.00047 21.9 7.3 68 13-85 3-76 (95)
127 cd01764 Urm1 Urm1-like ubuitin 70.6 21 0.00047 21.7 5.9 57 32-89 27-94 (94)
128 COG1977 MoaD Molybdopterin con 69.8 6.8 0.00015 23.3 2.9 55 31-89 25-84 (84)
129 PF14836 Ubiquitin_3: Ubiquiti 69.6 23 0.0005 21.7 7.1 59 25-84 15-79 (88)
130 cd00508 MopB_CT_Fdh-Nap-like T 69.0 2.4 5.1E-05 26.0 0.8 19 66-84 41-59 (120)
131 PF10623 PilI: Plasmid conjuga 67.7 14 0.0003 22.4 3.9 55 10-64 5-62 (83)
132 cd02790 MopB_CT_Formate-Dh_H F 67.7 2.6 5.7E-05 25.7 0.8 20 66-85 41-60 (116)
133 cd06404 PB1_aPKC PB1 domain is 67.4 25 0.00055 21.3 5.7 50 14-64 1-54 (83)
134 KOG1872 Ubiquitin-specific pro 66.7 34 0.00073 27.1 6.8 68 15-83 5-73 (473)
135 PF12436 USP7_ICP0_bdg: ICP0-b 66.5 34 0.00074 24.3 6.5 46 13-58 176-224 (249)
136 cd02792 MopB_CT_Formate-Dh-Na- 66.3 2.8 6.1E-05 25.8 0.8 19 66-84 41-59 (122)
137 PF01982 CTP-dep_RFKase: Domai 66.3 4.2 9.1E-05 26.4 1.6 14 71-84 108-121 (121)
138 cd01611 GABARAP Ubiquitin doma 66.1 31 0.00067 21.8 5.8 47 26-72 43-90 (112)
139 PF00018 SH3_1: SH3 domain; I 65.7 6.1 0.00013 20.6 1.9 22 67-88 9-30 (48)
140 COG5131 URM1 Ubiquitin-like pr 65.3 24 0.00053 21.9 4.7 57 33-89 29-96 (96)
141 cd06411 PB1_p51 The PB1 domain 64.9 18 0.00039 21.7 4.0 36 24-59 7-42 (78)
142 PRK10850 PTS system phosphohis 64.7 16 0.00035 21.9 3.9 51 28-85 14-66 (85)
143 cd02786 MopB_CT_3 The MopB_CT_ 64.7 3.1 6.8E-05 25.5 0.8 18 66-83 37-54 (116)
144 PF01568 Molydop_binding: Moly 63.6 3.5 7.5E-05 24.9 0.8 19 66-84 36-54 (110)
145 cd02794 MopB_CT_DmsA-EC The Mo 61.6 3.9 8.5E-05 25.4 0.8 19 66-84 36-54 (121)
146 cd02783 MopB_CT_2 The MopB_CT_ 61.5 3.9 8.4E-05 27.0 0.8 19 66-84 38-56 (156)
147 cd02791 MopB_CT_Nitrate-R-NapA 61.2 4 8.7E-05 25.1 0.8 19 66-84 41-59 (122)
148 TIGR02988 YaaA_near_RecF S4 do 61.1 2.7 5.8E-05 23.2 -0.0 49 33-82 5-58 (59)
149 COG5569 Uncharacterized conser 61.1 8.1 0.00017 24.4 2.1 18 72-89 82-99 (108)
150 cd06397 PB1_UP1 Uncharacterize 61.1 35 0.00076 20.7 5.0 43 15-58 2-44 (82)
151 PRK14132 riboflavin kinase; Pr 61.0 6.7 0.00014 25.6 1.8 15 70-84 112-126 (126)
152 KOG1639 Steroid reductase requ 61.0 21 0.00045 26.3 4.5 55 28-82 17-76 (297)
153 cd02787 MopB_CT_ydeP The MopB_ 60.5 4.1 8.8E-05 25.0 0.7 20 66-85 37-56 (112)
154 cd02779 MopB_CT_Arsenite-Ox Th 59.9 4.4 9.6E-05 25.0 0.8 19 66-84 39-57 (115)
155 TIGR01003 PTS_HPr_family Phosp 59.7 25 0.00055 20.6 4.1 34 52-85 31-66 (82)
156 cd02785 MopB_CT_4 The MopB_CT_ 59.4 4.4 9.6E-05 25.3 0.8 20 65-84 37-56 (124)
157 PF10787 YfmQ: Uncharacterised 59.3 11 0.00023 25.3 2.6 36 32-67 23-58 (149)
158 PRK13780 phosphocarrier protei 59.1 19 0.00042 21.6 3.5 50 29-85 15-66 (88)
159 PF14604 SH3_9: Variant SH3 do 58.8 8.9 0.00019 20.4 1.8 19 67-85 8-26 (49)
160 PRK13782 phosphocarrier protei 58.5 27 0.00059 20.5 4.1 34 52-85 31-66 (82)
161 COG1925 FruB Phosphotransferas 58.2 33 0.00071 20.9 4.4 60 15-85 5-66 (88)
162 cd02777 MopB_CT_DMSOR-like The 58.2 4.8 0.0001 25.2 0.8 19 66-84 40-58 (127)
163 cd02781 MopB_CT_Acetylene-hydr 57.6 5.1 0.00011 25.0 0.8 19 66-84 39-57 (130)
164 cd02778 MopB_CT_Thiosulfate-R- 57.3 5.1 0.00011 24.7 0.8 19 66-84 36-54 (123)
165 cd02788 MopB_CT_NDH-1_NuoG2-N7 57.0 5.4 0.00012 24.0 0.8 19 66-84 35-53 (96)
166 cd02784 MopB_CT_PHLH The MopB_ 56.6 5.3 0.00011 26.1 0.8 19 66-84 44-62 (137)
167 cd02782 MopB_CT_1 The MopB_CT_ 56.4 5.4 0.00012 25.0 0.8 19 66-84 39-57 (129)
168 PRK14165 winged helix-turn-hel 55.8 10 0.00022 26.8 2.2 15 71-85 202-216 (217)
169 KOG2086 Protein tyrosine phosp 55.2 58 0.0012 25.1 6.2 63 12-76 306-372 (380)
170 cd02793 MopB_CT_DMSOR-BSOR-TMA 54.1 6.4 0.00014 24.8 0.9 19 66-84 39-57 (129)
171 PF07653 SH3_2: Variant SH3 do 53.8 13 0.00028 19.9 1.9 17 67-83 11-27 (55)
172 cd02776 MopB_CT_Nitrate-R-NarG 53.7 6.5 0.00014 25.6 0.9 19 66-84 37-55 (141)
173 KOG4225 Sorbin and SH3 domain- 53.5 10 0.00022 29.9 1.9 20 67-86 444-463 (489)
174 PRK11433 aldehyde oxidoreducta 53.4 66 0.0014 22.9 5.9 55 13-70 51-112 (217)
175 cd02789 MopB_CT_FmdC-FwdD The 53.3 6.8 0.00015 24.1 0.8 19 66-84 37-55 (106)
176 cd06395 PB1_Map2k5 PB1 domain 53.1 51 0.0011 20.2 4.7 55 15-84 2-58 (91)
177 smart00314 RA Ras association 53.1 44 0.00096 19.5 5.9 61 16-76 5-75 (90)
178 KOG2982 Uncharacterized conser 52.6 67 0.0015 24.7 6.1 69 15-83 338-415 (418)
179 PF00381 PTS-HPr: PTS HPr comp 52.3 12 0.00025 22.0 1.7 35 51-85 30-66 (84)
180 COG1791 Uncharacterized conser 52.3 34 0.00073 23.7 4.1 55 28-82 71-130 (181)
181 cd02775 MopB_CT Molybdopterin- 51.1 9.5 0.00021 22.4 1.2 19 66-84 29-47 (101)
182 PHA02909 hypothetical protein; 50.8 41 0.00088 19.2 3.7 29 4-32 3-31 (72)
183 PF08620 RPAP1_C: RPAP1-like, 49.7 11 0.00024 22.3 1.3 12 52-63 1-12 (73)
184 cd02780 MopB_CT_Tetrathionate_ 49.7 9.7 0.00021 24.4 1.2 19 66-84 36-54 (143)
185 PF04014 Antitoxin-MazE: Antid 49.4 18 0.0004 18.9 2.1 16 70-85 17-32 (47)
186 COG0179 MhpD 2-keto-4-pentenoa 48.9 78 0.0017 23.0 5.9 47 33-88 209-256 (266)
187 KOG3206 Alpha-tubulin folding 48.1 1E+02 0.0022 22.1 6.5 71 14-84 2-80 (234)
188 PRK11377 dihydroxyacetone kina 48.0 48 0.001 26.1 4.9 62 13-85 157-220 (473)
189 PF07377 DUF1493: Protein of u 47.8 13 0.00028 23.2 1.5 25 34-58 42-68 (111)
190 smart00326 SH3 Src homology 3 45.6 34 0.00074 17.2 2.8 20 67-86 14-33 (58)
191 PRK10897 phosphohistidinoprote 45.6 42 0.00092 20.3 3.5 51 28-85 15-68 (90)
192 PF14533 USP7_C2: Ubiquitin-sp 45.2 35 0.00076 23.7 3.5 36 23-58 132-170 (213)
193 PF01402 RHH_1: Ribbon-helix-h 45.1 20 0.00043 17.7 1.7 26 28-53 2-27 (39)
194 COG5077 Ubiquitin carboxyl-ter 45.0 43 0.00093 28.6 4.4 36 26-61 586-622 (1089)
195 KOG4495 RNA polymerase II tran 44.2 65 0.0014 20.4 4.2 58 14-72 3-62 (110)
196 TIGR03028 EpsE polysaccharide 44.1 1.1E+02 0.0024 21.4 6.2 54 27-83 92-160 (239)
197 TIGR02609 doc_partner putative 43.6 23 0.00051 20.5 2.1 17 69-85 19-35 (74)
198 PF06071 YchF-GTPase_C: Protei 43.2 16 0.00035 22.2 1.3 15 70-84 69-83 (84)
199 KOG3938 RGS-GAIP interacting p 43.1 1.3E+02 0.0027 22.6 6.1 48 10-58 50-97 (334)
200 KOG1364 Predicted ubiquitin re 43.0 45 0.00098 25.5 3.9 66 14-79 277-349 (356)
201 PTZ00380 microtubule-associate 42.8 92 0.002 20.2 5.4 47 25-72 41-89 (121)
202 KOG3309 Ferredoxin [Energy pro 42.6 78 0.0017 21.5 4.7 32 10-41 40-71 (159)
203 KOG3391 Transcriptional co-rep 42.3 22 0.00048 23.8 2.0 24 62-85 113-136 (151)
204 PRK09908 xanthine dehydrogenas 42.3 86 0.0019 21.2 4.9 53 14-70 9-68 (159)
205 PF13180 PDZ_2: PDZ domain; PD 41.6 45 0.00097 19.0 3.1 57 24-88 15-73 (82)
206 PRK05388 argJ bifunctional orn 41.1 60 0.0013 25.1 4.4 42 48-89 322-371 (395)
207 PF06134 RhaA: L-rhamnose isom 40.6 26 0.00055 27.3 2.4 21 32-52 379-399 (417)
208 PF08722 Tn7_Tnp_TnsA_N: TnsA 39.9 58 0.0013 19.0 3.5 36 16-51 37-83 (88)
209 COG0139 HisI Phosphoribosyl-AM 39.0 32 0.0007 22.0 2.3 76 11-89 16-95 (111)
210 KOG4146 Ubiquitin-like protein 38.7 39 0.00084 21.2 2.5 55 34-89 36-101 (101)
211 PF02991 Atg8: Autophagy prote 38.5 99 0.0022 19.3 5.9 46 27-72 36-82 (104)
212 PF09627 PrgU: PrgU-like prote 38.3 49 0.0011 21.0 3.0 71 12-82 9-82 (122)
213 PF06487 SAP18: Sin3 associate 38.1 34 0.00075 22.0 2.4 61 24-84 37-120 (120)
214 PF02017 CIDE-N: CIDE-N domain 37.8 90 0.002 18.6 5.7 50 16-67 5-56 (78)
215 PF04194 PDCD2_C: Programmed c 37.0 40 0.00087 22.5 2.7 40 32-71 52-92 (164)
216 PF03633 Glyco_hydro_65C: Glyc 36.9 9.9 0.00021 20.5 -0.2 26 53-78 11-38 (54)
217 PF14478 DUF4430: Domain of un 36.6 50 0.0011 18.5 2.7 26 55-82 42-67 (68)
218 PRK11675 LexA regulated protei 35.9 38 0.00083 20.9 2.2 27 26-52 51-77 (90)
219 PF09469 Cobl: Cordon-bleu ubi 35.9 26 0.00057 21.1 1.5 35 42-76 2-39 (79)
220 cd01669 TGS_Ygr210_C TGS_Ygr21 35.9 27 0.00058 20.5 1.5 19 65-83 57-75 (76)
221 COG4806 RhaA L-rhamnose isomer 35.3 29 0.00064 26.2 1.9 21 32-52 380-400 (419)
222 TIGR03193 4hydroxCoAred 4-hydr 35.3 1.2E+02 0.0026 20.2 4.7 50 21-70 6-62 (148)
223 KOG1363 Predicted regulator of 35.2 1.3E+02 0.0028 23.7 5.5 49 10-59 380-428 (460)
224 PLN03060 inositol phosphatase- 34.9 16 0.00036 25.7 0.5 24 32-55 67-90 (206)
225 PF05534 HicB: HicB family; I 33.4 34 0.00073 18.5 1.5 28 27-54 19-46 (51)
226 COG2914 Uncharacterized protei 33.2 64 0.0014 20.2 2.9 67 14-85 4-76 (99)
227 PF00498 FHA: FHA domain; Int 32.9 31 0.00068 18.8 1.4 24 56-82 44-67 (68)
228 PF13670 PepSY_2: Peptidase pr 32.7 1E+02 0.0022 17.8 4.0 25 10-34 52-76 (83)
229 PRK11347 antitoxin ChpS; Provi 32.5 45 0.00097 20.0 2.1 18 68-85 20-37 (83)
230 cd01787 GRB7_RA RA (RAS-associ 32.4 1.2E+02 0.0026 18.4 5.6 40 13-52 2-41 (85)
231 PF09358 UBA_e1_C: Ubiquitin-a 32.4 60 0.0013 20.8 2.8 28 27-54 36-63 (125)
232 TIGR03198 pucE xanthine dehydr 32.3 1.1E+02 0.0025 20.3 4.2 54 14-70 4-64 (151)
233 PRK09798 antitoxin MazE; Provi 32.2 46 0.001 19.9 2.1 17 69-85 22-38 (82)
234 TIGR03060 PS_II_psb29 photosys 32.2 20 0.00042 25.5 0.6 23 32-54 69-91 (214)
235 PF14533 USP7_C2: Ubiquitin-sp 32.2 1.7E+02 0.0037 20.2 5.3 60 13-72 20-90 (213)
236 cd00987 PDZ_serine_protease PD 32.0 58 0.0013 18.4 2.5 42 45-86 38-81 (90)
237 PF01502 PRA-CH: Phosphoribosy 31.8 53 0.0012 19.5 2.3 40 50-89 23-63 (75)
238 PF04921 XAP5: XAP5, circadian 31.8 2E+02 0.0043 20.8 5.8 62 10-71 95-166 (239)
239 PF11069 DUF2870: Protein of u 31.5 69 0.0015 20.1 2.9 36 54-89 2-38 (98)
240 PF05932 CesT: Tir chaperone p 31.2 87 0.0019 18.4 3.3 27 38-64 1-33 (119)
241 PRK13266 Thf1-like protein; Re 30.7 21 0.00046 25.5 0.6 24 32-55 69-92 (225)
242 PF03931 Skp1_POZ: Skp1 family 30.7 83 0.0018 17.3 2.9 15 15-29 2-16 (62)
243 KOG0012 DNA damage inducible p 30.4 1.2E+02 0.0026 23.4 4.5 54 29-82 18-73 (380)
244 PF13860 FlgD_ig: FlgD Ig-like 30.4 1.1E+02 0.0025 17.6 5.2 44 10-69 23-67 (81)
245 PF10646 Germane: Sporulation 29.7 1.2E+02 0.0027 18.1 3.9 14 51-64 101-114 (117)
246 PRK05738 rplW 50S ribosomal pr 29.5 1.4E+02 0.0029 18.1 4.1 61 23-83 20-89 (92)
247 PF09631 Sen15: Sen15 protein; 29.4 93 0.002 18.9 3.2 22 11-32 72-93 (101)
248 PHA01748 hypothetical protein 28.9 65 0.0014 18.0 2.3 25 27-51 4-28 (60)
249 cd00989 PDZ_metalloprotease PD 28.8 57 0.0012 18.0 2.1 21 63-83 19-39 (79)
250 PF11264 ThylakoidFormat: Thyl 28.8 25 0.00054 25.0 0.6 24 32-55 64-87 (216)
251 PF01361 Tautomerase: Tautomer 28.7 1E+02 0.0022 16.4 3.1 25 36-60 20-44 (60)
252 COG3435 Gentisate 1,2-dioxygen 28.4 45 0.00097 25.3 1.9 28 50-81 111-142 (351)
253 PF11548 Receptor_IA-2: Protei 28.1 59 0.0013 20.1 2.1 22 10-34 34-55 (91)
254 PTZ00434 cytosolic glyceraldeh 28.1 46 0.001 25.4 2.0 35 53-88 76-113 (361)
255 KOG1407 WD40 repeat protein [F 28.0 51 0.0011 24.6 2.1 69 10-81 189-267 (313)
256 PF03479 DUF296: Domain of unk 27.9 1.3E+02 0.0028 18.8 3.8 29 24-52 2-30 (120)
257 cd00174 SH3 Src homology 3 dom 27.8 87 0.0019 15.4 2.8 19 67-85 11-29 (54)
258 cd01666 TGS_DRG_C TGS_DRG_C: 27.6 1.3E+02 0.0029 17.5 4.6 21 58-83 54-74 (75)
259 PF07944 DUF1680: Putative gly 27.4 3.1E+02 0.0067 21.6 7.7 36 51-86 452-492 (520)
260 PF12976 DUF3860: Domain of Un 27.3 18 0.00039 22.0 -0.3 56 32-89 2-61 (92)
261 PTZ00490 Ferredoxin superfamil 27.3 1.9E+02 0.0041 19.1 4.9 31 10-40 32-62 (143)
262 PRK01076 L-rhamnose isomerase; 27.0 51 0.0011 25.8 2.0 21 32-52 380-400 (419)
263 smart00266 CAD Domains present 26.8 1.5E+02 0.0032 17.6 5.3 49 17-67 4-54 (74)
264 TIGR01439 lp_hng_hel_AbrB loop 26.2 73 0.0016 15.6 2.0 16 69-84 16-31 (43)
265 KOG2378 cAMP-regulated guanine 26.1 3.4E+02 0.0073 22.0 6.4 65 10-74 232-302 (573)
266 PF03072 DUF237: MG032/MG096/M 25.9 2E+02 0.0044 19.1 4.5 51 33-83 66-126 (137)
267 PHA00738 putative HTH transcri 25.9 1.8E+02 0.004 18.5 4.1 45 21-65 60-104 (108)
268 KOG3784 Sorting nexin protein 25.8 1.7E+02 0.0037 22.8 4.6 40 13-52 107-146 (407)
269 PF13510 Fer2_4: 2Fe-2S iron-s 25.8 50 0.0011 19.4 1.5 18 52-69 2-21 (82)
270 PF09138 Urm1: Urm1 (Ubiquitin 25.8 42 0.0009 20.8 1.2 63 25-89 19-96 (96)
271 PF11604 CusF_Ec: Copper bindi 25.6 78 0.0017 18.0 2.3 20 70-89 39-58 (70)
272 COG0363 NagB 6-phosphogluconol 25.4 2.3E+02 0.005 20.1 5.0 47 25-71 33-81 (238)
273 PF14732 UAE_UbL: Ubiquitin/SU 25.3 98 0.0021 18.5 2.8 51 33-83 8-67 (87)
274 KOG2689 Predicted ubiquitin re 25.0 3E+02 0.0064 20.6 6.3 46 12-57 209-254 (290)
275 cd04867 TGS_YchF_C TGS_YchF_C: 25.0 42 0.0009 20.4 1.0 13 71-83 70-82 (83)
276 smart00846 Gp_dh_N Glyceraldeh 24.9 80 0.0017 20.7 2.5 34 55-89 62-97 (149)
277 PF07108 PipA: PipA protein; 24.8 55 0.0012 22.6 1.7 51 32-82 76-126 (200)
278 PF06491 Disulph_isomer: Disul 24.8 1.7E+02 0.0038 19.4 4.0 36 6-44 91-136 (136)
279 PRK02289 4-oxalocrotonate taut 24.7 1.3E+02 0.0028 16.3 3.2 26 36-61 21-46 (60)
280 TIGR01748 rhaA L-rhamnose isom 24.6 59 0.0013 25.4 2.0 21 32-52 376-396 (414)
281 PF05688 DUF824: Salmonella re 24.6 1.1E+02 0.0024 16.5 2.6 23 13-35 16-41 (47)
282 cd00991 PDZ_archaeal_metallopr 24.5 1.2E+02 0.0027 17.0 3.0 42 45-86 24-67 (79)
283 PRK10872 relA (p)ppGpp synthet 24.5 2.4E+02 0.0052 23.7 5.6 63 16-87 406-468 (743)
284 TIGR01565 homeo_ZF_HD homeobox 24.4 89 0.0019 17.5 2.3 24 37-60 32-55 (58)
285 COG2929 Uncharacterized protei 24.0 59 0.0013 20.2 1.6 28 44-71 15-43 (93)
286 cd01776 Rin1_RA Ubiquitin doma 23.8 1.8E+02 0.004 17.7 5.4 57 14-70 2-65 (87)
287 PF10948 DUF2635: Protein of u 23.7 49 0.0011 17.9 1.1 11 73-83 34-44 (47)
288 PF03514 GRAS: GRAS domain fam 23.4 2.7E+02 0.0059 21.0 5.4 66 10-83 138-205 (374)
289 PF12651 RHH_3: Ribbon-helix-h 23.3 1E+02 0.0023 16.0 2.3 27 27-53 4-30 (44)
290 COG0243 BisC Anaerobic dehydro 23.2 38 0.00082 27.7 0.8 19 66-84 677-695 (765)
291 PRK08577 hypothetical protein; 23.1 92 0.002 19.8 2.5 29 59-87 12-40 (136)
292 PF08922 DUF1905: Domain of un 23.1 56 0.0012 19.2 1.4 14 71-84 67-80 (80)
293 PLN00047 photosystem II biogen 23.0 35 0.00076 25.3 0.5 24 32-55 120-143 (283)
294 cd04938 TGS_Obg-like TGS_Obg-l 23.0 54 0.0012 19.2 1.2 49 27-83 25-75 (76)
295 PRK14548 50S ribosomal protein 22.7 1.9E+02 0.004 17.4 3.9 34 23-56 21-54 (84)
296 KOG3529 Radixin, moesin and re 22.6 71 0.0015 26.0 2.2 45 6-51 6-50 (596)
297 TIGR03479 DMSO_red_II_alp DMSO 22.6 39 0.00085 28.4 0.8 18 67-84 817-834 (912)
298 PLN02593 adrenodoxin-like ferr 22.5 2.1E+02 0.0045 17.9 4.1 33 14-50 1-33 (117)
299 PF03459 TOBE: TOBE domain; I 22.3 68 0.0015 17.2 1.5 34 53-86 22-59 (64)
300 PF14370 Topo_C_assoc: C-termi 22.2 59 0.0013 19.2 1.3 17 38-54 34-50 (71)
301 cd05479 RP_DDI RP_DDI; retrope 22.2 93 0.002 19.4 2.3 49 2-51 5-53 (124)
302 COG2002 AbrB Regulators of sta 22.2 62 0.0013 19.3 1.4 27 60-86 14-40 (89)
303 TIGR02166 dmsA_ynfE anaerobic 22.1 39 0.00085 27.6 0.7 19 67-85 712-730 (797)
304 COG1188 Ribosome-associated he 21.9 1.8E+02 0.0039 18.2 3.5 29 52-85 32-60 (100)
305 cd01615 CIDE_N CIDE_N domain, 21.9 1.9E+02 0.0041 17.2 5.2 49 17-67 6-56 (78)
306 CHL00030 rpl23 ribosomal prote 21.8 2E+02 0.0044 17.6 3.7 64 22-85 18-90 (93)
307 cd00986 PDZ_LON_protease PDZ d 21.6 1.6E+02 0.0035 16.3 3.6 39 48-86 24-64 (79)
308 COG4189 Predicted transcriptio 21.1 97 0.0021 22.8 2.4 27 51-77 194-220 (308)
309 TIGR00691 spoT_relA (p)ppGpp s 21.0 3E+02 0.0064 22.7 5.5 63 15-86 361-423 (683)
310 PRK12294 hisZ ATP phosphoribos 21.0 2.3E+02 0.005 20.5 4.4 49 21-75 58-106 (272)
311 PF09668 Asp_protease: Asparty 20.8 50 0.0011 21.3 0.9 49 1-50 12-60 (124)
312 cd05484 retropepsin_like_LTR_2 20.8 1.8E+02 0.0038 16.8 3.3 46 22-67 8-57 (91)
313 PF11834 DUF3354: Domain of un 20.8 1.4E+02 0.003 17.3 2.7 31 34-65 26-56 (69)
314 cd01107 HTH_BmrR Helix-Turn-He 20.6 18 0.00039 22.3 -1.2 25 41-65 4-28 (108)
315 PF05486 SRP9-21: Signal recog 20.5 2E+02 0.0043 16.9 5.0 35 9-43 36-71 (79)
316 cd05867 Ig4_L1-CAM_like Fourth 20.5 86 0.0019 17.3 1.8 21 46-66 10-30 (76)
317 TIGR00509 bisC_fam molybdopter 20.4 46 0.001 27.3 0.8 18 67-84 664-681 (770)
318 PRK14990 anaerobic dimethyl su 20.4 46 0.001 27.4 0.8 18 67-84 729-746 (814)
319 cd01816 Raf_RBD Ubiquitin doma 20.4 2.1E+02 0.0045 17.0 6.6 55 16-70 2-61 (74)
320 PRK02220 4-oxalocrotonate taut 20.3 1.6E+02 0.0034 15.6 2.9 23 37-59 22-44 (61)
321 PF09273 Rubis-subs-bind: Rubi 20.1 1.3E+02 0.0028 18.2 2.7 32 30-61 1-33 (128)
322 cd00660 Topoisomer_IB_N Topois 20.1 74 0.0016 22.7 1.7 16 51-66 20-35 (215)
323 PF14268 YoaP: YoaP-like 20.1 1.2E+02 0.0025 16.2 2.1 21 46-66 15-35 (44)
324 COG2996 Predicted RNA-bindinin 20.0 1.3E+02 0.0028 22.4 2.9 31 55-85 21-55 (287)
No 1
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.1e-35 Score=181.40 Aligned_cols=79 Identities=37% Similarity=0.652 Sum_probs=77.8
Q ss_pred CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+.+|+|+|+++++.++.|+|++++||+|||++||++.|++.+++||+|||++|.+++||++|+|||||+|+|+.+|+||
T Consensus 18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG 96 (99)
T KOG1769|consen 18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGG 96 (99)
T ss_pred cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccC
Confidence 5899999999999999999999999999999999999999999999999999999999999999999999999999998
No 2
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=3.4e-32 Score=167.11 Aligned_cols=86 Identities=30% Similarity=0.489 Sum_probs=83.3
Q ss_pred CCCCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEE
Q 048514 4 SPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 4 ~~~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~ 83 (89)
.|++.|...+|.|+|.+++|.++.|+|+.+|+|+|||++||.+.|.+.+++||+|||++|..++||.+|+|||+|+|+|+
T Consensus 15 ~p~vkp~t~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav 94 (103)
T COG5227 15 NPLVKPITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAV 94 (103)
T ss_pred CccccccccccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHH
Confidence 45777888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCC
Q 048514 84 FYAGGA 89 (89)
Q Consensus 84 ~~q~GG 89 (89)
.+|+||
T Consensus 95 ~eQvGG 100 (103)
T COG5227 95 TEQVGG 100 (103)
T ss_pred HHHhcC
Confidence 999998
No 3
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=99.96 E-value=5e-29 Score=152.71 Aligned_cols=83 Identities=36% Similarity=0.669 Sum_probs=80.2
Q ss_pred CCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514 7 NIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 7 ~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
.+.++.+|+|+|++++|+.+.|+|+++++|++||++||++.|++++++||+|+|++|.+++||++|+|+|||+|+|+++|
T Consensus 5 ~~~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l 84 (87)
T cd01763 5 KGEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQ 84 (87)
T ss_pred CCCCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEec
Confidence 34578899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCC
Q 048514 87 GGA 89 (89)
Q Consensus 87 ~GG 89 (89)
.||
T Consensus 85 ~GG 87 (87)
T cd01763 85 TGG 87 (87)
T ss_pred ccC
Confidence 998
No 4
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=99.92 E-value=5.9e-25 Score=129.38 Aligned_cols=71 Identities=31% Similarity=0.596 Sum_probs=66.6
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
|+|+|++++|+.+.|+|++++++++|+++||++.|++. ++++|+|||++|.+++||+++||+|||+|||++
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 78999999999999999999999999999999999999 999999999999999999999999999999975
No 5
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=99.69 E-value=3.9e-16 Score=91.91 Aligned_cols=76 Identities=12% Similarity=0.162 Sum_probs=73.3
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
++|.|++.+|+.+.+.+.++++++.|++.++++.|++++.+||+|+|+.|.++.|..++++++|++|++..++.||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg 76 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 4688888999999999999999999999999999999999999999999999999999999999999999999998
No 6
>PTZ00044 ubiquitin; Provisional
Probab=99.54 E-value=9.7e-14 Score=82.08 Aligned_cols=76 Identities=13% Similarity=0.254 Sum_probs=73.0
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+.|.|++.+|+.+.+.+.+++++..|+...+++.|+|++++|++|+|+.+.++.|.+++++++|++|++.+...||
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg 76 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 4678888899999999999999999999999999999999999999999999999999999999999999999998
No 7
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.54 E-value=1.1e-13 Score=81.44 Aligned_cols=76 Identities=12% Similarity=0.184 Sum_probs=72.8
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
++|.|++.+|+.+.+.+.++.++..|++.++++.|++++.++|+|+|+.+.++.|..++++++|++|++..+..||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~gg 76 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 4678888889999999999999999999999999999999999999999999999999999999999999999998
No 8
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.49 E-value=4e-13 Score=79.50 Aligned_cols=74 Identities=15% Similarity=0.257 Sum_probs=70.8
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
|.|++..|+.+.+.|.++.++..|++..++..|++.+.++++|+|+.|.++.|..+++++++++|++..+..||
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg 74 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG 74 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 45778889999999999999999999999999999999999999999999999999999999999999999998
No 9
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.48 E-value=6.2e-13 Score=83.85 Aligned_cols=80 Identities=5% Similarity=-0.002 Sum_probs=76.5
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
-.+.+.|.|+...|+.+.+.|.+++++..|++..+++.|++.+.++++|.|+.|.++.|.+++++++|++|++.++..||
T Consensus 24 ~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~GG 103 (103)
T cd01802 24 FYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG 103 (103)
T ss_pred cCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence 34579999999999999999999999999999999999999999999999999999999999999999999999999998
No 10
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=99.46 E-value=8.6e-13 Score=78.09 Aligned_cols=74 Identities=12% Similarity=0.096 Sum_probs=69.0
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
++|.|++ ++...+.|.++++.+.|+...+++.|++.++++++|.|+.|.++.|.++++++++++|++..+..||
T Consensus 1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~GG 74 (74)
T cd01793 1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG 74 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence 3567776 3678899999999999999999999999999999999999999999999999999999999999998
No 11
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=99.45 E-value=1.3e-12 Score=78.34 Aligned_cols=76 Identities=14% Similarity=0.180 Sum_probs=72.1
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
.++|.|++..|+...+.+.++.+...|++..+++.+++++.+||+|.|+.|.++ |.+++|++||++|+++..+.||
T Consensus 1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~ 76 (78)
T cd01804 1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAG 76 (78)
T ss_pred CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeecccc
Confidence 368888888899999999999999999999999999999999999999999988 9999999999999999999987
No 12
>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=99.45 E-value=1e-12 Score=77.66 Aligned_cols=73 Identities=10% Similarity=0.072 Sum_probs=68.9
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
++|.|+..+|+.+.+.|.+++++..|++..+++.|++.++++++|+|+.|.++.|..++++.++++|+++.++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~ 73 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP 73 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence 4677888889999999999999999999999999999999999999999999999999999999999998765
No 13
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=99.43 E-value=1.9e-12 Score=75.31 Aligned_cols=71 Identities=17% Similarity=0.192 Sum_probs=67.6
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
|+|.|+..+|+.+.+.+.++.++..|++.+++..|++++.++++|+|+.+.++.|.+++++.+|++|++..
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEe
Confidence 57888888999999999999999999999999999999999999999999999999999999999999875
No 14
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=99.41 E-value=2.2e-12 Score=74.80 Aligned_cols=68 Identities=18% Similarity=0.216 Sum_probs=64.5
Q ss_pred ecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514 20 GQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG 87 (89)
Q Consensus 20 ~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 87 (89)
+.+|+.+.+.|.+++++..|++..++..+++++.++|+|+|+.|.++.|..++++.+|++|.+++++.
T Consensus 2 ~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~~ 69 (69)
T PF00240_consen 2 TLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKPR 69 (69)
T ss_dssp ETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESSE
T ss_pred CCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEecC
Confidence 45788899999999999999999999999999999999999999999999999999999999998763
No 15
>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=99.37 E-value=6.5e-12 Score=74.74 Aligned_cols=71 Identities=11% Similarity=0.070 Sum_probs=67.8
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
|.|.|++..|+.+.+.+.++.+...|++.++++.|++++.+||+|.|..|.++.|.+++|+.+|.+|+++.
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 68899998899999999999999999999999999999999999999999999999999999999999875
No 16
>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=99.37 E-value=9.6e-12 Score=73.54 Aligned_cols=73 Identities=14% Similarity=0.150 Sum_probs=68.5
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCC--CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDA--QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
+.|.|++.+|+.+.+.+.++++...|++.++++.|+ +++.++++|+|+.|.++.|.+++++.+|++|.+.+.+
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~ 75 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSK 75 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEec
Confidence 467788888999999999999999999999999999 9999999999999999999999999999999998875
No 17
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=99.34 E-value=1.1e-11 Score=72.48 Aligned_cols=69 Identities=14% Similarity=0.186 Sum_probs=64.9
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
|.|+...|+.+.+.+.+++++..|++..+++.|++.+.++++|.|+.|.++.|..++++.+|.+|++..
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~ 69 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVR 69 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 356677899999999999999999999999999999999999999999999999999999999999875
No 18
>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=99.32 E-value=1.6e-11 Score=73.73 Aligned_cols=74 Identities=12% Similarity=0.041 Sum_probs=68.0
Q ss_pred EEEEEEecCCCE-EEEE-EeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514 14 INLVVKGQDNDP-LYFE-FRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG 87 (89)
Q Consensus 14 I~i~v~~~~~~~-~~f~-i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 87 (89)
+.|.|++..|+. +.+. +.++.+++.|++..+++.|++.+++|++|.|+.|.++.|.+++++.+|++|++.++|-
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~~ 76 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQD 76 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEecC
Confidence 467888888987 4785 8999999999999999999999999999999999999999999999999999998873
No 19
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=99.32 E-value=1.3e-11 Score=71.82 Aligned_cols=70 Identities=16% Similarity=0.168 Sum_probs=64.7
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
|+|.|+.. |+...+.+.++.++..|++..+++.|++++.++++|+|..+.++.|..++++.+|++|.+..
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 57788874 77788999999999999999999999999999999999999999999999999999998863
No 20
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=99.26 E-value=4.8e-11 Score=71.61 Aligned_cols=73 Identities=14% Similarity=0.086 Sum_probs=68.9
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeE--EECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPF--LINGNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF--~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
|.|.|+...|+.+.+.+.++.+...|++..+++.|++.+.+|| .|+|+.|.++.|..++|+++|++|++.++.
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~ 77 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN 77 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence 7888888889999999999999999999999999999999999 899999999999999999999999998874
No 21
>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=99.26 E-value=4.9e-11 Score=70.31 Aligned_cols=69 Identities=6% Similarity=0.036 Sum_probs=65.4
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
++|+...|+.+.+.+.++++...|+...+++.|++.+.++++|.|+.|.++.|..++++++|.+|+|.+
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 467777899999999999999999999999999999999999999999999999999999999999975
No 22
>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=99.26 E-value=6.3e-11 Score=69.46 Aligned_cols=71 Identities=20% Similarity=0.223 Sum_probs=64.8
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
|+|.|++..|. ..+.+.++.+...|++..+++.|++...++++|+|+.|.++.|..++++++|++|++.++
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 45777777776 489999999999999999999999999999999999999999999999999999998763
No 23
>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=99.25 E-value=5.5e-11 Score=70.74 Aligned_cols=68 Identities=15% Similarity=0.155 Sum_probs=65.4
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+.+.+.+.+++++..|++......|+++++++++|.|..+.++.|..++++.+|++|++..++.||
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg 73 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGG 73 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence 67888899999999999999999999999999999999999999999999999999999999999987
No 24
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.18 E-value=1.7e-10 Score=65.10 Aligned_cols=64 Identities=20% Similarity=0.265 Sum_probs=58.8
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGD 78 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD 78 (89)
|.|.|++.+ ....+.|.++++++.|+..++++.|++++.++++|+|..|.++.|..++++.+|+
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 467777766 6778999999999999999999999999999999999999999999999999985
No 25
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=99.10 E-value=9.8e-10 Score=62.69 Aligned_cols=67 Identities=16% Similarity=0.228 Sum_probs=62.4
Q ss_pred EEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 18 VKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 18 v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
|+..+|..+.+.+.+++++..|++.+++..|++.+.++|+|+|+.+.++.|..++++.+++.|.|..
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 4555788899999999999999999999999999999999999999999999999999999999864
No 26
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=1.5e-10 Score=66.62 Aligned_cols=69 Identities=12% Similarity=0.142 Sum_probs=65.7
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEE
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv 82 (89)
+.|+|+...|+++.+.|.+++++.++.+...++.|+|+.+.|++|.|+++.++.|++++.++-|.+++.
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHl 69 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHL 69 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEee
Confidence 357888889999999999999999999999999999999999999999999999999999999999875
No 27
>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=99.08 E-value=8.9e-10 Score=64.81 Aligned_cols=67 Identities=18% Similarity=0.249 Sum_probs=60.5
Q ss_pred EEEec-CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCC-CCccccCCCCCCEEEEE
Q 048514 17 VVKGQ-DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI-RTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 17 ~v~~~-~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~ 83 (89)
.|+.. .|+.+.+.+.++.++..|+...+++.|+|.+.++++|+|+.|.++ .|.+++++++|++|.+.
T Consensus 2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 44555 688889999999999999999999999999999999999999887 57899999999999864
No 28
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.89 E-value=1.1e-08 Score=76.92 Aligned_cols=73 Identities=14% Similarity=0.181 Sum_probs=68.2
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhC---CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKD---AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g---~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
|+|.|++..|+.+.+.|.++.++..|++..++..| ++.+.+||+|.|+.|.++.|..++++.++|+|.+++..
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k 76 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSK 76 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEecc
Confidence 46888888999999999999999999999999998 99999999999999999999999999999999988764
No 29
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=98.87 E-value=2.2e-08 Score=59.78 Aligned_cols=62 Identities=15% Similarity=0.205 Sum_probs=57.1
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC-CCCCccccCCC-CCCEEEEEe
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP-HIRTPDQLGLK-DGDEIVATF 84 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~me-dgD~Idv~~ 84 (89)
.+..+.+.+.++++++.|+...+++.|+|++++|+ |+|.++. ++.|..+++++ +||++.+++
T Consensus 11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 11 HTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred CCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 46778899999999999999999999999999999 9999996 66899999999 889998875
No 30
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=98.84 E-value=5.9e-10 Score=70.94 Aligned_cols=74 Identities=12% Similarity=0.168 Sum_probs=70.5
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+.+....|+.+++.+.+++++..|.....++.|+|++..++.|+|+.|.+..|..+++|.-.|+|+++.+..||
T Consensus 3 ~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG 76 (128)
T KOG0003|consen 3 IFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGG 76 (128)
T ss_pred EEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcC
Confidence 45666789999999999999999999999999999999999999999999999999999999999999999998
No 31
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=98.83 E-value=3.1e-08 Score=59.87 Aligned_cols=72 Identities=8% Similarity=0.065 Sum_probs=63.3
Q ss_pred cEEEEEEecCCCEEEEEE--eccchHHHHHHHHHhhhC--CCCCcEeEEECCeecCCCCCccccC--CCCCCEEEEEe
Q 048514 13 FINLVVKGQDNDPLYFEF--RRDWEIKKLLITYCEKKD--AQYGTFPFLINGNRFPHIRTPDQLG--LKDGDEIVATF 84 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i--~~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~--medgD~Idv~~ 84 (89)
.|+|.|++.+++...|.| .++++...|++..++..+ .+++.+||+|.|+-|.+++|.+++. +.+|-+|+++.
T Consensus 1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 378999998888866666 899999999999998875 3579999999999999999999996 99999999864
No 32
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=98.77 E-value=6.5e-08 Score=57.46 Aligned_cols=69 Identities=13% Similarity=0.004 Sum_probs=61.6
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE---CCeecCCCCCccccCCCCCCEEEEE
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI---NGNRFPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~~~~Tp~~l~medgD~Idv~ 83 (89)
|+|.|+. .|+.+.+.+.+++++..|++..++..|++++.++++| .|..+.++.|..++++.+|+.|.++
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 3455553 6777889999999999999999999999999999996 8999999999999999999998875
No 33
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.67 E-value=1.2e-07 Score=72.96 Aligned_cols=74 Identities=16% Similarity=0.214 Sum_probs=69.2
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
..|+|+|++.+. ...|.|..+..+..|++..+.+++.+.+.++++|.|+.|.+.+|...+|+.||-+|++++..
T Consensus 14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~ 87 (493)
T KOG0010|consen 14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKS 87 (493)
T ss_pred ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEecc
Confidence 468999998766 67899999999999999999999999999999999999999999999999999999998864
No 34
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=98.51 E-value=3e-07 Score=55.13 Aligned_cols=53 Identities=13% Similarity=0.182 Sum_probs=48.1
Q ss_pred ccchHHHHHHHHHhhh--CC-CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 32 RDWEIKKLLITYCEKK--DA-QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~--g~-~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
-+++...|++..+++. |+ +.+++|++|.|+.|.++.|.+++++.+|++|+++.
T Consensus 19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 3678999999999996 46 48999999999999999999999999999999875
No 35
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=98.46 E-value=2.1e-06 Score=45.73 Aligned_cols=63 Identities=24% Similarity=0.302 Sum_probs=58.7
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
++....+.+.+.+++..|++..+++.|.+++.++|.++|..+....+..+..+.+++.|++..
T Consensus 6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 6 DGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred CCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 678888999999999999999999999999999999999999999988899999999998864
No 36
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=98.44 E-value=8.1e-07 Score=56.91 Aligned_cols=75 Identities=7% Similarity=-0.016 Sum_probs=63.7
Q ss_pred CcEEEEEEecCCCEE-EEEEeccchHHHHHHHHHhhh-----CC--CCCcEeEEECCeecCCCCCccccC------CCCC
Q 048514 12 HFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEKK-----DA--QYGTFPFLINGNRFPHIRTPDQLG------LKDG 77 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~-~f~i~~~t~l~kL~~~y~~~~-----g~--~~~~~rF~fdG~~l~~~~Tp~~l~------medg 77 (89)
+.|.|+++-.+|..+ .|++.++++...|++...+.. ++ +.+.++|+|.|+.|.++.|.++++ ..-.
T Consensus 3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~ 82 (113)
T cd01814 3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGV 82 (113)
T ss_pred ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCc
Confidence 567888888899877 799999999999999999555 34 489999999999999999999999 6666
Q ss_pred CEEEEEeee
Q 048514 78 DEIVATFYA 86 (89)
Q Consensus 78 D~Idv~~~q 86 (89)
-+++|+++.
T Consensus 83 ~TmHvvlr~ 91 (113)
T cd01814 83 ITMHVVVQP 91 (113)
T ss_pred eEEEEEecC
Confidence 777777653
No 37
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=98.41 E-value=3.6e-06 Score=51.02 Aligned_cols=71 Identities=13% Similarity=0.152 Sum_probs=58.8
Q ss_pred EEEEEEec-CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeE-EECCe-----ec-CCCCCccccCCCCCCEEEEEe
Q 048514 14 INLVVKGQ-DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPF-LINGN-----RF-PHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 14 I~i~v~~~-~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF-~fdG~-----~l-~~~~Tp~~l~medgD~Idv~~ 84 (89)
++|.|.+. +......++.++.++..|++......|++++.+|+ +|+|. .+ .+..+..+++++||..|+|.-
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD 80 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID 80 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence 45555543 24456788999999999999999999999999999 58888 35 578899999999999999863
No 38
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=98.38 E-value=8.2e-07 Score=53.64 Aligned_cols=70 Identities=19% Similarity=0.199 Sum_probs=44.3
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC---Ceec--CCCCCccccCCCCCCEEEE
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN---GNRF--PHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd---G~~l--~~~~Tp~~l~medgD~Idv 82 (89)
..|-|+|++.+|-. .+.+.+++++..|++..++..+++.+++.++.+ ...+ ..+.|..+||+..||+|-+
T Consensus 3 ~~milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL 77 (80)
T PF11543_consen 3 SSMILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYL 77 (80)
T ss_dssp ---EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE-
T ss_pred ccEEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEE
Confidence 46889999998864 678999999999999999999999888877654 3455 4689999999999999865
No 39
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=98.28 E-value=1.1e-06 Score=58.94 Aligned_cols=75 Identities=12% Similarity=0.181 Sum_probs=71.2
Q ss_pred EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
.|.|+...++.+.+.+.++.++..+.....+..|+|+++.|++|.|++|.+..|..|+++.-..+|.++.+..||
T Consensus 2 ~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg 76 (156)
T KOG0004|consen 2 QIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76 (156)
T ss_pred ccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCC
Confidence 466777788899999999999999999999999999999999999999999999999999999999999999998
No 40
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.13 E-value=2.7e-05 Score=47.10 Aligned_cols=70 Identities=13% Similarity=0.213 Sum_probs=57.0
Q ss_pred EEEEEEecCC--CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC----Ceec----CCCCCccccCCCCCCEEEEE
Q 048514 14 INLVVKGQDN--DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN----GNRF----PHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 14 I~i~v~~~~~--~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd----G~~l----~~~~Tp~~l~medgD~Idv~ 83 (89)
|+|.|.+... .....++.++.++..|+.......|++++.+++.+- |..+ .+..|..++|++||++|+|.
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~ 81 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVV 81 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEE
Confidence 6777776544 477899999999999999999999999999988875 3333 36889999999999999986
No 41
>PLN02560 enoyl-CoA reductase
Probab=98.09 E-value=2e-05 Score=58.06 Aligned_cols=70 Identities=14% Similarity=0.220 Sum_probs=59.1
Q ss_pred EEEEEEecCCCEE---EEEEeccchHHHHHHHHHhhhCC-CCCcEeEEEC---Ce----ecCCCCCccccCCCCCCEEEE
Q 048514 14 INLVVKGQDNDPL---YFEFRRDWEIKKLLITYCEKKDA-QYGTFPFLIN---GN----RFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 14 I~i~v~~~~~~~~---~f~i~~~t~l~kL~~~y~~~~g~-~~~~~rF~fd---G~----~l~~~~Tp~~l~medgD~Idv 82 (89)
|+|.|+..+|+.+ .+.+.++++++.|+++++++.+. +++.+|++++ |+ .+.++.|..++|+++|++|.|
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 3566666778776 68999999999999999999886 8899999983 43 778899999999999999876
Q ss_pred E
Q 048514 83 T 83 (89)
Q Consensus 83 ~ 83 (89)
.
T Consensus 81 k 81 (308)
T PLN02560 81 K 81 (308)
T ss_pred E
Confidence 3
No 42
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=98.02 E-value=2.5e-05 Score=58.01 Aligned_cols=74 Identities=14% Similarity=0.137 Sum_probs=68.5
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhC--CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKD--AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG 87 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 87 (89)
++|.|++..+..+.+.+++++++..++.+.+...| .+.+..+++|+|+-|.++.|..++++.+++.|-|++++.
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~ 76 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD 76 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence 46777888889999999999999999999999998 788999999999999999999999999999999998874
No 43
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=97.92 E-value=5.1e-05 Score=44.25 Aligned_cols=64 Identities=9% Similarity=0.073 Sum_probs=46.2
Q ss_pred EEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEE
Q 048514 18 VKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIV 81 (89)
Q Consensus 18 v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id 81 (89)
+.+.+++...+++.++++|..+.+.-|+++|++.++..+.++++.|..+.+-.-.|+-+|..++
T Consensus 1 vi~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLe 64 (65)
T PF11470_consen 1 VICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLE 64 (65)
T ss_dssp EE-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEE
T ss_pred CCccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEe
Confidence 3457889999999999999999999999999999999999999999999888888888877665
No 44
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=97.83 E-value=9.8e-05 Score=43.75 Aligned_cols=53 Identities=15% Similarity=0.125 Sum_probs=45.9
Q ss_pred eccchHHHHHHHHHhhhCC-CCCcEeEE--ECCeecCCCCCccccCCCCCCEEEEE
Q 048514 31 RRDWEIKKLLITYCEKKDA-QYGTFPFL--INGNRFPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 31 ~~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~~l~~~~Tp~~l~medgD~Idv~ 83 (89)
.++.++..|++++++..+. +.+.+|+. +.|..|.++.|..++|+.+|.+|.|.
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYVR 75 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEEe
Confidence 4778999999999998764 67887775 78999999999999999999998763
No 45
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=97.72 E-value=0.00072 Score=43.15 Aligned_cols=74 Identities=14% Similarity=0.109 Sum_probs=56.2
Q ss_pred CcEEEEEEecCCC-EEEEEEeccchHHHHHHHHHhhhC-------CCCCcEeEEECCeecCCCCCccccCCCCCCE----
Q 048514 12 HFINLVVKGQDND-PLYFEFRRDWEIKKLLITYCEKKD-------AQYGTFPFLINGNRFPHIRTPDQLGLKDGDE---- 79 (89)
Q Consensus 12 ~~I~i~v~~~~~~-~~~f~i~~~t~l~kL~~~y~~~~g-------~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~---- 79 (89)
+.|.|+++-.+|. ...|...++++...|++..-...- .+.+.+|++|.|+-|.++.|..++.+--|+.
T Consensus 1 ~~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~ 80 (111)
T PF13881_consen 1 DKIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGP 80 (111)
T ss_dssp TSEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--
T ss_pred CeEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCC
Confidence 3588888888998 668999999999999998875431 1467899999999999999999999998884
Q ss_pred --EEEEee
Q 048514 80 --IVATFY 85 (89)
Q Consensus 80 --Idv~~~ 85 (89)
++++++
T Consensus 81 ~vmHlvvr 88 (111)
T PF13881_consen 81 TVMHLVVR 88 (111)
T ss_dssp EEEEEEE-
T ss_pred EEEEEEec
Confidence 566554
No 46
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=97.71 E-value=0.00023 Score=44.92 Aligned_cols=62 Identities=15% Similarity=0.053 Sum_probs=56.9
Q ss_pred CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCC-CCCccccCCCCCCEEEEEee
Q 048514 24 DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPH-IRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 24 ~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~-~~Tp~~l~medgD~Idv~~~ 85 (89)
.+....|.+++++..|+.....++++++...+++|||+.|.+ ..|..+||+-.+.+|.+.+.
T Consensus 15 ~~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llid 77 (107)
T cd01795 15 GEKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKAD 77 (107)
T ss_pred CCceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEec
Confidence 467889999999999999999999999999999999998886 67999999999999988773
No 47
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=0.00011 Score=61.09 Aligned_cols=70 Identities=16% Similarity=0.144 Sum_probs=66.4
Q ss_pred EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514 15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
+++|++.|.++.+|.|..-.+++.+++..++..+++.+..|++|.|+-|.++++...+++ ||-+|+++-+
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver 73 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 478888899999999999999999999999999999999999999999999999999999 9999999754
No 48
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=97.68 E-value=0.0019 Score=35.85 Aligned_cols=72 Identities=15% Similarity=0.214 Sum_probs=65.0
Q ss_pred EEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecC
Q 048514 17 VVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGG 88 (89)
Q Consensus 17 ~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G 88 (89)
.+....|+.+.+.+.+..++..+....+...+++....++.+.|..+.+..|..++++..+..+++.....+
T Consensus 3 ~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~~ 74 (75)
T KOG0001|consen 3 FVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLRG 74 (75)
T ss_pred EEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecCC
Confidence 455567899999999999999999999999999999999999999999999999999999999998876543
No 49
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=97.52 E-value=0.0023 Score=37.84 Aligned_cols=73 Identities=12% Similarity=0.177 Sum_probs=59.9
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCc-EeEE--ECCeecCCCC--CccccCCCCCCEEEE
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGT-FPFL--INGNRFPHIR--TPDQLGLKDGDEIVA 82 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~-~rF~--fdG~~l~~~~--Tp~~l~medgD~Idv 82 (89)
+...++|.|+-.+|..+.-+..++++++.|++........+... +.|. |--+.+..++ |.+++|+-.+.+|.|
T Consensus 3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 45678899999999999999999999999998877766665554 7775 4577787765 999999999988766
No 50
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=97.48 E-value=0.00048 Score=40.98 Aligned_cols=70 Identities=16% Similarity=0.230 Sum_probs=51.5
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC---C---cEeEE-ECCeecCCCCCccccCCCCCCEEEE
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY---G---TFPFL-INGNRFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~---~---~~rF~-fdG~~l~~~~Tp~~l~medgD~Idv 82 (89)
.++|.|...++..+-+.+-.+.|++.|+....+..+.+. . .++|. -+|.+|++++|..++|+.|||++..
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 567777765568889999999999999999999888732 2 36676 7899999999999999999999865
No 51
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=97.22 E-value=0.0058 Score=35.62 Aligned_cols=66 Identities=20% Similarity=0.222 Sum_probs=50.9
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
|+|++-+. ..+..+.+...+++..|.+.. +++...+....||+.+. .+--+.+||.|+++.--.||
T Consensus 5 m~v~vng~-~~~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~-----~~~~l~~gD~Veii~~V~GG 70 (70)
T PRK08364 5 IRVKVIGR-GIEKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVAL-----EDDPVKDGDYVEVIPVVSGG 70 (70)
T ss_pred EEEEEecc-ccceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECC-----CCcCcCCCCEEEEEccccCC
Confidence 56666432 235567778888898888655 77788899999999994 45669999999999888777
No 52
>PRK07440 hypothetical protein; Provisional
Probab=96.83 E-value=0.016 Score=33.84 Aligned_cols=68 Identities=18% Similarity=0.169 Sum_probs=51.8
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
++|+|.| +|+. +.+....++..|.+ ..+++.+.+-.-.||+-|..++= ++.-+.+||.|+++.--.||
T Consensus 3 ~~m~i~v---NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~r~~w-~~~~L~~gD~IEIv~~v~GG 70 (70)
T PRK07440 3 NPITLQV---NGET--RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHRQFW-EQTQVQPGDRLEIVTIVGGG 70 (70)
T ss_pred CceEEEE---CCEE--EEcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCHHHc-CceecCCCCEEEEEEEecCC
Confidence 3577776 5665 55566777887775 56888999999999999985433 33459999999999988887
No 53
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=96.74 E-value=0.015 Score=33.18 Aligned_cols=60 Identities=20% Similarity=0.183 Sum_probs=45.0
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+.+.+ . .+++..|.+.+ +++.+.+..-.||+-+...+ -.+.-+.|||.|+++.--.||
T Consensus 6 Ng~~~~~--~-~~tl~~Ll~~l----~~~~~~vavavN~~iv~~~~-~~~~~L~dgD~Ieiv~~V~GG 65 (65)
T PRK06488 6 NGETLQT--E-ATTLALLLAEL----DYEGNWLATAVNGELVHKEA-RAQFVLHEGDRIEILSPMQGG 65 (65)
T ss_pred CCeEEEc--C-cCcHHHHHHHc----CCCCCeEEEEECCEEcCHHH-cCccccCCCCEEEEEEeccCC
Confidence 6776665 3 45788887654 67777888999999998432 234569999999999988887
No 54
>PRK06437 hypothetical protein; Provisional
Probab=96.74 E-value=0.02 Score=33.14 Aligned_cols=58 Identities=10% Similarity=0.215 Sum_probs=48.1
Q ss_pred CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 23 NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 23 ~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+++..+.+...++++.|.+. .|++.+.+-...||..+. .+.-+.+||.|+++.--.||
T Consensus 10 ~~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG 67 (67)
T PRK06437 10 HINKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG 67 (67)
T ss_pred CcceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence 35567888888888888865 488889999999999996 56678899999999888887
No 55
>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=96.72 E-value=0.012 Score=34.28 Aligned_cols=60 Identities=20% Similarity=0.200 Sum_probs=49.2
Q ss_pred EEEEEEeccchHHHHHHHHHhhhCC----CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 25 PLYFEFRRDWEIKKLLITYCEKKDA----QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 25 ~~~f~i~~~t~l~kL~~~y~~~~g~----~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
...+.+...+++..|.+..+++++- ....+.+..||+.+. .+.-+.|||.|.++.--.||
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ppv~GG 80 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEeCCCCCC
Confidence 4566776788999999999988653 456889999999998 34459999999999988887
No 56
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=96.67 E-value=0.047 Score=33.08 Aligned_cols=72 Identities=13% Similarity=0.101 Sum_probs=55.8
Q ss_pred CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC--eecC--------CCCCccccCCCCCCEE
Q 048514 11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING--NRFP--------HIRTPDQLGLKDGDEI 80 (89)
Q Consensus 11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~--------~~~Tp~~l~medgD~I 80 (89)
+..++|.++-.+|..+.-+...+++++.|++.... .+..+..+.+..+= +.+. .+.|.+++||....++
T Consensus 2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L 80 (85)
T cd01774 2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVL 80 (85)
T ss_pred CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEE
Confidence 35677888889999999999999999999998853 44455778877753 5554 3679999999988877
Q ss_pred EEE
Q 048514 81 VAT 83 (89)
Q Consensus 81 dv~ 83 (89)
-|.
T Consensus 81 ~V~ 83 (85)
T cd01774 81 FVQ 83 (85)
T ss_pred EEe
Confidence 653
No 57
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=96.53 E-value=0.028 Score=31.90 Aligned_cols=61 Identities=20% Similarity=0.333 Sum_probs=46.2
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+. +.+...+++..|.+. .+++...+-...||.-+....-+ +--++|||.|+++.--.||
T Consensus 6 NG~~--~~~~~~~tl~~lL~~----l~~~~~~vav~vNg~iv~r~~~~-~~~l~~gD~vei~~~vgGG 66 (66)
T PRK05659 6 NGEP--RELPDGESVAALLAR----EGLAGRRVAVEVNGEIVPRSQHA-STALREGDVVEIVHALGGG 66 (66)
T ss_pred CCeE--EEcCCCCCHHHHHHh----cCCCCCeEEEEECCeEeCHHHcC-cccCCCCCEEEEEEEecCC
Confidence 5665 455566778777754 68888888899999888865433 3449999999999888887
No 58
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=96.48 E-value=0.065 Score=31.64 Aligned_cols=71 Identities=14% Similarity=0.113 Sum_probs=54.9
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecCC---CCCccccCCCCCCEEEE
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFPH---IRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~---~~Tp~~l~medgD~Idv 82 (89)
+..+|.|+-.+|..+.-+...+++++.|++......+.....+.|.-. -+.+.. +.|..++|+-...++-|
T Consensus 3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 456778887999999999999999999999986666666666776543 555553 46999999988877765
No 59
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=96.43 E-value=0.044 Score=30.94 Aligned_cols=60 Identities=17% Similarity=0.281 Sum_probs=42.8
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+. +.+...+++..|.+.+. +. ..+.+..||..+...+ -.+--+.+||.|+++.--.||
T Consensus 6 Ng~~--~~~~~~~tl~~ll~~l~----~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG 65 (65)
T PRK06944 6 NQQT--LSLPDGATVADALAAYG----AR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG 65 (65)
T ss_pred CCEE--EECCCCCcHHHHHHhhC----CC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence 5555 45556678888887663 32 4578899999987542 222339999999999888887
No 60
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=96.32 E-value=0.029 Score=32.15 Aligned_cols=60 Identities=13% Similarity=0.166 Sum_probs=45.5
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+. +.+....++..|.+. .+++.+.+-..++|.-|...+=.. . +.|||.|+++.--.||
T Consensus 6 NG~~--~~~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~~~-~-L~~gD~ieIv~~VgGG 65 (65)
T PRK05863 6 NEEQ--VEVDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDWAT-K-LRDGARLEVVTAVQGG 65 (65)
T ss_pred CCEE--EEcCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHhhh-h-cCCCCEEEEEeeccCC
Confidence 5665 444566777777764 588999999999999777544332 3 8999999999888887
No 61
>COG5417 Uncharacterized small protein [Function unknown]
Probab=96.26 E-value=0.073 Score=32.00 Aligned_cols=69 Identities=12% Similarity=0.089 Sum_probs=57.2
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-----CcEeEEECCeecCCCCCccccCCCCCCEEEE
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-----GTFPFLINGNRFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-----~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv 82 (89)
+++-+...+|.+.-+++.-.-|.++|.+-..+...++. ..+|..-.++-+++++-..+.++.|||.++.
T Consensus 7 VTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 7 VTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 44445667889999999999999999998887666642 4578888899999999999999999998874
No 62
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.014 Score=43.90 Aligned_cols=57 Identities=14% Similarity=0.137 Sum_probs=48.4
Q ss_pred EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEE
Q 048514 25 PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIV 81 (89)
Q Consensus 25 ~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id 81 (89)
.+.+.|+.++.+..|.+..+.+.|++.+.++.+|.|+.|+.+-|.+.-+|.---..+
T Consensus 15 ~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~h 71 (446)
T KOG0006|consen 15 GLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATH 71 (446)
T ss_pred ceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhh
Confidence 467889999999999999999999999999999999999999999944444333333
No 63
>smart00455 RBD Raf-like Ras-binding domain.
Probab=96.18 E-value=0.05 Score=31.86 Aligned_cols=57 Identities=14% Similarity=0.097 Sum_probs=44.3
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC--eecCCCCCcccc
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING--NRFPHIRTPDQL 72 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~~~~Tp~~l 72 (89)
.+|.-++|+.....+++..++..+...-|+++|+.+..+.++.-| ++|.-++-...|
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~ldl~~~~~~l 60 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPLDLNQPISSL 60 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCcceecCCccccc
Confidence 345557999999999999999999999999999999888877754 344433333333
No 64
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=96.10 E-value=0.072 Score=32.33 Aligned_cols=67 Identities=15% Similarity=0.189 Sum_probs=50.6
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
.|+|.| +|+. +.+....++..|.+. .+++...+-.-.||.-|... .-++.-+.+||.|+++.--.||
T Consensus 18 ~m~I~V---NG~~--~~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr~-~w~~t~L~egD~IEIv~~VgGG 84 (84)
T PRK06083 18 LITISI---NDQS--IQVDISSSLAQIIAQ----LSLPELGCVFAINNQVVPRS-EWQSTVLSSGDAISLFQAIAGG 84 (84)
T ss_pred eEEEEE---CCeE--EEcCCCCcHHHHHHH----cCCCCceEEEEECCEEeCHH-HcCcccCCCCCEEEEEEEecCC
Confidence 344444 6766 445666778888775 47888999999999999743 3445569999999999988887
No 65
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=96.01 E-value=0.14 Score=29.94 Aligned_cols=67 Identities=10% Similarity=0.069 Sum_probs=49.3
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecC---CCCCccccCCCCCCEE
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFP---HIRTPDQLGLKDGDEI 80 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~---~~~Tp~~l~medgD~I 80 (89)
..+|.|+-.+|..+.-+...+++++.|++....... +...+.|+-. .+.+. .+.|.+++|+...-++
T Consensus 2 ~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~-~~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s~~~ 73 (77)
T cd01767 2 TTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP-PAEPFTLMTSFPRRVLTDLDYELTLQEAGLVNEVVF 73 (77)
T ss_pred cEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC-CCCCEEEEeCCCCccCCCCCccCcHHHcCCccceEE
Confidence 456778888999998999999999999987754433 2556666644 55554 4789999999954433
No 66
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=95.98 E-value=0.092 Score=30.02 Aligned_cols=61 Identities=20% Similarity=0.239 Sum_probs=45.4
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+. +.+....++..|.+. .+.+...+.+-.||+-|..+ .-++.-+.+||.|+++.--.||
T Consensus 6 Ng~~--~~~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~~v~GG 66 (66)
T PRK08053 6 NDQP--MQCAAGQTVHELLEQ----LNQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQVIAGG 66 (66)
T ss_pred CCeE--EEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEEEccCC
Confidence 6665 444566678887754 56667789999999999743 2333459999999999988887
No 67
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=95.83 E-value=0.092 Score=31.30 Aligned_cols=62 Identities=19% Similarity=0.152 Sum_probs=47.7
Q ss_pred CEEEEEEeccchHHHHHHHHHhhhCC-----------CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 24 DPLYFEFRRDWEIKKLLITYCEKKDA-----------QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 24 ~~~~f~i~~~t~l~kL~~~y~~~~g~-----------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
.+..+.+. .++++.|++..++++.- ....+.+..||+.+..++. .-++|||+|.++.--.||
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~PpvsGG 88 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFPPVSGG 88 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeCCCcCC
Confidence 34566665 78999999999887642 0135889999999986532 569999999999888887
No 68
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=95.68 E-value=0.1 Score=35.45 Aligned_cols=76 Identities=16% Similarity=0.190 Sum_probs=56.0
Q ss_pred EEEEEEecCC----CEEEEEEeccchHHHHHHHHHhhhCCCCCc-EeEEEC-CeecCC-CCCc-cccCCCCCC----EEE
Q 048514 14 INLVVKGQDN----DPLYFEFRRDWEIKKLLITYCEKKDAQYGT-FPFLIN-GNRFPH-IRTP-DQLGLKDGD----EIV 81 (89)
Q Consensus 14 I~i~v~~~~~----~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~-~rF~fd-G~~l~~-~~Tp-~~l~medgD----~Id 81 (89)
|+|-|.+.+| ..+.|.+..++++..|++...+..+++... +.|++. |..|.. .+++ .++.-.+.| .+.
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~ 80 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLR 80 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEE
Confidence 5788888888 578999999999999999999999998765 556664 555543 3333 344444444 478
Q ss_pred EEeeecCC
Q 048514 82 ATFYAGGA 89 (89)
Q Consensus 82 v~~~q~GG 89 (89)
+.....||
T Consensus 81 l~~rl~GG 88 (162)
T PF13019_consen 81 LSLRLRGG 88 (162)
T ss_pred EEEeccCC
Confidence 88888887
No 69
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=95.67 E-value=0.14 Score=29.47 Aligned_cols=61 Identities=16% Similarity=0.245 Sum_probs=45.1
Q ss_pred CCCEEEEEEecc-chHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRD-WEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~-t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+.. .+... +++..|.+ ..+++...+-.-.||+-|..++= ++.-+.+||.|+++.--.||
T Consensus 6 NG~~~--~~~~~~~tv~~lL~----~l~~~~~~vav~vN~~iv~r~~w-~~~~L~~gD~iEIv~~VgGG 67 (67)
T PRK07696 6 NGNQI--EVPESVKTVAELLT----HLELDNKIVVVERNKDILQKDDH-TDTSVFDGDQIEIVTFVGGG 67 (67)
T ss_pred CCEEE--EcCCCcccHHHHHH----HcCCCCCeEEEEECCEEeCHHHc-CceecCCCCEEEEEEEecCC
Confidence 56654 44444 46766664 56888899999999999986532 23448999999999988887
No 70
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.48 E-value=0.25 Score=29.56 Aligned_cols=71 Identities=18% Similarity=0.128 Sum_probs=54.5
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--Ceec---CCCCCccccCCCCCCEEEEE
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRF---PHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l---~~~~Tp~~l~medgD~Idv~ 83 (89)
+.++|.++-.+|..+.-+...+++|+.|++.... .|.+...+++.-. =+.+ ..+.|.+++||-...++-|-
T Consensus 3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~-~~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVAS-KGYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 4677888889999999999999999999988865 3666677777533 2333 34579999999988887663
No 71
>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=95.47 E-value=0.068 Score=32.73 Aligned_cols=50 Identities=10% Similarity=0.133 Sum_probs=42.1
Q ss_pred EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC---CcEeEEE---CCeecC
Q 048514 15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY---GTFPFLI---NGNRFP 64 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~---~~~rF~f---dG~~l~ 64 (89)
..|+++..|+.+.|++.++..+..|+...+++.|++. +.+.+.| +|..+.
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~Vl 57 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIVL 57 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEEE
Confidence 3677888999999999999999999999999999986 5778877 355443
No 72
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.45 E-value=0.22 Score=29.70 Aligned_cols=68 Identities=9% Similarity=0.111 Sum_probs=51.1
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCC-CCCcEeEE--ECCeecCC-CCCccccCCCCCCEE
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDA-QYGTFPFL--INGNRFPH-IRTPDQLGLKDGDEI 80 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~~l~~-~~Tp~~l~medgD~I 80 (89)
..+|.|+-.||+.+.-++..+++++.|++......+. ....+.+. |=.+.+.+ +.|.+++||.+.-++
T Consensus 4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~ 75 (79)
T cd01770 4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV 75 (79)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence 4667777789999999999999999999887765533 34566665 55666664 779999999875443
No 73
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=95.29 E-value=0.098 Score=29.71 Aligned_cols=61 Identities=23% Similarity=0.318 Sum_probs=44.8
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+. +.+....++..|.+.+ +++.+.+....||+.+..++= .+.-+.+||.|+++.--.||
T Consensus 5 Ng~~--~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~~~-~~~~L~~gD~V~ii~~v~GG 65 (65)
T cd00565 5 NGEP--REVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRSEW-ASTPLQDGDRIEIVTAVGGG 65 (65)
T ss_pred CCeE--EEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHHHc-CceecCCCCEEEEEEeccCC
Confidence 4544 4555667788777655 577888999999999976531 12349999999999888887
No 74
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=95.11 E-value=0.073 Score=38.01 Aligned_cols=76 Identities=18% Similarity=0.116 Sum_probs=51.3
Q ss_pred CCCcEEEEEEe--cCCCEE----EEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC------eecCCCCCccccCCCCC
Q 048514 10 DQHFINLVVKG--QDNDPL----YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING------NRFPHIRTPDQLGLKDG 77 (89)
Q Consensus 10 ~~~~I~i~v~~--~~~~~~----~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG------~~l~~~~Tp~~l~medg 77 (89)
....|.|.++- ...+.+ ++-|..+++++.|....+++.|++.++=-.+|.- +.|..+.|....++.||
T Consensus 65 ~~~~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~~G 144 (249)
T PF12436_consen 65 PSDDILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQDG 144 (249)
T ss_dssp TTTEEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--TT
T ss_pred CCCcEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccCCC
Confidence 34466666654 445555 7899999999999999999999987654444542 56789999999999999
Q ss_pred CEEEEEee
Q 048514 78 DEIVATFY 85 (89)
Q Consensus 78 D~Idv~~~ 85 (89)
|+|-+...
T Consensus 145 dIi~fQ~~ 152 (249)
T PF12436_consen 145 DIICFQRA 152 (249)
T ss_dssp EEEEEEE-
T ss_pred CEEEEEec
Confidence 99877654
No 75
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=95.02 E-value=0.32 Score=29.24 Aligned_cols=69 Identities=10% Similarity=0.108 Sum_probs=53.2
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC---Ce--ecCCCCCccccCCCCCCEEEEE
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN---GN--RFPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd---G~--~l~~~~Tp~~l~medgD~Idv~ 83 (89)
|.+.|.--......++|+|.+|+.||.+......+.+- ..|+.|. |+ .|+...|.+++|+=..-.|-+.
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~ll 74 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLL 74 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEE
Confidence 35566543456789999999999999999999999866 7788884 33 4667889999998776666543
No 76
>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=95.01 E-value=0.19 Score=28.47 Aligned_cols=61 Identities=25% Similarity=0.389 Sum_probs=45.2
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+. +.+...+++..|.+. .+++++.+.+..||+-+..++ ..+.-+.|||.|+++.--.||
T Consensus 4 Ng~~--~~~~~~~tv~~ll~~----l~~~~~~v~v~vN~~iv~~~~-~~~~~L~~gD~veii~~V~GG 64 (64)
T TIGR01683 4 NGEP--VEVEDGLTLAALLES----LGLDPRRVAVAVNGEIVPRSE-WDDTILKEGDRIEIVTFVGGG 64 (64)
T ss_pred CCeE--EEcCCCCcHHHHHHH----cCCCCCeEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence 4554 444566678777764 467778899999999997443 233469999999999888887
No 77
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=94.98 E-value=0.3 Score=28.64 Aligned_cols=60 Identities=15% Similarity=0.160 Sum_probs=47.7
Q ss_pred EEEEEEecc-chHHHHHHHHHhhhC-C--CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 25 PLYFEFRRD-WEIKKLLITYCEKKD-A--QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 25 ~~~f~i~~~-t~l~kL~~~y~~~~g-~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
...+.+... +++..|.+..++++. + ..+.+++..||+.+.. +.-++|||+|.++.--.||
T Consensus 17 ~~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~PpvsGG 80 (80)
T TIGR01682 17 EETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeCCCCCC
Confidence 346777766 899999999998875 2 2356789999999884 5689999999999887777
No 78
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=94.91 E-value=0.26 Score=29.05 Aligned_cols=44 Identities=11% Similarity=0.151 Sum_probs=37.5
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN 59 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd 59 (89)
++|.-+||+.....+++..++..+...-|+++|++++...+++-
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~ 45 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLL 45 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEe
Confidence 35556899999999999999999999999999999877655554
No 79
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=94.87 E-value=0.14 Score=30.24 Aligned_cols=61 Identities=18% Similarity=0.193 Sum_probs=45.7
Q ss_pred CEEEEEEeccchHHHHHHHHHhhh-CCC--CCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 24 DPLYFEFRRDWEIKKLLITYCEKK-DAQ--YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 24 ~~~~f~i~~~t~l~kL~~~y~~~~-g~~--~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+...+.+...+++..|.+....++ ++. ...+.+..||+.+. .+.-++|||+|.++.--.||
T Consensus 19 ~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai~PpvsGG 82 (82)
T PLN02799 19 SDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT-----ESAALKDGDELAIIPPISGG 82 (82)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEEeCCCCCC
Confidence 456777778889999999887765 222 14467888999874 44468999999999887777
No 80
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.83 E-value=0.016 Score=33.95 Aligned_cols=71 Identities=13% Similarity=0.088 Sum_probs=59.9
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
|.+.+.+.=|+.+.++..+++++..+....|.+.|-.++.+++.=-+.-+.+.-|.++++|.||--++.+.
T Consensus 2 iev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lelyy 72 (73)
T KOG3493|consen 2 IEVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELYY 72 (73)
T ss_pred ceehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEee
Confidence 44555566689999999999999999999999999999988887556667788899999999998887764
No 81
>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=94.65 E-value=0.41 Score=30.92 Aligned_cols=60 Identities=7% Similarity=0.077 Sum_probs=52.9
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGL 74 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m 74 (89)
+.|.|+ .....++...+.+++.-.|++....-...+++..|++-+++-|.++.|..+.|.
T Consensus 3 vFlmIr-R~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~ 62 (119)
T cd01788 3 VFLMIR-RHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGF 62 (119)
T ss_pred eEEEEE-ecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCc
Confidence 345555 356678899999999999999999999999999999988899999999999999
No 82
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=94.56 E-value=0.13 Score=29.50 Aligned_cols=63 Identities=22% Similarity=0.256 Sum_probs=52.2
Q ss_pred EEEEEEeccchHHHHHHHHHhhhCC--CCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 25 PLYFEFRRDWEIKKLLITYCEKKDA--QYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 25 ~~~f~i~~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
.....+....+++.|.+..+.++.- ....+.+..||+.+.. .-.+.-+.+||.|.++.--.||
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ppvsGG 77 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILPPVSGG 77 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEESTSTS
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC--ccCCcCcCCCCEEEEECCCCCC
Confidence 5677888899999999999887742 3478999999999998 3556677999999999888887
No 83
>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=94.51 E-value=0.2 Score=30.18 Aligned_cols=44 Identities=9% Similarity=0.260 Sum_probs=37.4
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI 58 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f 58 (89)
++||+. .++..+.|++.++..+..|.+..+++++++. ..+.+.|
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY 45 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY 45 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence 356665 4677889999999999999999999999975 7888888
No 84
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=94.44 E-value=0.25 Score=28.80 Aligned_cols=45 Identities=9% Similarity=0.173 Sum_probs=38.3
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN 59 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd 59 (89)
+++++.. .+....|.+.+..++..|..+.+++++++.+.+++.|-
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~ 46 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ 46 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence 5677764 56667899999999999999999999998788888885
No 85
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=94.44 E-value=0.56 Score=27.72 Aligned_cols=70 Identities=14% Similarity=0.198 Sum_probs=52.5
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecCC---CCCccccCCCCCCEEEEE
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFPH---IRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~---~~Tp~~l~medgD~Idv~ 83 (89)
..+|.|+-.+|..+.-+...+++++.|++......+- ...+.|.-. -+.+.. +.|.+++||-...++-|.
T Consensus 4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~ 78 (79)
T cd01772 4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGN-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIVT 78 (79)
T ss_pred EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCC-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEEe
Confidence 4567777789999988999999999999988765443 245555544 555543 579999999988877653
No 86
>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=93.94 E-value=0.18 Score=30.51 Aligned_cols=45 Identities=11% Similarity=0.059 Sum_probs=38.6
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING 60 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG 60 (89)
..|||.-. . .+.++|.+.-+++.|.++.+++.+++.+.+.+.|.-
T Consensus 3 ~vvKV~f~-~-tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkd 47 (80)
T cd06406 3 YVVKVHFK-Y-TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKS 47 (80)
T ss_pred eEEEEEEE-E-EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEecc
Confidence 45666643 3 789999999999999999999999999999999964
No 87
>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=93.82 E-value=0.86 Score=27.58 Aligned_cols=72 Identities=14% Similarity=0.113 Sum_probs=54.6
Q ss_pred CCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--Ceec---CCCCCccccCCCCCCEEEEE
Q 048514 11 QHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRF---PHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 11 ~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l---~~~~Tp~~l~medgD~Idv~ 83 (89)
.+.-+|.|+-.+|+.+.-+...+++|+.|+..... .|.+...+.++-+ =+.+ ..+.|.+++||-.-.++-|.
T Consensus 3 ~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 3 GPKARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred CCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 34556777778999999999999999999986655 6777787877744 2222 23479999999999988764
No 88
>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=93.17 E-value=0.7 Score=28.29 Aligned_cols=45 Identities=13% Similarity=0.113 Sum_probs=38.3
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN 59 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd 59 (89)
.|+|+|. ..+..+.+.|.++..|+.|.+...+++++. ..+++.|-
T Consensus 2 ~ikVKv~-~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKyk 46 (86)
T cd06408 2 KIRVKVH-AQDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMK 46 (86)
T ss_pred cEEEEEE-ecCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEE
Confidence 5788887 477888999999999999999999999995 56766664
No 89
>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=92.94 E-value=0.28 Score=30.12 Aligned_cols=60 Identities=13% Similarity=0.137 Sum_probs=45.0
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEe----EEEC----CeecCCCCCccccC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFP----FLIN----GNRFPHIRTPDQLG 73 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~r----F~fd----G~~l~~~~Tp~~l~ 73 (89)
+.|.|.-+||..+.++|+++..-+.++++-|.+.|+|.+..+ |... =++|.+.+.|-.|-
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~YFaLFev~~~~f~RKL~dfE~Ph~ly 69 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQNYFALFEVINHSFVRKLAPNEFPHKLY 69 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhheeeeEEecceEEEeccCccCCceEE
Confidence 567777789999999999999999999999999999865432 1111 24566666665543
No 90
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=92.70 E-value=1 Score=29.00 Aligned_cols=64 Identities=14% Similarity=0.122 Sum_probs=47.5
Q ss_pred CCcEEEEEEecCCCE----EEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC--CCCCccccCC
Q 048514 11 QHFINLVVKGQDNDP----LYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP--HIRTPDQLGL 74 (89)
Q Consensus 11 ~~~I~i~v~~~~~~~----~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~--~~~Tp~~l~m 74 (89)
..+|+|+++--.+.. -.|+|.++.+++++.....+..+++.+.--|+|=..... ++++...|-+
T Consensus 28 ~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~ 97 (116)
T KOG3439|consen 28 IRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYE 97 (116)
T ss_pred cceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHH
Confidence 368999988543333 379999999999999999999999887776776544443 4666665544
No 91
>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=92.60 E-value=0.63 Score=28.19 Aligned_cols=42 Identities=10% Similarity=0.008 Sum_probs=35.3
Q ss_pred EEEEEEecCCCEEEEEEec--cchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514 14 INLVVKGQDNDPLYFEFRR--DWEIKKLLITYCEKKDAQYGTFPFLI 58 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~--~t~l~kL~~~y~~~~g~~~~~~rF~f 58 (89)
|+||+. ..|..+.|++.+ +..+..|....+++++++ .+.+.|
T Consensus 1 V~vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKY 44 (81)
T cd06396 1 VNLKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKY 44 (81)
T ss_pred CEEEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEE
Confidence 466765 578899999999 889999999999999998 665555
No 92
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=92.58 E-value=0.76 Score=34.47 Aligned_cols=61 Identities=21% Similarity=0.307 Sum_probs=47.0
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
||+. +.+....++..|.+. .+++.+.+-..+||+-|..++ -.+.-+.|||.|+++.--.||
T Consensus 6 NGk~--~el~e~~TL~dLL~~----L~i~~~~VAVeVNgeIVpr~~-w~~t~LkeGD~IEII~~VgGG 66 (326)
T PRK11840 6 NGEP--RQVPAGLTIAALLAE----LGLAPKKVAVERNLEIVPRSE-YGQVALEEGDELEIVHFVGGG 66 (326)
T ss_pred CCEE--EecCCCCcHHHHHHH----cCCCCCeEEEEECCEECCHHH-cCccccCCCCEEEEEEEecCC
Confidence 5654 555667788887764 588999999999999997433 233459999999999888887
No 93
>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=92.54 E-value=0.76 Score=26.78 Aligned_cols=57 Identities=12% Similarity=0.118 Sum_probs=40.2
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecCCCCCcccc
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFPHIRTPDQL 72 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~~~Tp~~l 72 (89)
++|.-++|+.....+++..+++.....-|+++|++++.+..+.- .++|.-++....|
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~~L 61 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSSSL 61 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGGGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCceeee
Confidence 45555899999999999999999999999999999887755543 4445444444444
No 94
>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=92.21 E-value=0.041 Score=40.82 Aligned_cols=66 Identities=12% Similarity=0.117 Sum_probs=0.0
Q ss_pred CCCcEEEEEEecCCCEEEEEEe---c--cchHHHHHHHHHh----------hhCCCCCcEe-----EEECCeecCCCCCc
Q 048514 10 DQHFINLVVKGQDNDPLYFEFR---R--DWEIKKLLITYCE----------KKDAQYGTFP-----FLINGNRFPHIRTP 69 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~---~--~t~l~kL~~~y~~----------~~g~~~~~~r-----F~fdG~~l~~~~Tp 69 (89)
....|+|.+++..+..+.+++. + ++.+..|.+++|. ..+++.+.++ ++|+-+++.+..|.
T Consensus 75 s~~sItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl 154 (309)
T PF12754_consen 75 SSKSITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTL 154 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCceEEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcH
Confidence 4567999998876655544432 3 5888999999999 8899999999 99999999989999
Q ss_pred cccCCC
Q 048514 70 DQLGLK 75 (89)
Q Consensus 70 ~~l~me 75 (89)
.++.=+
T Consensus 155 ~e~l~~ 160 (309)
T PF12754_consen 155 AEVLAD 160 (309)
T ss_dssp ------
T ss_pred HHHHhc
Confidence 887655
No 95
>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=91.99 E-value=1.3 Score=25.66 Aligned_cols=44 Identities=16% Similarity=0.086 Sum_probs=36.8
Q ss_pred EEEEEEecCCCEEE-EEEeccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514 14 INLVVKGQDNDPLY-FEFRRDWEIKKLLITYCEKKDAQYGTFPFLI 58 (89)
Q Consensus 14 I~i~v~~~~~~~~~-f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f 58 (89)
+.+|+.- .+.... +.+.+..++..|....+++++.+...+++.|
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y 46 (84)
T PF00564_consen 2 VRVKVRY-GGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKY 46 (84)
T ss_dssp EEEEEEE-TTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEE
T ss_pred EEEEEEE-CCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEe
Confidence 5667664 455455 8999999999999999999999988999988
No 96
>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=91.96 E-value=1.1 Score=29.77 Aligned_cols=47 Identities=26% Similarity=0.193 Sum_probs=38.5
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI 58 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f 58 (89)
..+.++|.-.||....+.+..+++.+.|++.-|++.|+.. .-+.+.+
T Consensus 2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~ 49 (207)
T smart00295 2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQF 49 (207)
T ss_pred CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEE
Confidence 4567788778999999999999999999999999999953 3344443
No 97
>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=91.84 E-value=0.65 Score=28.86 Aligned_cols=55 Identities=7% Similarity=0.101 Sum_probs=41.4
Q ss_pred cEEEEEEecCCCEEEEEEe--ccchHHHHHHHHHhhh--CCCCCcEeEEECCeecCCCCC
Q 048514 13 FINLVVKGQDNDPLYFEFR--RDWEIKKLLITYCEKK--DAQYGTFPFLINGNRFPHIRT 68 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~--~~t~l~kL~~~y~~~~--g~~~~~~rF~fdG~~l~~~~T 68 (89)
.|+|++.+ .-..+.+.|. .+++..-|+....++. ..+...+||+|+|+-|.+...
T Consensus 2 ~l~IRFs~-sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~ 60 (97)
T PF10302_consen 2 YLTIRFSD-SIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTD 60 (97)
T ss_pred eEEEEECC-CCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccch
Confidence 46677755 2233567777 8899999999998887 346688999999999996443
No 98
>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=91.82 E-value=1 Score=26.00 Aligned_cols=44 Identities=18% Similarity=0.131 Sum_probs=36.0
Q ss_pred EEEEEEecCCCEEEEEEe-ccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514 14 INLVVKGQDNDPLYFEFR-RDWEIKKLLITYCEKKDAQYGTFPFLI 58 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~-~~t~l~kL~~~y~~~~g~~~~~~rF~f 58 (89)
+++|+.- .|....|.+. +...+..|....+++++.+...+++.|
T Consensus 1 ~~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y 45 (81)
T cd05992 1 VRVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKY 45 (81)
T ss_pred CcEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEe
Confidence 3566664 4667789999 999999999999999999767777777
No 99
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=91.42 E-value=1.6 Score=26.19 Aligned_cols=60 Identities=15% Similarity=0.051 Sum_probs=51.4
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCCc-EeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYGT-FPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~-~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
.++|-..+||..+.+.-|+.++++... --..-||.=|++.+|....-|+.|..+.+.-+-
T Consensus 19 vlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPRD 79 (82)
T cd01766 19 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPRD 79 (82)
T ss_pred EEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeecccc
Confidence 568889999999999999999998754 456668999999999999999999988776543
No 100
>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=91.35 E-value=0.17 Score=30.77 Aligned_cols=55 Identities=25% Similarity=0.455 Sum_probs=38.7
Q ss_pred EEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC--------------CCCCccccCCCCCCEEEEE
Q 048514 28 FEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP--------------HIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 28 f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~--------------~~~Tp~~l~medgD~Idv~ 83 (89)
+.+.++++|+.+++..|++......+=.+...|+.|. -+.+..+| +.+|+.|-|.
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence 4678999999999999998655444433445555554 35667788 9999998774
No 101
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=91.21 E-value=1.2 Score=26.57 Aligned_cols=69 Identities=14% Similarity=0.117 Sum_probs=48.1
Q ss_pred cEEEEEEe-cC-CCEE-EEEEeccchHHHHHHHHHhhhCCCCC-cEeEEECCeecCCCCCccccCCCCCCEEE
Q 048514 13 FINLVVKG-QD-NDPL-YFEFRRDWEIKKLLITYCEKKDAQYG-TFPFLINGNRFPHIRTPDQLGLKDGDEIV 81 (89)
Q Consensus 13 ~I~i~v~~-~~-~~~~-~f~i~~~t~l~kL~~~y~~~~g~~~~-~~rF~fdG~~l~~~~Tp~~l~medgD~Id 81 (89)
++++++.- .| .... .++|-..+||..+.+.-|+.+.++.. +.-..-||.-|++.+|..+.=|+.|-.+.
T Consensus 2 kvtfKI~ltsDp~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLr 74 (76)
T PF03671_consen 2 KVTFKITLTSDPKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELR 74 (76)
T ss_dssp EEEEEEEESTSSTS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEE
T ss_pred cEEEEEEEccCCCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEee
Confidence 34555532 23 3333 68999999999999999999999765 45566679999999999887777776654
No 102
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=91.09 E-value=0.93 Score=26.12 Aligned_cols=40 Identities=20% Similarity=0.185 Sum_probs=34.0
Q ss_pred EecCCCEEEEEEeccchHHHHHHHHHhhhCCC-CCcEeEEE
Q 048514 19 KGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQ-YGTFPFLI 58 (89)
Q Consensus 19 ~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~-~~~~rF~f 58 (89)
.-.||....|.|.++++-+.|++..|++.|+. ..-+-+.|
T Consensus 2 ~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 2 RLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp EESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred CCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 34688899999999999999999999999995 45566666
No 103
>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=90.50 E-value=2 Score=25.54 Aligned_cols=52 Identities=25% Similarity=0.366 Sum_probs=40.6
Q ss_pred EEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcE-eEEECCeecCCCCCc
Q 048514 18 VKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTF-PFLINGNRFPHIRTP 69 (89)
Q Consensus 18 v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~-rF~fdG~~l~~~~Tp 69 (89)
|.-+||..-...+++..++..+...-|++.|+.++.+ .|...|+..-+++|.
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~~~qD 56 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLVLDQD 56 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccccCCc
Confidence 3346888889999999999999999999999998877 555555444445544
No 104
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=90.10 E-value=2 Score=25.24 Aligned_cols=52 Identities=21% Similarity=0.185 Sum_probs=38.4
Q ss_pred cchHHHHHHHHHhhhC-----CCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 33 DWEIKKLLITYCEKKD-----AQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 33 ~t~l~kL~~~y~~~~g-----~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
.++++.|.+..++++. +..+.+++..|+.-.. .+| -+.|||+|-++.--.||
T Consensus 25 ~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~~-~~~----~l~dgDeVai~PPVsGG 81 (81)
T PRK11130 25 FPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLVS-FDH----PLTDGDEVAFFPPVTGG 81 (81)
T ss_pred CCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEcC-CCC----CCCCCCEEEEeCCCCCC
Confidence 4688888888887753 2346678888886543 444 49999999999887777
No 105
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=89.85 E-value=1.1 Score=26.56 Aligned_cols=57 Identities=14% Similarity=0.174 Sum_probs=45.1
Q ss_pred EeccchHHHHHHHHHhhhCC-CCCcEeEEECCeecCCCCCccccC-CCCCCEEEEEeee
Q 048514 30 FRRDWEIKKLLITYCEKKDA-QYGTFPFLINGNRFPHIRTPDQLG-LKDGDEIVATFYA 86 (89)
Q Consensus 30 i~~~t~l~kL~~~y~~~~g~-~~~~~rF~fdG~~l~~~~Tp~~l~-medgD~Idv~~~q 86 (89)
|.+++++..|.+..+..... ...++.|.++|.+|.+.....++. +++|..+.+..+.
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~p 59 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEP 59 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecC
Confidence 34677888888888877654 568899999999999888887774 8889988887653
No 106
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=87.85 E-value=3.3 Score=24.06 Aligned_cols=61 Identities=21% Similarity=0.277 Sum_probs=46.3
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
+|+. ..+...+++..|.+ ..+++...+-...||+.+..++ -++.-+++||.|+++.--.||
T Consensus 8 ng~~--~e~~~~~tv~dLL~----~l~~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~~v~GG 68 (68)
T COG2104 8 NGKE--VEIAEGTTVADLLA----QLGLNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVRVVGGG 68 (68)
T ss_pred CCEE--EEcCCCCcHHHHHH----HhCCCCceEEEEECCEEccchh-hhhccccCCCEEEEEEeecCC
Confidence 4555 44555577777765 4688889999999999997433 245678999999999988887
No 107
>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=86.26 E-value=2.2 Score=25.61 Aligned_cols=43 Identities=19% Similarity=0.230 Sum_probs=35.7
Q ss_pred EEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC--cEeEEEC
Q 048514 17 VVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG--TFPFLIN 59 (89)
Q Consensus 17 ~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~--~~rF~fd 59 (89)
+|.-+||......|++.+++..+.+.-|+++++++. -+|+.+-
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~Lrlk~~ 47 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYLRLKFL 47 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHheeEEEEE
Confidence 455578999999999999999999999999999764 3555554
No 108
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=85.78 E-value=4.8 Score=24.65 Aligned_cols=44 Identities=16% Similarity=0.062 Sum_probs=35.6
Q ss_pred EEEEEecCCCEEEEEEec-----cchHHHHHHHHHhhhCCCC-CcEeEEEC
Q 048514 15 NLVVKGQDNDPLYFEFRR-----DWEIKKLLITYCEKKDAQY-GTFPFLIN 59 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~~-----~t~l~kL~~~y~~~~g~~~-~~~rF~fd 59 (89)
.||+. .++..+.|++.. +..+..|.+..++.++++. ..+.+.|-
T Consensus 2 ~vKv~-y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~ 51 (91)
T cd06398 2 VVKVK-YGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYT 51 (91)
T ss_pred EEEEE-eCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEE
Confidence 46665 467777899984 7999999999999999976 77888773
No 109
>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=85.10 E-value=3.2 Score=25.40 Aligned_cols=60 Identities=13% Similarity=0.109 Sum_probs=37.3
Q ss_pred cEEEEEEecCCCE----EEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEECCeec-CCCCCcccc
Q 048514 13 FINLVVKGQDNDP----LYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLINGNRF-PHIRTPDQL 72 (89)
Q Consensus 13 ~I~i~v~~~~~~~----~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~fdG~~l-~~~~Tp~~l 72 (89)
+|+|+++...+.+ -.|+|..+.+++.+.+..+++.++.. +++-++.+..-- ++++|..+|
T Consensus 1 KV~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L 66 (87)
T PF04110_consen 1 KVTVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDL 66 (87)
T ss_dssp EEEEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHH
T ss_pred CEEEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHH
Confidence 3666776543333 37999999999999999999999854 455555544332 467776654
No 110
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=84.90 E-value=5.7 Score=23.08 Aligned_cols=60 Identities=12% Similarity=0.050 Sum_probs=43.8
Q ss_pred EEEEEEecCCC----EEEEEEeccchHHHHHHHHHhhhCC--CCCcEeEE-EC-----CeecCCCCCccccC
Q 048514 14 INLVVKGQDND----PLYFEFRRDWEIKKLLITYCEKKDA--QYGTFPFL-IN-----GNRFPHIRTPDQLG 73 (89)
Q Consensus 14 I~i~v~~~~~~----~~~f~i~~~t~l~kL~~~y~~~~g~--~~~~~rF~-fd-----G~~l~~~~Tp~~l~ 73 (89)
-.|+|-..++. ...++|.++++-+.|..+.++++++ +++.+.++ +. -..|.+++-|-.+-
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~ 74 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQ 74 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHH
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHH
Confidence 35677666766 7899999999999999999999999 45667764 21 23455666665443
No 111
>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=84.78 E-value=4.3 Score=24.93 Aligned_cols=60 Identities=3% Similarity=0.005 Sum_probs=42.4
Q ss_pred EEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514 26 LYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 26 ~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
+.-.|.-.+||+.|.+-...+.+++.+...|+.....|.++.|.-+-+.+-.-.+.+.++
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQ 64 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQ 64 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEE
Confidence 445666779999999999999999999999999998899999999999988887766543
No 112
>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=83.31 E-value=11 Score=29.28 Aligned_cols=70 Identities=13% Similarity=0.191 Sum_probs=53.5
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCC------CCcEeEE-ECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQ------YGTFPFL-INGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~------~~~~rF~-fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
.++.|... .+.+-.-+--+.|+..|+...-+..+-. ....+|. -+|.+|+.+.|+.+.++.|||++....
T Consensus 3 ~RVtV~~~-~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p 79 (452)
T TIGR02958 3 CRVTVLAG-RRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP 79 (452)
T ss_pred EEEEEeeC-CeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence 45666653 4457888899999999998888777652 1233332 479999999999999999999987764
No 113
>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=82.37 E-value=6.8 Score=23.74 Aligned_cols=59 Identities=10% Similarity=0.056 Sum_probs=39.0
Q ss_pred EEEEEEecCC----CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCee--cCCCCCcccc
Q 048514 14 INLVVKGQDN----DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNR--FPHIRTPDQL 72 (89)
Q Consensus 14 I~i~v~~~~~----~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~--l~~~~Tp~~l 72 (89)
|+|+++.-.. +...|.|..+.++..++....++.+++.+.=-|+|=+.. .+.++|..+|
T Consensus 2 v~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~L 66 (87)
T cd01612 2 VTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNL 66 (87)
T ss_pred eEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHH
Confidence 5666664222 223799999999999999999999997665444443433 2334555543
No 114
>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=80.24 E-value=11 Score=23.05 Aligned_cols=61 Identities=11% Similarity=0.120 Sum_probs=46.1
Q ss_pred EEEEEEeccchHHHHHHHHHhhh-CC-----CCCcEeEEECC--eecCCCCCccccCCCCCCEEEEEee
Q 048514 25 PLYFEFRRDWEIKKLLITYCEKK-DA-----QYGTFPFLING--NRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 25 ~~~f~i~~~t~l~kL~~~y~~~~-g~-----~~~~~rF~fdG--~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
..-+-|...+++..+-++.|.+- |. +-..+|+...| +.+..+.|..+-||..-|.|||+.+
T Consensus 16 ~~Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~~ 84 (85)
T PF06234_consen 16 LQLVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRFE 84 (85)
T ss_dssp EEEEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEEE
T ss_pred EEEEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEEc
Confidence 34678899999999999888642 33 23478999999 9999999999999999999999865
No 115
>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=79.62 E-value=9.9 Score=22.16 Aligned_cols=56 Identities=13% Similarity=0.054 Sum_probs=40.9
Q ss_pred EEEEecC---CCEEEEEEeccchHHHHHHHHHhhhCCC--CCcEeEEE------CCeecCCCCCccc
Q 048514 16 LVVKGQD---NDPLYFEFRRDWEIKKLLITYCEKKDAQ--YGTFPFLI------NGNRFPHIRTPDQ 71 (89)
Q Consensus 16 i~v~~~~---~~~~~f~i~~~t~l~kL~~~y~~~~g~~--~~~~rF~f------dG~~l~~~~Tp~~ 71 (89)
|+|-..+ +....+.|.++++...+...-.++++++ ++.+.++- ..+.|.+++-|-.
T Consensus 2 ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~~~~er~L~~~e~pl~ 68 (87)
T cd01768 2 LRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGDGGLERLLLPDECPLQ 68 (87)
T ss_pred EEEeCCcCCCccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECCceEEEEeCCCCChHH
Confidence 4555445 6677999999999999999999999996 45555543 2345666776654
No 116
>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=77.34 E-value=12 Score=23.19 Aligned_cols=46 Identities=11% Similarity=0.075 Sum_probs=35.7
Q ss_pred EEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecC
Q 048514 18 VKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFP 64 (89)
Q Consensus 18 v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~ 64 (89)
+....|+.-.+.|.++.+|..|+..-++..+.+.+ +.|.|. |+.+.
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky~Lp~edld 64 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKYQLPDEDLD 64 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEEEcCCCCcc
Confidence 34456788889999999999999999999999876 555553 55443
No 117
>PHA01623 hypothetical protein
Probab=76.76 E-value=2.7 Score=23.52 Aligned_cols=29 Identities=28% Similarity=0.430 Sum_probs=25.3
Q ss_pred CEEEEEEeccchHHHHHHHHHhhhCCCCC
Q 048514 24 DPLYFEFRRDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 24 ~~~~f~i~~~t~l~kL~~~y~~~~g~~~~ 52 (89)
+.+.|.|+-+..+.+-++.||...|++.+
T Consensus 12 k~~r~sVrldeel~~~Ld~y~~~~g~~rS 40 (56)
T PHA01623 12 QKAVFGIYMDKDLKTRLKVYCAKNNLQLT 40 (56)
T ss_pred cceeEEEEeCHHHHHHHHHHHHHcCCCHH
Confidence 45789999999999999999999998743
No 118
>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=76.08 E-value=6.8 Score=21.87 Aligned_cols=46 Identities=35% Similarity=0.459 Sum_probs=33.5
Q ss_pred eccchHHHHHHHHHhhhCCCCCcEeEEE--CCeecCCCCCccccCCCCCCEEEE
Q 048514 31 RRDWEIKKLLITYCEKKDAQYGTFPFLI--NGNRFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 31 ~~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~~~Tp~~l~medgD~Idv 82 (89)
+...+|..|++...++.+++.. +|=+| +|++| .++++ ++||+..-|
T Consensus 6 r~~~s~e~lL~~it~~v~l~~g-Vr~lyt~~G~~V---~~l~~--l~dg~~yVa 53 (60)
T PF03607_consen 6 RRFRSFEQLLDEITEKVQLPSG-VRKLYTLDGKRV---KSLDE--LEDGGSYVA 53 (60)
T ss_dssp TTHSSHHHHHHHHHHSSSSTTS--SEEEETTSSEE---SSGGG--S-TTEEEEE
T ss_pred hhhcCHHHHHHHHHhhcCCCcc-cceEECCCCCEe---CCHHH--HCCCCEEEE
Confidence 3457899999999999999866 76666 69988 45666 678876544
No 119
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=75.88 E-value=17 Score=28.66 Aligned_cols=69 Identities=16% Similarity=0.198 Sum_probs=49.1
Q ss_pred EEEEEecCCCEEEEEEeccchHHHHHHHHHhhh--CCCCCcEeEEEC----Ceec--CCCCCccccCCCCCCEEEEEe
Q 048514 15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKK--DAQYGTFPFLIN----GNRF--PHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~--g~~~~~~rF~fd----G~~l--~~~~Tp~~l~medgD~Idv~~ 84 (89)
-+++++.+|.. ...+.+++.|..|-.+.-.-. +.+++++...-. |..+ -.++||.+|||..|+++-+..
T Consensus 2 i~rfRsk~G~~-Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 2 IFRFRSKEGQR-RVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred eEEEecCCCce-eeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 46788877753 678889999987776665433 456667655542 4422 368999999999999987765
No 120
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=73.79 E-value=17 Score=21.77 Aligned_cols=54 Identities=19% Similarity=0.272 Sum_probs=41.8
Q ss_pred CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEE-ECCeecCCCCCccccCCCCCCEEEEEee
Q 048514 23 NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFL-INGNRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 23 ~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~-fdG~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
+..+.+.+...++++.+.+ ..|+|...+-++ .||+.+..+ .-+++||.|.|+-.
T Consensus 22 ~~~~~~~~~~~~tvkd~IE----sLGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P~ 76 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVIE----SLGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYPV 76 (81)
T ss_pred CCceEEecCCCCcHHHHHH----HcCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEec
Confidence 3456788889999998875 469998888554 489998876 45669999999754
No 121
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=73.74 E-value=14 Score=20.87 Aligned_cols=47 Identities=21% Similarity=0.244 Sum_probs=34.0
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
...++..+++..|.+.+..... -++++|-++. +++.|.+||.|-+..
T Consensus 9 ~~~~~~~~tl~~lr~~~k~~~D------I~I~NGF~~~-----~d~~L~e~D~v~~Ik 55 (57)
T PF14453_consen 9 EIETEENTTLFELRKESKPDAD------IVILNGFPTK-----EDIELKEGDEVFLIK 55 (57)
T ss_pred EEEcCCCcCHHHHHHhhCCCCC------EEEEcCcccC-----CccccCCCCEEEEEe
Confidence 4677778888888877765333 4788887655 567899999886653
No 122
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.03 E-value=8 Score=27.63 Aligned_cols=74 Identities=4% Similarity=0.002 Sum_probs=60.9
Q ss_pred cEEEEEEec-CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCC--CEEEEEeee
Q 048514 13 FINLVVKGQ-DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDG--DEIVATFYA 86 (89)
Q Consensus 13 ~I~i~v~~~-~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medg--D~Idv~~~q 86 (89)
...++++.. .++.+.........-..+.++...+.|+++-+.|..|.|..|.++.-.+..++|.| =++-+++-|
T Consensus 145 e~~lk~rlTtT~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq 221 (231)
T KOG0013|consen 145 EPILKLRLTTTREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQ 221 (231)
T ss_pred CcchHHHhhhhhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEEecc
Confidence 344555443 67888899988899999999999999999999999999999999999999999999 556555443
No 123
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=71.48 E-value=11 Score=25.46 Aligned_cols=51 Identities=12% Similarity=0.172 Sum_probs=39.5
Q ss_pred cCCCEEEEEEeccchHHHHHHHHHhhhCCC-------CCcEeEEECCeecCCCCCccc
Q 048514 21 QDNDPLYFEFRRDWEIKKLLITYCEKKDAQ-------YGTFPFLINGNRFPHIRTPDQ 71 (89)
Q Consensus 21 ~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~-------~~~~rF~fdG~~l~~~~Tp~~ 71 (89)
.||+.+.+.+.|.++|..+....-...|.. -.....++||+++...-||..
T Consensus 8 vNG~~~~~~~~p~~~Ll~~LRd~l~ltgtk~GC~~g~CGACtVlvDG~~v~SCl~~a~ 65 (156)
T COG2080 8 VNGEPVELDVDPRTPLLDVLRDELGLTGTKKGCGHGQCGACTVLVDGEAVNSCLTLAV 65 (156)
T ss_pred ECCeEEEEEeCCCChHHHHHHHhcCCCCcCCCCCCccCCceEEEECCeEehHHHHHHH
Confidence 489999999999999999887655433332 246789999999998777754
No 124
>PF12143 PPO1_KFDV: Protein of unknown function (DUF_B2219); InterPro: IPR022740 This domain represents the C terminus of polyphenol oxidases. This region is primarily found in eukaryotes, although a few bacterial members also exist. It is typically between 138 and 152 amino acids in length and the family is found in association with PF00264 from PFAM and PF12142 from PFAM. Many members are plant or plastid polyphenol oxidases, and there is a highly conserved KFDV sequence motif. ; GO: 0004097 catechol oxidase activity, 0055114 oxidation-reduction process
Probab=71.29 E-value=3 Score=27.32 Aligned_cols=29 Identities=31% Similarity=0.422 Sum_probs=24.9
Q ss_pred eecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 61 NRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 61 ~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
-++.-++..++||.++.|.|.|.+-+++|
T Consensus 89 ~rlgitdlLedLga~~d~sIvVTLVPr~g 117 (130)
T PF12143_consen 89 LRLGITDLLEDLGAEDDDSIVVTLVPRGG 117 (130)
T ss_pred EEEEhhHHHHHhCCCCCCEEEEEEEEccC
Confidence 35566788899999999999999988876
No 125
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.24 E-value=20 Score=21.69 Aligned_cols=59 Identities=14% Similarity=0.050 Sum_probs=50.6
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCC-cEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYG-TFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~-~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
++.|-.++||-.+.+.-++.+.++.. +--..-||.-|++.+|....-|+.|..+....+
T Consensus 30 v~svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agnvflkhgselr~ipr 89 (94)
T KOG3483|consen 30 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPR 89 (94)
T ss_pred eecCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccceeeccCCEEEeccc
Confidence 67788899999999999999999865 456667899999999999999999998877654
No 126
>PRK01777 hypothetical protein; Validated
Probab=70.81 E-value=22 Score=21.89 Aligned_cols=68 Identities=12% Similarity=-0.018 Sum_probs=46.6
Q ss_pred cEEEEEEec--CC-CEEEEEEeccchHHHHHHHHHh-hh--CCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514 13 FINLVVKGQ--DN-DPLYFEFRRDWEIKKLLITYCE-KK--DAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 13 ~I~i~v~~~--~~-~~~~f~i~~~t~l~kL~~~y~~-~~--g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
.|+|.|... +. ....+.+...++...+..+.-- .. .++.....+..+|+.... +--+++||.|+++.-
T Consensus 3 ~i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~sgi~~~~pei~~~~~~vgI~Gk~v~~-----d~~L~dGDRVeIyrP 76 (95)
T PRK01777 3 KIRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKL-----TDVLRDGDRVEIYRP 76 (95)
T ss_pred eeEEEEEEECCCceEEEEEEcCCCCcHHHHHHHcCCCccCcccccccceEEEeCeECCC-----CCcCCCCCEEEEecC
Confidence 456666542 22 2357888999999998887631 11 344445678889998875 336899999999854
No 127
>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=70.56 E-value=21 Score=21.70 Aligned_cols=57 Identities=19% Similarity=0.193 Sum_probs=38.4
Q ss_pred ccchHHHHHHHHHhhhCCC-----------CCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 32 RDWEIKKLLITYCEKKDAQ-----------YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~-----------~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
...+++.|.+..++++.-. ...+.++.||..+..- --.+.-++|||+|.++..--||
T Consensus 27 ~~~tV~dll~~L~~~~~~~~~~lf~~~g~lr~~i~VlvN~~di~~l-~g~~t~L~dgD~v~i~P~v~GG 94 (94)
T cd01764 27 KPVTVGDLLDYVASNLLEERPDLFIEGGSVRPGIIVLINDTDWELL-GEEDYILEDGDHVVFISTLHGG 94 (94)
T ss_pred CCCcHHHHHHHHHHhCchhhhhhEecCCcccCCEEEEECCcccccc-CCcccCCCCcCEEEEECCCCCC
Confidence 4568888888887766211 1256777888876421 1234458999999999877776
No 128
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=69.83 E-value=6.8 Score=23.31 Aligned_cols=55 Identities=18% Similarity=0.104 Sum_probs=35.9
Q ss_pred eccchHHHHHHHHHhhhCC---CCC--cEeEEECCeecCCCCCccccCCCCCCEEEEEeeecCC
Q 048514 31 RRDWEIKKLLITYCEKKDA---QYG--TFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 31 ~~~t~l~kL~~~y~~~~g~---~~~--~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
.--.+++.|-+.|.++... ... .+.-.-+.+.+.+.+| -|.|||+|-++..-.||
T Consensus 25 ~~~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~~t----~L~dGDeVa~~PPVsGG 84 (84)
T COG1977 25 TVGATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGLDT----PLKDGDEVAFFPPVSGG 84 (84)
T ss_pred cHHHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeeccccc----cCCCCCEEEEeCCCCCC
Confidence 4467888899998877652 222 1122223344444444 48999999999988887
No 129
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=69.62 E-value=23 Score=21.69 Aligned_cols=59 Identities=14% Similarity=-0.001 Sum_probs=42.9
Q ss_pred EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECC-----eecC-CCCCccccCCCCCCEEEEEe
Q 048514 25 PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLING-----NRFP-HIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 25 ~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG-----~~l~-~~~Tp~~l~medgD~Idv~~ 84 (89)
.++-...+++++..+...-++.+.+ ....|++--+ ++|. +..|.++++|.+|-.|-+-.
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~ 79 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEE 79 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE
T ss_pred HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEe
Confidence 5678889999999999999999999 6668887633 3453 56799999999999775543
No 130
>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=68.97 E-value=2.4 Score=25.95 Aligned_cols=19 Identities=32% Similarity=0.510 Sum_probs=16.4
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++++.||+++||.|.|.-
T Consensus 41 p~dA~~lgi~~Gd~V~v~~ 59 (120)
T cd00508 41 PEDAARLGIKDGDLVRVSS 59 (120)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 4689999999999998864
No 131
>PF10623 PilI: Plasmid conjugative transfer protein PilI; InterPro: IPR018897 The thin pilus of plasmid R64 belongs to the type IV family and is required for liquid matings. PilI is one of 14 genes that have been identified as being involved in biogenesis of the R64 thin pilus [].
Probab=67.73 E-value=14 Score=22.39 Aligned_cols=55 Identities=16% Similarity=0.297 Sum_probs=40.0
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCC---CCCcEeEEECCeecC
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDA---QYGTFPFLINGNRFP 64 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~---~~~~~rF~fdG~~l~ 64 (89)
-+..+.|-|.+.++++--|.+++++-+.++...||--.+- -...-||+|.=+|..
T Consensus 5 ~~grl~VLVv~n~c~~kL~~~~~~~D~~~i~r~f~TpdN~lV~V~~~nr~l~r~eR~p 62 (83)
T PF10623_consen 5 HPGRLQVLVVSNHCERKLFDTKPDNDPDKIARRFCTPDNCLVCVLQDNRFLFRWERAP 62 (83)
T ss_pred CCCeEEEEEEeCCcceeEeecCCCCCHHHHHhhccCcCCeEEEEEeCCceEEEEeeCC
Confidence 3568999999988999999999999999999999854432 123335555444444
No 132
>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=67.70 E-value=2.6 Score=25.69 Aligned_cols=20 Identities=20% Similarity=0.468 Sum_probs=17.0
Q ss_pred CCCccccCCCCCCEEEEEee
Q 048514 66 IRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~~ 85 (89)
.++++.||+++||.|.+.-.
T Consensus 41 ~~dA~~lgi~~Gd~V~v~~~ 60 (116)
T cd02790 41 PEDAKRLGIEDGEKVRVSSR 60 (116)
T ss_pred HHHHHHcCCCCCCEEEEEcC
Confidence 47899999999999988643
No 133
>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=67.43 E-value=25 Score=21.34 Aligned_cols=50 Identities=8% Similarity=0.100 Sum_probs=39.1
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-CcEeEEE---CCeecC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-GTFPFLI---NGNRFP 64 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~~l~ 64 (89)
|++|+. .+|..+.+.+.++.++..|.+...+...... ..+...| +|.++.
T Consensus 1 i~~K~~-y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~t 54 (83)
T cd06404 1 VRVKAA-YNGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCT 54 (83)
T ss_pred CeEEEE-ecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCcee
Confidence 456665 5889899999999999999999999998866 4666666 255554
No 134
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=66.71 E-value=34 Score=27.12 Aligned_cols=68 Identities=12% Similarity=0.053 Sum_probs=56.2
Q ss_pred EEEEEecCCCEEEEE-EeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEE
Q 048514 15 NLVVKGQDNDPLYFE-FRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~-i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~ 83 (89)
.+.|+. .|+..... +..+.+-.-+........|++++..++.+.|..+.++--+..|++.+|-+|.+.
T Consensus 5 ~v~VKW-~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMm 73 (473)
T KOG1872|consen 5 TVIVKW-GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMM 73 (473)
T ss_pred eEeeee-cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEee
Confidence 445554 34544444 788888888888888899999999999999999999989999999999998775
No 135
>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=66.54 E-value=34 Score=24.31 Aligned_cols=46 Identities=11% Similarity=0.167 Sum_probs=33.3
Q ss_pred cEEEEEEecC---CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514 13 FINLVVKGQD---NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI 58 (89)
Q Consensus 13 ~I~i~v~~~~---~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f 58 (89)
+|.|++.... ...+.+.+....+...|-++.|++.|+++..+||+=
T Consensus 176 rv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~~ 224 (249)
T PF12436_consen 176 RVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFFT 224 (249)
T ss_dssp EEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE-
T ss_pred eEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEE
Confidence 4666666532 346789999999999999999999999999999984
No 136
>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=66.32 E-value=2.8 Score=25.82 Aligned_cols=19 Identities=21% Similarity=0.342 Sum_probs=16.2
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++++.||+++||.|.|.-
T Consensus 41 p~dA~~lgi~~Gd~V~v~s 59 (122)
T cd02792 41 PELAAERGIKNGDMVWVSS 59 (122)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 5589999999999998753
No 137
>PF01982 CTP-dep_RFKase: Domain of unknown function DUF120; InterPro: IPR023602 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents a CTP-dependent riboflavin kinase domain, found primarily in archaea, that catalyses the phosphorylation of riboflavin to form flavin mononucleotide in riboflavin biosynthesis. Its structure resembles a RIFT barrel, structurally similar to but topologically distinct from bacterial and eukaryotic examples []. The N-terminal is a winged helix-turn-helix DNA-binding domain, and the C-terminal half is most similar in sequence to a group of cradle-loop barrels.; GO: 0016773 phosphotransferase activity, alcohol group as acceptor; PDB: 2VBV_A 2VBU_A 2VBS_A 2VBT_A 2P3M_A 2OYN_A 3CTA_A.
Probab=66.27 E-value=4.2 Score=26.37 Aligned_cols=14 Identities=57% Similarity=0.921 Sum_probs=9.2
Q ss_pred ccCCCCCCEEEEEe
Q 048514 71 QLGLKDGDEIVATF 84 (89)
Q Consensus 71 ~l~medgD~Idv~~ 84 (89)
.|+++|||.|.|.+
T Consensus 108 ~L~L~DGD~V~v~V 121 (121)
T PF01982_consen 108 TLGLKDGDEVEVEV 121 (121)
T ss_dssp HTT--TT-EEEEEE
T ss_pred hcCCCCCCEEEEEC
Confidence 69999999998864
No 138
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=66.10 E-value=31 Score=21.83 Aligned_cols=47 Identities=17% Similarity=0.158 Sum_probs=34.7
Q ss_pred EEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE-CCeecCCCCCcccc
Q 048514 26 LYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI-NGNRFPHIRTPDQL 72 (89)
Q Consensus 26 ~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l 72 (89)
..|.|..+.+++.++....++.+++++.--|+| ++...+.++|..+|
T Consensus 43 ~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~l 90 (112)
T cd01611 43 KKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQL 90 (112)
T ss_pred ceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHH
Confidence 478999999999999999999999776644444 55444456665544
No 139
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=65.71 E-value=6.1 Score=20.63 Aligned_cols=22 Identities=32% Similarity=0.445 Sum_probs=16.8
Q ss_pred CCccccCCCCCCEEEEEeeecC
Q 048514 67 RTPDQLGLKDGDEIVATFYAGG 88 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~~q~G 88 (89)
..+.+|.++.||.|.|.....+
T Consensus 9 ~~~~eLs~~~Gd~i~v~~~~~~ 30 (48)
T PF00018_consen 9 EDPDELSFKKGDIIEVLEKSDD 30 (48)
T ss_dssp SSTTBSEB-TTEEEEEEEESSS
T ss_pred CCCCEEeEECCCEEEEEEecCC
Confidence 3488999999999999876543
No 140
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=65.29 E-value=24 Score=21.88 Aligned_cols=57 Identities=21% Similarity=0.132 Sum_probs=39.8
Q ss_pred cchHHHHHHHHHhhhCCCCCcEeEEECCeecCC---------CCC--ccccCCCCCCEEEEEeeecCC
Q 048514 33 DWEIKKLLITYCEKKDAQYGTFPFLINGNRFPH---------IRT--PDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 33 ~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~---------~~T--p~~l~medgD~Idv~~~q~GG 89 (89)
.+++..+.++-+.....|....-|.-+|+-..+ +.- -+++-++|||+|......-||
T Consensus 29 ~~~vg~liD~~~~~i~~p~~~sifie~g~lrpGiI~LINd~DWeLleke~y~ledgDiIvfistlHGg 96 (96)
T COG5131 29 GSSVGTLIDALRYFIYAPTRDSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFISTLHGG 96 (96)
T ss_pred CcchhhHHHHHHHHHhCCccceeeecCCCCcccEEEEEcCccHhhhhcccccCCCCCEEEEEecccCC
Confidence 467788888877766666666667777765543 222 235889999999988777776
No 141
>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=64.88 E-value=18 Score=21.75 Aligned_cols=36 Identities=8% Similarity=-0.061 Sum_probs=32.4
Q ss_pred CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514 24 DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN 59 (89)
Q Consensus 24 ~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd 59 (89)
-.+.+++.+..++..|-...+++..++.+..+|.|.
T Consensus 7 fTVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~ 42 (78)
T cd06411 7 FTVALRAPRGADVSSLRALLSQALPQQAQRGQLSYR 42 (78)
T ss_pred EEEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEec
Confidence 346788899999999999999999999999999994
No 142
>PRK10850 PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr; Provisional
Probab=64.73 E-value=16 Score=21.88 Aligned_cols=51 Identities=16% Similarity=0.149 Sum_probs=34.9
Q ss_pred EEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCC--CccccCCCCCCEEEEEee
Q 048514 28 FEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIR--TPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 28 f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~--Tp~~l~medgD~Idv~~~ 85 (89)
+..+|...|.++-..| ..++.+.++|+.++... ..-+|+..-||.|.+..+
T Consensus 14 LHARPAa~lv~~a~~~-------~s~v~l~~~~~~~~akSil~lm~Lg~~~G~~v~i~~~ 66 (85)
T PRK10850 14 LHTRPAAQFVKEAKGF-------TSEITVTSNGKSASAKSLFKLQTLGLTQGTVVTISAE 66 (85)
T ss_pred ccHHHHHHHHHHHHhC-------CCEEEEEECCeEEchHhHHHHHhcCCCCCCEEEEEEe
Confidence 3344555555554444 34778889998887655 345899999999988754
No 143
>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=64.72 E-value=3.1 Score=25.47 Aligned_cols=18 Identities=28% Similarity=0.390 Sum_probs=15.4
Q ss_pred CCCccccCCCCCCEEEEE
Q 048514 66 IRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~ 83 (89)
.++++.||++|||.|.|.
T Consensus 37 p~dA~~lgi~~Gd~V~v~ 54 (116)
T cd02786 37 PADAAARGIADGDLVVVF 54 (116)
T ss_pred HHHHHHcCCCCCCEEEEE
Confidence 567889999999999775
No 144
>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=63.60 E-value=3.5 Score=24.93 Aligned_cols=19 Identities=32% Similarity=0.484 Sum_probs=13.9
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
..+++.||++|||.|.|.-
T Consensus 36 p~dA~~~Gi~~Gd~V~v~s 54 (110)
T PF01568_consen 36 PEDAAKLGIKDGDWVRVSS 54 (110)
T ss_dssp HHHHHHCT--TTCEEEEEE
T ss_pred HHHHHHhcCcCCCEEEEEe
Confidence 4578899999999998864
No 145
>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=61.60 E-value=3.9 Score=25.40 Aligned_cols=19 Identities=26% Similarity=0.379 Sum_probs=16.0
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++.+.||++|||.|.+.-
T Consensus 36 p~~A~~~gi~~Gd~V~v~s 54 (121)
T cd02794 36 PLDAAARGIKDGDRVLVFN 54 (121)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 4569999999999998764
No 146
>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=61.52 E-value=3.9 Score=26.97 Aligned_cols=19 Identities=37% Similarity=0.547 Sum_probs=16.7
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++++.+||+|||.|.|.-
T Consensus 38 p~dA~~~GI~dGd~V~v~s 56 (156)
T cd02783 38 PKTAKELGIKDGDWVWVES 56 (156)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 5788999999999998864
No 147
>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=61.18 E-value=4 Score=25.11 Aligned_cols=19 Identities=37% Similarity=0.513 Sum_probs=16.1
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++++.||+++||.|.+.-
T Consensus 41 ~~dA~~lgi~~Gd~V~v~~ 59 (122)
T cd02791 41 PEDAARLGLKEGDLVRVTS 59 (122)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 4589999999999998764
No 148
>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=61.13 E-value=2.7 Score=23.20 Aligned_cols=49 Identities=18% Similarity=-0.006 Sum_probs=25.8
Q ss_pred cchHHHHHHHHHhhhCC--CCCcEeEEECCeecCCCC---CccccCCCCCCEEEE
Q 048514 33 DWEIKKLLITYCEKKDA--QYGTFPFLINGNRFPHIR---TPDQLGLKDGDEIVA 82 (89)
Q Consensus 33 ~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~---Tp~~l~medgD~Idv 82 (89)
.++..+|-...++. ++ +.+.++.++.+..|.-+. |..+.-+..||.|.+
T Consensus 5 ~~~~~rLd~~L~~~-~~~~SR~~~k~li~~G~V~VNg~~~~~~~~~l~~Gd~v~i 58 (59)
T TIGR02988 5 FTEYITLGQLLKEL-GIIDSGGQAKWFLQENEVLVNGELENRRGKKLYPGDVIEI 58 (59)
T ss_pred cchHHHHHHHHHHc-CCccCHHHHHHHHHcCCEEECCEEccCCCCCCCCCCEEEe
Confidence 33555564444444 65 555444444333222222 134678899999875
No 149
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=61.09 E-value=8.1 Score=24.45 Aligned_cols=18 Identities=33% Similarity=0.503 Sum_probs=14.1
Q ss_pred cCCCCCCEEEEEeeecCC
Q 048514 72 LGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 72 l~medgD~Idv~~~q~GG 89 (89)
-|++.||-|++..+|+||
T Consensus 82 sglKeGdkV~fvferv~g 99 (108)
T COG5569 82 SGLKEGDKVEFVFERVNG 99 (108)
T ss_pred hccccCCcEEEEEEeeCC
Confidence 367788888888888876
No 150
>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=61.07 E-value=35 Score=20.72 Aligned_cols=43 Identities=7% Similarity=-0.192 Sum_probs=36.3
Q ss_pred EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514 15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI 58 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f 58 (89)
+.|+. .+|....|.+...-.+..|.++.+.-++++..++-+.|
T Consensus 2 ~fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtY 44 (82)
T cd06397 2 QFKSS-FLGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTY 44 (82)
T ss_pred eEEEE-eCCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEE
Confidence 45664 57777788888899999999999999999988887777
No 151
>PRK14132 riboflavin kinase; Provisional
Probab=60.99 E-value=6.7 Score=25.62 Aligned_cols=15 Identities=40% Similarity=0.561 Sum_probs=12.4
Q ss_pred cccCCCCCCEEEEEe
Q 048514 70 DQLGLKDGDEIVATF 84 (89)
Q Consensus 70 ~~l~medgD~Idv~~ 84 (89)
+.|+++|||.|.+.+
T Consensus 112 ~~L~LkDGD~V~I~i 126 (126)
T PRK14132 112 KFLNLKDGDVVKIVI 126 (126)
T ss_pred hhcCCCCCCEEEEEC
Confidence 379999999998753
No 152
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=60.96 E-value=21 Score=26.31 Aligned_cols=55 Identities=15% Similarity=0.084 Sum_probs=42.1
Q ss_pred EEEeccchHHHHHHHHHh-hhCCC----CCcEeEEECCeecCCCCCccccCCCCCCEEEE
Q 048514 28 FEFRRDWEIKKLLITYCE-KKDAQ----YGTFPFLINGNRFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 28 f~i~~~t~l~kL~~~y~~-~~g~~----~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv 82 (89)
.-++...++..+.++... ..... ..++|+.-.|++|-+++|.++++...|++|-|
T Consensus 17 ~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 17 KDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYV 76 (297)
T ss_pred ecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEE
Confidence 344566778888877754 44443 45677777899999999999999999988866
No 153
>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=60.46 E-value=4.1 Score=24.99 Aligned_cols=20 Identities=30% Similarity=0.315 Sum_probs=16.4
Q ss_pred CCCccccCCCCCCEEEEEee
Q 048514 66 IRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~~ 85 (89)
.++++.||++|||.|.|.-.
T Consensus 37 p~dA~~lgI~dGd~V~v~s~ 56 (112)
T cd02787 37 PDDIARLGLKAGDRVDLESA 56 (112)
T ss_pred HHHHHHhCCCCCCEEEEEec
Confidence 45689999999999987643
No 154
>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=59.88 E-value=4.4 Score=25.04 Aligned_cols=19 Identities=26% Similarity=0.319 Sum_probs=16.2
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++++.||+++||.|.|.-
T Consensus 39 ~~dA~~lgi~~Gd~V~v~s 57 (115)
T cd02779 39 PEDAKREGLKNGDLVEVYN 57 (115)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 4589999999999998764
No 155
>TIGR01003 PTS_HPr_family Phosphotransferase System HPr (HPr) Family. The HPr family are bacterial proteins (or domains of proteins) which function in phosphoryl transfer system (PTS) systems. They include energy-coupling components which catalyze sugar uptake via a group translocation mechanism. The functions of most of these proteins are not known, but they presumably function in PTS-related regulatory capacities. All seed members are stand-alone HPr proteins, although the model also recognizes HPr domains of PTS fusion proteins. This family includes the related NPr protein.
Probab=59.73 E-value=25 Score=20.64 Aligned_cols=34 Identities=18% Similarity=0.188 Sum_probs=25.6
Q ss_pred CcEeEEECCeecCCCC--CccccCCCCCCEEEEEee
Q 048514 52 GTFPFLINGNRFPHIR--TPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 52 ~~~rF~fdG~~l~~~~--Tp~~l~medgD~Idv~~~ 85 (89)
.++.+.++|..++... ..-+|+...||.|.+..+
T Consensus 31 s~I~i~~~~~~~dakSil~ll~Lg~~~G~~i~i~~~ 66 (82)
T TIGR01003 31 SEITLTKNGKEVNAKSIMGIMMLGAGQGTEVTVSAD 66 (82)
T ss_pred CEEEEEECCEEEehHhHHHHHhcCCCCCCEEEEEEe
Confidence 4677888888777544 344889999999998753
No 156
>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=59.40 E-value=4.4 Score=25.28 Aligned_cols=20 Identities=15% Similarity=0.136 Sum_probs=16.7
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 048514 65 HIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 65 ~~~Tp~~l~medgD~Idv~~ 84 (89)
..++.+.||++|||.|.|.-
T Consensus 37 ~p~dA~~~gi~~Gd~V~v~s 56 (124)
T cd02785 37 NPIDAAARGIAHGDLVEVYN 56 (124)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 35788999999999997764
No 157
>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=59.32 E-value=11 Score=25.30 Aligned_cols=36 Identities=11% Similarity=0.080 Sum_probs=32.3
Q ss_pred ccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCC
Q 048514 32 RDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIR 67 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~ 67 (89)
|+.-...|+..|+-+..++.+.....+||++|.+.+
T Consensus 23 Pt~vVe~liskfe~H~kL~~~~~tVti~G~~Lege~ 58 (149)
T PF10787_consen 23 PTSVVEWLISKFELHPKLDEENTTVTIDGKRLEGED 58 (149)
T ss_pred cHHHHHHHHHHheecccccccceEEEECCeecCchH
Confidence 677788999999999999999999999999998765
No 158
>PRK13780 phosphocarrier protein HPr; Provisional
Probab=59.07 E-value=19 Score=21.63 Aligned_cols=50 Identities=14% Similarity=0.117 Sum_probs=34.3
Q ss_pred EEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCC--CccccCCCCCCEEEEEee
Q 048514 29 EFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIR--TPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 29 ~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~--Tp~~l~medgD~Idv~~~ 85 (89)
..+|...|.++-..| ..++.+.++|..++... ..-+|+...||.|.+..+
T Consensus 15 HARPAa~lv~~a~~~-------~s~i~l~~~~~~vdakSil~lm~Lg~~~G~~v~i~a~ 66 (88)
T PRK13780 15 HARPATLLVQTASKF-------DSDITLEYNGKSVNLKSIMGVMSLGVGQGADITISAE 66 (88)
T ss_pred cHHHHHHHHHHHHhC-------CCEEEEEECCEEEechhHHHHHhcCCCCCCEEEEEEe
Confidence 344555555555544 25788888998887654 344889999999998764
No 159
>PF14604 SH3_9: Variant SH3 domain; PDB: 2CRE_A 2E5K_A 2CT3_A 2DE0_X 2D8H_A 2DA9_A 2X3X_E 2X3W_D 2KRN_A 2ED0_A ....
Probab=58.82 E-value=8.9 Score=20.37 Aligned_cols=19 Identities=37% Similarity=0.559 Sum_probs=14.2
Q ss_pred CCccccCCCCCCEEEEEee
Q 048514 67 RTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~~ 85 (89)
..+.+|.+..||+|.|..+
T Consensus 8 ~~~dELs~~~Gd~i~v~~~ 26 (49)
T PF14604_consen 8 QDPDELSFKKGDVITVLEK 26 (49)
T ss_dssp SSTTB-EB-TTEEEEEEEE
T ss_pred CCcCEeeEcCCCEEEEEEe
Confidence 4577999999999999854
No 160
>PRK13782 phosphocarrier protein Chr; Provisional
Probab=58.49 E-value=27 Score=20.47 Aligned_cols=34 Identities=12% Similarity=0.051 Sum_probs=26.1
Q ss_pred CcEeEEECCeecCCCC--CccccCCCCCCEEEEEee
Q 048514 52 GTFPFLINGNRFPHIR--TPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 52 ~~~rF~fdG~~l~~~~--Tp~~l~medgD~Idv~~~ 85 (89)
.++.+.++|+.++... ..-+|+...||.|.+..+
T Consensus 31 ~~i~l~~~~~~vdaKSil~llsLg~~~g~~v~v~~~ 66 (82)
T PRK13782 31 ADIFIEKDGKKVNAKSIMGLMSLAIGTGSMITIITE 66 (82)
T ss_pred CEEEEEECCeEEecHhHHHHHhcCCCCCCEEEEEEe
Confidence 3667788998887654 345899999999998754
No 161
>COG1925 FruB Phosphotransferase system, HPr-related proteins [Carbohydrate transport and metabolism]
Probab=58.25 E-value=33 Score=20.88 Aligned_cols=60 Identities=22% Similarity=0.257 Sum_probs=40.7
Q ss_pred EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCC--ccccCCCCCCEEEEEee
Q 048514 15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRT--PDQLGLKDGDEIVATFY 85 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~T--p~~l~medgD~Idv~~~ 85 (89)
++.|...+| +..+|.+.|-++.+.| .+.+.+.++|+.++...- .-.||..-|+.|.+..+
T Consensus 5 ~~~i~n~~G----LHARPAa~lv~~a~~f-------~s~i~l~~~g~~~~akSim~lm~Lg~~~G~~i~i~a~ 66 (88)
T COG1925 5 TVTIKNKNG----LHARPAAKLVKLASKF-------DSEITLTNNGKEANAKSIMGLMALGAKKGDEIELSAE 66 (88)
T ss_pred EEEEECCCc----cchhhHHHHHHHHhcC-------CceEEEEeCCEEechHhHHHHHHhCcCCCCEEEEEEe
Confidence 344444444 3345666666655555 356789999999997664 45899999999998753
No 162
>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=58.23 E-value=4.8 Score=25.24 Aligned_cols=19 Identities=26% Similarity=0.258 Sum_probs=16.2
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++.+.||++|||.|.|.-
T Consensus 40 p~dA~~lgi~~Gd~V~v~s 58 (127)
T cd02777 40 PLDAAARGIKDGDIVRVFN 58 (127)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 4789999999999997753
No 163
>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=57.61 E-value=5.1 Score=25.01 Aligned_cols=19 Identities=32% Similarity=0.436 Sum_probs=16.1
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++.+.||+++||.|.|.-
T Consensus 39 p~dA~~~gi~~Gd~V~v~s 57 (130)
T cd02781 39 PETAAKLGIADGDWVWVET 57 (130)
T ss_pred HHHHHHcCCCCCCEEEEEC
Confidence 5688999999999998764
No 164
>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=57.27 E-value=5.1 Score=24.71 Aligned_cols=19 Identities=37% Similarity=0.611 Sum_probs=16.1
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
-++++.||+++||.|.|.-
T Consensus 36 p~dA~~~gi~~Gd~V~v~s 54 (123)
T cd02778 36 PETAARLGIKDGDRVEVSS 54 (123)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 5688999999999998754
No 165
>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=57.04 E-value=5.4 Score=24.01 Aligned_cols=19 Identities=32% Similarity=0.494 Sum_probs=15.8
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++.+.||+++||.|.+.-
T Consensus 35 p~dA~~lGi~~Gd~V~v~s 53 (96)
T cd02788 35 PADAARLGLADGDLVEFSL 53 (96)
T ss_pred HHHHHHcCCCCCCEEEEEE
Confidence 5688999999999987753
No 166
>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=56.60 E-value=5.3 Score=26.09 Aligned_cols=19 Identities=37% Similarity=0.476 Sum_probs=16.2
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
-++++.||++|||.+.|.-
T Consensus 44 P~dA~~lGI~dGD~V~V~s 62 (137)
T cd02784 44 PRTAEALGLLQGDVVRIRR 62 (137)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 5688999999999998764
No 167
>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=56.39 E-value=5.4 Score=24.95 Aligned_cols=19 Identities=37% Similarity=0.513 Sum_probs=16.1
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++++.||+++||.|.|.-
T Consensus 39 p~dA~~~gi~~Gd~V~v~s 57 (129)
T cd02782 39 PDDAAALGLADGDKVRVTS 57 (129)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 4588999999999998754
No 168
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=55.80 E-value=10 Score=26.79 Aligned_cols=15 Identities=40% Similarity=0.616 Sum_probs=13.4
Q ss_pred ccCCCCCCEEEEEee
Q 048514 71 QLGLKDGDEIVATFY 85 (89)
Q Consensus 71 ~l~medgD~Idv~~~ 85 (89)
.|+++|||.|.+.+.
T Consensus 202 ~l~l~dgd~v~i~i~ 216 (217)
T PRK14165 202 ELNLKDGDRVEVLVK 216 (217)
T ss_pred hcCCCCCCEEEEEEe
Confidence 699999999998875
No 169
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=55.18 E-value=58 Score=25.15 Aligned_cols=63 Identities=13% Similarity=0.221 Sum_probs=43.6
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE---CCeecC-CCCCccccCCCC
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI---NGNRFP-HIRTPDQLGLKD 76 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~-~~~Tp~~l~med 76 (89)
-.|+|++ .||..+..++..+.++..|....+....-.....-.++ ==++|. +++|.++.||.+
T Consensus 306 TsIQIRL--anG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~N 372 (380)
T KOG2086|consen 306 TSIQIRL--ANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLN 372 (380)
T ss_pred ceEEEEe--cCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchh
Confidence 3556555 68888888888889999999999876655443332333 345555 477888888765
No 170
>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=54.09 E-value=6.4 Score=24.84 Aligned_cols=19 Identities=21% Similarity=0.223 Sum_probs=15.9
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++++.||++|||.|.|.-
T Consensus 39 p~dA~~~gi~~Gd~V~v~s 57 (129)
T cd02793 39 PADAAARGIADGDIVRVFN 57 (129)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 4568899999999998764
No 171
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=53.80 E-value=13 Score=19.93 Aligned_cols=17 Identities=41% Similarity=0.683 Sum_probs=13.6
Q ss_pred CCccccCCCCCCEEEEE
Q 048514 67 RTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~ 83 (89)
.+|..|.++-||+|.|.
T Consensus 11 ~~~~~Ls~~~Gd~i~v~ 27 (55)
T PF07653_consen 11 EDPDELSFKKGDVIEVL 27 (55)
T ss_dssp SSTTB-EB-TTEEEEEE
T ss_pred CCCCceEEecCCEEEEE
Confidence 57888999999999998
No 172
>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=53.73 E-value=6.5 Score=25.58 Aligned_cols=19 Identities=26% Similarity=0.351 Sum_probs=15.9
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++.+.||++|||.|.|.-
T Consensus 37 p~dA~~lgI~dGd~V~v~~ 55 (141)
T cd02776 37 PKDAAELGIKDNDWVEVFN 55 (141)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 4568999999999998764
No 173
>KOG4225 consensus Sorbin and SH3 domain-containing protein [Signal transduction mechanisms]
Probab=53.53 E-value=10 Score=29.87 Aligned_cols=20 Identities=30% Similarity=0.405 Sum_probs=16.6
Q ss_pred CCccccCCCCCCEEEEEeee
Q 048514 67 RTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~~q 86 (89)
+.+++|++.+||+|+|+...
T Consensus 444 qnedeLEl~egDii~VmeKc 463 (489)
T KOG4225|consen 444 QNEDELELREGDIIDVMEKC 463 (489)
T ss_pred CCchhheeccCCEEeeeecc
Confidence 45679999999999998654
No 174
>PRK11433 aldehyde oxidoreductase 2Fe-2S subunit; Provisional
Probab=53.39 E-value=66 Score=22.88 Aligned_cols=55 Identities=16% Similarity=0.141 Sum_probs=38.6
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-------CcEeEEECCeecCCCCCcc
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-------GTFPFLINGNRFPHIRTPD 70 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-------~~~rF~fdG~~l~~~~Tp~ 70 (89)
.|+|. .||..+.+.+.+.++|...........|... .....++||+++....||.
T Consensus 51 ~i~~~---VNG~~~~~~v~~~~tLLd~LR~~l~ltGtK~GC~~G~CGACTVlVdG~~v~SCl~la 112 (217)
T PRK11433 51 PVTLK---VNGKTEQLEVDTRTTLLDALREHLHLTGTKKGCDHGQCGACTVLVNGRRLNACLTLA 112 (217)
T ss_pred eEEEE---ECCEEEEEecCCCCcHHHHHHHhcCCCCCCCCCCCCCcCceEEEECCEEeeeeeeeh
Confidence 35544 4888888899999998887776544444432 3466789999988776664
No 175
>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=53.28 E-value=6.8 Score=24.10 Aligned_cols=19 Identities=26% Similarity=0.316 Sum_probs=15.8
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
.++.+.||+++||.|.+.-
T Consensus 37 p~dA~~lgi~~Gd~V~v~~ 55 (106)
T cd02789 37 PEDYKLLGKPEGDKVKVTS 55 (106)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 4569999999999987653
No 176
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=53.14 E-value=51 Score=20.17 Aligned_cols=55 Identities=13% Similarity=0.101 Sum_probs=36.2
Q ss_pred EEEEEecCCCEEEEEEe--ccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEe
Q 048514 15 NLVVKGQDNDPLYFEFR--RDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~--~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 84 (89)
.|+++.++|..+--.|. ..-.|..+.++..+..- ...-|+=+++=|+||.|-|..
T Consensus 2 VIRIk~p~gg~vDw~V~~~~~L~F~DvL~~I~~vlp---------------~aT~tAFeYEDE~gDRITVRS 58 (91)
T cd06395 2 VIRIKIPNGGAVDWTVQSGPQLLFRDVLDVIGQVLP---------------EATTTAFEYEDEDGDRITVRS 58 (91)
T ss_pred eEEEeCCCCCcccccccCcccccHHHHHHHHHHhcc---------------cccccceeeccccCCeeEecc
Confidence 46666788887766666 45677888888776542 123445566667788888753
No 177
>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=53.11 E-value=44 Score=19.46 Aligned_cols=61 Identities=16% Similarity=0.132 Sum_probs=43.8
Q ss_pred EEEEecC---CCEEEEEEeccchHHHHHHHHHhhhCCCC--CcEeEE--E-CC--eecCCCCCccccCCCC
Q 048514 16 LVVKGQD---NDPLYFEFRRDWEIKKLLITYCEKKDAQY--GTFPFL--I-NG--NRFPHIRTPDQLGLKD 76 (89)
Q Consensus 16 i~v~~~~---~~~~~f~i~~~t~l~kL~~~y~~~~g~~~--~~~rF~--f-dG--~~l~~~~Tp~~l~med 76 (89)
|+|-..+ +....+.|.++++.+.+...-.++++++. +.+.++ . +| ..|.+++-|-.+-+..
T Consensus 5 lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~e~Pl~~~~~~ 75 (90)
T smart00314 5 LRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDDENPLQLQKLW 75 (90)
T ss_pred EEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCCCcceEehhhC
Confidence 4444334 67789999999999999999999999964 455443 2 44 5666777776665544
No 178
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.61 E-value=67 Score=24.69 Aligned_cols=69 Identities=7% Similarity=0.086 Sum_probs=48.2
Q ss_pred EEEEEecCCCEE-EEEEeccchHHHHHHHHHhhhCCCCCcEeEEE---CCeecC-----CCCCccccCCCCCCEEEEE
Q 048514 15 NLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI---NGNRFP-----HIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 15 ~i~v~~~~~~~~-~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~-----~~~Tp~~l~medgD~Idv~ 83 (89)
.+++.....+.. ..-|..+-+.-.+|...-.+.|+.++.+++++ ||+.-. .+.-.-.+.+||||.|-|.
T Consensus 338 rvk~l~~~~~v~~s~~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvq 415 (418)
T KOG2982|consen 338 RVKALNSGPKVIASGLICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQ 415 (418)
T ss_pred eeeeeccCCccccceEEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeee
Confidence 455554222222 45566667788899999999999999999887 565544 3445557889999998764
No 179
>PF00381 PTS-HPr: PTS HPr component phosphorylation site; InterPro: IPR005698 The histidine-containing phosphocarrier protein (HPr) is a central component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS), which transfers metabolic carbohydrates across the cell membrane in many bacterial species [, ]. PTS catalyses the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is as follows: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to Enzyme I (EI) of the PTS, which in turn transfers it to the phosphoryl carrier protein (HPr) [, ]. Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease complex (enzymes EII/EIII). HPr [, ] is a small cytoplasmic protein of 70 to 90 amino acid residues. In some bacteria, HPr is a domain in a larger protein that includes a EIII(Fru) (IIA) domain and in some cases also the EI domain. A conserved histidine in the N-terminal section of HPr serves as an acceptor for the phosphoryl group of EI. In the central part of HPr, there is a conserved serine which (in Gram-positive bacteria only) is phosphorylated by an ATP-dependent protein kinase; a process which probably play a regulatory role in sugar transport. The overall architecture of the HPr domain has been described as an open faced beta-sandwich in which a beta-sheet is packed against three alpha-helices. Regulatory phosphorylation at the conserved Ser residue does not appear to induce large structural changes to the HPr domain, in particular in the region of the active site [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TXE_A 1QR5_A 1RZR_S 2NZU_L 2OEN_L 2NZV_L 1Y51_B 1Y4Y_A 1Y50_A 2HPR_A ....
Probab=52.27 E-value=12 Score=21.98 Aligned_cols=35 Identities=23% Similarity=0.201 Sum_probs=27.8
Q ss_pred CCcEeEEECCeecCCCCCcc--ccCCCCCCEEEEEee
Q 048514 51 YGTFPFLINGNRFPHIRTPD--QLGLKDGDEIVATFY 85 (89)
Q Consensus 51 ~~~~rF~fdG~~l~~~~Tp~--~l~medgD~Idv~~~ 85 (89)
...+.+.++|..++...-.. +|+..-||.|.+..+
T Consensus 30 ~~~i~i~~~~~~vdakSil~l~~L~~~~G~~i~i~~~ 66 (84)
T PF00381_consen 30 DSDITIRKGGKTVDAKSILGLMSLGAKKGDEIEIEAE 66 (84)
T ss_dssp SSEEEEEETTEEEETTSHHHHHHHTBSTTEEEEEEEE
T ss_pred CCEEEEEeCceeEecCCHHHHhhhhcCCCCEEEEEEE
Confidence 66888999998888766444 778999999988764
No 180
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=52.26 E-value=34 Score=23.71 Aligned_cols=55 Identities=11% Similarity=0.131 Sum_probs=42.6
Q ss_pred EEEecc-chHHHHHHHHHhhhCCCCCcEeEEECCeecCC----CCCccccCCCCCCEEEE
Q 048514 28 FEFRRD-WEIKKLLITYCEKKDAQYGTFPFLINGNRFPH----IRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 28 f~i~~~-t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~----~~Tp~~l~medgD~Idv 82 (89)
+.|.++ ..+..|..+|.+.+--.-..+||...|.=+.. +.+.-.+-.+.||.|.|
T Consensus 71 vsv~~~~pk~del~akF~~EH~H~d~EvRy~vaG~GiF~v~~~d~~~~~i~c~~gDLI~v 130 (181)
T COG1791 71 VSVSPSNPKLDELRAKFLQEHLHTDDEVRYFVAGEGIFDVHSPDGKVYQIRCEKGDLISV 130 (181)
T ss_pred EEeCCCCccHHHHHHHHHHHhccCCceEEEEEecceEEEEECCCCcEEEEEEccCCEEec
Confidence 444443 56788899999888777889999999988763 44666888899999865
No 181
>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=51.08 E-value=9.5 Score=22.36 Aligned_cols=19 Identities=32% Similarity=0.452 Sum_probs=15.6
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
..+.+.||+.+||.|.+.-
T Consensus 29 ~~da~~lgl~~Gd~v~v~~ 47 (101)
T cd02775 29 PEDAAALGIKDGDLVRVES 47 (101)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 5578899999999987753
No 182
>PHA02909 hypothetical protein; Provisional
Probab=50.85 E-value=41 Score=19.23 Aligned_cols=29 Identities=21% Similarity=0.394 Sum_probs=23.1
Q ss_pred CCCCCCCCCcEEEEEEecCCCEEEEEEec
Q 048514 4 SPDNIPDQHFINLVVKGQDNDPLYFEFRR 32 (89)
Q Consensus 4 ~~~~~~~~~~I~i~v~~~~~~~~~f~i~~ 32 (89)
|+.+.|+++.+.+.|-.-+|+.+++.=..
T Consensus 3 skkqnpdpnylmlsvdygngkkvyytent 31 (72)
T PHA02909 3 SKKQNPDPNYLMLSVDYGNGKKVYYTENT 31 (72)
T ss_pred ccccCcCCCeEEEEEecCCCeEEEEeccc
Confidence 66788999999999987788888775443
No 183
>PF08620 RPAP1_C: RPAP1-like, C-terminal; InterPro: IPR013929 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the C-terminal region that contains the motif GLHHH. This region is conserved from yeast to humans.
Probab=49.67 E-value=11 Score=22.26 Aligned_cols=12 Identities=25% Similarity=0.495 Sum_probs=10.6
Q ss_pred CcEeEEECCeec
Q 048514 52 GTFPFLINGNRF 63 (89)
Q Consensus 52 ~~~rF~fdG~~l 63 (89)
+++||-|+|..|
T Consensus 1 ~~~RFdf~G~l~ 12 (73)
T PF08620_consen 1 SELRFDFDGNLL 12 (73)
T ss_pred CCccccCCCCEe
Confidence 368999999999
No 184
>cd02780 MopB_CT_Tetrathionate_Arsenate-R This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins.
Probab=49.66 E-value=9.7 Score=24.40 Aligned_cols=19 Identities=26% Similarity=0.468 Sum_probs=16.3
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
..+++.||+++||.|.|.-
T Consensus 36 p~dA~~lgI~~Gd~V~v~s 54 (143)
T cd02780 36 PEDAAKLGIKTGDRVRVVT 54 (143)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 4589999999999998764
No 185
>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=49.44 E-value=18 Score=18.88 Aligned_cols=16 Identities=44% Similarity=0.706 Sum_probs=13.0
Q ss_pred cccCCCCCCEEEEEee
Q 048514 70 DQLGLKDGDEIVATFY 85 (89)
Q Consensus 70 ~~l~medgD~Idv~~~ 85 (89)
+.|+++.||.|++..+
T Consensus 17 ~~l~l~~Gd~v~i~~~ 32 (47)
T PF04014_consen 17 EKLGLKPGDEVEIEVE 32 (47)
T ss_dssp HHTTSSTTTEEEEEEE
T ss_pred HHcCCCCCCEEEEEEe
Confidence 4678999999988765
No 186
>COG0179 MhpD 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=48.92 E-value=78 Score=23.04 Aligned_cols=47 Identities=21% Similarity=0.219 Sum_probs=34.6
Q ss_pred cchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCcccc-CCCCCCEEEEEeeecC
Q 048514 33 DWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQL-GLKDGDEIVATFYAGG 88 (89)
Q Consensus 33 ~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l-~medgD~Idv~~~q~G 88 (89)
.-++..|....++-+.+.+..+-+ +-||.-. -|++||+|++-++..|
T Consensus 209 i~~i~~lI~~lS~~~tL~pGDvI~---------TGTP~Gvg~l~~GD~v~~~iegiG 256 (266)
T COG0179 209 IFSIPELIAYLSRFMTLEPGDVIL---------TGTPSGVGFLKPGDVVEVEIEGIG 256 (266)
T ss_pred ccCHHHHHHHHhCCcccCCCCEEE---------eCCCCCcccCCCCCEEEEEeccee
Confidence 346677888878777777766554 4566654 5899999999988776
No 187
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=48.13 E-value=1e+02 Score=22.14 Aligned_cols=71 Identities=10% Similarity=0.063 Sum_probs=50.3
Q ss_pred EEEEEEecCCC-EEEEEEeccchHHHHHHHHHhhhCCCCCcEeEE-ECC--e---ecC-CCCCccccCCCCCCEEEEEe
Q 048514 14 INLVVKGQDND-PLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFL-ING--N---RFP-HIRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 14 I~i~v~~~~~~-~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~-fdG--~---~l~-~~~Tp~~l~medgD~Idv~~ 84 (89)
+++.|.+.... ...-+..++.++..+++......|.+.+++++- |+| + .++ ++.....|.-+||-.|+|+-
T Consensus 2 v~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~l~l~~~~d~~~~~lsn~d~~lg~~~~~Dg~rihviD 80 (234)
T KOG3206|consen 2 VRVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESMELELYDGDDKKVSALSNEDADLGFYKVEDGLRIHVID 80 (234)
T ss_pred eEEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceEEEEEcCCCceeeeccCCcccccccCCCCceEEEEEe
Confidence 45555543222 234566788999999999999999999999764 555 2 233 45566788899999998863
No 188
>PRK11377 dihydroxyacetone kinase subunit M; Provisional
Probab=48.01 E-value=48 Score=26.08 Aligned_cols=62 Identities=15% Similarity=0.146 Sum_probs=42.6
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCC--ccccCCCCCCEEEEEee
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRT--PDQLGLKDGDEIVATFY 85 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~T--p~~l~medgD~Idv~~~ 85 (89)
..++.|....| +..+|...|-++...| ...+++.++|+.++...- .-.|+...||.|.+..+
T Consensus 157 ~~~~~v~n~~G----LHARPAa~lv~~a~~f-------~s~I~i~~~g~~vdakSi~~lm~Lg~~~Gd~v~i~a~ 220 (473)
T PRK11377 157 SLSVVIKNRNG----LHVRPASRLVYTLSTF-------NADMLLEKNGKCVTPESLNQIALLQVRYNDTLRLIAK 220 (473)
T ss_pred EEEEEEcCCCC----CcHhHHHHHHHHHhhC-------CCeEEEEECCeEEchHhHHHHHhcCCCCCCEEEEEEe
Confidence 44555554444 4455666666665555 357788899998887653 46899999999998754
No 189
>PF07377 DUF1493: Protein of unknown function (DUF1493); InterPro: IPR010862 This family consists of several bacterial proteins of around 115 residues in length. Members of this family are largely found in Salmonella and Yersinia species and several have been described as being putative cytoplasmic proteins. The function of this family is unknown.
Probab=47.84 E-value=13 Score=23.19 Aligned_cols=25 Identities=16% Similarity=0.380 Sum_probs=21.6
Q ss_pred chHHHHHHHHHhhhCCCCCcEeE--EE
Q 048514 34 WEIKKLLITYCEKKDAQYGTFPF--LI 58 (89)
Q Consensus 34 t~l~kL~~~y~~~~g~~~~~~rF--~f 58 (89)
.-...+|++|+++++++.+.+.| +|
T Consensus 42 dda~elm~~f~~~F~Vd~~~f~~~~YF 68 (111)
T PF07377_consen 42 DDAEELMEDFFERFNVDLSDFDFDRYF 68 (111)
T ss_pred HHHHHHHHHHHHHhCCCcCccCHHHcc
Confidence 45677999999999999999877 77
No 190
>smart00326 SH3 Src homology 3 domains. Src homology 3 (SH3) domains bind to target proteins through sequences containing proline and hydrophobic amino acids. Pro-containing polypeptides may bind to SH3 domains in 2 different binding orientations.
Probab=45.60 E-value=34 Score=17.23 Aligned_cols=20 Identities=35% Similarity=0.536 Sum_probs=16.6
Q ss_pred CCccccCCCCCCEEEEEeee
Q 048514 67 RTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~~q 86 (89)
..+.+|.+..||.|.+.-..
T Consensus 14 ~~~~~l~~~~Gd~v~v~~~~ 33 (58)
T smart00326 14 QDPDELSFKKGDIITVLEKS 33 (58)
T ss_pred CCCCCCCCCCCCEEEEEEcC
Confidence 56788999999999988663
No 191
>PRK10897 phosphohistidinoprotein-hexose phosphotransferase component of N-regulated PTS system (Npr); Provisional
Probab=45.58 E-value=42 Score=20.26 Aligned_cols=51 Identities=12% Similarity=0.060 Sum_probs=34.0
Q ss_pred EEEeccchHHHHHHHHHhhhCCCCCcEeEEEC-CeecCCCC--CccccCCCCCCEEEEEee
Q 048514 28 FEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN-GNRFPHIR--TPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 28 f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd-G~~l~~~~--Tp~~l~medgD~Idv~~~ 85 (89)
+..+|...|.++-..| ..++.|.++ |+.++... ..-+|+..-||.|.+..+
T Consensus 15 LHARPAa~lv~~a~~f-------~s~v~l~~~~g~~~~akSil~lm~Lg~~~G~~i~v~~~ 68 (90)
T PRK10897 15 MHARPAMKLFELVQGF-------DAEVLLRNDEGTEAEANSVIALLMLDSAKGRQIEVEAT 68 (90)
T ss_pred ccHHHHHHHHHHHhhC-------CCEEEEEeCCCcEEchHhHHHHHHhCCCCCCEEEEEEE
Confidence 3344555555554444 357888885 88777654 445899999999988754
No 192
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=45.16 E-value=35 Score=23.68 Aligned_cols=36 Identities=11% Similarity=0.198 Sum_probs=25.6
Q ss_pred CCEEEEEEeccchHHHHHHHHHhhhCCC---CCcEeEEE
Q 048514 23 NDPLYFEFRRDWEIKKLLITYCEKKDAQ---YGTFPFLI 58 (89)
Q Consensus 23 ~~~~~f~i~~~t~l~kL~~~y~~~~g~~---~~~~rF~f 58 (89)
|-+..|.|++..+|..+.+...++.|++ .+.++|.+
T Consensus 132 GiPF~f~v~~gE~f~~tK~Rl~~rlgv~~keF~K~Kfai 170 (213)
T PF14533_consen 132 GIPFLFVVKPGETFSDTKERLQKRLGVSDKEFEKWKFAI 170 (213)
T ss_dssp EEEEEEEEETT--HHHHHHHHHHHH---HHHHTT-EEEE
T ss_pred CCCEEEEeeCCCcHHHHHHHHHHHhCCChhhheeEEEEE
Confidence 4567899999999999999999999996 46677776
No 193
>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number. It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....
Probab=45.10 E-value=20 Score=17.67 Aligned_cols=26 Identities=12% Similarity=0.014 Sum_probs=19.9
Q ss_pred EEEeccchHHHHHHHHHhhhCCCCCc
Q 048514 28 FEFRRDWEIKKLLITYCEKKDAQYGT 53 (89)
Q Consensus 28 f~i~~~t~l~kL~~~y~~~~g~~~~~ 53 (89)
+.|+-+..+.+.++.+|++.|.+.+.
T Consensus 2 iti~l~~~~~~~l~~~a~~~g~s~s~ 27 (39)
T PF01402_consen 2 ITIRLPDELYERLDELAKELGRSRSE 27 (39)
T ss_dssp EEEEEEHHHHHHHHHHHHHHTSSHHH
T ss_pred eEEEeCHHHHHHHHHHHHHHCcCHHH
Confidence 34555678888999999999987653
No 194
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=45.00 E-value=43 Score=28.61 Aligned_cols=36 Identities=14% Similarity=0.042 Sum_probs=31.8
Q ss_pred EEEEEeccchHHHHHHHHHhhhCCCCCc-EeEEECCe
Q 048514 26 LYFEFRRDWEIKKLLITYCEKKDAQYGT-FPFLINGN 61 (89)
Q Consensus 26 ~~f~i~~~t~l~kL~~~y~~~~g~~~~~-~rF~fdG~ 61 (89)
..|+||++++++.|+...+++.+.+.+. +|++.--.
T Consensus 586 ~qf~iKr~akisdl~~~iae~ln~pqs~~~r~w~m~k 622 (1089)
T COG5077 586 AQFVIKRGAKISDLRNNIAEHLNTPQSLYLREWTMIK 622 (1089)
T ss_pred eeEEeecCCCHHHHHHHHHHHcCCCceeeeEEEEEEe
Confidence 4799999999999999999999999888 78887433
No 195
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=44.19 E-value=65 Score=20.37 Aligned_cols=58 Identities=7% Similarity=0.027 Sum_probs=40.7
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE-CC-eecCCCCCcccc
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI-NG-NRFPHIRTPDQL 72 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG-~~l~~~~Tp~~l 72 (89)
+.|.|+ .....++...+++.+.-.|+...+.-..-|++..|++- |- +-|.+..|..+.
T Consensus 3 ~f~~Vr-R~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~ 62 (110)
T KOG4495|consen 3 VFLRVR-RHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDC 62 (110)
T ss_pred eeeeee-ecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhc
Confidence 345565 35667788889999999999999888888999988887 32 333344444333
No 196
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=44.10 E-value=1.1e+02 Score=21.41 Aligned_cols=54 Identities=9% Similarity=0.044 Sum_probs=34.6
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCC--c---EeEEECCee----------cCCCCCccccCCCCCCEEEEE
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYG--T---FPFLINGNR----------FPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~--~---~rF~fdG~~----------l~~~~Tp~~l~medgD~Idv~ 83 (89)
.|.+... ..|.++.+..=|+... . ++..-+|+. +....+..++-|++||+|.|-
T Consensus 92 ~~~l~~~---~tl~~ai~~AGG~~~~~~~~~~i~~~~~g~~~~~~idl~~l~~~g~~~~ni~L~~GD~I~V~ 160 (239)
T TIGR03028 92 RYPLETA---GRVSDVLALAGGVTPDGADVITLVREREGKIFRKQIDFPALFNPGGDNENILVAGGDIIYVD 160 (239)
T ss_pred eEEcCCC---CcHHHHHHHcCCCCccCCCeEEEEEecCCeEEEEEEEHHHHHhcCCCcCCcEEcCCCEEEEc
Confidence 4556555 5677788877777542 2 233346665 224456778999999999763
No 197
>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=43.61 E-value=23 Score=20.52 Aligned_cols=17 Identities=35% Similarity=0.540 Sum_probs=13.4
Q ss_pred ccccCCCCCCEEEEEee
Q 048514 69 PDQLGLKDGDEIVATFY 85 (89)
Q Consensus 69 p~~l~medgD~Idv~~~ 85 (89)
.+.||+..||.|++..+
T Consensus 19 ~~~lgl~~Gd~v~v~~~ 35 (74)
T TIGR02609 19 LESLGLKEGDTLYVDEE 35 (74)
T ss_pred HHHcCcCCCCEEEEEEE
Confidence 45699999999987544
No 198
>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=43.15 E-value=16 Score=22.24 Aligned_cols=15 Identities=33% Similarity=0.445 Sum_probs=9.3
Q ss_pred cccCCCCCCEEEEEe
Q 048514 70 DQLGLKDGDEIVATF 84 (89)
Q Consensus 70 ~~l~medgD~Idv~~ 84 (89)
+++=|+|||+|.+..
T Consensus 69 K~YivqDGDIi~f~f 83 (84)
T PF06071_consen 69 KDYIVQDGDIIHFRF 83 (84)
T ss_dssp TT-B--TTEEEEEEE
T ss_pred CceeEeCCCEEEEEc
Confidence 467899999998753
No 199
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=43.08 E-value=1.3e+02 Score=22.62 Aligned_cols=48 Identities=10% Similarity=0.010 Sum_probs=37.0
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI 58 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f 58 (89)
..+.+..+.+-..|.. +=+|..-+.++.|+...|+.+.++...+-|.-
T Consensus 50 ~~p~LvF~~QLAHGSp-tg~Ie~fsnv~ELY~kIAe~F~Is~~dIlfcT 97 (334)
T KOG3938|consen 50 VRPRLVFHCQLAHGSP-TGRIEGFSNVRELYQKIAEAFDISPDDILFCT 97 (334)
T ss_pred CCCceeEeeeeccCCc-cceecccccHHHHHHHHHHHhcCCccceEEEe
Confidence 3345666666556776 45678889999999999999999998887753
No 200
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=43.05 E-value=45 Score=25.48 Aligned_cols=66 Identities=12% Similarity=0.105 Sum_probs=47.1
Q ss_pred EE-EEEEecCCCEEEEEEeccchHHHHHHHHH-hhhCCCCCcEeEEECC---eec--CCCCCccccCCCCCCE
Q 048514 14 IN-LVVKGQDNDPLYFEFRRDWEIKKLLITYC-EKKDAQYGTFPFLING---NRF--PHIRTPDQLGLKDGDE 79 (89)
Q Consensus 14 I~-i~v~~~~~~~~~f~i~~~t~l~kL~~~y~-~~~g~~~~~~rF~fdG---~~l--~~~~Tp~~l~medgD~ 79 (89)
++ |.|+-.||+....+.-++.|.+.|+..|. .+.|.+-..+.+.+.= +.+ ..+.|.+++||.+--.
T Consensus 277 vt~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 277 VTSIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred eeEEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 44 77888889876555578899999998776 4556676777776653 222 3578999999887543
No 201
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=42.77 E-value=92 Score=20.16 Aligned_cols=47 Identities=15% Similarity=0.133 Sum_probs=34.3
Q ss_pred EEEE-EEeccchHHHHHHHHHhhhCCCCCcEeEEE-CCeecCCCCCcccc
Q 048514 25 PLYF-EFRRDWEIKKLLITYCEKKDAQYGTFPFLI-NGNRFPHIRTPDQL 72 (89)
Q Consensus 25 ~~~f-~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l 72 (89)
...| -|-.+.++..++.....+.+++++++ |+| ++.....+.|..++
T Consensus 41 K~KfllVP~d~tV~qF~~iIRkrl~l~~~k~-flfVnn~lp~~s~~mg~l 89 (121)
T PTZ00380 41 KVHFLALPRDATVAELEAAVRQALGTSAKKV-TLAIEGSTPAVTATVGDI 89 (121)
T ss_pred ceEEEEcCCCCcHHHHHHHHHHHcCCChhHE-EEEECCccCCccchHHHH
Confidence 3456 79999999999999999999999885 555 55444444454443
No 202
>KOG3309 consensus Ferredoxin [Energy production and conversion]
Probab=42.63 E-value=78 Score=21.51 Aligned_cols=32 Identities=6% Similarity=-0.019 Sum_probs=26.2
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHHH
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLI 41 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~ 41 (89)
+...|+|..++.+|.++.++.+-.+.+-.+--
T Consensus 40 ~~e~i~Itfv~~dG~~~~i~g~vGdtlLd~ah 71 (159)
T KOG3309|consen 40 KVEDIKITFVDPDGEEIKIKGKVGDTLLDAAH 71 (159)
T ss_pred CCceEEEEEECCCCCEEEeeeecchHHHHHHH
Confidence 44559999999999999999998888766543
No 203
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=42.27 E-value=22 Score=23.77 Aligned_cols=24 Identities=17% Similarity=0.123 Sum_probs=21.1
Q ss_pred ecCCCCCccccCCCCCCEEEEEee
Q 048514 62 RFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 62 ~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
-+.++.|..+.+.+=||-|||.+.
T Consensus 113 g~ddnktL~~~kf~iGD~lDVaI~ 136 (151)
T KOG3391|consen 113 GIDDNKTLQQTKFEIGDYLDVAIT 136 (151)
T ss_pred cCCccchhhhCCccccceEEEEec
Confidence 356899999999999999999875
No 204
>PRK09908 xanthine dehydrogenase subunit XdhC; Provisional
Probab=42.27 E-value=86 Score=21.20 Aligned_cols=53 Identities=13% Similarity=0.170 Sum_probs=37.1
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-------CcEeEEECCeecCCCCCcc
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-------GTFPFLINGNRFPHIRTPD 70 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-------~~~rF~fdG~~l~~~~Tp~ 70 (89)
|+++| ||..+.+.+.+.++|..+.+.. ...|... .....++||+.+..--+|.
T Consensus 9 i~~~v---NG~~~~~~~~~~~~Ll~~LR~~-gltgtK~GC~~G~CGACtVlvdg~~v~SCl~~a 68 (159)
T PRK09908 9 IECTI---NGMPFQLHAAPGTPLSELLREQ-GLLSVKQGCCVGECGACTVLVDGTAIDSCLYLA 68 (159)
T ss_pred EEEEE---CCEEEEEecCCCCcHHHHHHHc-CCCCCCCCcCCCCCCCcEEEECCcEeehhHhhH
Confidence 55444 8888889999999999888753 4334432 3466788999888655443
No 205
>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=41.61 E-value=45 Score=19.00 Aligned_cols=57 Identities=21% Similarity=0.156 Sum_probs=39.1
Q ss_pred CEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCcc-cc-CCCCCCEEEEEeeecC
Q 048514 24 DPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPD-QL-GLKDGDEIVATFYAGG 88 (89)
Q Consensus 24 ~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~-~l-~medgD~Idv~~~q~G 88 (89)
......|.+.+|. .+.|+....+-..+||.++....... -+ ....|+.+.+.+..-|
T Consensus 15 g~~V~~V~~~spA--------~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v~R~g 73 (82)
T PF13180_consen 15 GVVVVSVIPGSPA--------AKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTVLRDG 73 (82)
T ss_dssp SEEEEEESTTSHH--------HHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEEEETT
T ss_pred eEEEEEeCCCCcH--------HHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEEEECC
Confidence 4445667777774 46789999999999999995433322 22 6778888888776543
No 206
>PRK05388 argJ bifunctional ornithine acetyltransferase/N-acetylglutamate synthase protein; Validated
Probab=41.08 E-value=60 Score=25.12 Aligned_cols=42 Identities=19% Similarity=0.202 Sum_probs=32.1
Q ss_pred CCCCCcEeEEECCeecCCCCCccccC--------CCCCCEEEEEeeecCC
Q 048514 48 DAQYGTFPFLINGNRFPHIRTPDQLG--------LKDGDEIVATFYAGGA 89 (89)
Q Consensus 48 g~~~~~~rF~fdG~~l~~~~Tp~~l~--------medgD~Idv~~~q~GG 89 (89)
.++++.+.++|+|..|..+-.|...+ |+.++.|++.+.+-.|
T Consensus 322 ~~d~~~v~i~~~~v~v~~~G~~~~~~~e~~~~~~m~~~~ei~I~vdL~~G 371 (395)
T PRK05388 322 DFDPDRLDIYLGGVLVAKNGGPAPFYREEDASAYMKQEDEITIRVDLGLG 371 (395)
T ss_pred ccchhheEEEECCEEEEeCCCCCCCCcHHHHHHHhCCCCEEEEEEEeCCC
Confidence 35678899999999998888887665 6657788888776543
No 207
>PF06134 RhaA: L-rhamnose isomerase (RhaA); InterPro: IPR009308 This family consists of several bacterial L-rhamnose isomerase proteins (5.3.1.14 from EC). This enzyme interconverts L-rhamnose and L-rhamnulose. In some species, including Escherichia coli, this is the first step in rhamnose catabolism. Sequential steps are catalyzed by rhamnulose kinase (rhaB), then rhamnulose-1-phosphate aldolase (rhaD) to yield glycerone phosphate and (S)-lactaldehyde. ; GO: 0008740 L-rhamnose isomerase activity, 0030145 manganese ion binding, 0019299 rhamnose metabolic process; PDB: 1DE5_A 1D8W_D 1DE6_B 3P14_B 3UU0_B.
Probab=40.59 E-value=26 Score=27.27 Aligned_cols=21 Identities=19% Similarity=0.458 Sum_probs=17.9
Q ss_pred ccchHHHHHHHHHhhhCCCCC
Q 048514 32 RDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~ 52 (89)
++.|+..+.+.||.+.|+|..
T Consensus 379 K~~P~gaVwd~yC~~~~vP~~ 399 (417)
T PF06134_consen 379 KSLPFGAVWDYYCERNGVPVG 399 (417)
T ss_dssp CCSSHHHHHHHHHHHTTS-ST
T ss_pred hcCCHHHHHHHHHHHcCCCCc
Confidence 578999999999999999864
No 208
>PF08722 Tn7_Tnp_TnsA_N: TnsA endonuclease N terminal; InterPro: IPR014833 The Tn7 transposase is composed of proteins TnsA and TnsB. DNA breakage at the 5'-end of the transposon is carried out by TnsA, and breakage and joining at the 3'-end is carried out by TnsB. The N-terminal domain of TnsA is catalytic. ; PDB: 1F1Z_B 1T0F_B.
Probab=39.86 E-value=58 Score=19.02 Aligned_cols=36 Identities=22% Similarity=0.435 Sum_probs=22.0
Q ss_pred EEEEecCC---CEEEEEEeccchHHH--------HHHHHHhhhCCCC
Q 048514 16 LVVKGQDN---DPLYFEFRRDWEIKK--------LLITYCEKKDAQY 51 (89)
Q Consensus 16 i~v~~~~~---~~~~f~i~~~t~l~k--------L~~~y~~~~g~~~ 51 (89)
+-|...+| ....+.||+...+.+ +...||++.|++.
T Consensus 37 Flv~~~~g~~~~~~~ieVK~~~~l~~~~~~~k~~~~~~y~~~~g~~f 83 (88)
T PF08722_consen 37 FLVTYRDGNGKKPVAIEVKPSSELEKPRTKEKLEIEREYWEEQGIPF 83 (88)
T ss_dssp EEEEESSS--SSEEEEEE--GGGGGSHHHHHHHHHHHHHHHHCT--E
T ss_pred EEEEEccCCcceEEEEEEccHHHhcChhHHHHHHHHHHHHHHcCCeE
Confidence 34444566 788999999877765 4567778877653
No 209
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=38.96 E-value=32 Score=22.01 Aligned_cols=76 Identities=14% Similarity=0.234 Sum_probs=47.0
Q ss_pred CCcEEEEEEecC-CCEEEEEEeccchHHHHHHHHHhhhC--CCCCcEeEEECCeecCCCCCccccCCC-CCCEEEEEeee
Q 048514 11 QHFINLVVKGQD-NDPLYFEFRRDWEIKKLLITYCEKKD--AQYGTFPFLINGNRFPHIRTPDQLGLK-DGDEIVATFYA 86 (89)
Q Consensus 11 ~~~I~i~v~~~~-~~~~~f~i~~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv~~~q 86 (89)
..-|...|++.. ++.+-+.--....|.+ ....... .+.+.-+++..|+.=...+...++... |+|.+-+.++|
T Consensus 16 ~gLvpaIvQd~~t~eVLMlaymN~eAl~k---TleTg~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q 92 (111)
T COG0139 16 DGLVPAIVQDAETGEVLMLAYMNEEALAK---TLETGEAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQ 92 (111)
T ss_pred CCeEEEEEEecCCCcEEEEEecCHHHHHH---HHhcCeEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEe
Confidence 456777777754 4433222222222222 2111111 156677889999887777777777765 89999999999
Q ss_pred cCC
Q 048514 87 GGA 89 (89)
Q Consensus 87 ~GG 89 (89)
+||
T Consensus 93 ~gg 95 (111)
T COG0139 93 IGG 95 (111)
T ss_pred CCC
Confidence 885
No 210
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=38.70 E-value=39 Score=21.16 Aligned_cols=55 Identities=25% Similarity=0.255 Sum_probs=33.4
Q ss_pred chHHHHHHHHHhhhCCCCCcEeEEECCeecCCC-----C------CccccCCCCCCEEEEEeeecCC
Q 048514 34 WEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI-----R------TPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 34 t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-----~------Tp~~l~medgD~Idv~~~q~GG 89 (89)
+++..|.+....++=-.+++ -|..+|.-..+- + --+++.++|||.|-.....-||
T Consensus 36 ~tvgdll~yi~~~~ie~r~~-lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiSTlHGg 101 (101)
T KOG4146|consen 36 ATVGDLLDYIFGKYIETRDS-LFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFISTLHGG 101 (101)
T ss_pred ccHHHHHHHHHHHHhcCCcc-eEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEeccCC
Confidence 55666666555544333334 466666543321 1 2357889999999888777776
No 211
>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=38.45 E-value=99 Score=19.28 Aligned_cols=46 Identities=11% Similarity=0.124 Sum_probs=33.5
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCCc-EeEEECCeecCCCCCcccc
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYGT-FPFLINGNRFPHIRTPDQL 72 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~-~rF~fdG~~l~~~~Tp~~l 72 (89)
.|-|..+.++..++.....+..++.++ +-|+.++.-++.+.|..++
T Consensus 36 KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~el 82 (104)
T PF02991_consen 36 KFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGEL 82 (104)
T ss_dssp EEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHH
T ss_pred EEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHH
Confidence 688999999999999999999997655 5566677555556665543
No 212
>PF09627 PrgU: PrgU-like protein; InterPro: IPR018589 This hypothetical protein of 125 residues is expressed in bacteria but is thought to be plasmid in origin. It forms a six beta-strand barrel with three accompanying alpha helices and is probably a homo-dimer in the cell. It may be involved in pheromone-inducible conjugation []. ; PDB: 2GMQ_B.
Probab=38.34 E-value=49 Score=21.00 Aligned_cols=71 Identities=8% Similarity=0.112 Sum_probs=41.7
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCC-CCCcEeEEECCeecCCCCCcc--ccCCCCCCEEEE
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDA-QYGTFPFLINGNRFPHIRTPD--QLGLKDGDEIVA 82 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~-~~~~~rF~fdG~~l~~~~Tp~--~l~medgD~Idv 82 (89)
..+++..++..|+-+.++++.+..|.-+.+.----.++ ....+.++=+|+.|.-.--|+ -++-+....|+|
T Consensus 9 K~~~~~W~G~~GrL~~ir~K~~r~~Em~~N~QiT~ENI~EI~~i~iiKNGKsL~L~V~~ErS~~~~~~~~~~~V 82 (122)
T PF09627_consen 9 KDVNTQWQGFRGRLVMIRVKNTRTMEMWYNNQITPENIQEIDTIHIIKNGKSLTLKVYPERSIFVFPQNSRFNV 82 (122)
T ss_dssp GGEEEEEGGGTSBEEEEEE-HHHHHHHHHHTSS-TTTGGG--EEEEEETTEEEEEEB-GGG-EEE------S-E
T ss_pred ceeeeEEecCcceEEEEEeeCCeeeeehhhCCCChHHceeeeeeeeecCCcEEEEEEccccceeecCcCceEee
Confidence 35778888888999999999988888776654444444 356788999999887544333 234444444433
No 213
>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=38.13 E-value=34 Score=22.00 Aligned_cols=61 Identities=16% Similarity=0.140 Sum_probs=35.1
Q ss_pred CEEEEEEeccchHHHHHHHHHhh----hCC-CCCcEeEEE-C----------------Cee-cCCCCCccccCCCCCCEE
Q 048514 24 DPLYFEFRRDWEIKKLLITYCEK----KDA-QYGTFPFLI-N----------------GNR-FPHIRTPDQLGLKDGDEI 80 (89)
Q Consensus 24 ~~~~f~i~~~t~l~kL~~~y~~~----~g~-~~~~~rF~f-d----------------G~~-l~~~~Tp~~l~medgD~I 80 (89)
.++.+-.=++.+|+.|-....+. ... ..=++++.| | |.+ -.++.|.++++..-||.|
T Consensus 37 ~elqIYtW~d~TLrEL~~Lik~~~~~~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGDyi 116 (120)
T PF06487_consen 37 NELQIYTWMDATLRELADLIKDVNPPARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGDYI 116 (120)
T ss_dssp TEEEEEE-TT-BHHHHHHHHHHH-HHHHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-EE
T ss_pred CeeEEEEcccCCHHHHHHHHHHhCcccCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCCEE
Confidence 56777777889998876555541 111 112445555 2 222 246889999999999999
Q ss_pred EEEe
Q 048514 81 VATF 84 (89)
Q Consensus 81 dv~~ 84 (89)
+|.+
T Consensus 117 dvaI 120 (120)
T PF06487_consen 117 DVAI 120 (120)
T ss_dssp EEEE
T ss_pred EEeC
Confidence 9864
No 214
>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=37.76 E-value=90 Score=18.61 Aligned_cols=50 Identities=14% Similarity=0.253 Sum_probs=34.7
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEE--CCeecCCCC
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLI--NGNRFPHIR 67 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~~~ 67 (89)
.+|.+.+.. ..+-|-. ..|..|..+=|++.+++...+++.. ||..|.+++
T Consensus 5 ~kv~~~~r~-~k~Gv~A-~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddEe 56 (78)
T PF02017_consen 5 FKVRNHDRS-VKKGVAA-SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDEE 56 (78)
T ss_dssp EEEEETTSS-CEEEEEE-SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSCH
T ss_pred EEEecCCCC-ceEeEEc-CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccHH
Confidence 455554433 3444443 7899999999999999976666665 799888553
No 215
>PF04194 PDCD2_C: Programmed cell death protein 2, C-terminal putative domain ; InterPro: IPR007320 PDCD2 is localized predominantly in the cytosol of cells situated at the opposite pole of the germinal centre from the centroblasts as well as in cells in the mantle zone. It has been shown to interact with BCL6, an evolutionarily conserved Kruppel-type zinc finger protein that functions as a strong transcriptional repressor and is required for germinal centre development. The rat homologue, Rp8, is associated with programmed cell death in thymocytes.; GO: 0005737 cytoplasm
Probab=37.02 E-value=40 Score=22.46 Aligned_cols=40 Identities=13% Similarity=0.179 Sum_probs=30.3
Q ss_pred ccchHHHHHHHHHhhhCCCCCc-EeEEECCeecCCCCCccc
Q 048514 32 RDWEIKKLLITYCEKKDAQYGT-FPFLINGNRFPHIRTPDQ 71 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~-~rF~fdG~~l~~~~Tp~~ 71 (89)
......+.|.+|.++....+++ +|.-++|.+|-...++..
T Consensus 52 ~~~~~D~~f~~F~~rl~~~P~QvlRY~~gG~PLw~s~~~~~ 92 (164)
T PF04194_consen 52 EEDEVDKAFLKFQKRLSRNPEQVLRYCRGGKPLWISSTPIP 92 (164)
T ss_pred cccccCHHHHHHHHHHhcCCCeEEEECCCCeEEEecCCCCC
Confidence 3455567899999999887765 499999999876665543
No 216
>PF03633 Glyco_hydro_65C: Glycosyl hydrolase family 65, C-terminal domain ; InterPro: IPR005194 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This family of glycosyl hydrolases (GH65 from CAZY) contains this domain and includes vacuolar acid trehalase and maltose phosphorylases. Maltose phosphorylase (MP) is a dimeric enzyme that catalyzes the conversion of maltose and inorganic phosphate into beta-D-glucose-1-phosphate and glucose. The C-terminal domain forms a two layered jelly roll motif. This domain is situated at the base of the catalytic domain, however its function remains unknown [].; PDB: 1H54_A.
Probab=36.94 E-value=9.9 Score=20.46 Aligned_cols=26 Identities=23% Similarity=0.336 Sum_probs=13.7
Q ss_pred cEeEEECCeecCCCCCcc--ccCCCCCC
Q 048514 53 TFPFLINGNRFPHIRTPD--QLGLKDGD 78 (89)
Q Consensus 53 ~~rF~fdG~~l~~~~Tp~--~l~medgD 78 (89)
+++|.|.|..|.-.-|.+ .+.+..|+
T Consensus 11 ~F~~~~rg~~l~v~i~~~~v~v~~~~g~ 38 (54)
T PF03633_consen 11 SFRLRYRGHWLEVEITHEKVTVTLLSGD 38 (54)
T ss_dssp EEEEEETTEEEEEEEETTEEEEEEEESS
T ss_pred EEEEEECCEEEEEEEECCEEEEEEccCC
Confidence 456666677766444333 33344444
No 217
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=36.59 E-value=50 Score=18.54 Aligned_cols=26 Identities=31% Similarity=0.448 Sum_probs=16.0
Q ss_pred eEEECCeecCCCCCccccCCCCCCEEEE
Q 048514 55 PFLINGNRFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 55 rF~fdG~~l~~~~Tp~~l~medgD~Idv 82 (89)
.|..+|+... .-+.++-+.+||.|..
T Consensus 42 ~~~vNG~~~~--~ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 42 MYYVNGESAN--VGAGSYKLKDGDKITW 67 (68)
T ss_dssp EEEETTEE-S--S-CCC-B--TTEEEEE
T ss_pred EEEECCEEhh--cCcceeEeCCCCEEEe
Confidence 5666787765 4788889999999864
No 218
>PRK11675 LexA regulated protein; Provisional
Probab=35.90 E-value=38 Score=20.86 Aligned_cols=27 Identities=11% Similarity=0.146 Sum_probs=23.0
Q ss_pred EEEEEeccchHHHHHHHHHhhhCCCCC
Q 048514 26 LYFEFRRDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 26 ~~f~i~~~t~l~kL~~~y~~~~g~~~~ 52 (89)
..+.|+-+..+-.-++.||+..+++.+
T Consensus 51 KRveVKldedl~ekL~eyAe~~nitRS 77 (90)
T PRK11675 51 KRVELKLNADLVDALNELAEARNISRS 77 (90)
T ss_pred eeEEEEECHHHHHHHHHHHHHcCCCHH
Confidence 467888889999999999999998754
No 219
>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=35.87 E-value=26 Score=21.08 Aligned_cols=35 Identities=20% Similarity=0.416 Sum_probs=21.6
Q ss_pred HHHhhhCCCCCcEeEEEC---CeecCCCCCccccCCCC
Q 048514 42 TYCEKKDAQYGTFPFLIN---GNRFPHIRTPDQLGLKD 76 (89)
Q Consensus 42 ~y~~~~g~~~~~~rF~fd---G~~l~~~~Tp~~l~med 76 (89)
+.|++...++..+.++=| ++.|.-+.+..+||+.+
T Consensus 2 ~IC~KCEfdp~htvLLrD~~s~e~LdLsKSLndlGirE 39 (79)
T PF09469_consen 2 AICEKCEFDPEHTVLLRDYQSGEELDLSKSLNDLGIRE 39 (79)
T ss_dssp HHHHHTT--TTSEEEES-SS---B--TTS-HHHHT-SE
T ss_pred ccccccccCcceEEEeecCCCCCcccccccHHHhhHHH
Confidence 578999999988888766 77888888999999874
No 220
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=35.86 E-value=27 Score=20.53 Aligned_cols=19 Identities=26% Similarity=0.230 Sum_probs=14.5
Q ss_pred CCCCccccCCCCCCEEEEE
Q 048514 65 HIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 65 ~~~Tp~~l~medgD~Idv~ 83 (89)
...-+.+.-|+|||+|+++
T Consensus 57 ~~~vg~~~~L~dgDvV~Ii 75 (76)
T cd01669 57 GRRVGEDYELKHRDVIKIV 75 (76)
T ss_pred CEEeCCCcEecCCCEEEEe
Confidence 3445567789999999875
No 221
>COG4806 RhaA L-rhamnose isomerase [Carbohydrate transport and metabolism]
Probab=35.26 E-value=29 Score=26.23 Aligned_cols=21 Identities=19% Similarity=0.533 Sum_probs=18.4
Q ss_pred ccchHHHHHHHHHhhhCCCCC
Q 048514 32 RDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~ 52 (89)
++-|++.+.+.||++.|+|..
T Consensus 380 K~~P~~aiW~~yCe~~~VPv~ 400 (419)
T COG4806 380 KSLPWQAVWEMYCQRHDVPVG 400 (419)
T ss_pred hcCCHHHHHHHHHHhcCCCch
Confidence 467899999999999999874
No 222
>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=35.25 E-value=1.2e+02 Score=20.24 Aligned_cols=50 Identities=10% Similarity=-0.016 Sum_probs=34.2
Q ss_pred cCCCEEEEEEeccchHHHHHHHHHhhhCCCC-------CcEeEEECCeecCCCCCcc
Q 048514 21 QDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-------GTFPFLINGNRFPHIRTPD 70 (89)
Q Consensus 21 ~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-------~~~rF~fdG~~l~~~~Tp~ 70 (89)
.||+.+.+.+.+.++|....+......|... .....++||+.+..--+|.
T Consensus 6 vNG~~~~~~~~~~~~Ll~~LR~~lgltg~K~gC~~G~CGACtVlvdg~~v~SCl~~~ 62 (148)
T TIGR03193 6 VNGRWREDAVADNMLLVDYLRDTVGLTGTKQGCDGGECGACTVLVDGRPRLACSTLA 62 (148)
T ss_pred ECCEEEEeecCCCCcHHHHHHHhcCCCCCCCCCCCCCCCCCEEEECCeEeeccHhhH
Confidence 3788888899998888876665333333322 3566888999888666554
No 223
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=35.20 E-value=1.3e+02 Score=23.73 Aligned_cols=49 Identities=8% Similarity=0.059 Sum_probs=37.3
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN 59 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd 59 (89)
+.+.++|.++..+|....-+++.+++++.||+.+...- .....+.|...
T Consensus 380 ~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~~-~~~~e~~~~~~ 428 (460)
T KOG1363|consen 380 EEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSNG-FHPEEYSLNTS 428 (460)
T ss_pred cccceeeEEECCCCCeeeeeeecccchhHHHHHHHhcc-CCchhhccccC
Confidence 45689999999999988888999999999998876544 44444444433
No 224
>PLN03060 inositol phosphatase-like protein; Provisional
Probab=34.92 E-value=16 Score=25.73 Aligned_cols=24 Identities=8% Similarity=0.144 Sum_probs=19.4
Q ss_pred ccchHHHHHHHHHhhhCCCCCcEe
Q 048514 32 RDWEIKKLLITYCEKKDAQYGTFP 55 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~~r 55 (89)
|......||+|||.-.|.+++++|
T Consensus 67 Pee~~~~IF~Alc~a~~~dp~~~r 90 (206)
T PLN03060 67 NATDRDAIFKAYIEALGEDPDQYR 90 (206)
T ss_pred ChHHHHHHHHHHHHHcCCCHHHHH
Confidence 667788999999999998876543
No 225
>PF05534 HicB: HicB family; InterPro: IPR008651 This family consists of several bacterial HicB related proteins. The function of HicB is unknown although it is thought to be involved in pilus formation. It has been speculated that HicB performs a function antagonistic to that of pili and yet is necessary for invasion of certain niches [].
Probab=33.45 E-value=34 Score=18.55 Aligned_cols=28 Identities=14% Similarity=0.234 Sum_probs=23.3
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCCcE
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYGTF 54 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~~ 54 (89)
.|.|+-...|.+-....|...|++.|++
T Consensus 19 ~~~lRi~~~Lh~~l~~~A~~~gvSlN~~ 46 (51)
T PF05534_consen 19 KFNLRIPPELHRALAEAAAAEGVSLNQW 46 (51)
T ss_pred ceeeeCCHHHHHHHHHHHHHhCCCHHHH
Confidence 4777777889999999999999988764
No 226
>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.17 E-value=64 Score=20.24 Aligned_cols=67 Identities=13% Similarity=0.063 Sum_probs=43.7
Q ss_pred EEEEEE--ecCCCEE-EEEEeccchHHHHHHH--HH-hhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514 14 INLVVK--GQDNDPL-YFEFRRDWEIKKLLIT--YC-EKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 14 I~i~v~--~~~~~~~-~f~i~~~t~l~kL~~~--y~-~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
|.+-|. ..+...+ .+.+...++......+ .. ...+++....+|=.-|+++..... ++|||-|+++.-
T Consensus 4 I~VevvyAlPerq~l~~v~v~egatV~dAi~~Sgll~~~~~idl~~n~~GI~~k~~kl~~~-----l~dgDRVEIyRP 76 (99)
T COG2914 4 IAVEVVYALPERQYLCRVQLQEGATVEDAILASGLLELFPDIDLHENKVGIYSKPVKLDDE-----LHDGDRVEIYRP 76 (99)
T ss_pred eEEEEEEEcCCcceEEEEEeccCcCHHHHHHhcchhhccccCCccccceeEEccccCcccc-----ccCCCEEEEecc
Confidence 444443 3444433 6777777777765433 33 345777877788777887776554 899999998753
No 227
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=32.89 E-value=31 Score=18.77 Aligned_cols=24 Identities=38% Similarity=0.547 Sum_probs=15.7
Q ss_pred EEECCeecCCCCCccccCCCCCCEEEE
Q 048514 56 FLINGNRFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 56 F~fdG~~l~~~~Tp~~l~medgD~Idv 82 (89)
.+.+|.+|.. -....|.+||+|.+
T Consensus 44 t~vng~~l~~---~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 44 TFVNGQRLGP---GEPVPLKDGDIIRF 67 (68)
T ss_dssp EEETTEEESS---TSEEEE-TTEEEEE
T ss_pred EEECCEEcCC---CCEEECCCCCEEEc
Confidence 4558888887 23456788888764
No 228
>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=32.73 E-value=1e+02 Score=17.77 Aligned_cols=25 Identities=8% Similarity=0.062 Sum_probs=19.5
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccc
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDW 34 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t 34 (89)
+.....+.+.+.+|+.+.+.|.+.|
T Consensus 52 ~~g~yev~~~~~dG~~~ev~vD~~t 76 (83)
T PF13670_consen 52 DDGCYEVEARDKDGKKVEVYVDPAT 76 (83)
T ss_pred CCCEEEEEEEECCCCEEEEEEcCCC
Confidence 3446888888889999988888754
No 229
>PRK11347 antitoxin ChpS; Provisional
Probab=32.53 E-value=45 Score=19.97 Aligned_cols=18 Identities=22% Similarity=0.344 Sum_probs=14.4
Q ss_pred CccccCCCCCCEEEEEee
Q 048514 68 TPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 68 Tp~~l~medgD~Idv~~~ 85 (89)
-.+.|+++.||.+++.+.
T Consensus 20 il~~l~l~~G~~v~i~v~ 37 (83)
T PRK11347 20 VMKELNLQPGQSVEAQVS 37 (83)
T ss_pred HHHHcCCCCCCEEEEEEE
Confidence 356899999999988765
No 230
>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=32.44 E-value=1.2e+02 Score=18.43 Aligned_cols=40 Identities=13% Similarity=0.076 Sum_probs=34.7
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~ 52 (89)
+..|+|-..||....+.|..+.+-+.+.+..+++..+...
T Consensus 2 k~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~ 41 (85)
T cd01787 2 KQVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDD 41 (85)
T ss_pred ceEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCC
Confidence 4567888889999999999999999999999999888554
No 231
>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=32.44 E-value=60 Score=20.79 Aligned_cols=28 Identities=18% Similarity=0.230 Sum_probs=21.0
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCCcE
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYGTF 54 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~~ 54 (89)
.+.|.-..+|+.|++.+.+++|+....+
T Consensus 36 r~~v~~~~Tl~~li~~~~~~~~lev~ml 63 (125)
T PF09358_consen 36 RIEVNGDMTLQELIDYFKEKYGLEVTML 63 (125)
T ss_dssp EEEEES--BHHHHHHHHHHTTS-EEEEE
T ss_pred EEEEcCCCCHHHHHHHHHHHhCceEEEE
Confidence 5777778999999999999999976543
No 232
>TIGR03198 pucE xanthine dehydrogenase E subunit. This gene has been characterized in B. subtilis as the Iron-sulfur cluster binding-subunit of xanthine dehydrogenase (pucE), acting in conjunction with pucC, the FAD-binding subunit and pucD, the molybdopterin binding subunit. The more common XDH complex (GenProp0640) includes the xdhA gene as the Fe-S cluster binding component.
Probab=32.31 E-value=1.1e+02 Score=20.34 Aligned_cols=54 Identities=15% Similarity=0.122 Sum_probs=38.1
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC-------CcEeEEECCeecCCCCCcc
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY-------GTFPFLINGNRFPHIRTPD 70 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~-------~~~rF~fdG~~l~~~~Tp~ 70 (89)
|++.| ||+.+...+.++++|..+........|... .....++||+.+..-.+|.
T Consensus 4 i~f~v---NG~~~~~~~~~~~~Ll~~LR~~~~ltgtK~gC~~G~CGACtVlvdG~~v~SCl~~~ 64 (151)
T TIGR03198 4 FRFTV---NGQAWEVAAVPTTRLSDLLRKELQLTGTKVSCGIGRCGACSVLIDGKLANACLTMA 64 (151)
T ss_pred EEEEE---CCEEEEeecCCCcHHHHHHHhccCCCCCCCCCCCCcCCccEEEECCcEEechHHHH
Confidence 55554 788888889999998887776555555443 3567888999887655443
No 233
>PRK09798 antitoxin MazE; Provisional
Probab=32.23 E-value=46 Score=19.87 Aligned_cols=17 Identities=24% Similarity=0.268 Sum_probs=13.6
Q ss_pred ccccCCCCCCEEEEEee
Q 048514 69 PDQLGLKDGDEIVATFY 85 (89)
Q Consensus 69 p~~l~medgD~Idv~~~ 85 (89)
.++|+++.||.+++.++
T Consensus 22 l~~l~l~~g~~vei~v~ 38 (82)
T PRK09798 22 MQALNLNIDDEVKIDLV 38 (82)
T ss_pred HHHcCCCCCCEEEEEEE
Confidence 46788999999888764
No 234
>TIGR03060 PS_II_psb29 photosystem II biogenesis protein Psp29. Psp29, originally designated sll1414 in Synechocystis 6803, is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.
Probab=32.18 E-value=20 Score=25.50 Aligned_cols=23 Identities=9% Similarity=0.201 Sum_probs=18.9
Q ss_pred ccchHHHHHHHHHhhhCCCCCcE
Q 048514 32 RDWEIKKLLITYCEKKDAQYGTF 54 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~~ 54 (89)
|......||+|||.-.|.+++.+
T Consensus 69 Pee~~~~IF~Alc~a~~~dp~~~ 91 (214)
T TIGR03060 69 PEEHLDALFDALCNSNGFDPEQL 91 (214)
T ss_pred ChHHHHHHHHHHHHhcCCCHHHH
Confidence 66778889999999999887654
No 235
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=32.17 E-value=1.7e+02 Score=20.22 Aligned_cols=60 Identities=8% Similarity=-0.023 Sum_probs=31.8
Q ss_pred cEEEEEEecCC---CEEEEEEeccchHHHHHHHHHhhhCCCCC---cEeEEE--CCee---cCCCCCcccc
Q 048514 13 FINLVVKGQDN---DPLYFEFRRDWEIKKLLITYCEKKDAQYG---TFPFLI--NGNR---FPHIRTPDQL 72 (89)
Q Consensus 13 ~I~i~v~~~~~---~~~~f~i~~~t~l~kL~~~y~~~~g~~~~---~~rF~f--dG~~---l~~~~Tp~~l 72 (89)
.|++.+.+... +.+.|.|.++.+++.|.++.+++.+++.+ .+|++- +|+- +..+.+..++
T Consensus 20 ~~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 20 QFKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp -EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 45666654332 34689999999999999999999998654 666542 3322 3345555555
No 236
>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=32.03 E-value=58 Score=18.35 Aligned_cols=42 Identities=21% Similarity=0.290 Sum_probs=26.4
Q ss_pred hhhCCCCCcEeEEECCeecCCCCCccccC--CCCCCEEEEEeee
Q 048514 45 EKKDAQYGTFPFLINGNRFPHIRTPDQLG--LKDGDEIVATFYA 86 (89)
Q Consensus 45 ~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~--medgD~Idv~~~q 86 (89)
.+.|+.....-..+||..+....+...+= ...+..|.+.+..
T Consensus 38 ~~~gl~~GD~I~~Ing~~i~~~~~~~~~l~~~~~~~~i~l~v~r 81 (90)
T cd00987 38 AKAGLKPGDVILAVNGKPVKSVADLRRALAELKPGDKVTLTVLR 81 (90)
T ss_pred HHcCCCcCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEEEEE
Confidence 45578888888888999887654433221 1236667666543
No 237
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=31.83 E-value=53 Score=19.51 Aligned_cols=40 Identities=15% Similarity=0.184 Sum_probs=27.7
Q ss_pred CCCcEeEEECCeecCCCCCccccCCC-CCCEEEEEeeecCC
Q 048514 50 QYGTFPFLINGNRFPHIRTPDQLGLK-DGDEIVATFYAGGA 89 (89)
Q Consensus 50 ~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv~~~q~GG 89 (89)
+.+.-+++..|+.=...+-..++-+. |+|.|.+..+|.|.
T Consensus 23 SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~ 63 (75)
T PF01502_consen 23 SRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGP 63 (75)
T ss_dssp ETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-
T ss_pred EccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCC
Confidence 34555777777776666777776665 79999999999984
No 238
>PF04921 XAP5: XAP5, circadian clock regulator; InterPro: IPR007005 These proteins are found in a wide range of eukaryotes. Their function is uncertain though they are nuclear proteins, possibly with DNA-binding activity.; GO: 0005634 nucleus
Probab=31.82 E-value=2e+02 Score=20.79 Aligned_cols=62 Identities=11% Similarity=0.064 Sum_probs=42.8
Q ss_pred CCCcEEEEEEecCCCE--EEEEEeccchHHHHHHHHHhh--------hCCCCCcEeEEECCeecCCCCCccc
Q 048514 10 DQHFINLVVKGQDNDP--LYFEFRRDWEIKKLLITYCEK--------KDAQYGTFPFLINGNRFPHIRTPDQ 71 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~--~~f~i~~~t~l~kL~~~y~~~--------~g~~~~~~rF~fdG~~l~~~~Tp~~ 71 (89)
.+..|.|...-.||.. -.++|++.+++....+...+. ..++...|.|.=.+--|...-|--+
T Consensus 95 K~eeI~I~fsywDGs~hrr~v~vKKGdtI~~FL~~~r~~l~~~f~el~~vsvd~LM~VkedlIiPHhy~FY~ 166 (239)
T PF04921_consen 95 KAEEIEIPFSYWDGSGHRRTVRVKKGDTIWQFLEKCRKQLAKEFRELRRVSVDDLMYVKEDLIIPHHYTFYD 166 (239)
T ss_pred hCCeeEEEEEEECCCCCcceEEEcCCCCHHHHHHHHHHHHHHHhHHHHhcCHhheeeeccceeccCCceeee
Confidence 3456777777667653 489999999998877665544 5667777777766666666555443
No 239
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=31.54 E-value=69 Score=20.07 Aligned_cols=36 Identities=11% Similarity=0.233 Sum_probs=27.2
Q ss_pred EeEEECCeecCCCCCcccc-CCCCCCEEEEEeeecCC
Q 048514 54 FPFLINGNRFPHIRTPDQL-GLKDGDEIVATFYAGGA 89 (89)
Q Consensus 54 ~rF~fdG~~l~~~~Tp~~l-~medgD~Idv~~~q~GG 89 (89)
..|+|.|+.+....+..++ |-.+--.|-|.+.+.|+
T Consensus 2 a~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~g~ 38 (98)
T PF11069_consen 2 AQLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKRGQ 38 (98)
T ss_pred ceEEeccccccCCCcHHHhcCCCcceeEEEEeccCCC
Confidence 4689999999998888876 44444558888777764
No 240
>PF05932 CesT: Tir chaperone protein (CesT) family; InterPro: IPR010261 This family consists of a number of bacterial sequences, which are highly similar to the Tir chaperone protein in Escherichia coli. In many Gram-negative bacteria, a key indicator of pathogenic potential is the possession of a specialised type III secretion system, which is utilised to deliver virulence effector proteins directly into the host cell cytosol. Many of the proteins secreted from such systems require small cytosolic chaperones to maintain the secreted substrates in a secretion-competent state. CesT serves a chaperone function for the enteropathogenic E. coli (EPEC) translocated intimin receptor (Tir) protein, which confers upon EPEC the ability to alter host cell morphology following intimate bacterial attachment [].; GO: 0009405 pathogenesis, 0050708 regulation of protein secretion, 0005737 cytoplasm; PDB: 1K3E_A 3KXY_E 1S28_C 1JYA_B 1K6Z_B 2BSH_A 2BSJ_B 2BHO_A 2BSI_B 3EPU_A ....
Probab=31.16 E-value=87 Score=18.42 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=19.3
Q ss_pred HHHHHHHhhhCCC------CCcEeEEECCeecC
Q 048514 38 KLLITYCEKKDAQ------YGTFPFLINGNRFP 64 (89)
Q Consensus 38 kL~~~y~~~~g~~------~~~~rF~fdG~~l~ 64 (89)
+|++.++++.|++ .+.+.|.++|..+.
T Consensus 1 ~ll~~l~~~lgl~~l~~d~~g~~~l~~~~~~~~ 33 (119)
T PF05932_consen 1 QLLAELGERLGLPPLEFDEDGACSLTVDGDFLI 33 (119)
T ss_dssp HHHHHHHHHHTCSCEESSTTSEEEEEETTTEEE
T ss_pred CHHHHHHHHhCCCCCCCCCCCEEEEEECCeEEE
Confidence 5789999999993 24567777655443
No 241
>PRK13266 Thf1-like protein; Reviewed
Probab=30.74 E-value=21 Score=25.48 Aligned_cols=24 Identities=4% Similarity=0.086 Sum_probs=19.3
Q ss_pred ccchHHHHHHHHHhhhCCCCCcEe
Q 048514 32 RDWEIKKLLITYCEKKDAQYGTFP 55 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~~r 55 (89)
|......||+|||.-.|.+++.+|
T Consensus 69 Pee~~~~IF~Alc~a~~~dp~~~r 92 (225)
T PRK13266 69 PEEHKDSIFNALCQAVGFDPEQLR 92 (225)
T ss_pred ChHHHHHHHHHHHHHcCCCHHHHH
Confidence 567788899999999998876543
No 242
>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=30.70 E-value=83 Score=17.28 Aligned_cols=15 Identities=7% Similarity=0.102 Sum_probs=11.0
Q ss_pred EEEEEecCCCEEEEE
Q 048514 15 NLVVKGQDNDPLYFE 29 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~ 29 (89)
.|++++.||..+...
T Consensus 2 ~v~L~SsDg~~f~V~ 16 (62)
T PF03931_consen 2 YVKLVSSDGQEFEVS 16 (62)
T ss_dssp EEEEEETTSEEEEEE
T ss_pred EEEEEcCCCCEEEee
Confidence 578889899875444
No 243
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=30.42 E-value=1.2e+02 Score=23.44 Aligned_cols=54 Identities=22% Similarity=0.306 Sum_probs=40.2
Q ss_pred EEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCC--CCccccCCCCCCEEEE
Q 048514 29 EFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHI--RTPDQLGLKDGDEIVA 82 (89)
Q Consensus 29 ~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~--~Tp~~l~medgD~Idv 82 (89)
.+...-.|.-|..-.....|+......++|++..+..+ ++..++||.++|.+-.
T Consensus 18 ~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~l 73 (380)
T KOG0012|consen 18 PVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLAL 73 (380)
T ss_pred ccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEec
Confidence 33444455555555555678888889999999888864 7899999999998753
No 244
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=30.40 E-value=1.1e+02 Score=17.56 Aligned_cols=44 Identities=11% Similarity=0.208 Sum_probs=26.3
Q ss_pred CCCcEEEEEEecCCCEE-EEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCc
Q 048514 10 DQHFINLVVKGQDNDPL-YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTP 69 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~-~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp 69 (89)
+...++|.|.+.+|+.+ .+.+.. .+.....|.|||+.-..+.-|
T Consensus 23 ~a~~v~v~I~d~~G~~V~t~~~~~----------------~~~G~~~~~WdG~d~~G~~~~ 67 (81)
T PF13860_consen 23 DADNVTVTIYDSNGQVVRTISLGS----------------QSAGEHSFTWDGKDDDGNPVP 67 (81)
T ss_dssp SCEEEEEEEEETTS-EEEEEEEEE----------------CSSEEEEEEE-SB-TTS-B--
T ss_pred cccEEEEEEEcCCCCEEEEEEcCC----------------cCCceEEEEECCCCCCcCCCC
Confidence 44568899988888876 344432 245678999999977765443
No 245
>PF10646 Germane: Sporulation and spore germination; InterPro: IPR019606 The GerMN domain is a region of approximately 100 residues that is found, duplicated, in the Bacillus GerM protein and is implicated in both sporulation and spore germination. It is also found in lipoprotein LpqB. The domain is present in a number of different bacterial species both alone and in association with other domains such as Gmad1 and Gmad2. It is predicted to have a novel alpha-beta fold.
Probab=29.72 E-value=1.2e+02 Score=18.13 Aligned_cols=14 Identities=14% Similarity=0.385 Sum_probs=12.9
Q ss_pred CCcEeEEECCeecC
Q 048514 51 YGTFPFLINGNRFP 64 (89)
Q Consensus 51 ~~~~rF~fdG~~l~ 64 (89)
.+.++|+.||+++.
T Consensus 101 v~~V~i~vdG~~~~ 114 (117)
T PF10646_consen 101 VKKVQILVDGKPLE 114 (117)
T ss_pred ccEEEEEECCEEcC
Confidence 89999999999885
No 246
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=29.54 E-value=1.4e+02 Score=18.14 Aligned_cols=61 Identities=13% Similarity=0.110 Sum_probs=40.5
Q ss_pred CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEe-EEECCeecC----CCCCcc----ccCCCCCCEEEEE
Q 048514 23 NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFP-FLINGNRFP----HIRTPD----QLGLKDGDEIVAT 83 (89)
Q Consensus 23 ~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~r-F~fdG~~l~----~~~Tp~----~l~medgD~Idv~ 83 (89)
.+.+.|.|.+...=..+.+++.+.+|++..+++ ....|..-. ...++. =.-|.+|+.|+++
T Consensus 20 ~n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~~~~gk~kr~~~~~g~~~~~KKA~VtL~~g~~i~~~ 89 (92)
T PRK05738 20 QNKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTLNVKGKTKRFGRRIGKRSDWKKAIVTLAEGQKIDFF 89 (92)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEEEeCCceeeecccccccCCcEEEEEEcCCCCEEecc
Confidence 567899999999999999999999999876653 333333221 112221 2346677777665
No 247
>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=29.40 E-value=93 Score=18.93 Aligned_cols=22 Identities=18% Similarity=0.379 Sum_probs=15.7
Q ss_pred CCcEEEEEEecCCCEEEEEEec
Q 048514 11 QHFINLVVKGQDNDPLYFEFRR 32 (89)
Q Consensus 11 ~~~I~i~v~~~~~~~~~f~i~~ 32 (89)
+.+|.|.+.+.|+..++|+|..
T Consensus 72 ~~ri~LAiv~~DsTiVYY~i~~ 93 (101)
T PF09631_consen 72 PKRILLAIVDDDSTIVYYKIHD 93 (101)
T ss_dssp --EEEEEEE-TTS-EEEEEEE-
T ss_pred CcEEEEEEEcCCCCEEEEEEeC
Confidence 6899999999999999998864
No 248
>PHA01748 hypothetical protein
Probab=28.93 E-value=65 Score=17.98 Aligned_cols=25 Identities=20% Similarity=0.286 Sum_probs=20.3
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCC
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQY 51 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~ 51 (89)
.+.|+-+..+..-++.||++.|++.
T Consensus 4 ~iSvrLp~el~~eld~~a~~~g~~R 28 (60)
T PHA01748 4 VITFKIEEDLLELLDRYAIKHGLNR 28 (60)
T ss_pred EEEEECCHHHHHHHHHHHHHhCCCH
Confidence 4667777888899999999999864
No 249
>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=28.83 E-value=57 Score=17.97 Aligned_cols=21 Identities=33% Similarity=0.409 Sum_probs=14.2
Q ss_pred cCCCCCccccCCCCCCEEEEE
Q 048514 63 FPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 63 l~~~~Tp~~l~medgD~Idv~ 83 (89)
+.++......|+..||+|-.+
T Consensus 19 v~~~s~a~~~gl~~GD~I~~i 39 (79)
T cd00989 19 VVPGSPAAKAGLKAGDRILAI 39 (79)
T ss_pred ECCCCHHHHcCCCCCCEEEEE
Confidence 444555556889999988643
No 250
>PF11264 ThylakoidFormat: Thylakoid formation protein; InterPro: IPR017499 Psp29, originally designated sll1414 (P73956 from SWISSPROT) in Synechocystis sp. (strain PCC 6803), is found universally in Cyanobacteria and in Arabidopsis. It was isolated and partially sequenced from purified photosystem II (PS II) in Synechocystis. While its function is unknown, mutant studies show an impairment in photosystem II biogenesis and/or stability, rather than in PS II core function.; GO: 0010027 thylakoid membrane organization, 0015979 photosynthesis, 0009523 photosystem II
Probab=28.79 E-value=25 Score=24.97 Aligned_cols=24 Identities=4% Similarity=0.155 Sum_probs=19.2
Q ss_pred ccchHHHHHHHHHhhhCCCCCcEe
Q 048514 32 RDWEIKKLLITYCEKKDAQYGTFP 55 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~~r 55 (89)
|......||+|+|.-.|.+++.+|
T Consensus 64 p~~~~~~If~Alc~a~~~dp~~~r 87 (216)
T PF11264_consen 64 PEEDKDSIFNALCQALGFDPEQYR 87 (216)
T ss_pred ChhHHHHHHHHHHHHcCCCHHHHH
Confidence 566778899999999998876543
No 251
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=28.71 E-value=1e+02 Score=16.44 Aligned_cols=25 Identities=8% Similarity=-0.005 Sum_probs=18.7
Q ss_pred HHHHHHHHHhhhCCCCCcEeEEECC
Q 048514 36 IKKLLITYCEKKDAQYGTFPFLING 60 (89)
Q Consensus 36 l~kL~~~y~~~~g~~~~~~rF~fdG 60 (89)
.+.|-+++++..|.+.+.+...+.-
T Consensus 20 ~~~it~~~~~~lg~~~~~i~V~i~E 44 (60)
T PF01361_consen 20 AEAITDAVVEVLGIPPERISVVIEE 44 (60)
T ss_dssp HHHHHHHHHHHHTS-GGGEEEEEEE
T ss_pred HHHHHHHHHHHhCcCCCeEEEEEEE
Confidence 4456788888999999998887753
No 252
>COG3435 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=28.40 E-value=45 Score=25.28 Aligned_cols=28 Identities=29% Similarity=0.564 Sum_probs=20.9
Q ss_pred CCCcEeEEECCee----cCCCCCccccCCCCCCEEE
Q 048514 50 QYGTFPFLINGNR----FPHIRTPDQLGLKDGDEIV 81 (89)
Q Consensus 50 ~~~~~rF~fdG~~----l~~~~Tp~~l~medgD~Id 81 (89)
+.+.+||++.|+= |.++.|| |+.||.|-
T Consensus 111 sqsAlRFvveG~Ga~T~VdGer~~----M~~GDfil 142 (351)
T COG3435 111 NQSALRFVVEGKGAYTVVDGERTP----MEAGDFIL 142 (351)
T ss_pred cccceEEEEeccceeEeecCceee----ccCCCEEE
Confidence 4678999999875 4555554 88899874
No 253
>PF11548 Receptor_IA-2: Protein-tyrosine phosphatase receptor IA-2; InterPro: IPR021613 IA-2 is a protein-tyrosine phosphatase receptor that upon exocytosis, the cytoplasmic domain is cleaved and moves to the nucleus where it enhances transcription of the insulin gene. The mature exodomain of IA-2 participates in adhesion to the extracellular matrix and is self-proteolyzed in vitro by reactive oxygen species which may be a new shedding mechanism. ; PDB: 2QT7_B 3N01_B 3N4W_B 3NG8_A.
Probab=28.13 E-value=59 Score=20.06 Aligned_cols=22 Identities=27% Similarity=0.416 Sum_probs=14.3
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccc
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDW 34 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t 34 (89)
.+..+.|+| .|..++|+|.++.
T Consensus 34 s~~F~~i~V---~g~avTFrv~~N~ 55 (91)
T PF11548_consen 34 SSSFINISV---VGPAVTFRVRPNN 55 (91)
T ss_dssp GGGEEEEEE---ETTEEEEEE---T
T ss_pred cccceeeee---cCceEEEEeccCc
Confidence 455677777 4689999999875
No 254
>PTZ00434 cytosolic glyceraldehyde 3-phosphate dehydrogenase; Provisional
Probab=28.10 E-value=46 Score=25.43 Aligned_cols=35 Identities=20% Similarity=0.265 Sum_probs=27.3
Q ss_pred cEeEEECCeecC---CCCCccccCCCCCCEEEEEeeecC
Q 048514 53 TFPFLINGNRFP---HIRTPDQLGLKDGDEIVATFYAGG 88 (89)
Q Consensus 53 ~~rF~fdG~~l~---~~~Tp~~l~medgD~Idv~~~q~G 88 (89)
.=.|.++|++|. ....|+++...+-+ +|++++-+|
T Consensus 76 ~~~l~ing~~I~~~~~~~dP~~ipW~~~g-vD~ViE~TG 113 (361)
T PTZ00434 76 DDVLVVNGHRIKCVKAQRNPADLPWGKLG-VDYVIESTG 113 (361)
T ss_pred CCEEEECCEEEEEEEecCChhhCchhhcC-CCEEEeCce
Confidence 345888999986 56789999987755 788888776
No 255
>KOG1407 consensus WD40 repeat protein [Function unknown]
Probab=27.95 E-value=51 Score=24.60 Aligned_cols=69 Identities=20% Similarity=0.261 Sum_probs=48.4
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHH---HHHHh----hhCCCCCcEeEEECCeecC---CCCCccccCCCCCCE
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLL---ITYCE----KKDAQYGTFPFLINGNRFP---HIRTPDQLGLKDGDE 79 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~---~~y~~----~~g~~~~~~rF~fdG~~l~---~~~Tp~~l~medgD~ 79 (89)
+.+.|-|++ +++|+ +|.+...+.+-.|. +..|. +...|..++.|.+||+-|. ++.-.+=...+.||.
T Consensus 189 ~snCicI~f-~p~Gr--yfA~GsADAlvSLWD~~ELiC~R~isRldwpVRTlSFS~dg~~lASaSEDh~IDIA~vetGd~ 265 (313)
T KOG1407|consen 189 PSNCICIEF-DPDGR--YFATGSADALVSLWDVDELICERCISRLDWPVRTLSFSHDGRMLASASEDHFIDIAEVETGDR 265 (313)
T ss_pred CcceEEEEE-CCCCc--eEeeccccceeeccChhHhhhheeeccccCceEEEEeccCcceeeccCccceEEeEecccCCe
Confidence 456777777 35675 57777776665554 44565 6678999999999999997 344555566677776
Q ss_pred EE
Q 048514 80 IV 81 (89)
Q Consensus 80 Id 81 (89)
+.
T Consensus 266 ~~ 267 (313)
T KOG1407|consen 266 VW 267 (313)
T ss_pred EE
Confidence 64
No 256
>PF03479 DUF296: Domain of unknown function (DUF296); InterPro: IPR005175 This putative conserved domain is found in proteins that contain AT-hook motifs IPR000637 from INTERPRO, suggesting a DNA-binding function for the proteins as a whole, however, the function of this domain is unknown. Overexpression of a protein containing this domain, Q9S7C9 from SWISSPROT, in Arabidopsis thaliana causes late flowering and modified leaf development []. ; PDB: 2DT4_A 2P6Y_A 3HWU_A 3HTN_A 2NMU_A 2H6L_A 2HX0_A.
Probab=27.93 E-value=1.3e+02 Score=18.77 Aligned_cols=29 Identities=7% Similarity=0.169 Sum_probs=24.2
Q ss_pred CEEEEEEeccchHHHHHHHHHhhhCCCCC
Q 048514 24 DPLYFEFRRDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 24 ~~~~f~i~~~t~l~kL~~~y~~~~g~~~~ 52 (89)
+.+.+++.+...+-.=+.+||+..++...
T Consensus 2 r~~~~rl~~Gedl~~~l~~~~~~~~i~~~ 30 (120)
T PF03479_consen 2 RVFVIRLDPGEDLLESLEAFAREHGIRSG 30 (120)
T ss_dssp EEEEEEEETTSBHHHHHHHHHHHHT-SSE
T ss_pred cEEEEEECCCCHHHHHHHHHHHHCCCcEE
Confidence 45679999999999999999999998653
No 257
>cd00174 SH3 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of signal pathway components and mediate multiprotein complex assemblies.
Probab=27.83 E-value=87 Score=15.41 Aligned_cols=19 Identities=42% Similarity=0.567 Sum_probs=15.0
Q ss_pred CCccccCCCCCCEEEEEee
Q 048514 67 RTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~~ 85 (89)
..+.+|.+.-||.|.+...
T Consensus 11 ~~~~~l~~~~Gd~v~v~~~ 29 (54)
T cd00174 11 RDPDELSFKKGDIIEVLEK 29 (54)
T ss_pred CCCCCCCCCCCCEEEEEEc
Confidence 3457889999999988765
No 258
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=27.57 E-value=1.3e+02 Score=17.48 Aligned_cols=21 Identities=19% Similarity=0.088 Sum_probs=15.2
Q ss_pred ECCeecCCCCCccccCCCCCCEEEEE
Q 048514 58 INGNRFPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 58 fdG~~l~~~~Tp~~l~medgD~Idv~ 83 (89)
|.|+++. .+.-|+|||+|+++
T Consensus 54 ~~gq~Vg-----l~~~L~d~DvVeI~ 74 (75)
T cd01666 54 HSPQRVG-----LDHVLEDEDVVQIV 74 (75)
T ss_pred CCCeECC-----CCCEecCCCEEEEe
Confidence 3555554 55678999999876
No 259
>PF07944 DUF1680: Putative glycosyl hydrolase of unknown function (DUF1680); InterPro: IPR012878 The members of this family are sequences derived from hypothetical bacterial and eukaryotic proteins of unknown function. One member of this family is annotated as a possible arabinosidase, but no references were found to back this.
Probab=27.38 E-value=3.1e+02 Score=21.55 Aligned_cols=36 Identities=19% Similarity=0.201 Sum_probs=24.3
Q ss_pred CCcEeEEECCeecCCCCCccc-----cCCCCCCEEEEEeee
Q 048514 51 YGTFPFLINGNRFPHIRTPDQ-----LGLKDGDEIVATFYA 86 (89)
Q Consensus 51 ~~~~rF~fdG~~l~~~~Tp~~-----l~medgD~Idv~~~q 86 (89)
....++..||+.+.....|.. -...+||+|++.+.+
T Consensus 452 a~~~~i~vNG~~~~~~~~~~gy~~i~r~W~~gD~v~l~lpm 492 (520)
T PF07944_consen 452 AKGATIRVNGEPVVDTAVPGGYLTIEREWKDGDVVELRLPM 492 (520)
T ss_pred CCCcEEEECCEeCCCCcCCCCeEEEEeeccCCcEEEEEecC
Confidence 355788899999544444432 336689999987654
No 260
>PF12976 DUF3860: Domain of Unknown Function with PDB structure (DUF3860); InterPro: IPR024619 This protein family includes hypothetical protein (JCVI_PEP_1096688149193) whose crystal structure has been solved PDB:2OD5. The hypothetical protein is from an environmental metagenome (unidentified marine microbe).
Probab=27.32 E-value=18 Score=21.96 Aligned_cols=56 Identities=9% Similarity=0.125 Sum_probs=34.8
Q ss_pred ccchHHHHHHHHHhhhCCCCCcEeE-EECCeecCCCCCccccCC---CCCCEEEEEeeecCC
Q 048514 32 RDWEIKKLLITYCEKKDAQYGTFPF-LINGNRFPHIRTPDQLGL---KDGDEIVATFYAGGA 89 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~~rF-~fdG~~l~~~~Tp~~l~m---edgD~Idv~~~q~GG 89 (89)
.++.|..+...|-... +.+++-. -+=..++.++.||++++- .|.|++-+-.-..||
T Consensus 2 ~s~~LR~~Ir~~L~ER--~~NT~EI~~~~~~~M~~~s~Pe~~~NiL~~D~~I~ri~T~rk~G 61 (92)
T PF12976_consen 2 DSQNLRDLIRNYLSER--PRNTIEISAWLASQMDPNSCPEDVTNILEADESIVRIGTVRKSG 61 (92)
T ss_pred chhHHHHHHHHHHhcC--cccHHHHHHHHHhccCCCCCHHHHHHHHhccccceeeeeecccc
Confidence 3567888888886544 3443321 122456788999998873 567777665555554
No 261
>PTZ00490 Ferredoxin superfamily; Provisional
Probab=27.28 E-value=1.9e+02 Score=19.09 Aligned_cols=31 Identities=16% Similarity=0.137 Sum_probs=24.4
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHH
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLL 40 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~ 40 (89)
.+..++|.+.+.+|....+.+....+|-...
T Consensus 32 ~~g~v~I~~~~~dG~~~~v~~~~G~sLLeal 62 (143)
T PTZ00490 32 TPGKVKVCVKKRDGTHCDVEVPVGMSLMHAL 62 (143)
T ss_pred CCCcEEEEEEcCCCCEEEEEECCCccHHHHH
Confidence 5668999999999988888888777665543
No 262
>PRK01076 L-rhamnose isomerase; Provisional
Probab=27.02 E-value=51 Score=25.75 Aligned_cols=21 Identities=19% Similarity=0.474 Sum_probs=18.5
Q ss_pred ccchHHHHHHHHHhhhCCCCC
Q 048514 32 RDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~ 52 (89)
++-|+..+.+.||.+.|+|..
T Consensus 380 k~~p~g~vwd~~c~~~~vp~~ 400 (419)
T PRK01076 380 KSLPWGAVWDMYCQRHDVPVG 400 (419)
T ss_pred hcCChHHHHHHHHHhcCCCCc
Confidence 467899999999999999874
No 263
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=26.77 E-value=1.5e+02 Score=17.60 Aligned_cols=49 Identities=12% Similarity=0.146 Sum_probs=34.1
Q ss_pred EEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEe--EEECCeecCCCC
Q 048514 17 VVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFP--FLINGNRFPHIR 67 (89)
Q Consensus 17 ~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~r--F~fdG~~l~~~~ 67 (89)
+|.+. .+...+-|-. ..|+.|..+-|++++++.+.++ +.=||..|..++
T Consensus 4 kV~~~-~r~~k~GV~A-~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEe 54 (74)
T smart00266 4 KVRDH-DRNVRKGVAA-SSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEE 54 (74)
T ss_pred EEecC-CCCeeEEEEc-CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHH
Confidence 45543 3344566653 7899999999999999855444 444899997554
No 264
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=26.21 E-value=73 Score=15.64 Aligned_cols=16 Identities=38% Similarity=0.682 Sum_probs=10.8
Q ss_pred ccccCCCCCCEEEEEe
Q 048514 69 PDQLGLKDGDEIVATF 84 (89)
Q Consensus 69 p~~l~medgD~Idv~~ 84 (89)
-+.|+++.||.+++..
T Consensus 16 r~~l~~~~gd~~~i~~ 31 (43)
T TIGR01439 16 REKLGLKEGDRLEVIR 31 (43)
T ss_pred HHHcCcCCCCEEEEEE
Confidence 3467777777777663
No 265
>KOG2378 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=26.14 E-value=3.4e+02 Score=21.96 Aligned_cols=65 Identities=15% Similarity=0.107 Sum_probs=49.0
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC--cEeEEECCeecC--CCC--CccccCC
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG--TFPFLINGNRFP--HIR--TPDQLGL 74 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~--~~rF~fdG~~l~--~~~--Tp~~l~m 74 (89)
.++.|.-+|--.|...++++++-++..+.++.+.+++.|.+.+ -+...+.|+.+- +++ -+.+|++
T Consensus 232 ~sDev~~~vy~~Dhsy~tl~~~vs~svqEI~~~va~k~~~seel~LV~v~s~GEkv~lqPnd~~v~tsL~l 302 (573)
T KOG2378|consen 232 GSDEVFCIVYLPDHSYVTLRIRVSASVQEILEAVAEKLGYSEELILVKVSSSGEKVILQPNDRAVFTSLGL 302 (573)
T ss_pred CCCeeeEEEEecCceEEEEEeechhHHHHHHHHHHHHhccccceeEEEEccCCceeeecCCcceeeeeecc
Confidence 4566777777678888999999999999999999999998654 457778888764 333 3444544
No 266
>PF03072 DUF237: MG032/MG096/MG288 family 1; InterPro: IPR004306 This domain is found entirely in Mycoplasma pneumoniae proteins of unknown function. Another related domain (IPR004319 from INTERPRO) is found entirely in mycoplasmal proteins of the MG032/MG096/MG288 family and both domains often occur together.
Probab=25.94 E-value=2e+02 Score=19.07 Aligned_cols=51 Identities=14% Similarity=0.305 Sum_probs=33.4
Q ss_pred cchHHHHHHHHHhhhCCCCC-----cEeEEECCee----cCCCCCccc-cCCCCCCEEEEE
Q 048514 33 DWEIKKLLITYCEKKDAQYG-----TFPFLINGNR----FPHIRTPDQ-LGLKDGDEIVAT 83 (89)
Q Consensus 33 ~t~l~kL~~~y~~~~g~~~~-----~~rF~fdG~~----l~~~~Tp~~-l~medgD~Idv~ 83 (89)
.-.+.=..-++|..-|+|.+ .+.|.|||.- +..-++|-+ +..+|.|.+-..
T Consensus 66 ~y~l~ww~~~~a~~ggIPg~WkGkm~vk~~~DG~vp~w~~~k~dypgs~f~F~d~~kLLFt 126 (137)
T PF03072_consen 66 SYGLKWWTWAFAKRGGIPGSWKGKMNVKFIFDGDVPSWIVGKPDYPGSLFQFTDKDKLLFT 126 (137)
T ss_pred EEeeehHHHHHHHhCCCCCcccceEEEEEEEcccccceeecCCCCCCceeeecccceEEEE
Confidence 34455567777888888864 6899999984 334555554 456665665443
No 267
>PHA00738 putative HTH transcription regulator
Probab=25.88 E-value=1.8e+02 Score=18.46 Aligned_cols=45 Identities=13% Similarity=0.159 Sum_probs=32.9
Q ss_pred cCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCC
Q 048514 21 QDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPH 65 (89)
Q Consensus 21 ~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~ 65 (89)
..|+.++|++.+..+.-+|.+.--+-+..-.+.-.+.-||.++..
T Consensus 60 K~Gr~vyY~Ln~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (108)
T PHA00738 60 KEGRTLYAKIRENSKEIQILNSELEGFKKLSENTDLTKDGHQVKT 104 (108)
T ss_pred EECCEEEEEECCCccHHHHHhhHHHHHHhhccCcccccCCCeeec
Confidence 478999999999999999987655444333345567778887764
No 268
>KOG3784 consensus Sorting nexin protein SNX27 [General function prediction only; Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.83 E-value=1.7e+02 Score=22.85 Aligned_cols=40 Identities=13% Similarity=0.034 Sum_probs=34.0
Q ss_pred cEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCC
Q 048514 13 FINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 13 ~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~ 52 (89)
.+.+.|.-.+|..+.+++..+.+-..++++-|.+.|++..
T Consensus 107 ~v~l~v~lpng~~i~i~~~~s~tt~~vl~~v~~kl~l~~e 146 (407)
T KOG3784|consen 107 EVELDVFLPNGEKITINCLVSDTASLVLKSVCRKLGLPDE 146 (407)
T ss_pred eeEEEEEccCCceEEEEEEecccHHHHHHHHHhhcCCchH
Confidence 3555555589999999999999999999999999999843
No 269
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=25.78 E-value=50 Score=19.36 Aligned_cols=18 Identities=17% Similarity=0.099 Sum_probs=12.6
Q ss_pred CcEeEEECCeecC--CCCCc
Q 048514 52 GTFPFLINGNRFP--HIRTP 69 (89)
Q Consensus 52 ~~~rF~fdG~~l~--~~~Tp 69 (89)
+.++|.|||+.+. +.+|.
T Consensus 2 ~~v~i~idG~~v~~~~G~ti 21 (82)
T PF13510_consen 2 KMVTITIDGKPVEVPPGETI 21 (82)
T ss_dssp EEEEEEETTEEEEEEET-BH
T ss_pred CEEEEEECCEEEEEcCCCHH
Confidence 4689999999985 34444
No 270
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=25.76 E-value=42 Score=20.84 Aligned_cols=63 Identities=17% Similarity=0.156 Sum_probs=32.6
Q ss_pred EEEEEEe---ccchHHHHHHHHHhhhCCCCCcEeEEECCeecCC------CCC------ccccCCCCCCEEEEEeeecCC
Q 048514 25 PLYFEFR---RDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPH------IRT------PDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 25 ~~~f~i~---~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~------~~T------p~~l~medgD~Idv~~~q~GG 89 (89)
...+.+. ...+++.|....|+..=.+.. -++..|..|.+ |++ =.++-++|||.|......=||
T Consensus 19 ~h~v~l~~~~~~~ti~~Li~~l~~nll~~r~--elF~~~~~vrPGILvLINd~DwEl~g~~~y~l~~~D~I~FiSTLHGG 96 (96)
T PF09138_consen 19 KHKVSLPSDGEPATIKDLIDYLRDNLLKERP--ELFLEGGSVRPGILVLINDADWELLGEEDYVLKDGDNITFISTLHGG 96 (96)
T ss_dssp EEEEEE-SSCSC-BHHHHHHHHCCCT-SSGH--HHHBSSSSB-TTEEEEETTCEHHHHTCCCSB--TTEEEEEEETTT--
T ss_pred eEEEEcCCCCCCcCHHHHHHHHHHhccCCCH--hHEecCCeEcCcEEEEEcCccceeecCcceEcCCCCEEEEEccCCCC
Confidence 3355555 678889998888774433311 12222444332 222 236789999999988777776
No 271
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=25.60 E-value=78 Score=18.04 Aligned_cols=20 Identities=40% Similarity=0.521 Sum_probs=14.0
Q ss_pred cccCCCCCCEEEEEeeecCC
Q 048514 70 DQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 70 ~~l~medgD~Idv~~~q~GG 89 (89)
.--+++.||.|.+.+.+.++
T Consensus 39 ~l~~l~~Gd~V~F~~~~~~~ 58 (70)
T PF11604_consen 39 DLAGLKPGDKVRFTFERTDD 58 (70)
T ss_dssp EESS-STT-EEEEEEEEETT
T ss_pred hhhcCCCCCEEEEEEEECCC
Confidence 44678999999998888654
No 272
>COG0363 NagB 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]
Probab=25.37 E-value=2.3e+02 Score=20.13 Aligned_cols=47 Identities=6% Similarity=0.036 Sum_probs=38.0
Q ss_pred EEEEEEeccchHHHHHHHHHhhh--CCCCCcEeEEECCeecCCCCCccc
Q 048514 25 PLYFEFRRDWEIKKLLITYCEKK--DAQYGTFPFLINGNRFPHIRTPDQ 71 (89)
Q Consensus 25 ~~~f~i~~~t~l~kL~~~y~~~~--g~~~~~~rF~fdG~~l~~~~Tp~~ 71 (89)
...+-+.-..+-..++++..++. +++.+.+.|++--+|+-+.+.|+|
T Consensus 33 ~~~l~LsgGsTP~~~ye~L~~~~~~~~~w~~v~~f~~DEr~vp~~~~~S 81 (238)
T COG0363 33 RAVLALSGGSTPLALYEALVKLPQGQLDWSKVTIFNLDERVVPPDDPES 81 (238)
T ss_pred cEEEEECCCCCHHHHHHHHHhhhccCCCchheEEEeccccccCCCCchh
Confidence 45666667777888999998877 689999999998888888777775
No 273
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=25.34 E-value=98 Score=18.46 Aligned_cols=51 Identities=12% Similarity=0.113 Sum_probs=28.5
Q ss_pred cchHHHHHHHHHh-hhCCCCC----cEeEEECCe----ecCCCCCccccCCCCCCEEEEE
Q 048514 33 DWEIKKLLITYCE-KKDAQYG----TFPFLINGN----RFPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 33 ~t~l~kL~~~y~~-~~g~~~~----~~rF~fdG~----~l~~~~Tp~~l~medgD~Idv~ 83 (89)
..+|+.|-+...+ +.|...- .-+++|+.. .-....+..+||+.+|.++.|.
T Consensus 8 ~~TL~~lv~~Vlk~~Lg~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 8 KMTLGDLVEKVLKKKLGMNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp T-BHHHHHHHCCCCCS--SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred hCcHHHHHHHHHHhccCCCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 4678888877754 5565332 345666633 3445678899999999998774
No 274
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=25.01 E-value=3e+02 Score=20.55 Aligned_cols=46 Identities=11% Similarity=0.107 Sum_probs=34.7
Q ss_pred CcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEE
Q 048514 12 HFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFL 57 (89)
Q Consensus 12 ~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~ 57 (89)
..-+|.|+-+||..+.-.+....+|..+-.-..-..+....-+.|.
T Consensus 209 s~crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~ 254 (290)
T KOG2689|consen 209 SQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFH 254 (290)
T ss_pred cceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeee
Confidence 4566777768999998888899999998777777777655444444
No 275
>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=24.96 E-value=42 Score=20.40 Aligned_cols=13 Identities=31% Similarity=0.414 Sum_probs=11.0
Q ss_pred ccCCCCCCEEEEE
Q 048514 71 QLGLKDGDEIVAT 83 (89)
Q Consensus 71 ~l~medgD~Idv~ 83 (89)
++=|+|||+|.+.
T Consensus 70 ~Yiv~DGDi~~f~ 82 (83)
T cd04867 70 DYVVQDGDIIFFK 82 (83)
T ss_pred ceEeeCCeEEEEE
Confidence 7789999999874
No 276
>smart00846 Gp_dh_N Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain. GAPDH is a tetrameric NAD-binding enzyme involved in glycolysis and glyconeogenesis. N-terminal domain is a Rossmann NAD(P) binding fold.
Probab=24.93 E-value=80 Score=20.69 Aligned_cols=34 Identities=21% Similarity=0.349 Sum_probs=24.3
Q ss_pred eEEECCeecC--CCCCccccCCCCCCEEEEEeeecCC
Q 048514 55 PFLINGNRFP--HIRTPDQLGLKDGDEIVATFYAGGA 89 (89)
Q Consensus 55 rF~fdG~~l~--~~~Tp~~l~medgD~Idv~~~q~GG 89 (89)
.|..+|+++. ....|.++...+-+ +|++++-+|.
T Consensus 62 ~l~i~g~~i~~~~~~~p~~~~w~~~g-vDiVie~tG~ 97 (149)
T smart00846 62 GLIVNGKKIKVLAERDPANLPWKELG-VDIVVECTGK 97 (149)
T ss_pred EEEECCEEEEEEecCChHHCcccccC-CeEEEecccc
Confidence 4788888765 46778888766544 7788887773
No 277
>PF07108 PipA: PipA protein; InterPro: IPR010777 This family consists of several Salmonella PipA (pathogenicity island-encoded protein A) and related phage sequences. PipA is thought to contribute to enteric but not to systemic salmonellosis [].
Probab=24.81 E-value=55 Score=22.60 Aligned_cols=51 Identities=16% Similarity=0.239 Sum_probs=35.5
Q ss_pred ccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEE
Q 048514 32 RDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVA 82 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv 82 (89)
.+-+|++||+.-.++.=.+.++=.++=-|+.....-|++++.+.+|--|-+
T Consensus 76 qs~TFRRLmNyAydkeL~DveqrWllgageaF~tTVt~E~~k~seGrkvIc 126 (200)
T PF07108_consen 76 QSETFRRLMNYAYDKELHDVEQRWLLGAGEAFETTVTQEHFKLSEGRKVIC 126 (200)
T ss_pred hhHHHHHHHHHHhhhhhhhhHHHhhhccchhhcccccHHHhhhccCceEEE
Confidence 346788888754444333444445555688889999999999999876543
No 278
>PF06491 Disulph_isomer: Disulphide isomerase; InterPro: IPR009474 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 3FHK_F.
Probab=24.80 E-value=1.7e+02 Score=19.35 Aligned_cols=36 Identities=22% Similarity=0.351 Sum_probs=19.3
Q ss_pred CCCCCCCcEEEEEEecCCCEEEEEEecc----------chHHHHHHHHH
Q 048514 6 DNIPDQHFINLVVKGQDNDPLYFEFRRD----------WEIKKLLITYC 44 (89)
Q Consensus 6 ~~~~~~~~I~i~v~~~~~~~~~f~i~~~----------t~l~kL~~~y~ 44 (89)
.-+|+++.|-|. .||+.++|-=+.. ..|...|+.||
T Consensus 91 ~~pPSSPS~ALf---KdGelvh~ieRh~IEGr~a~~Ia~~L~~af~~~C 136 (136)
T PF06491_consen 91 PYPPSSPSIALF---KDGELVHFIERHHIEGRPAEEIAENLQDAFDEYC 136 (136)
T ss_dssp TS---SSEEEEE---ETTEEEEEE-GGGTTTS-HHHHHHHHHHHHHHH-
T ss_pred CCCCCCchheee---eCCEEEEEeehhhcCCCCHHHHHHHHHHHHHhhC
Confidence 456788888876 5788777643322 34555566665
No 279
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=24.72 E-value=1.3e+02 Score=16.28 Aligned_cols=26 Identities=12% Similarity=0.078 Sum_probs=20.2
Q ss_pred HHHHHHHHHhhhCCCCCcEeEEECCe
Q 048514 36 IKKLLITYCEKKDAQYGTFPFLINGN 61 (89)
Q Consensus 36 l~kL~~~y~~~~g~~~~~~rF~fdG~ 61 (89)
...|-++.++..|.|..++...|+-.
T Consensus 21 ~~~it~a~~~~~~~p~~~v~V~i~ev 46 (60)
T PRK02289 21 AREVTEVVSRIAKAPKEAIHVFINDM 46 (60)
T ss_pred HHHHHHHHHHHhCcCcceEEEEEEEe
Confidence 34466888899999999998887643
No 280
>TIGR01748 rhaA L-rhamnose isomerase. This enzyme interconverts L-rhamnose and L-rhamnulose. In some species, including E. coli, this is the first step in rhamnose catabolism. Sequential steps are catalyzed by rhamnulose kinase (rhaB), then rhamnulose-1-phosphate aldolase (rhaD) to yield glycerone phosphate and (S)-lactaldehyde. Characterization of this family is based on members in E. coli and Salmonella.
Probab=24.62 E-value=59 Score=25.36 Aligned_cols=21 Identities=19% Similarity=0.493 Sum_probs=18.4
Q ss_pred ccchHHHHHHHHHhhhCCCCC
Q 048514 32 RDWEIKKLLITYCEKKDAQYG 52 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~ 52 (89)
++-|+..+.+.||.+.++|..
T Consensus 376 k~~p~gavw~~~c~~~~vp~~ 396 (414)
T TIGR01748 376 KSLPFGAVWEMYCERHGVPVG 396 (414)
T ss_pred hcCChHHHHHHHHHHcCCCCc
Confidence 467899999999999999864
No 281
>PF05688 DUF824: Salmonella repeat of unknown function (DUF824); InterPro: IPR008542 This family consists of a series of repeated sequences (of around 180 residues) which are found in Salmonella typhimurium, Salmonella typhi and Escherichia coli. These repeats are almost always found with this entry. The repeats are associated with RatA and RatB, the coding sequences of which are found in the pathogeneicity island of Salmonella. The sequences may be determinants of pathogenicity [, ].
Probab=24.61 E-value=1.1e+02 Score=16.48 Aligned_cols=23 Identities=22% Similarity=0.395 Sum_probs=15.0
Q ss_pred cEEEEEEecCCCEE---EEEEeccch
Q 048514 13 FINLVVKGQDNDPL---YFEFRRDWE 35 (89)
Q Consensus 13 ~I~i~v~~~~~~~~---~f~i~~~t~ 35 (89)
.++|.+.+.+|..+ .|.+.+.+.
T Consensus 16 ~ltVt~kda~G~pv~n~~f~l~r~~~ 41 (47)
T PF05688_consen 16 PLTVTVKDANGNPVPNAPFTLTRGDA 41 (47)
T ss_pred EEEEEEECCCCCCcCCceEEEEecCc
Confidence 45555566677765 688887654
No 282
>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=24.55 E-value=1.2e+02 Score=17.04 Aligned_cols=42 Identities=24% Similarity=0.301 Sum_probs=24.3
Q ss_pred hhhCCCCCcEeEEECCeecCCCCCccc-cC-CCCCCEEEEEeee
Q 048514 45 EKKDAQYGTFPFLINGNRFPHIRTPDQ-LG-LKDGDEIVATFYA 86 (89)
Q Consensus 45 ~~~g~~~~~~rF~fdG~~l~~~~Tp~~-l~-medgD~Idv~~~q 86 (89)
++.|+.....-+..||.++........ |. ...|+.+.+.+..
T Consensus 24 ~~aGL~~GDiI~~Ing~~v~~~~d~~~~l~~~~~g~~v~l~v~r 67 (79)
T cd00991 24 ENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTVLP 67 (79)
T ss_pred HhcCCCCCCEEEEECCEEcCCHHHHHHHHhcCCCCCEEEEEEEE
Confidence 445777778888888888874332221 11 2236666665554
No 283
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=24.54 E-value=2.4e+02 Score=23.70 Aligned_cols=63 Identities=17% Similarity=0.125 Sum_probs=37.3
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYAG 87 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 87 (89)
|.|-++.|.. +.+....+.-.+ ||+-+..+-....--.+||+++ |-+.-+++||+|++.....
T Consensus 406 V~VfTPkG~~--~~Lp~gaT~lDf--Ay~iHt~iG~~~~gAkvng~~v-----~l~~~L~~GD~VeIits~~ 468 (743)
T PRK10872 406 VYVFTPKGDV--VDLPAGSTPLDF--AYHIHSDVGHRCIGAKIGGRIV-----PFTYQLQMGDQIEIITQKQ 468 (743)
T ss_pred EEEECCCCCe--EEcCCCCcHHHH--HHHHhHHHHhhceEEEECCEEC-----CCCcCCCCCCEEEEEeCCC
Confidence 6667788875 444444444333 4444333323333335777654 5666789999999987643
No 284
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=24.37 E-value=89 Score=17.49 Aligned_cols=24 Identities=13% Similarity=0.375 Sum_probs=19.8
Q ss_pred HHHHHHHHhhhCCCCCcEeEEECC
Q 048514 37 KKLLITYCEKKDAQYGTFPFLING 60 (89)
Q Consensus 37 ~kL~~~y~~~~g~~~~~~rF~fdG 60 (89)
...-+.+|...|++...++.+|..
T Consensus 32 ~~~r~~la~~lgl~~~vvKVWfqN 55 (58)
T TIGR01565 32 REEVREFCEEIGVTRKVFKVWMHN 55 (58)
T ss_pred HHHHHHHHHHhCCCHHHeeeeccc
Confidence 346688999999999999998864
No 285
>COG2929 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.05 E-value=59 Score=20.17 Aligned_cols=28 Identities=7% Similarity=-0.021 Sum_probs=22.1
Q ss_pred HhhhCCCCCcEeEEECC-eecCCCCCccc
Q 048514 44 CEKKDAQYGTFPFLING-NRFPHIRTPDQ 71 (89)
Q Consensus 44 ~~~~g~~~~~~rF~fdG-~~l~~~~Tp~~ 71 (89)
++++|++.....+.|.+ ..|...+++.+
T Consensus 15 l~KHGv~F~da~~vf~d~~~vv~~d~~~~ 43 (93)
T COG2929 15 LEKHGVSFADAEGVFWDPDAVVVPDKRHS 43 (93)
T ss_pred HHHcCCCHHHhhhhhcCCceeeecccccc
Confidence 56789999888888877 77777777766
No 286
>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=23.76 E-value=1.8e+02 Score=17.75 Aligned_cols=57 Identities=9% Similarity=0.101 Sum_probs=38.6
Q ss_pred EEEEEEecC-CC-EEEEEEeccchHHHHHHHHHhhhCC-CCCcEeEE--ECCe--ecCCCCCcc
Q 048514 14 INLVVKGQD-ND-PLYFEFRRDWEIKKLLITYCEKKDA-QYGTFPFL--INGN--RFPHIRTPD 70 (89)
Q Consensus 14 I~i~v~~~~-~~-~~~f~i~~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~--~l~~~~Tp~ 70 (89)
|.+..++.+ |- ..++.|+++++.+.|=...|+++.+ .++.+.+. -||. +|.++.=|.
T Consensus 2 l~Va~q~~~sgct~KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd~~Pq 65 (87)
T cd01776 2 LRVAFQDVNSGCTGKTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPDTYPQ 65 (87)
T ss_pred eeEEeecCCCCceeeeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCcccccc
Confidence 455555443 32 3479999999999999999999999 45665433 3553 455555444
No 287
>PF10948 DUF2635: Protein of unknown function (DUF2635); InterPro: IPR024400 This family consists of uncharacterised proteins found in bacteria and bacteriophages. It includes protein Gp38 from Enterobacteria phage Mu.
Probab=23.72 E-value=49 Score=17.88 Aligned_cols=11 Identities=45% Similarity=0.622 Sum_probs=7.5
Q ss_pred CCCCCCEEEEE
Q 048514 73 GLKDGDEIVAT 83 (89)
Q Consensus 73 ~medgD~Idv~ 83 (89)
-|.|||++.+-
T Consensus 34 Rl~dGDV~~v~ 44 (47)
T PF10948_consen 34 RLADGDVVEVT 44 (47)
T ss_pred hhhcCCEEEec
Confidence 36788887764
No 288
>PF03514 GRAS: GRAS domain family; InterPro: IPR005202 Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable N terminus and a highly conserved C terminus that contains five recognizable motifs []. Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction []. GRAS proteins contain a conserved region of about 350 amino acids that can be divided in 5 motifs, found in the following order: leucine heptad repeat I, the VHIID motif, leucine heptad repeat II, the PFYRE motif and the SAW motif [, ]. Plant specific GRAS proteins have parallels in their motif structure to the animal Signal Transducers and Activators of Transcription (STAT) family of proteins [] which suggests also some parallels in their functions.
Probab=23.37 E-value=2.7e+02 Score=20.96 Aligned_cols=66 Identities=14% Similarity=0.150 Sum_probs=39.6
Q ss_pred CCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecC--CCCCccccCCCCCCEEEEE
Q 048514 10 DQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFP--HIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 10 ~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~--~~~Tp~~l~medgD~Idv~ 83 (89)
.+++++|...+..... ....-.....-...||+..|++ |-|...... ++-+|.+|.+.+|+.+-|.
T Consensus 138 gpp~LrIT~i~~~~~~---~~~~l~~~g~rL~~fA~~lgv~-----fef~~v~~~~~e~l~~~~l~~~~~E~laVn 205 (374)
T PF03514_consen 138 GPPSLRITGIGPPNSG---SADELQETGRRLAEFARSLGVP-----FEFHPVVVESLEDLDPSMLRLRPGEALAVN 205 (374)
T ss_pred CCCeEEEEeccCCCCC---cHHHHHHHHHHHHHHHHHcCcc-----EEEEecccCchhhCCHHHhCccCCcEEEEE
Confidence 3446666665532211 2222334445567899999875 555553222 3458899999999887664
No 289
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=23.31 E-value=1e+02 Score=15.98 Aligned_cols=27 Identities=22% Similarity=0.231 Sum_probs=21.1
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCCc
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYGT 53 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~ 53 (89)
.|.+.-+..+-.-++.+|+..|+|.+.
T Consensus 4 r~t~~l~~el~~~L~~ls~~t~i~~S~ 30 (44)
T PF12651_consen 4 RFTFSLDKELYEKLKELSEETGIPKSK 30 (44)
T ss_pred EEEEecCHHHHHHHHHHHHHHCCCHHH
Confidence 466666778888889999999998654
No 290
>COG0243 BisC Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]
Probab=23.22 E-value=38 Score=27.70 Aligned_cols=19 Identities=32% Similarity=0.477 Sum_probs=15.6
Q ss_pred CCCccccCCCCCCEEEEEe
Q 048514 66 IRTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 66 ~~Tp~~l~medgD~Idv~~ 84 (89)
-++.+.+|++|||.|.|.-
T Consensus 677 p~DA~~~GI~~GD~V~V~~ 695 (765)
T COG0243 677 PEDAAKLGIKDGDLVRVEN 695 (765)
T ss_pred HHHHHHcCCCcCCEEEEEc
Confidence 3467799999999998864
No 291
>PRK08577 hypothetical protein; Provisional
Probab=23.09 E-value=92 Score=19.80 Aligned_cols=29 Identities=14% Similarity=0.255 Sum_probs=19.0
Q ss_pred CCeecCCCCCccccCCCCCCEEEEEeeec
Q 048514 59 NGNRFPHIRTPDQLGLKDGDEIVATFYAG 87 (89)
Q Consensus 59 dG~~l~~~~Tp~~l~medgD~Idv~~~q~ 87 (89)
.|+-.-|-.--+.||++.||.++++.+--
T Consensus 12 ~g~i~ip~~~r~~l~~~~g~~~~~~~~~~ 40 (136)
T PRK08577 12 KGRITIPLEIREALGIREGMYVLLIADTD 40 (136)
T ss_pred CCeEEecHHHHHHcCcCCCCEEEEEEECC
Confidence 34444444555678888888888876543
No 292
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=23.06 E-value=56 Score=19.17 Aligned_cols=14 Identities=29% Similarity=0.596 Sum_probs=9.0
Q ss_pred ccCCCCCCEEEEEe
Q 048514 71 QLGLKDGDEIVATF 84 (89)
Q Consensus 71 ~l~medgD~Idv~~ 84 (89)
.++++.||+|+|.+
T Consensus 67 ~~g~~~Gd~V~v~l 80 (80)
T PF08922_consen 67 AIGKEAGDTVEVTL 80 (80)
T ss_dssp HHT--TTSEEEEEE
T ss_pred HcCCCCCCEEEEEC
Confidence 67788888888754
No 293
>PLN00047 photosystem II biogenesis protein Psb29; Provisional
Probab=23.05 E-value=35 Score=25.26 Aligned_cols=24 Identities=8% Similarity=0.149 Sum_probs=19.2
Q ss_pred ccchHHHHHHHHHhhhCCCCCcEe
Q 048514 32 RDWEIKKLLITYCEKKDAQYGTFP 55 (89)
Q Consensus 32 ~~t~l~kL~~~y~~~~g~~~~~~r 55 (89)
+......||++||.-.|.+++.+|
T Consensus 120 Pee~~~~IF~Alc~a~g~Dp~qyr 143 (283)
T PLN00047 120 SDEDRDAIFKAYIKALGEDPEQYR 143 (283)
T ss_pred ChHHHHHHHHHHHHHcCCCHHHHH
Confidence 567788899999999998876543
No 294
>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF. The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=22.98 E-value=54 Score=19.15 Aligned_cols=49 Identities=8% Similarity=-0.013 Sum_probs=25.8
Q ss_pred EEEEeccchHHHHHHHHHhhhCCCCCcEeEEEC--CeecCCCCCccccCCCCCCEEEEE
Q 048514 27 YFEFRRDWEIKKLLITYCEKKDAQYGTFPFLIN--GNRFPHIRTPDQLGLKDGDEIVAT 83 (89)
Q Consensus 27 ~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~~~Tp~~l~medgD~Idv~ 83 (89)
-+-+++.++...+-...-. .+. ..+.+-.. ++++.. +.-|+|||+|.+.
T Consensus 25 ~~~l~~g~tv~d~a~~IH~--d~~-~~F~~A~v~~~~~vg~-----d~~l~d~DVv~i~ 75 (76)
T cd04938 25 CVLVKKGTTVGDVARKIHG--DLE-KGFIEAVGGRRRLEGK-----DVILGKNDILKFK 75 (76)
T ss_pred eEEEcCCCCHHHHHHHHhH--HHH-hccEEEEEccCEEECC-----CEEecCCCEEEEE
Confidence 4666777766554333221 111 22332222 344443 6779999999875
No 295
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=22.70 E-value=1.9e+02 Score=17.40 Aligned_cols=34 Identities=15% Similarity=0.019 Sum_probs=29.3
Q ss_pred CCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeE
Q 048514 23 NDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPF 56 (89)
Q Consensus 23 ~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF 56 (89)
.+...|.|.+...=..+.++....+|+...+++-
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 4678999999999999999999999998766644
No 296
>KOG3529 consensus Radixin, moesin and related proteins of the ERM family [General function prediction only]
Probab=22.65 E-value=71 Score=26.03 Aligned_cols=45 Identities=16% Similarity=-0.011 Sum_probs=35.9
Q ss_pred CCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC
Q 048514 6 DNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY 51 (89)
Q Consensus 6 ~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~ 51 (89)
.....+..+..+|...+.... |.|.+.++.+.||+..|+..|+..
T Consensus 6 ~~~~~~~~~~~rv~~~d~e~~-~~i~~~~t~~~l~dlv~~~~glre 50 (596)
T KOG3529|consen 6 FVSKMTKPINVRVTTMDAELE-FAIQPKTTGKQLFDLVVKTIGLRE 50 (596)
T ss_pred ccccccCCcceeeeehhhhhh-hhhCcchhHHHHHHHHhccCCCch
Confidence 344455677777877776555 999999999999999999999754
No 297
>TIGR03479 DMSO_red_II_alp DMSO reductase family type II enzyme, molybdopterin subunit. This model represents the molybdopterin subunit, typically called the alpha subunit, of various proteins that also contain an iron-sulfur subunit and a heme b subunit. The group includes two distinct but very closely related periplasmic proteins of anaerobic respiration, selenate reductase and chlorate reductase. Other members of this family include dimethyl sulphide dehydrogenase, ethylbenzene dehydrogenase, and an archaeal respiratory nitrate reductase. This alpha subunit has a twin-arginine translocation (TAT) signal for Sec-independent translocation across the plasma membrane.
Probab=22.60 E-value=39 Score=28.43 Aligned_cols=18 Identities=28% Similarity=0.512 Sum_probs=14.9
Q ss_pred CCccccCCCCCCEEEEEe
Q 048514 67 RTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~ 84 (89)
++++.+|++|||.|+|+-
T Consensus 817 ~DA~~~GI~dGD~V~V~n 834 (912)
T TIGR03479 817 KDAAEKGIKDGDQVRIFN 834 (912)
T ss_pred HHHHHcCCCcCCEEEEEe
Confidence 456789999999999864
No 298
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=22.54 E-value=2.1e+02 Score=17.93 Aligned_cols=33 Identities=9% Similarity=0.127 Sum_probs=22.6
Q ss_pred EEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCC
Q 048514 14 INLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQ 50 (89)
Q Consensus 14 I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~ 50 (89)
|+|.+.+.+|....+.+....+|- ++ +.+.|++
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~tLl---~a-~~~~gi~ 33 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGMSLL---EA-AHENDIE 33 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCCcHH---HH-HHHcCCC
Confidence 577777788988888888776544 44 4445654
No 299
>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=22.28 E-value=68 Score=17.24 Aligned_cols=34 Identities=29% Similarity=0.524 Sum_probs=20.0
Q ss_pred cEeEEECCee-cCCC---CCccccCCCCCCEEEEEeee
Q 048514 53 TFPFLINGNR-FPHI---RTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 53 ~~rF~fdG~~-l~~~---~Tp~~l~medgD~Idv~~~q 86 (89)
.+.+.++|.. |... ..+..|++..||.+.+.+..
T Consensus 22 ~v~~~~~~~~~l~a~it~~~~~~L~L~~G~~V~~~ik~ 59 (64)
T PF03459_consen 22 EVTLDLGGGETLTARITPESAEELGLKPGDEVYASIKA 59 (64)
T ss_dssp EEEEEETTSEEEEEEEEHHHHHHCT-STT-EEEEEE-G
T ss_pred EEEEEECCCCEEEEEEcHHHHHHcCCCCCCEEEEEEeh
Confidence 3456666655 5533 44567888899988887653
No 300
>PF14370 Topo_C_assoc: C-terminal topoisomerase domain; PDB: 1TL8_A 1K4T_A 1A36_A 1RR8_C 1T8I_A 1SC7_A 1EJ9_A 1LPQ_A 1RRJ_A 1A31_A ....
Probab=22.23 E-value=59 Score=19.19 Aligned_cols=17 Identities=6% Similarity=0.593 Sum_probs=12.2
Q ss_pred HHHHHHHhhhCCCCCcE
Q 048514 38 KLLITYCEKKDAQYGTF 54 (89)
Q Consensus 38 kL~~~y~~~~g~~~~~~ 54 (89)
+|.-++|+++++|.+.+
T Consensus 34 RItvAWck~~~VPieKi 50 (71)
T PF14370_consen 34 RITVAWCKRHEVPIEKI 50 (71)
T ss_dssp HHHHHHHHHTT--GGGT
T ss_pred HHHHHHHHHhCCcHHHH
Confidence 46789999999998765
No 301
>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=22.18 E-value=93 Score=19.41 Aligned_cols=49 Identities=12% Similarity=0.101 Sum_probs=36.9
Q ss_pred CCCCCCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCC
Q 048514 2 EKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQY 51 (89)
Q Consensus 2 ~~~~~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~ 51 (89)
||.|...-..+.+.+.+.- +|..+.|-|.....-.-+=..+|++.|++.
T Consensus 5 ~~~~~~~~~~~~~~v~~~I-ng~~~~~LvDTGAs~s~Is~~~a~~lgl~~ 53 (124)
T cd05479 5 EHHPESFGKVPMLYINVEI-NGVPVKAFVDSGAQMTIMSKACAEKCGLMR 53 (124)
T ss_pred hcCcchhceeeEEEEEEEE-CCEEEEEEEeCCCceEEeCHHHHHHcCCcc
Confidence 4555544566777777764 788889999888888877788899999864
No 302
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=22.17 E-value=62 Score=19.30 Aligned_cols=27 Identities=22% Similarity=0.330 Sum_probs=17.1
Q ss_pred CeecCCCCCccccCCCCCCEEEEEeee
Q 048514 60 GNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 60 G~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
|+-+-+...=+-||++.||.++++..-
T Consensus 14 GqIvIPkeiR~~lgi~~Gd~lei~~~~ 40 (89)
T COG2002 14 GQIVIPKEIREALGIKEGDVLEIIVDG 40 (89)
T ss_pred ceEEecHHHHHHhCCCCCCEEEEEEeC
Confidence 555555555666777777777766543
No 303
>TIGR02166 dmsA_ynfE anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family. Members of this family include known and probable dimethyl sulfoxide reductase (DMSO reductase) A chains. In E. coli, dmsA encodes the canonical anaerobic DMSO reductase A chain. The paralog ynfE, as part of ynfFGH expressed from a multicopy plasmid, could complement a dmsABC deletion, suggesting a similar function and some overlap in specificity, although YnfE could not substitute for DmsA in a mixed complex.
Probab=22.10 E-value=39 Score=27.63 Aligned_cols=19 Identities=16% Similarity=0.216 Sum_probs=15.5
Q ss_pred CCccccCCCCCCEEEEEee
Q 048514 67 RTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~~ 85 (89)
++++.||++|||.|.|.-.
T Consensus 712 ~dA~~lGI~dGD~V~V~s~ 730 (797)
T TIGR02166 712 IDAQKRGITNGDMVRIFNS 730 (797)
T ss_pred HHHHHhCCCcCCEEEEEeC
Confidence 3577999999999988653
No 304
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=21.94 E-value=1.8e+02 Score=18.25 Aligned_cols=29 Identities=24% Similarity=0.237 Sum_probs=22.3
Q ss_pred CcEeEEECCeecCCCCCccccCCCCCCEEEEEee
Q 048514 52 GTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFY 85 (89)
Q Consensus 52 ~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 85 (89)
+.-+..+||.+..++. ..+.||+|++.+.
T Consensus 32 ~~GrV~vNG~~aKpS~-----~VK~GD~l~i~~~ 60 (100)
T COG1188 32 EGGRVKVNGQRAKPSK-----EVKVGDILTIRFG 60 (100)
T ss_pred HCCeEEECCEEccccc-----ccCCCCEEEEEeC
Confidence 4668899999997655 4578999988764
No 305
>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=21.89 E-value=1.9e+02 Score=17.24 Aligned_cols=49 Identities=16% Similarity=0.131 Sum_probs=33.5
Q ss_pred EEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCc--EeEEECCeecCCCC
Q 048514 17 VVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGT--FPFLINGNRFPHIR 67 (89)
Q Consensus 17 ~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~--~rF~fdG~~l~~~~ 67 (89)
+|.+.+ +...+-|- ...|+.|..+-|++++++... +.+.=||..|..++
T Consensus 6 kV~~~~-r~~k~GV~-A~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEe 56 (78)
T cd01615 6 KVCDSD-RSRKKGVA-ASSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEE 56 (78)
T ss_pred EEecCC-CCeeEEEE-cCCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHH
Confidence 454433 33455555 378999999999999995444 45555899997554
No 306
>CHL00030 rpl23 ribosomal protein L23
Probab=21.84 E-value=2e+02 Score=17.56 Aligned_cols=64 Identities=8% Similarity=-0.087 Sum_probs=43.3
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEE-ECCe--ecC--CCCCcc----ccCCCCCCEEEEEee
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFL-INGN--RFP--HIRTPD----QLGLKDGDEIVATFY 85 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~-fdG~--~l~--~~~Tp~----~l~medgD~Idv~~~ 85 (89)
+.+...|.|.+...=..+.++....+++...+++-+ ..|. |.. ...+|. =.-|.+|+.|+.+.+
T Consensus 18 e~n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~~~~k~kr~~~~~G~~~~~KKAiVtL~~g~~I~~~~~ 90 (93)
T CHL00030 18 EKNQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHRLPRKKRRMGPIMGHKMHYKRMIITLQPGYSIPLFRE 90 (93)
T ss_pred HCCEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEcCCCccccCCcccccCCcEEEEEEcCCcCEeccccc
Confidence 346789999999999999999999999987666432 2333 211 112222 255778888887644
No 307
>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=21.63 E-value=1.6e+02 Score=16.32 Aligned_cols=39 Identities=15% Similarity=0.233 Sum_probs=26.2
Q ss_pred CCCCCcEeEEECCeecCCCCCcc-ccC-CCCCCEEEEEeee
Q 048514 48 DAQYGTFPFLINGNRFPHIRTPD-QLG-LKDGDEIVATFYA 86 (89)
Q Consensus 48 g~~~~~~rF~fdG~~l~~~~Tp~-~l~-medgD~Idv~~~q 86 (89)
++.....-...||.++...+... -+. ...|+.+.+.+..
T Consensus 24 gL~~GD~I~~Ing~~v~~~~~~~~~l~~~~~~~~v~l~v~r 64 (79)
T cd00986 24 KLKAGDHIIAVDGKPFKEAEELIDYIQSKKEGDTVKLKVKR 64 (79)
T ss_pred CCCCCCEEEEECCEECCCHHHHHHHHHhCCCCCEEEEEEEE
Confidence 68888888999999998543332 121 3467777776654
No 308
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=21.09 E-value=97 Score=22.85 Aligned_cols=27 Identities=30% Similarity=0.495 Sum_probs=23.3
Q ss_pred CCcEeEEECCeecCCCCCccccCCCCC
Q 048514 51 YGTFPFLINGNRFPHIRTPDQLGLKDG 77 (89)
Q Consensus 51 ~~~~rF~fdG~~l~~~~Tp~~l~medg 77 (89)
++.+.|+++|..|.-+-+|.++|=..|
T Consensus 194 PSDIs~~iNg~kig~WTsPgDfGDkrG 220 (308)
T COG4189 194 PSDISFYINGVKIGIWTSPGDFGDKRG 220 (308)
T ss_pred CcceEEEECCEEEeeecCCcccccCCC
Confidence 678999999999999999998875544
No 309
>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=21.03 E-value=3e+02 Score=22.73 Aligned_cols=63 Identities=17% Similarity=0.162 Sum_probs=36.8
Q ss_pred EEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCCCCCEEEEEeee
Q 048514 15 NLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLKDGDEIVATFYA 86 (89)
Q Consensus 15 ~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 86 (89)
.|.|-++.|..+ .+....+.-.+ ||+-+..+-.....-..||+++ |-+.-+++||+|++...-
T Consensus 361 ~i~vfTPkG~~~--~lp~gst~~Df--Ay~ih~~~g~~~~~a~vng~~v-----~l~~~l~~gd~vei~t~~ 423 (683)
T TIGR00691 361 EIYVFTPKGDVV--ELPSGSTPVDF--AYAVHTDVGNKCTGAKVNGKIV-----PLDKELENGDVVEIITGK 423 (683)
T ss_pred ceEEECCCCeEE--EcCCCCCHHHH--HHHHhHHhHhceeEEEECCEEC-----CCCccCCCCCEEEEEeCC
Confidence 455566777764 44444443332 4444433333444445777755 456678999999998654
No 310
>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=21.00 E-value=2.3e+02 Score=20.53 Aligned_cols=49 Identities=8% Similarity=0.065 Sum_probs=33.7
Q ss_pred cCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcEeEEECCeecCCCCCccccCCC
Q 048514 21 QDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTFPFLINGNRFPHIRTPDQLGLK 75 (89)
Q Consensus 21 ~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~me 75 (89)
.+|+.+.++=..|.|+.++...+ . ....|+.|-|.-...+..+-++|.|
T Consensus 58 ~~Gr~laLRpD~T~~iAR~~a~~---~---~~~~Rl~Y~g~VfR~~~~~~Q~GvE 106 (272)
T PRK12294 58 HEHQIYALRNDFTDQLLRYYSMY---P---TAATKVAYAGLIIRNNEAAVQVGIE 106 (272)
T ss_pred CCCCEEEEcCCCCHHHHHHHHhc---C---CCCceEEEeccEeccCCCcceeceE
Confidence 46888888888888888875433 1 1234999999888766555455544
No 311
>PF09668 Asp_protease: Aspartyl protease; InterPro: IPR019103 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This family of eukaryotic aspartyl proteases have a fold similar to retroviral proteases which implies they function proteolytically during regulated protein turnover []. ; GO: 0004190 aspartic-type endopeptidase activity, 0006508 proteolysis; PDB: 3S8I_A 2I1A_B.
Probab=20.83 E-value=50 Score=21.32 Aligned_cols=49 Identities=14% Similarity=0.132 Sum_probs=25.1
Q ss_pred CCCCCCCCCCCCcEEEEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCC
Q 048514 1 MEKSPDNIPDQHFINLVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQ 50 (89)
Q Consensus 1 ~~~~~~~~~~~~~I~i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~ 50 (89)
||+.|+.-.....+.|.+.- +|.++.--|.......-+=...|++.|+.
T Consensus 12 ~e~~PE~f~~v~mLyI~~~i-ng~~vkA~VDtGAQ~tims~~~a~r~gL~ 60 (124)
T PF09668_consen 12 MEHSPESFGQVSMLYINCKI-NGVPVKAFVDTGAQSTIMSKSCAERCGLM 60 (124)
T ss_dssp --------------EEEEEE-TTEEEEEEEETT-SS-EEEHHHHHHTTGG
T ss_pred HHhCcHhhcCcceEEEEEEE-CCEEEEEEEeCCCCccccCHHHHHHcCCh
Confidence 56777777666777777764 78888888887777766667888888874
No 312
>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=20.80 E-value=1.8e+02 Score=16.78 Aligned_cols=46 Identities=13% Similarity=0.136 Sum_probs=32.6
Q ss_pred CCCEEEEEEeccchHHHHHHHHHhhhCCC----CCcEeEEECCeecCCCC
Q 048514 22 DNDPLYFEFRRDWEIKKLLITYCEKKDAQ----YGTFPFLINGNRFPHIR 67 (89)
Q Consensus 22 ~~~~~~f~i~~~t~l~kL~~~y~~~~g~~----~~~~rF~fdG~~l~~~~ 67 (89)
+|+.+.|-|.......-|-...+.+.+.+ .+.--..++|.++...-
T Consensus 8 ng~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~~~G 57 (91)
T cd05484 8 NGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLSVLG 57 (91)
T ss_pred CCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEeeEeE
Confidence 67888899988888888877777777764 23344566787766443
No 313
>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=20.79 E-value=1.4e+02 Score=17.27 Aligned_cols=31 Identities=19% Similarity=0.096 Sum_probs=25.6
Q ss_pred chHHHHHHHHHhhhCCCCCcEeEEECCeecCC
Q 048514 34 WEIKKLLITYCEKKDAQYGTFPFLINGNRFPH 65 (89)
Q Consensus 34 t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~ 65 (89)
.+|+.|++.=++++|.+ .+..|.=||-.|.+
T Consensus 26 ~SleeLl~ia~~kfg~~-~~~v~~~dgaeIdD 56 (69)
T PF11834_consen 26 DSLEELLKIASEKFGFS-ATKVLNEDGAEIDD 56 (69)
T ss_pred ccHHHHHHHHHHHhCCC-ceEEEcCCCCEEeE
Confidence 79999999999999997 56567777877764
No 314
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=20.59 E-value=18 Score=22.26 Aligned_cols=25 Identities=0% Similarity=-0.032 Sum_probs=19.2
Q ss_pred HHHHhhhCCCCCcEeEEECCeecCC
Q 048514 41 ITYCEKKDAQYGTFPFLINGNRFPH 65 (89)
Q Consensus 41 ~~y~~~~g~~~~~~rF~fdG~~l~~ 65 (89)
..+|++.|++.+++||+-.=-.|.+
T Consensus 4 ~eva~~~gis~~tlR~ye~~GLi~p 28 (108)
T cd01107 4 GEFAKLSNLSIKALRYYDKIGLLKP 28 (108)
T ss_pred HHHHHHHCcCHHHHHHHHHcCCCCC
Confidence 5678999999999998877444544
No 315
>PF05486 SRP9-21: Signal recognition particle 9 kDa protein (SRP9); InterPro: IPR008832 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the 9 kDa SRP9 component. Both SRP9 and SRP14 have the same (beta)-alpha-beta(3)-alpha fold. The heterodimer has pseudo two-fold symmetry and is saddle-like, consisting of a curved six-stranded beta-sheet that has four helices packed on the convex side and an exposed concave surface lined with positively charged residues. The SRP9/SRP14 heterodimer is essential for SRP RNA binding, mediating the pausing of synthesis of ribosome associated nascent polypeptides that have been engaged by the targeting domain of SRP [].; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0045900 negative regulation of translational elongation, 0048500 signal recognition particle; PDB: 1E8O_A 1RY1_C.
Probab=20.51 E-value=2e+02 Score=16.93 Aligned_cols=35 Identities=11% Similarity=0.100 Sum_probs=24.9
Q ss_pred CCCCcEEEEEEecC-CCEEEEEEeccchHHHHHHHH
Q 048514 9 PDQHFINLVVKGQD-NDPLYFEFRRDWEIKKLLITY 43 (89)
Q Consensus 9 ~~~~~I~i~v~~~~-~~~~~f~i~~~t~l~kL~~~y 43 (89)
+....|.+++.+.. |.-+.|+.....-+++|...-
T Consensus 36 ~~~~~l~lK~td~~~g~clKykT~k~~dv~Rl~~~~ 71 (79)
T PF05486_consen 36 PPTGKLVLKTTDPHSGVCLKYKTDKAKDVSRLESFL 71 (79)
T ss_dssp -TTTBEEEEEE-SS---EEEEEE-SGGGHHHHHHHH
T ss_pred CCCceEEEEEeCCCceeEEEEEeCHHHHHHHHHHHH
Confidence 46788999998753 668899999999999987643
No 316
>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=20.45 E-value=86 Score=17.28 Aligned_cols=21 Identities=14% Similarity=0.159 Sum_probs=12.1
Q ss_pred hhCCCCCcEeEEECCeecCCC
Q 048514 46 KKDAQYGTFPFLINGNRFPHI 66 (89)
Q Consensus 46 ~~g~~~~~~rF~fdG~~l~~~ 66 (89)
..|.|.-.+..+.+|.+|...
T Consensus 10 ~~G~P~p~i~W~k~g~~i~~~ 30 (76)
T cd05867 10 VEGIPTPNITWSINGAPIEGT 30 (76)
T ss_pred eeEeCCCeEEEEECCEECCCC
Confidence 345554466666677766543
No 317
>TIGR00509 bisC_fam molybdopterin guanine dinucleotide-containing S/N-oxide reductases. This enzyme family shares sequence similarity and a requirement for a molydenum cofactor as the only prosthetic group. The form of the cofactor is a single molybdenum atom coordinated by two molybdopterin guanine dinucleotide molecules. Members of the family include biotin sulfoxide reductase, dimethylsulfoxide reductase, and trimethylamine-N-oxide reductase, although a single member may show all those activities and related activities; it may not be possible to resolve the primary function for members of this family by sequence comparison alone. A number of similar molybdoproteins in which the N-terminal region contains a CXXXC motif and may bind an iron-sulfur cluster are excluded from this set, including formate dehydrogenases and nitrate reductases. Also excluded is the A chain of a heteromeric, anaerobic DMSO reductase, which also contains the CXXXC motif.
Probab=20.44 E-value=46 Score=27.26 Aligned_cols=18 Identities=22% Similarity=0.289 Sum_probs=14.9
Q ss_pred CCccccCCCCCCEEEEEe
Q 048514 67 RTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~ 84 (89)
++++.+|++|||.|.|.-
T Consensus 664 ~dA~~~GI~dGD~V~V~s 681 (770)
T TIGR00509 664 DDAAARGIADGDIVRVFN 681 (770)
T ss_pred HHHHHcCCCCCCEEEEEC
Confidence 456789999999998864
No 318
>PRK14990 anaerobic dimethyl sulfoxide reductase subunit A; Provisional
Probab=20.39 E-value=46 Score=27.42 Aligned_cols=18 Identities=17% Similarity=0.339 Sum_probs=14.9
Q ss_pred CCccccCCCCCCEEEEEe
Q 048514 67 RTPDQLGLKDGDEIVATF 84 (89)
Q Consensus 67 ~Tp~~l~medgD~Idv~~ 84 (89)
++++.+|++|||.|.|+-
T Consensus 729 ~dA~~~GI~dGD~V~V~n 746 (814)
T PRK14990 729 LDAQKRGINNGDKVRIFN 746 (814)
T ss_pred HHHHHcCCCCCCEEEEEc
Confidence 346789999999999864
No 319
>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=20.37 E-value=2.1e+02 Score=17.03 Aligned_cols=55 Identities=13% Similarity=0.048 Sum_probs=39.3
Q ss_pred EEEEecCCCEEEEEEeccchHHHHHHHHHhhhCCCCCcE-eEEE-CCe---ecCCCCCcc
Q 048514 16 LVVKGQDNDPLYFEFRRDWEIKKLLITYCEKKDAQYGTF-PFLI-NGN---RFPHIRTPD 70 (89)
Q Consensus 16 i~v~~~~~~~~~f~i~~~t~l~kL~~~y~~~~g~~~~~~-rF~f-dG~---~l~~~~Tp~ 70 (89)
|++.-++.+.-.+.+++..++..-..+--++.|+.++.+ .|.. +|. ..-+++|-.
T Consensus 2 ir~~LPnqQrT~V~vrpG~tl~daL~KaLk~R~l~pe~C~V~~~~~~~~~~~~i~W~td~ 61 (74)
T cd01816 2 IRVFLPNKQRTVVNVRPGMTLRDALAKALKVRGLQPECCAVFRLGDGSSKKLRIDWDTDI 61 (74)
T ss_pred eeEECCCCCeEEEEecCCcCHHHHHHHHHHHcCCChhHeEEEEcCCCcccccccchhhhh
Confidence 445556777778999999999998888889999988766 4555 453 333455533
No 320
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=20.30 E-value=1.6e+02 Score=15.63 Aligned_cols=23 Identities=17% Similarity=0.215 Sum_probs=16.8
Q ss_pred HHHHHHHHhhhCCCCCcEeEEEC
Q 048514 37 KKLLITYCEKKDAQYGTFPFLIN 59 (89)
Q Consensus 37 ~kL~~~y~~~~g~~~~~~rF~fd 59 (89)
..|-++.++..|++.+.+...|.
T Consensus 22 ~~it~~l~~~~~~p~~~v~V~i~ 44 (61)
T PRK02220 22 KDVTAAVSKNTGAPAEHIHVIIN 44 (61)
T ss_pred HHHHHHHHHHhCcChhhEEEEEE
Confidence 33556778899999888876663
No 321
>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=20.13 E-value=1.3e+02 Score=18.17 Aligned_cols=32 Identities=13% Similarity=0.046 Sum_probs=24.1
Q ss_pred EeccchHHHHHHHHHhhhCCCCC-cEeEEECCe
Q 048514 30 FRRDWEIKKLLITYCEKKDAQYG-TFPFLINGN 61 (89)
Q Consensus 30 i~~~t~l~kL~~~y~~~~g~~~~-~~rF~fdG~ 61 (89)
+.+++|+...+.++.+..|+... .+.|..+|.
T Consensus 1 l~~~D~l~~~K~~lL~~~gl~~~~~f~l~~~~~ 33 (128)
T PF09273_consen 1 LSPSDPLFEEKKQLLEEHGLSGDQTFDLRADGP 33 (128)
T ss_dssp --TTSTTHHHHHHHHHHTTS-SEEEEEEECCSS
T ss_pred CCchhhhHHHHHHHHHHCCCCCCceeeeeCCCC
Confidence 35678888899999999999766 677777776
No 322
>cd00660 Topoisomer_IB_N Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit re-ligation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. In addition to differences in structure and some biochemical properties, Trypanosomatid parasite topo I diffe
Probab=20.12 E-value=74 Score=22.66 Aligned_cols=16 Identities=13% Similarity=0.123 Sum_probs=13.4
Q ss_pred CCcEeEEECCeecCCC
Q 048514 51 YGTFPFLINGNRFPHI 66 (89)
Q Consensus 51 ~~~~rF~fdG~~l~~~ 66 (89)
+..++|+|||++|.-+
T Consensus 20 P~~Vk~~YdG~pv~L~ 35 (215)
T cd00660 20 PKNVKFYYDGKPVKLP 35 (215)
T ss_pred cCCCCEEECCEECcCC
Confidence 4689999999999754
No 323
>PF14268 YoaP: YoaP-like
Probab=20.08 E-value=1.2e+02 Score=16.16 Aligned_cols=21 Identities=14% Similarity=0.363 Sum_probs=15.9
Q ss_pred hhCCCCCcEeEEECCeecCCC
Q 048514 46 KKDAQYGTFPFLINGNRFPHI 66 (89)
Q Consensus 46 ~~g~~~~~~rF~fdG~~l~~~ 66 (89)
..-.+..++.+.|+|+-+..+
T Consensus 15 ~~P~pft~yalFYnGkfiT~e 35 (44)
T PF14268_consen 15 NAPCPFTTYALFYNGKFITNE 35 (44)
T ss_pred cCCCceeEEEEEECCEEEEee
Confidence 334467899999999988643
No 324
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=20.02 E-value=1.3e+02 Score=22.39 Aligned_cols=31 Identities=29% Similarity=0.470 Sum_probs=21.7
Q ss_pred eEEECCee---cCCCCC-ccccCCCCCCEEEEEee
Q 048514 55 PFLINGNR---FPHIRT-PDQLGLKDGDEIVATFY 85 (89)
Q Consensus 55 rF~fdG~~---l~~~~T-p~~l~medgD~Idv~~~ 85 (89)
-|+.+|.- |-...+ |++=.++.||+|.|++.
T Consensus 21 ~fL~~~~~~~~ilL~k~~~~~~e~evGdev~vFiY 55 (287)
T COG2996 21 YFLDAGEDGTTILLPKSEPEEDELEVGDEVTVFIY 55 (287)
T ss_pred EEEecCCCceEEeccccCCcCCccccCcEEEEEEE
Confidence 46665443 444444 78888999999999875
Done!