Query 045424
Match_columns 98
No_of_seqs 116 out of 515
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 13:06:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045424.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045424hhsearch_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 3.9E-33 8.5E-38 180.2 11.4 81 14-94 18-98 (99)
2 COG5227 SMT3 Ubiquitin-like pr 100.0 6E-31 1.3E-35 167.8 6.0 87 8-94 15-102 (103)
3 cd01763 Sumo Small ubiquitin-r 100.0 4.4E-28 9.4E-33 153.7 11.5 84 9-92 4-87 (87)
4 PF11976 Rad60-SLD: Ubiquitin- 99.9 4.5E-24 9.8E-29 129.8 8.0 71 17-87 1-72 (72)
5 cd01806 Nedd8 Nebb8-like ubiq 99.7 1.5E-15 3.2E-20 92.4 9.4 76 17-92 1-76 (76)
6 cd01803 Ubiquitin Ubiquitin. U 99.5 2.8E-13 6E-18 82.3 9.3 76 17-92 1-76 (76)
7 PTZ00044 ubiquitin; Provisiona 99.5 3.5E-13 7.6E-18 82.4 9.4 76 17-92 1-76 (76)
8 cd01802 AN1_N ubiquitin-like d 99.5 1.2E-12 2.7E-17 85.5 10.2 80 13-92 24-103 (103)
9 cd01810 ISG15_repeat2 ISG15 ub 99.5 9.3E-13 2E-17 80.6 9.0 74 19-92 1-74 (74)
10 cd01793 Fubi Fubi ubiquitin-li 99.4 2E-12 4.3E-17 79.1 9.3 74 17-92 1-74 (74)
11 cd01804 midnolin_N Ubiquitin-l 99.4 3.2E-12 7E-17 79.3 9.6 77 16-93 1-77 (78)
12 cd01807 GDX_N ubiquitin-like d 99.4 2.8E-12 6E-17 78.4 8.9 73 17-89 1-73 (74)
13 cd01809 Scythe_N Ubiquitin-lik 99.4 5.2E-12 1.1E-16 75.9 8.9 71 17-87 1-71 (72)
14 PF00240 ubiquitin: Ubiquitin 99.4 5.8E-12 1.2E-16 75.4 7.7 68 23-90 2-69 (69)
15 cd01805 RAD23_N Ubiquitin-like 99.3 1.9E-11 4.1E-16 74.7 9.4 73 17-89 1-75 (77)
16 cd01791 Ubl5 UBL5 ubiquitin-li 99.3 1.6E-11 3.6E-16 75.6 9.1 71 17-87 2-72 (73)
17 cd01798 parkin_N amino-termina 99.3 3.2E-11 7E-16 72.9 8.4 69 19-87 1-69 (70)
18 cd01797 NIRF_N amino-terminal 99.3 3.4E-11 7.5E-16 74.9 8.6 74 17-90 1-76 (78)
19 cd01812 BAG1_N Ubiquitin-like 99.3 3.2E-11 7E-16 72.4 7.8 70 17-87 1-70 (71)
20 cd01792 ISG15_repeat1 ISG15 ub 99.2 8.8E-11 1.9E-15 72.9 8.3 73 17-89 3-77 (80)
21 cd01794 DC_UbP_C dendritic cel 99.2 1E-10 2.2E-15 71.4 8.3 69 19-87 1-69 (70)
22 cd01808 hPLIC_N Ubiquitin-like 99.2 1.4E-10 3.1E-15 70.3 8.8 71 17-88 1-71 (71)
23 cd01800 SF3a120_C Ubiquitin-li 99.2 1.2E-10 2.6E-15 71.7 8.1 69 25-93 6-74 (76)
24 smart00213 UBQ Ubiquitin homol 99.1 4.7E-10 1E-14 65.4 7.5 64 17-81 1-64 (64)
25 cd01769 UBL Ubiquitin-like dom 99.0 2.5E-09 5.4E-14 63.0 8.3 67 21-87 2-68 (69)
26 cd01796 DDI1_N DNA damage indu 99.0 2.2E-09 4.8E-14 65.3 7.7 67 20-86 2-70 (71)
27 KOG0005 Ubiquitin-like protein 98.9 2.4E-09 5.3E-14 64.1 5.0 68 18-85 2-69 (70)
28 TIGR00601 rad23 UV excision re 98.8 2.6E-08 5.7E-13 77.8 9.1 73 17-89 1-76 (378)
29 cd01790 Herp_N Homocysteine-re 98.8 4.5E-08 9.9E-13 61.3 8.5 72 16-87 1-78 (79)
30 cd01799 Hoil1_N Ubiquitin-like 98.8 9.3E-08 2E-12 59.1 8.1 63 24-87 10-74 (75)
31 KOG0003 Ubiquitin/60s ribosoma 98.7 2.4E-09 5.2E-14 70.8 0.7 77 19-95 3-79 (128)
32 cd01813 UBP_N UBP ubiquitin pr 98.7 1.1E-07 2.4E-12 58.5 7.9 68 18-86 2-72 (74)
33 KOG0010 Ubiquitin-like protein 98.6 1.3E-07 2.8E-12 75.7 7.4 76 14-90 13-88 (493)
34 cd01815 BMSC_UbP_N Ubiquitin-l 98.5 5.9E-07 1.3E-11 55.8 5.6 52 36-87 20-74 (75)
35 cd00196 UBQ Ubiquitin-like pro 98.4 2.9E-06 6.3E-11 46.5 7.8 64 24-87 5-68 (69)
36 cd01814 NTGP5 Ubiquitin-like N 98.4 1.8E-06 3.8E-11 57.4 6.6 75 15-89 3-91 (113)
37 KOG0004 Ubiquitin/40S ribosoma 98.3 1.1E-06 2.4E-11 61.2 4.3 79 18-96 2-80 (156)
38 cd01789 Alp11_N Ubiquitin-like 98.3 9.9E-06 2.1E-10 50.8 8.3 70 17-86 2-79 (84)
39 PF11543 UN_NPL4: Nuclear pore 98.2 3.4E-06 7.3E-11 52.8 5.3 70 15-85 3-77 (80)
40 PLN02560 enoyl-CoA reductase 98.1 1.9E-05 4.2E-10 60.3 8.1 70 17-86 1-81 (308)
41 PF14560 Ubiquitin_2: Ubiquiti 98.0 4.9E-05 1.1E-09 47.6 7.8 70 17-86 2-81 (87)
42 cd01801 Tsc13_N Ubiquitin-like 97.9 8.6E-05 1.9E-09 45.5 6.7 52 34-85 20-74 (77)
43 KOG0011 Nucleotide excision re 97.9 6.1E-05 1.3E-09 58.1 7.2 75 17-91 1-77 (340)
44 PF11470 TUG-UBL1: GLUT4 regul 97.8 0.00018 3.9E-09 43.5 6.7 63 22-84 2-64 (65)
45 cd01795 USP48_C USP ubiquitin- 97.7 0.00022 4.8E-09 46.7 6.4 62 27-88 15-77 (107)
46 KOG4248 Ubiquitin-like protein 97.7 0.00017 3.6E-09 62.4 7.2 73 17-90 3-75 (1143)
47 PF13881 Rad60-SLD_2: Ubiquiti 97.6 0.001 2.2E-08 44.0 9.2 75 15-89 1-89 (111)
48 PF08817 YukD: WXG100 protein 97.6 0.00034 7.4E-09 43.1 5.9 70 16-85 2-78 (79)
49 KOG0001 Ubiquitin and ubiquiti 97.5 0.004 8.7E-08 35.6 10.0 71 20-90 3-73 (75)
50 PF00789 UBX: UBX domain; Int 97.4 0.0028 6E-08 38.8 8.5 75 12-86 2-81 (82)
51 cd00754 MoaD Ubiquitin domain 96.8 0.016 3.4E-07 35.0 7.5 60 28-92 17-80 (80)
52 PRK08364 sulfur carrier protei 96.7 0.021 4.6E-07 34.4 7.8 66 17-92 5-70 (70)
53 cd01774 Faf1_like2_UBX Faf1 ik 96.7 0.044 9.6E-07 34.4 9.4 71 15-86 3-83 (85)
54 smart00166 UBX Domain present 96.6 0.039 8.5E-07 33.8 8.6 71 15-85 3-78 (80)
55 COG5417 Uncharacterized small 96.4 0.036 7.7E-07 34.6 7.3 69 17-85 7-80 (81)
56 PRK06488 sulfur carrier protei 96.4 0.025 5.5E-07 33.3 6.5 64 18-92 2-65 (65)
57 PRK06437 hypothetical protein; 96.3 0.04 8.7E-07 33.0 7.2 59 25-92 9-67 (67)
58 cd01811 OASL_repeat1 2'-5' oli 96.3 0.059 1.3E-06 33.6 7.7 68 17-85 1-73 (80)
59 cd06409 PB1_MUG70 The MUG70 pr 96.2 0.022 4.8E-07 36.2 5.7 49 18-66 2-56 (86)
60 PRK07440 hypothetical protein; 96.2 0.056 1.2E-06 32.7 7.2 68 15-92 3-70 (70)
61 cd01767 UBX UBX (ubiquitin reg 96.1 0.14 3E-06 31.0 8.9 67 16-83 2-73 (77)
62 KOG0006 E3 ubiquitin-protein l 96.1 0.018 3.9E-07 44.9 5.9 59 28-86 15-73 (446)
63 smart00455 RBD Raf-like Ras-bi 95.9 0.076 1.6E-06 32.2 6.9 57 19-75 2-60 (70)
64 TIGR01687 moaD_arch MoaD famil 95.9 0.12 2.5E-06 31.9 8.0 62 27-92 16-88 (88)
65 PF13019 Telomere_Sde2: Telome 95.9 0.1 2.2E-06 36.8 8.3 77 17-93 1-89 (162)
66 KOG3493 Ubiquitin-like protein 95.8 0.0049 1.1E-07 37.5 1.3 71 17-87 2-72 (73)
67 cd01770 p47_UBX p47-like ubiqu 95.8 0.23 5.1E-06 30.6 9.0 69 16-84 4-76 (79)
68 PF12436 USP7_ICP0_bdg: ICP0-b 95.7 0.053 1.1E-06 40.1 6.9 77 13-89 65-153 (249)
69 PRK06944 sulfur carrier protei 95.6 0.14 3.1E-06 29.8 7.2 60 25-92 6-65 (65)
70 PRK05863 sulfur carrier protei 95.5 0.084 1.8E-06 31.3 5.9 60 25-92 6-65 (65)
71 cd01771 Faf1_UBX Faf1 UBX doma 95.4 0.35 7.6E-06 29.9 8.7 71 15-86 3-78 (80)
72 PRK05659 sulfur carrier protei 95.3 0.15 3.3E-06 29.8 6.7 61 25-92 6-66 (66)
73 cd01773 Faf1_like1_UBX Faf1 ik 95.3 0.35 7.6E-06 30.4 8.6 69 17-86 6-79 (82)
74 smart00666 PB1 PB1 domain. Pho 95.3 0.11 2.4E-06 31.4 6.1 45 17-62 2-46 (81)
75 PRK06083 sulfur carrier protei 95.1 0.17 3.7E-06 31.8 6.7 67 16-92 18-84 (84)
76 PRK08053 sulfur carrier protei 95.0 0.24 5.2E-06 29.3 6.9 61 25-92 6-66 (66)
77 cd01760 RBD Ubiquitin-like dom 95.0 0.26 5.7E-06 30.1 7.2 65 19-86 2-70 (72)
78 PF10302 DUF2407: DUF2407 ubiq 94.2 0.21 4.6E-06 32.2 5.7 55 16-71 2-60 (97)
79 TIGR01682 moaD molybdopterin c 94.2 0.51 1.1E-05 28.6 7.2 60 28-92 17-80 (80)
80 PLN02799 Molybdopterin synthas 94.0 0.25 5.3E-06 30.1 5.5 61 27-92 19-82 (82)
81 PF00564 PB1: PB1 domain; Int 94.0 0.41 9E-06 28.8 6.5 45 17-61 2-46 (84)
82 TIGR01683 thiS thiamine biosyn 93.6 0.42 9E-06 28.0 5.8 61 25-92 4-64 (64)
83 cd01772 SAKS1_UBX SAKS1-like U 93.6 1 2.2E-05 27.6 9.3 69 16-85 4-77 (79)
84 cd06406 PB1_P67 A PB1 domain i 93.6 0.2 4.2E-06 31.5 4.4 44 17-62 3-46 (80)
85 PRK07696 sulfur carrier protei 93.5 0.78 1.7E-05 27.3 6.9 65 18-92 2-67 (67)
86 cd00565 ThiS ThiaminS ubiquiti 93.2 0.35 7.7E-06 28.3 5.1 61 25-92 5-65 (65)
87 PF02597 ThiS: ThiS family; I 93.2 0.27 5.8E-06 29.1 4.6 63 28-92 13-77 (77)
88 PF02196 RBD: Raf-like Ras-bin 93.1 1.1 2.4E-05 27.1 7.2 58 19-76 3-62 (71)
89 KOG3439 Protein conjugation fa 92.9 0.81 1.8E-05 30.5 6.8 65 14-78 28-98 (116)
90 PF14451 Ub-Mut7C: Mut7-C ubiq 92.7 0.71 1.5E-05 28.8 6.0 54 26-88 22-76 (81)
91 PF04110 APG12: Ubiquitin-like 92.5 0.37 8E-06 30.7 4.7 60 16-75 1-66 (87)
92 cd06407 PB1_NLP A PB1 domain i 92.5 0.65 1.4E-05 29.0 5.8 50 17-67 1-54 (82)
93 PF03671 Ufm1: Ubiquitin fold 92.4 1.2 2.5E-05 27.6 6.5 58 28-85 17-75 (76)
94 cd06396 PB1_NBR1 The PB1 domai 92.4 0.74 1.6E-05 28.9 5.8 48 17-67 1-53 (81)
95 cd01818 TIAM1_RBD Ubiquitin do 92.3 0.68 1.5E-05 28.9 5.5 43 20-62 3-47 (77)
96 cd01766 Ufm1 Urm1-like ubiquit 92.2 0.97 2.1E-05 28.2 6.1 60 29-88 18-78 (82)
97 cd06408 PB1_NoxR The PB1 domai 92.0 1.1 2.4E-05 28.4 6.3 44 16-61 2-45 (86)
98 cd01788 ElonginB Ubiquitin-lik 92.0 1.9 4.2E-05 28.9 7.8 64 25-88 10-80 (119)
99 PF14836 Ubiquitin_3: Ubiquiti 91.9 1.9 4.1E-05 27.5 7.4 67 28-95 15-87 (88)
100 cd01612 APG12_C Ubiquitin-like 91.9 0.97 2.1E-05 28.5 6.1 61 16-76 1-67 (87)
101 PF09379 FERM_N: FERM N-termin 91.7 1.7 3.6E-05 25.9 6.8 57 22-78 2-65 (80)
102 PF12754 Blt1: Cell-cycle cont 91.6 0.053 1.1E-06 41.7 0.0 80 14-93 76-182 (309)
103 smart00295 B41 Band 4.1 homolo 91.0 1.4 3.1E-05 30.3 6.8 63 15-77 2-71 (207)
104 cd05992 PB1 The PB1 domain is 90.5 1.4 3E-05 26.3 5.6 44 17-61 1-45 (81)
105 PF08825 E2_bind: E2 binding d 90.0 0.25 5.4E-06 31.1 2.0 55 31-86 1-69 (84)
106 COG2104 ThiS Sulfur transfer p 90.0 2.9 6.2E-05 25.2 6.8 66 17-92 3-68 (68)
107 cd01777 SNX27_RA Ubiquitin dom 89.1 0.95 2.1E-05 28.8 4.2 60 17-76 2-69 (87)
108 PRK11840 bifunctional sulfur c 88.0 2.7 5.9E-05 32.7 6.8 65 18-92 2-66 (326)
109 TIGR02958 sec_mycoba_snm4 secr 87.7 5 0.00011 32.3 8.4 70 17-87 3-79 (452)
110 cd06398 PB1_Joka2 The PB1 doma 86.3 4.5 9.8E-05 25.7 6.1 48 18-66 2-58 (91)
111 PF06234 TmoB: Toluene-4-monoo 85.6 5.6 0.00012 25.2 6.2 61 28-88 16-84 (85)
112 PF00788 RA: Ras association ( 85.2 6.2 0.00013 23.7 6.5 63 17-79 3-77 (93)
113 PF11620 GABP-alpha: GA-bindin 84.3 3.3 7.3E-05 26.4 4.7 61 29-89 5-65 (88)
114 PRK11130 moaD molybdopterin sy 84.2 7.1 0.00015 23.7 6.2 52 36-92 25-81 (81)
115 PF15044 CLU_N: Mitochondrial 84.2 3.8 8.2E-05 25.0 4.9 56 34-89 2-59 (76)
116 cd01611 GABARAP Ubiquitin doma 83.8 7.3 0.00016 25.6 6.4 63 14-76 22-91 (112)
117 PF03607 DCX: Doublecortin; I 81.5 5.4 0.00012 23.1 4.6 46 34-85 6-53 (60)
118 PRK00051 hisI phosphoribosyl-A 79.8 7.6 0.00017 26.3 5.5 80 14-96 12-95 (125)
119 PRK01777 hypothetical protein; 78.8 14 0.00031 23.6 8.0 69 16-89 3-77 (95)
120 KOG2086 Protein tyrosine phosp 78.6 11 0.00024 30.0 6.8 67 11-79 302-372 (380)
121 COG2080 CoxS Aerobic-type carb 78.5 6.4 0.00014 27.6 4.9 64 16-84 3-73 (156)
122 cd01768 RA RA (Ras-associating 77.9 13 0.00027 22.5 5.7 57 19-75 2-69 (87)
123 PF02991 Atg8: Autophagy prote 77.5 16 0.00034 23.7 6.3 62 14-75 14-82 (104)
124 KOG0013 Uncharacterized conser 75.9 5.9 0.00013 29.3 4.3 73 17-89 146-221 (231)
125 cd06410 PB1_UP2 Uncharacterize 75.1 13 0.00027 23.9 5.3 40 21-61 17-56 (97)
126 PF01502 PRA-CH: Phosphoribosy 74.8 1.6 3.5E-05 27.0 1.0 44 53-96 23-67 (75)
127 KOG1639 Steroid reductase requ 73.7 9.8 0.00021 29.0 5.1 56 31-86 17-77 (297)
128 PF12143 PPO1_KFDV: Protein of 73.6 2.8 6E-05 28.5 2.0 30 64-93 89-118 (130)
129 cd01817 RGS12_RBD Ubiquitin do 72.9 19 0.00042 22.1 6.7 48 23-70 6-54 (73)
130 cd06404 PB1_aPKC PB1 domain is 72.8 20 0.00043 22.6 5.6 53 17-70 1-57 (83)
131 KOG3483 Uncharacterized conser 71.3 23 0.00049 22.3 7.5 75 14-88 11-89 (94)
132 KOG2689 Predicted ubiquitin re 71.2 27 0.00059 26.8 7.0 68 14-81 208-280 (290)
133 cd00508 MopB_CT_Fdh-Nap-like T 69.3 2.9 6.3E-05 26.4 1.3 19 69-87 41-59 (120)
134 cd02790 MopB_CT_Formate-Dh_H F 67.9 3.2 6.9E-05 26.2 1.3 21 68-88 40-60 (116)
135 cd02792 MopB_CT_Formate-Dh-Na- 67.8 3.2 7E-05 26.4 1.3 20 68-87 40-59 (122)
136 PF01982 CTP-dep_RFKase: Domai 67.0 4.1 8.9E-05 27.4 1.7 15 73-87 107-121 (121)
137 cd02786 MopB_CT_3 The MopB_CT_ 66.4 3.6 7.7E-05 26.1 1.3 19 68-86 36-54 (116)
138 PTZ00380 microtubule-associate 66.0 37 0.0008 22.8 6.2 62 14-76 25-90 (121)
139 PRK02759 bifunctional phosphor 66.0 3.6 7.9E-05 30.0 1.4 78 15-95 15-96 (203)
140 cd06411 PB1_p51 The PB1 domain 65.5 27 0.00058 21.8 5.0 34 28-61 8-41 (78)
141 cd01764 Urm1 Urm1-like ubuitin 65.5 32 0.00068 21.7 5.8 57 35-92 27-94 (94)
142 PHA01623 hypothetical protein 65.3 6.4 0.00014 22.8 2.1 28 27-54 12-39 (56)
143 COG0139 HisI Phosphoribosyl-AM 65.2 5 0.00011 26.6 1.8 74 14-92 16-95 (111)
144 KOG1872 Ubiquitin-specific pro 64.5 36 0.00079 27.9 6.8 69 18-87 5-74 (473)
145 PF01568 Molydop_binding: Moly 63.7 4.5 9.8E-05 25.2 1.4 18 69-86 36-53 (110)
146 COG5100 NPL4 Nuclear pore prot 63.0 47 0.001 27.2 7.1 69 18-87 2-78 (571)
147 PF14604 SH3_9: Variant SH3 do 62.9 6.2 0.00013 21.8 1.7 25 69-94 7-31 (49)
148 PLN02346 histidine biosynthesi 62.6 5 0.00011 30.5 1.6 80 14-96 52-135 (271)
149 cd02791 MopB_CT_Nitrate-R-NapA 62.0 4.8 0.0001 25.6 1.3 20 68-87 40-59 (122)
150 KOG1364 Predicted ubiquitin re 61.9 16 0.00035 28.8 4.4 66 17-82 277-349 (356)
151 cd02783 MopB_CT_2 The MopB_CT_ 61.8 4.8 0.0001 27.5 1.3 20 68-87 37-56 (156)
152 cd06395 PB1_Map2k5 PB1 domain 61.8 28 0.00061 22.1 4.7 54 18-86 2-57 (91)
153 cd02787 MopB_CT_ydeP The MopB_ 61.3 5 0.00011 25.4 1.3 19 69-87 37-55 (112)
154 PRK14132 riboflavin kinase; Pr 61.2 7.1 0.00015 26.4 2.0 16 72-87 111-126 (126)
155 TIGR02988 YaaA_near_RecF S4 do 61.2 2.3 5.1E-05 24.3 -0.3 49 36-85 5-58 (59)
156 cd02794 MopB_CT_DmsA-EC The Mo 61.0 5.1 0.00011 25.7 1.3 19 69-87 36-54 (121)
157 PF10623 PilI: Plasmid conjuga 60.8 19 0.00041 22.6 3.7 37 15-51 7-43 (83)
158 cd02785 MopB_CT_4 The MopB_CT_ 60.8 5.2 0.00011 25.8 1.3 19 68-86 37-55 (124)
159 smart00314 RA Ras association 60.6 35 0.00076 20.6 5.3 61 19-79 5-75 (90)
160 cd02779 MopB_CT_Arsenite-Ox Th 60.6 5.4 0.00012 25.5 1.3 19 69-87 39-57 (115)
161 PF12436 USP7_ICP0_bdg: ICP0-b 59.4 43 0.00093 24.6 6.1 47 15-61 175-224 (249)
162 COG1977 MoaD Molybdopterin con 59.1 13 0.00027 22.9 2.8 55 34-92 25-84 (84)
163 cd02778 MopB_CT_Thiosulfate-R- 58.7 6 0.00013 25.2 1.3 20 68-87 35-54 (123)
164 cd02781 MopB_CT_Acetylene-hydr 58.6 5.9 0.00013 25.6 1.3 20 68-87 38-57 (130)
165 cd02777 MopB_CT_DMSOR-like The 58.5 6 0.00013 25.7 1.3 18 69-86 40-57 (127)
166 cd02784 MopB_CT_PHLH The MopB_ 57.6 6.3 0.00014 26.7 1.3 19 69-87 44-62 (137)
167 cd02788 MopB_CT_NDH-1_NuoG2-N7 57.1 6.8 0.00015 24.4 1.3 19 68-86 34-52 (96)
168 PRK11433 aldehyde oxidoreducta 56.5 51 0.0011 24.3 6.0 66 14-84 49-121 (217)
169 cd02782 MopB_CT_1 The MopB_CT_ 56.1 6.9 0.00015 25.3 1.3 20 68-87 38-57 (129)
170 PF14533 USP7_C2: Ubiquitin-sp 55.3 16 0.00034 26.3 3.2 36 26-61 132-170 (213)
171 cd02789 MopB_CT_FmdC-FwdD The 55.0 7.6 0.00016 24.7 1.3 19 68-86 36-54 (106)
172 KOG2982 Uncharacterized conser 54.8 49 0.0011 26.3 5.9 70 18-87 338-416 (418)
173 PRK14165 winged helix-turn-hel 54.7 10 0.00023 27.7 2.1 16 73-88 201-216 (217)
174 cd02793 MopB_CT_DMSOR-BSOR-TMA 54.1 7.9 0.00017 25.3 1.3 19 69-87 39-57 (129)
175 cd02776 MopB_CT_Nitrate-R-NarG 53.7 8 0.00017 26.0 1.3 19 69-87 37-55 (141)
176 COG4841 Uncharacterized protei 53.5 14 0.0003 23.8 2.2 22 73-95 15-36 (95)
177 cd02775 MopB_CT Molybdopterin- 52.7 8.7 0.00019 23.3 1.3 19 68-86 28-46 (101)
178 PF00018 SH3_1: SH3 domain; I 52.0 11 0.00025 20.2 1.6 23 70-92 9-31 (48)
179 PF14453 ThiS-like: ThiS-like 51.9 44 0.00095 19.5 4.1 47 30-87 9-55 (57)
180 cd02780 MopB_CT_Tetrathionate_ 51.2 11 0.00024 24.9 1.7 20 68-87 35-54 (143)
181 KOG4225 Sorbin and SH3 domain- 50.3 10 0.00022 31.0 1.6 20 70-89 444-463 (489)
182 COG5131 URM1 Ubiquitin-like pr 50.0 16 0.00034 23.6 2.1 57 36-92 29-96 (96)
183 cd01776 Rin1_RA Ubiquitin doma 50.0 65 0.0014 20.5 5.9 57 17-73 2-65 (87)
184 cd06397 PB1_UP1 Uncharacterize 49.9 63 0.0014 20.3 4.9 43 18-61 2-44 (82)
185 PF10787 YfmQ: Uncharacterised 47.2 21 0.00045 24.8 2.5 38 34-71 22-59 (149)
186 PF08620 RPAP1_C: RPAP1-like, 46.1 12 0.00025 23.0 1.1 12 55-66 1-12 (73)
187 cd01666 TGS_DRG_C TGS_DRG_C: 46.0 58 0.0013 19.8 4.2 49 30-86 18-74 (75)
188 PF04014 Antitoxin-MazE: Antid 45.4 23 0.0005 19.2 2.2 17 72-88 16-32 (47)
189 TIGR03028 EpsE polysaccharide 44.4 93 0.002 22.5 5.8 70 14-86 66-160 (239)
190 PF06071 YchF-GTPase_C: Protei 43.5 15 0.00032 23.3 1.2 14 73-86 69-82 (84)
191 PF07653 SH3_2: Variant SH3 do 42.9 17 0.00037 20.1 1.4 17 70-86 11-27 (55)
192 PF06487 SAP18: Sin3 associate 42.3 26 0.00056 23.4 2.4 61 27-87 37-120 (120)
193 KOG0544 FKBP-type peptidyl-pro 40.7 38 0.00082 22.2 2.9 37 2-38 8-46 (108)
194 COG1925 FruB Phosphotransferas 39.8 81 0.0018 19.8 4.3 60 18-88 5-66 (88)
195 PF09469 Cobl: Cordon-bleu ubi 39.5 37 0.0008 21.2 2.6 35 45-79 2-39 (79)
196 COG5569 Uncharacterized conser 39.3 25 0.00055 23.1 1.9 19 75-93 82-100 (108)
197 COG1791 Uncharacterized conser 39.0 54 0.0012 23.6 3.6 56 30-85 70-130 (181)
198 COG2914 Uncharacterized protei 38.4 1.1E+02 0.0024 19.9 6.9 61 23-88 12-76 (99)
199 KOG3391 Transcriptional co-rep 38.3 29 0.00062 24.1 2.1 24 66-89 114-137 (151)
200 TIGR02609 doc_partner putative 38.1 32 0.00068 20.7 2.1 19 70-88 17-35 (74)
201 COG5077 Ubiquitin carboxyl-ter 38.1 59 0.0013 28.8 4.3 34 28-61 585-619 (1089)
202 TIGR01003 PTS_HPr_family Phosp 37.8 60 0.0013 19.7 3.4 33 56-88 32-66 (82)
203 KOG4146 Ubiquitin-like protein 37.7 33 0.00071 22.3 2.2 21 72-92 81-101 (101)
204 PF09014 Sushi_2: Beta-2-glyco 37.6 17 0.00037 23.0 0.9 37 51-88 5-41 (85)
205 PF07377 DUF1493: Protein of u 37.0 24 0.00052 22.8 1.6 25 37-61 42-68 (111)
206 KOG3309 Ferredoxin [Energy pro 36.7 1.2E+02 0.0026 21.4 5.0 54 13-66 40-99 (159)
207 cd01669 TGS_Ygr210_C TGS_Ygr21 35.7 23 0.0005 21.6 1.3 19 68-86 57-75 (76)
208 COG0179 MhpD 2-keto-4-pentenoa 34.9 82 0.0018 23.7 4.3 48 38-94 211-259 (266)
209 PF14478 DUF4430: Domain of un 33.8 47 0.001 19.3 2.4 27 57-85 41-67 (68)
210 PRK11675 LexA regulated protei 33.7 40 0.00087 21.5 2.1 27 29-55 51-77 (90)
211 cd00987 PDZ_serine_protease PD 33.0 69 0.0015 18.6 3.1 53 29-89 27-81 (90)
212 PF13670 PepSY_2: Peptidase pr 33.0 1.1E+02 0.0023 18.3 4.0 24 14-37 53-76 (83)
213 PF00498 FHA: FHA domain; Int 32.9 29 0.00062 19.6 1.3 24 59-85 44-67 (68)
214 PF03633 Glyco_hydro_65C: Glyc 32.9 11 0.00025 21.0 -0.4 32 56-87 11-45 (54)
215 PRK09908 xanthine dehydrogenas 32.6 1.5E+02 0.0032 20.8 5.0 54 16-73 8-68 (159)
216 PTZ00490 Ferredoxin superfamil 32.3 1.5E+02 0.0032 20.3 4.9 31 13-43 32-62 (143)
217 smart00326 SH3 Src homology 3 31.9 64 0.0014 16.7 2.6 22 70-91 14-35 (58)
218 PF01402 RHH_1: Ribbon-helix-h 31.5 35 0.00076 17.3 1.4 25 32-56 3-27 (39)
219 cd01615 CIDE_N CIDE_N domain, 30.6 1.4E+02 0.003 18.5 5.5 50 19-70 5-56 (78)
220 PF13180 PDZ_2: PDZ domain; PD 30.5 1.2E+02 0.0026 17.8 7.1 57 27-91 15-73 (82)
221 TIGR03193 4hydroxCoAred 4-hydr 30.4 1.6E+02 0.0034 20.4 4.8 54 17-73 2-62 (148)
222 PF14533 USP7_C2: Ubiquitin-sp 30.1 1.7E+02 0.0037 20.9 5.2 60 16-75 20-90 (213)
223 PF11069 DUF2870: Protein of u 29.9 1E+02 0.0023 20.0 3.6 37 57-93 2-39 (98)
224 PF08722 Tn7_Tnp_TnsA_N: TnsA 29.6 1.1E+02 0.0025 18.3 3.7 35 19-53 37-82 (88)
225 KOG1363 Predicted regulator of 29.6 1.4E+02 0.0029 24.5 5.0 47 13-60 380-426 (460)
226 KOG3938 RGS-GAIP interacting p 29.4 2.4E+02 0.0052 21.9 6.0 47 14-61 51-97 (334)
227 TIGR01565 homeo_ZF_HD homeobox 29.4 60 0.0013 18.9 2.2 24 40-63 32-55 (58)
228 KOG2378 cAMP-regulated guanine 29.3 2.5E+02 0.0054 23.5 6.4 56 12-67 231-288 (573)
229 PF00381 PTS-HPr: PTS HPr comp 29.3 1E+02 0.0022 18.5 3.4 35 54-88 30-66 (84)
230 PRK11347 antitoxin ChpS; Provi 29.2 56 0.0012 20.2 2.2 19 70-88 19-37 (83)
231 PF02017 CIDE-N: CIDE-N domain 28.8 78 0.0017 19.6 2.8 50 19-70 5-56 (78)
232 PRK05738 rplW 50S ribosomal pr 28.7 1.5E+02 0.0032 18.6 4.1 61 26-86 20-89 (92)
233 PF03931 Skp1_POZ: Skp1 family 28.6 93 0.002 17.7 3.0 15 18-32 2-16 (62)
234 PRK09798 antitoxin MazE; Provi 28.2 60 0.0013 20.1 2.2 19 70-88 20-38 (82)
235 PRK05388 argJ bifunctional orn 27.9 82 0.0018 25.3 3.4 43 51-93 322-372 (395)
236 TIGR03198 pucE xanthine dehydr 27.8 1.6E+02 0.0034 20.4 4.5 54 16-72 3-63 (151)
237 cd00989 PDZ_metalloprotease PD 27.7 76 0.0016 18.0 2.6 22 65-86 18-39 (79)
238 PF09627 PrgU: PrgU-like prote 27.6 80 0.0017 20.8 2.8 55 15-69 9-64 (122)
239 PRK10850 PTS system phosphohis 27.4 1.1E+02 0.0023 18.9 3.3 33 56-88 32-66 (85)
240 PF12976 DUF3860: Domain of Un 27.2 29 0.00064 21.8 0.7 59 35-95 2-64 (92)
241 KOG3784 Sorting nexin protein 27.1 1.4E+02 0.0031 24.1 4.6 41 15-55 106-146 (407)
242 KOG0012 DNA damage inducible p 26.9 1.4E+02 0.003 23.9 4.5 53 33-85 19-73 (380)
243 PRK11377 dihydroxyacetone kina 26.8 1.5E+02 0.0033 24.1 4.9 63 15-88 156-220 (473)
244 PF03459 TOBE: TOBE domain; I 26.7 57 0.0012 18.2 1.8 34 56-89 22-59 (64)
245 smart00266 CAD Domains present 26.5 1.6E+02 0.0035 18.0 5.0 50 19-70 3-54 (74)
246 PHA00738 putative HTH transcri 26.4 1.4E+02 0.003 19.7 3.8 46 24-69 60-105 (108)
247 PLN02593 adrenodoxin-like ferr 26.4 1.7E+02 0.0036 19.1 4.2 33 17-53 1-33 (117)
248 cd04867 TGS_YchF_C TGS_YchF_C: 26.3 33 0.00071 21.6 0.8 13 74-86 70-82 (83)
249 PRK15078 polysaccharide export 26.1 3.3E+02 0.0071 21.4 7.0 48 40-87 192-251 (379)
250 PF03658 Ub-RnfH: RnfH family 25.8 1.8E+02 0.0038 18.2 6.4 55 29-88 16-73 (84)
251 PHA01748 hypothetical protein 25.5 78 0.0017 18.3 2.3 25 30-54 4-28 (60)
252 COG4112 Predicted phosphoester 25.5 43 0.00094 24.1 1.3 21 76-96 67-87 (203)
253 cd08972 PF_Nei_N N-terminal do 25.5 1.8E+02 0.004 19.4 4.4 31 2-32 96-126 (137)
254 PF11604 CusF_Ec: Copper bindi 25.3 75 0.0016 18.8 2.2 21 73-93 39-59 (70)
255 cd04938 TGS_Obg-like TGS_Obg-l 25.2 44 0.00095 20.2 1.2 14 73-86 62-75 (76)
256 smart00537 DCX Domain in the D 25.0 1.8E+02 0.0038 18.0 4.1 52 29-85 21-77 (89)
257 cd00990 PDZ_glycyl_aminopeptid 24.9 68 0.0015 18.4 2.0 22 65-86 18-39 (80)
258 PF05688 DUF824: Salmonella re 24.6 1E+02 0.0022 17.3 2.5 25 14-38 14-41 (47)
259 COG2996 Predicted RNA-bindinin 24.3 72 0.0016 24.5 2.4 30 58-87 21-54 (287)
260 cd01787 GRB7_RA RA (RAS-associ 24.3 1.9E+02 0.0042 18.2 5.6 39 16-54 2-40 (85)
261 PLN03060 inositol phosphatase- 24.1 36 0.00078 24.9 0.8 24 35-58 67-90 (206)
262 PF10114 PocR: Sensory domain 24.1 1.2E+02 0.0025 20.3 3.3 29 37-67 8-36 (173)
263 PF11548 Receptor_IA-2: Protei 23.8 79 0.0017 20.2 2.2 21 14-37 35-55 (91)
264 PF10646 Germane: Sporulation 23.7 1.8E+02 0.0038 18.0 3.9 14 54-67 101-114 (117)
265 PRK10897 phosphohistidinoprote 23.7 1.2E+02 0.0026 18.9 3.0 34 55-88 32-68 (90)
266 cd01617 DCX Ubiquitin-like dom 23.5 1.8E+02 0.0039 17.5 4.5 53 28-85 15-72 (80)
267 PF08922 DUF1905: Domain of un 23.3 65 0.0014 19.6 1.7 15 73-87 66-80 (80)
268 PF09358 UBA_e1_C: Ubiquitin-a 23.1 91 0.002 20.7 2.5 25 30-54 36-60 (125)
269 PF01361 Tautomerase: Tautomer 23.1 1.2E+02 0.0027 16.7 2.8 26 38-63 19-44 (60)
270 PF13509 S1_2: S1 domain; PDB: 23.0 64 0.0014 18.4 1.6 21 66-88 29-49 (61)
271 PF09138 Urm1: Urm1 (Ubiquitin 22.8 42 0.00091 21.6 0.8 63 28-92 19-96 (96)
272 PF03479 DUF296: Domain of unk 22.8 1.5E+02 0.0033 19.1 3.5 28 27-54 2-29 (120)
273 COG1188 Ribosome-associated he 22.7 1.3E+02 0.0029 19.5 3.1 29 55-88 32-60 (100)
274 cd00991 PDZ_archaeal_metallopr 22.6 1.7E+02 0.0038 17.0 4.9 43 47-89 23-67 (79)
275 KOG1620 Inositol polyphosphate 22.5 2.1E+02 0.0047 21.7 4.7 56 38-93 197-254 (284)
276 cd01668 TGS_RelA_SpoT TGS_RelA 22.5 1.4E+02 0.0031 16.0 6.3 54 24-86 6-59 (60)
277 cd00986 PDZ_LON_protease PDZ d 22.5 1.5E+02 0.0032 17.1 3.2 39 51-89 24-64 (79)
278 cd06539 CIDE_N_A CIDE_N domain 22.3 2.1E+02 0.0045 17.8 5.0 50 19-70 5-56 (78)
279 COG0243 BisC Anaerobic dehydro 22.3 56 0.0012 27.6 1.7 19 69-87 677-695 (765)
280 PRK13782 phosphocarrier protei 22.3 1.9E+02 0.0041 17.4 4.2 33 56-88 32-66 (82)
281 PRK05841 flgE flagellar hook p 22.2 1.8E+02 0.0039 24.6 4.6 42 13-54 245-295 (603)
282 PF05932 CesT: Tir chaperone p 22.0 1.4E+02 0.003 18.1 3.1 24 41-64 1-30 (119)
283 PF10948 DUF2635: Protein of u 22.0 54 0.0012 18.4 1.0 11 76-86 34-44 (47)
284 TIGR02166 dmsA_ynfE anaerobic 21.9 48 0.001 28.0 1.2 18 70-87 712-729 (797)
285 PRK10872 relA (p)ppGpp synthet 21.9 1.8E+02 0.0038 25.3 4.5 65 19-92 406-470 (743)
286 TIGR03060 PS_II_psb29 photosys 21.9 43 0.00092 24.7 0.8 23 35-57 69-91 (214)
287 cd04753 Commd5_HCaRG COMM_Doma 21.8 2.4E+02 0.0052 18.4 4.6 35 13-48 58-92 (110)
288 TIGR01196 edd 6-phosphoglucona 21.7 2.9E+02 0.0063 23.5 5.6 71 9-87 463-547 (601)
289 TIGR03479 DMSO_red_II_alp DMSO 21.6 50 0.0011 28.8 1.3 18 70-87 817-834 (912)
290 COG2929 Uncharacterized protei 21.1 61 0.0013 20.9 1.3 45 47-91 15-69 (93)
291 PRK13266 Thf1-like protein; Re 20.8 46 0.001 24.6 0.8 24 35-58 69-92 (225)
292 PRK14990 anaerobic dimethyl su 20.6 55 0.0012 27.9 1.3 18 70-87 729-746 (814)
293 PF14732 UAE_UbL: Ubiquitin/SU 20.5 1.7E+02 0.0036 18.1 3.2 51 36-86 8-67 (87)
294 TIGR00509 bisC_fam molybdopter 20.4 55 0.0012 27.7 1.3 18 70-87 664-681 (770)
295 TIGR03636 L23_arch archaeal ri 20.2 2.2E+02 0.0048 17.4 3.9 35 26-60 14-48 (77)
296 PF08299 Bac_DnaA_C: Bacterial 20.1 49 0.0011 19.5 0.7 19 38-56 1-19 (70)
297 PRK14548 50S ribosomal protein 20.0 2.4E+02 0.0051 17.6 3.9 35 26-60 21-55 (84)
No 1
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.9e-33 Score=180.15 Aligned_cols=81 Identities=33% Similarity=0.591 Sum_probs=79.1
Q ss_pred CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424 14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~ 93 (98)
..+|+|+|+++++..+.|+||++|||+|||++||++.|++.+++||+|||.+|.+.+||++|+|||||+|+|+.+|+||.
T Consensus 18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG~ 97 (99)
T KOG1769|consen 18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGGF 97 (99)
T ss_pred cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccCC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999996
Q ss_pred c
Q 045424 94 H 94 (98)
Q Consensus 94 ~ 94 (98)
.
T Consensus 98 ~ 98 (99)
T KOG1769|consen 98 G 98 (99)
T ss_pred C
Confidence 4
No 2
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=6e-31 Score=167.82 Aligned_cols=87 Identities=31% Similarity=0.568 Sum_probs=82.8
Q ss_pred CCCCCC-CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424 8 KNNKKP-QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 8 ~~~~~~-~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~ 86 (98)
++.++| ..+|+++|.+++|.++.|+||.+|+|++||++||.+.|.+.+.+||+|||.+|+.++||++|+|||+|+|+|+
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 456666 5699999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceecCCCc
Q 045424 87 YHAFGGGH 94 (98)
Q Consensus 87 ~~q~GG~~ 94 (98)
.+|+||+-
T Consensus 95 ~eQvGG~t 102 (103)
T COG5227 95 TEQVGGAT 102 (103)
T ss_pred HHHhcCcc
Confidence 99999974
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=4.4e-28 Score=153.74 Aligned_cols=84 Identities=36% Similarity=0.699 Sum_probs=81.0
Q ss_pred CCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 9 NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 9 ~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
+..+++.+|+|+|++++|..+.|+|+++++|++||++||++.|+++++++|+|+|++|.+++||++|+|+|||+|+|+++
T Consensus 4 ~~~~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~ 83 (87)
T cd01763 4 GKGEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLE 83 (87)
T ss_pred CCCCCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEe
Confidence 44567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCC
Q 045424 89 AFGG 92 (98)
Q Consensus 89 q~GG 92 (98)
|.||
T Consensus 84 l~GG 87 (87)
T cd01763 84 QTGG 87 (87)
T ss_pred cccC
Confidence 9998
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=99.91 E-value=4.5e-24 Score=129.82 Aligned_cols=71 Identities=35% Similarity=0.693 Sum_probs=66.7
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
|+|+|++++|..+.|+|+++++|++|+++||++.|++. ++++|+|||++|.+++||++++|+|||+|||.+
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=99.66 E-value=1.5e-15 Score=92.39 Aligned_cols=76 Identities=17% Similarity=0.300 Sum_probs=73.1
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+.|.|++.+|..+.+.+.+++++..|++.++++.|++++.++|+|+|..|.++.|.++++++||++|++.+++.||
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 4688888999999999999999999999999999999999999999999999999999999999999999999997
No 6
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.50 E-value=2.8e-13 Score=82.28 Aligned_cols=76 Identities=12% Similarity=0.297 Sum_probs=72.7
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+.|.|++.+|+.+.+.+.++.++..|+..++++.|++++.++|+|+|..|.++.|.+++++++|++|++.+++.||
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 4678888899999999999999999999999999999999999999999999999999999999999999999998
No 7
>PTZ00044 ubiquitin; Provisional
Probab=99.50 E-value=3.5e-13 Score=82.37 Aligned_cols=76 Identities=18% Similarity=0.372 Sum_probs=72.7
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+.|.|+..+|....+.+.+++++..|+...+++.|+++++++++|+|..|.++.|.+++++++|++|++.++..||
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg 76 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 4678888899999999999999999999999999999999999999999999999999999999999999999987
No 8
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=99.46 E-value=1.2e-12 Score=85.47 Aligned_cols=80 Identities=11% Similarity=0.144 Sum_probs=76.9
Q ss_pred CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+.+.+.|.|+...|..+.+.|.+++++..|++..+++.|++.++++++|.|+.|.++.|.+++++++|++|++.+++.||
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 36689999999999999999999999999999999999999999999999999999999999999999999999999997
No 9
>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=99.46 E-value=9.3e-13 Score=80.64 Aligned_cols=74 Identities=12% Similarity=0.237 Sum_probs=70.8
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
|.|++..|..+.+.|.++.++..|++..++..|++.++++++|+|+.|.++.|.+++++++|++|++.+++.||
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 46778899999999999999999999999999999999999999999999999999999999999999999987
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=99.43 E-value=2e-12 Score=79.15 Aligned_cols=74 Identities=11% Similarity=0.240 Sum_probs=69.0
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+.|.|++ +....+.|.+++++..|+...+++.|++.++++++|.|+.|.++.|.++++++++.+|++.++..||
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 4678899999999999999999999999999999999999999999999999999999999999997
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=99.42 E-value=3.2e-12 Score=79.30 Aligned_cols=77 Identities=21% Similarity=0.259 Sum_probs=72.7
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~ 93 (98)
.++|.|+...|....+.+.++.++..|++.++++.+++.+.++|.|.|..|.++ |.++++++||++|.++..+.||.
T Consensus 1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~~ 77 (78)
T cd01804 1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAGL 77 (78)
T ss_pred CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeeccccC
Confidence 367888888899999999999999999999999999999999999999999988 99999999999999999999984
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=99.41 E-value=2.8e-12 Score=78.44 Aligned_cols=73 Identities=14% Similarity=0.200 Sum_probs=68.8
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 89 (98)
+.|.|+..+|..+.+.|.+++++..|++..+++.|++.++++++|.|+.|.++.|.+++++.+|++|.+.+++
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 4677888899999999999999999999999999999999999999999999999999999999999998765
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=99.39 E-value=5.2e-12 Score=75.89 Aligned_cols=71 Identities=18% Similarity=0.343 Sum_probs=67.6
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
|+|.|+..+|..+.+.+.++.++..|++.++++.|++++.++++|+|..|.++.|.+++++.+|++|++..
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 57888889999999999999999999999999999999999999999999999999999999999998865
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=99.36 E-value=5.8e-12 Score=75.45 Aligned_cols=68 Identities=24% Similarity=0.358 Sum_probs=64.4
Q ss_pred ccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424 23 SQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF 90 (98)
Q Consensus 23 ~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 90 (98)
..+|..+.+.|.+++++..|++.+++..|++++.++|+|+|+.|.++.|..++++.+|++|.+.++|.
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 45788899999999999999999999999999999999999999999999999999999999998863
No 15
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=99.34 E-value=1.9e-11 Score=74.71 Aligned_cols=73 Identities=15% Similarity=0.200 Sum_probs=68.6
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCC--CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQ--PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 89 (98)
+.|.|++.+|..+.+.+.+++++..|+..++++.|+ +++.++++|+|..|.++.|.+++++.+|++|.+.+.+
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 16
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=99.34 E-value=1.6e-11 Score=75.59 Aligned_cols=71 Identities=15% Similarity=0.135 Sum_probs=67.9
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
|.|.|++..|..+.+.+.+++++..|+++++++.|++++.+||+|.|..|.++.|.+++++.+|.+|+++.
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 68899998899999999999999999999999999999999999999999999999999999999999975
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=99.29 E-value=3.2e-11 Score=72.87 Aligned_cols=69 Identities=14% Similarity=0.249 Sum_probs=64.9
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
|.|+...|..+.+.+.+++++..|++.++++.|++.++++|+|.|+.|.++.|.+++++.+|.+|++..
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 456778899999999999999999999999999999999999999999999999999999999999864
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=99.29 E-value=3.4e-11 Score=74.88 Aligned_cols=74 Identities=14% Similarity=0.161 Sum_probs=67.9
Q ss_pred EEEEEEccCCCE-EEEE-EcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424 17 INLIIKSQDGDK-RFFQ-FNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF 90 (98)
Q Consensus 17 I~I~v~~~~g~~-~~f~-Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 90 (98)
+.|.|+...|.. +.+. +.+++++..|+...++..|++.++++++|.|+.|.++.|.+++++.+|++|++.++|-
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 4784 8999999999999999999999999999999999999999999999999999998863
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=99.28 E-value=3.2e-11 Score=72.43 Aligned_cols=70 Identities=17% Similarity=0.270 Sum_probs=64.8
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
|+|.|+.. |....+.+.++.++..|++.+++..|++++.++++|+|..|.++.|.+++++.+|++|.+..
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 57888874 77788999999999999999999999999999999999999999999999999999998864
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=99.23 E-value=8.8e-11 Score=72.94 Aligned_cols=73 Identities=12% Similarity=0.156 Sum_probs=69.0
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeE--EECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPF--LINGNRFDYSKTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF--~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 89 (98)
|.|.|+...|..+.+.+.++.+...|++.++++.|++.+.++| .|+|..|.++.|.+++++++|++|.+.++.
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 7888888899999999999999999999999999999999999 899999999999999999999999999874
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=99.23 E-value=1e-10 Score=71.43 Aligned_cols=69 Identities=6% Similarity=0.100 Sum_probs=65.5
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
++|+...|+.+.+.+.+++++..|+...+++.|++.++++++|.|+.|.++.|.+++++++|.+|+|.+
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 467778899999999999999999999999999999999999999999999999999999999999976
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=99.22 E-value=1.4e-10 Score=70.26 Aligned_cols=71 Identities=14% Similarity=0.219 Sum_probs=64.9
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
|+|.|+...|. ..+.+.++.+...|++..+++.|++..+++++|.|+.|.++.|.+++++++|.+|++.++
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 45777777786 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=99.21 E-value=1.2e-10 Score=71.68 Aligned_cols=69 Identities=19% Similarity=0.220 Sum_probs=66.0
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~ 93 (98)
+|..+.+.+.+++++..|++...+..|++++.++++|.|..+.++.|.+++++.+|++|++.+++.||.
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~ 74 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGR 74 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCc
Confidence 577888999999999999999999999999999999999999999999999999999999999999984
No 24
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.13 E-value=4.7e-10 Score=65.35 Aligned_cols=64 Identities=19% Similarity=0.337 Sum_probs=58.8
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGD 81 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD 81 (98)
|.|.|++.+ ....+.|.+++++..|+..+++..|++++.++++|+|..|.++.|.+++++.+|+
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 467777777 5788999999999999999999999999999999999999999999999999985
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=99.04 E-value=2.5e-09 Score=63.00 Aligned_cols=67 Identities=18% Similarity=0.322 Sum_probs=62.4
Q ss_pred EEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 21 IKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 21 v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
|+..+|....+.+.+++++..|++.+++..|++.+.++|+|+|+.|.++.|.+++++.+|+.|.|..
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 4556788899999999999999999999999999999999999999999999999999999999864
No 26
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=99.03 E-value=2.2e-09 Score=65.32 Aligned_cols=67 Identities=15% Similarity=0.222 Sum_probs=60.3
Q ss_pred EEEcc-CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCC-CChhhcCCCCCCEEEEE
Q 045424 20 IIKSQ-DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYS-KTADQLGLKDGDEIDAM 86 (98)
Q Consensus 20 ~v~~~-~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~-~Tp~~l~medgD~Idv~ 86 (98)
.|+.. .|..+.+.+.++.++..|+...+++.|++.++++++|+|+.|.++ .|.+++++++|++|.+.
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 34456 788889999999999999999999999999999999999999887 58999999999998763
No 27
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=2.4e-09 Score=64.05 Aligned_cols=68 Identities=16% Similarity=0.263 Sum_probs=64.8
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv 85 (98)
-|+|+...|.++.+.|.++++++++++...++.|+++.+.|++|-|.++.++.|++++.++-|.+++.
T Consensus 2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHl 69 (70)
T KOG0005|consen 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHL 69 (70)
T ss_pred eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEee
Confidence 47888889999999999999999999999999999999999999999999999999999999998875
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=98.83 E-value=2.6e-08 Score=77.81 Aligned_cols=73 Identities=19% Similarity=0.248 Sum_probs=68.2
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcC---CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKS---QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g---~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 89 (98)
|+|+|++..|..+.+.|.+++++..|+..+++..| ++.+.++|+|.|+.|.++.|.+++++.++|+|.+++..
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 46788888999999999999999999999999998 88999999999999999999999999999999998765
No 29
>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=4.5e-08 Score=61.34 Aligned_cols=72 Identities=8% Similarity=0.027 Sum_probs=63.5
Q ss_pred cEEEEEEccCCCEEEEEE--cCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcC--CCCCCEEEEEc
Q 045424 16 LINLIIKSQDGDKRFFQF--NHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLG--LKDGDEIDAMY 87 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~I--k~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~--medgD~Idv~~ 87 (98)
.|+|.|++.++....|.| .++.++..|++..++..+ .+++++||+|.|+-|.+++|.+++. +.+|-+|+++.
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 488999999998866666 899999999999999875 3469999999999999999999996 99999998763
No 30
>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=98.75 E-value=9.3e-08 Score=59.08 Aligned_cols=63 Identities=16% Similarity=0.186 Sum_probs=57.6
Q ss_pred cCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC-CCCChhhcCCC-CCCEEEEEc
Q 045424 24 QDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD-YSKTADQLGLK-DGDEIDAMY 87 (98)
Q Consensus 24 ~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-~~~Tp~~l~me-dgD~Idv~~ 87 (98)
..|..+.+.+.++.++..|+...+++.|++++.+|+ |+|.++. ++.|.++++++ +||++.+++
T Consensus 10 ~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 10 SHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred cCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 457788999999999999999999999999999999 9999996 66899999999 889998875
No 31
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=98.74 E-value=2.4e-09 Score=70.82 Aligned_cols=77 Identities=12% Similarity=0.256 Sum_probs=71.7
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCcc
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHD 95 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~~ 95 (98)
+.+..-.|..+++.+.+++++..|+.......|++++..++.|+|+.|.+..|.++++|.-.|+|++++++.||...
T Consensus 3 ~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~i~ 79 (128)
T KOG0003|consen 3 IFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGIIE 79 (128)
T ss_pred EEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCCCC
Confidence 44555679999999999999999999999999999999999999999999999999999999999999999999643
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=98.73 E-value=1.1e-07 Score=58.48 Aligned_cols=68 Identities=16% Similarity=0.065 Sum_probs=60.7
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE---CCeecCCCCChhhcCCCCCCEEEEE
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI---NGNRFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~~~~Tp~~l~medgD~Idv~ 86 (98)
+|.|+. .|....+.+..++++..|++..++..|+++++++++| .|..+.++.|.+++++.+|+.|.++
T Consensus 2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence 444543 6777889999999999999999999999999999996 8999999999999999999998775
No 33
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.62 E-value=1.3e-07 Score=75.67 Aligned_cols=76 Identities=17% Similarity=0.250 Sum_probs=71.2
Q ss_pred CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424 14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF 90 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 90 (98)
...|.|+|++.+. +..|.|..+..++.|++..+.+++.+.++++++|-|+.|++.+|...+++.||=+|+++++..
T Consensus 13 ~~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~ 88 (493)
T KOG0010|consen 13 ASLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQ 88 (493)
T ss_pred cceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccC
Confidence 3579999999877 789999999999999999999999999999999999999999999999999999999998753
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=98.45 E-value=5.9e-07 Score=55.81 Aligned_cols=52 Identities=15% Similarity=0.205 Sum_probs=47.5
Q ss_pred ccHHHHHHHHHHHhc--CC-CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 36 DVEIKRLLIKYCETK--SQ-PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 36 ~t~l~kL~~~y~~~~--g~-~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
+++...|+...+++. |+ +++++|++|.|+.|.++.|.+++++.+|++|.++.
T Consensus 20 ~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~ 74 (75)
T cd01815 20 GYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILR 74 (75)
T ss_pred cCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEe
Confidence 578999999999996 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=98.44 E-value=2.9e-06 Score=46.52 Aligned_cols=64 Identities=25% Similarity=0.335 Sum_probs=59.3
Q ss_pred cCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 24 QDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 24 ~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
.++....+.+.+++++..|+...++++|.+.+.+.|.++|..+....+..+..+.+|++|.+..
T Consensus 5 ~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 5 NDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred cCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 3688889999999999999999999999999999999999999999999999999999998863
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=98.37 E-value=1.8e-06 Score=57.43 Aligned_cols=75 Identities=11% Similarity=0.100 Sum_probs=64.5
Q ss_pred CcEEEEEEccCCCEE-EEEEcCccHHHHHHHHHHHhc-----CC--CCcceeEEECCeecCCCCChhhcC------CCCC
Q 045424 15 HLINLIIKSQDGDKR-FFQFNHDVEIKRLLIKYCETK-----SQ--PFKSTPFLINGNRFDYSKTADQLG------LKDG 80 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~-~f~Ik~~t~l~kL~~~y~~~~-----g~--~~~~~rF~fdG~~l~~~~Tp~~l~------medg 80 (98)
+.|.|+++-.+|..+ -|++.++++...|++...+.+ ++ +.++++|+|.|+.|.++.|.++++ ..-.
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 568899998999877 799999999999999999655 33 489999999999999999999999 6666
Q ss_pred CEEEEEcee
Q 045424 81 DEIDAMYHA 89 (98)
Q Consensus 81 D~Idv~~~q 89 (98)
-+++|.++.
T Consensus 83 ~TmHvvlr~ 91 (113)
T cd01814 83 ITMHVVVQP 91 (113)
T ss_pred eEEEEEecC
Confidence 777887764
No 37
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=98.28 E-value=1.1e-06 Score=61.17 Aligned_cols=79 Identities=11% Similarity=0.290 Sum_probs=74.0
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCCccc
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGGHDH 96 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~~~~ 96 (98)
.|.|+...|..+.+.+.++.++..++....+..|+++.+.|++|-|++|.+.-|..|+++.-..+|.++++..||...|
T Consensus 2 ~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~kkr 80 (156)
T KOG0004|consen 2 QIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGAKKR 80 (156)
T ss_pred ccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCcccc
Confidence 4667777788899999999999999999999999999999999999999999999999999999999999999997765
No 38
>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=98.28 E-value=9.9e-06 Score=50.80 Aligned_cols=70 Identities=20% Similarity=0.259 Sum_probs=58.5
Q ss_pred EEEEEEcc-CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeE-EECCe-----ec-CCCCChhhcCCCCCCEEEEE
Q 045424 17 INLIIKSQ-DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPF-LINGN-----RF-DYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 17 I~I~v~~~-~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF-~fdG~-----~l-~~~~Tp~~l~medgD~Idv~ 86 (98)
|+|.|.+. .......++.++.++..|++......|++++.+++ +|+|. .+ .++.|..+++++||.+|+|.
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVv 79 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVI 79 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEE
Confidence 45666653 34456788999999999999999999999999999 57888 34 57889999999999999986
No 39
>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=98.23 E-value=3.4e-06 Score=52.80 Aligned_cols=70 Identities=27% Similarity=0.306 Sum_probs=43.8
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC---Ceec--CCCCChhhcCCCCCCEEEE
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN---GNRF--DYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd---G~~l--~~~~Tp~~l~medgD~Idv 85 (98)
+.|-|+|++.+|. ..+.+.+++++..|+++.++..+++.+.+.+..+ ...+ ..+.|.++|++..||.|.+
T Consensus 3 ~~milRvrS~dG~-~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL 77 (80)
T PF11543_consen 3 SSMILRVRSKDGM-KRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYL 77 (80)
T ss_dssp ---EEEEE-SSEE-EEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE-
T ss_pred ccEEEEEECCCCC-EEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEE
Confidence 5688999999995 4668999999999999999999999887776543 2355 4688999999999999865
No 40
>PLN02560 enoyl-CoA reductase
Probab=98.10 E-value=1.9e-05 Score=60.32 Aligned_cols=70 Identities=17% Similarity=0.228 Sum_probs=59.2
Q ss_pred EEEEEEccCCCEE---EEEEcCccHHHHHHHHHHHhcCC-CCcceeEEEC---C----eecCCCCChhhcCCCCCCEEEE
Q 045424 17 INLIIKSQDGDKR---FFQFNHDVEIKRLLIKYCETKSQ-PFKSTPFLIN---G----NRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 17 I~I~v~~~~g~~~---~f~Ik~~t~l~kL~~~y~~~~g~-~~~~~rF~fd---G----~~l~~~~Tp~~l~medgD~Idv 85 (98)
|+|.|+..+|+.+ .+.+.++++++.|+.+++++.+. +++.+|+.++ | ..|.++.|.+++++++|++|.|
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 3566667778776 78999999999999999999886 7899999983 4 3778899999999999999876
Q ss_pred E
Q 045424 86 M 86 (98)
Q Consensus 86 ~ 86 (98)
.
T Consensus 81 k 81 (308)
T PLN02560 81 K 81 (308)
T ss_pred E
Confidence 4
No 41
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=98.03 E-value=4.9e-05 Score=47.57 Aligned_cols=70 Identities=20% Similarity=0.312 Sum_probs=57.0
Q ss_pred EEEEEEccCC--CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC----Ceec----CCCCChhhcCCCCCCEEEEE
Q 045424 17 INLIIKSQDG--DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN----GNRF----DYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 17 I~I~v~~~~g--~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd----G~~l----~~~~Tp~~l~medgD~Idv~ 86 (98)
|+|.|.+... .....++.++.++..|+.......|++++.+++.+. +..+ .+..|..+++++||++|+|.
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 6778877554 478999999999999999999999999998887774 3322 45889999999999999986
No 42
>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=97.88 E-value=8.6e-05 Score=45.55 Aligned_cols=52 Identities=17% Similarity=0.224 Sum_probs=45.4
Q ss_pred cCccHHHHHHHHHHHhcCC-CCcceeEE--ECCeecCCCCChhhcCCCCCCEEEE
Q 045424 34 NHDVEIKRLLIKYCETKSQ-PFKSTPFL--INGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 34 k~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~~l~~~~Tp~~l~medgD~Idv 85 (98)
.++.++..|+.+++++.+. +.+.+|+. +.|..|..+.|..++++.+|.+|.|
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 3778999999999998764 67887775 7899999999999999999999876
No 43
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.88 E-value=6.1e-05 Score=58.06 Aligned_cols=75 Identities=13% Similarity=0.147 Sum_probs=68.9
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFG 91 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~G 91 (98)
+.|.|+.-.+..+.+.+++++++..++.......| .+.+..+++|+|+-|.++.|..++++.+++.|-|++.+.-
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~k 77 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKDK 77 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecCc
Confidence 35777778899999999999999999999999999 6779999999999999999999999999999999998763
No 44
>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=97.77 E-value=0.00018 Score=43.50 Aligned_cols=63 Identities=11% Similarity=0.099 Sum_probs=46.2
Q ss_pred EccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEE
Q 045424 22 KSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEID 84 (98)
Q Consensus 22 ~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id 84 (98)
.+.+++...+++.++++|..+.+.-|+++|++.++..+.|++..|+.+.+-.-.+|-+|..++
T Consensus 2 i~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLe 64 (65)
T PF11470_consen 2 ICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLE 64 (65)
T ss_dssp E-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEE
T ss_pred CccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEe
Confidence 457889999999999999999999999999999999999999999999998888888887665
No 45
>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=97.68 E-value=0.00022 Score=46.74 Aligned_cols=62 Identities=16% Similarity=0.116 Sum_probs=56.9
Q ss_pred CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCC-CCChhhcCCCCCCEEEEEce
Q 045424 27 DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDY-SKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 27 ~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~-~~Tp~~l~medgD~Idv~~~ 88 (98)
.+..+.|.+++++..|+......+++++.+.+++|+|+-|.+ +.|..+||+..|-+|.+.+.
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 367889999999999999999999999999999999997775 67999999999999998874
No 46
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=97.65 E-value=0.00017 Score=62.39 Aligned_cols=73 Identities=18% Similarity=0.278 Sum_probs=68.2
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF 90 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 90 (98)
++|+|++.|.+..+|.|....+++.+++..++..+++.+..|++|.|+-|.+++|..++++ ||-+|++.-+.-
T Consensus 3 ~~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlverpp 75 (1143)
T KOG4248|consen 3 PNVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVERPP 75 (1143)
T ss_pred cceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeeccCC
Confidence 3488888899999999999999999999999999999999999999999999999999999 999999987643
No 47
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=97.63 E-value=0.001 Score=44.05 Aligned_cols=75 Identities=16% Similarity=0.246 Sum_probs=57.1
Q ss_pred CcEEEEEEccCCC-EEEEEEcCccHHHHHHHHHHHhcC-------CCCcceeEEECCeecCCCCChhhcCCCCCCE----
Q 045424 15 HLINLIIKSQDGD-KRFFQFNHDVEIKRLLIKYCETKS-------QPFKSTPFLINGNRFDYSKTADQLGLKDGDE---- 82 (98)
Q Consensus 15 ~~I~I~v~~~~g~-~~~f~Ik~~t~l~kL~~~y~~~~g-------~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~---- 82 (98)
+.|.|+++-.+|. ...|...++++...|++..-.... .+.+.+|++|.|+-|.++.|..++.+--|+.
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 3688999989998 678999999999999998876442 1457999999999999999999999998884
Q ss_pred --EEEEcee
Q 045424 83 --IDAMYHA 89 (98)
Q Consensus 83 --Idv~~~q 89 (98)
+++.++.
T Consensus 81 ~vmHlvvrp 89 (111)
T PF13881_consen 81 TVMHLVVRP 89 (111)
T ss_dssp EEEEEEE-S
T ss_pred EEEEEEecC
Confidence 5555543
No 48
>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=97.55 E-value=0.00034 Score=43.09 Aligned_cols=70 Identities=20% Similarity=0.297 Sum_probs=51.6
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC---c---ceeEE-ECCeecCCCCChhhcCCCCCCEEEE
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF---K---STPFL-INGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~---~---~~rF~-fdG~~l~~~~Tp~~l~medgD~Idv 85 (98)
.+.|.|...+|..+-+.+-.+.|+..|+....+..+.+. . .++|. -+|..|.+++|.+++++.|||++..
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 567777765568899999999999999999999888732 2 36666 6899999999999999999998864
No 49
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=97.53 E-value=0.004 Score=35.57 Aligned_cols=71 Identities=13% Similarity=0.288 Sum_probs=64.1
Q ss_pred EEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceec
Q 045424 20 IIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAF 90 (98)
Q Consensus 20 ~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~ 90 (98)
.+....|....+.+.+..++..++...+...|++.+..++.|.|..+.++.|..++++..+..+.+.....
T Consensus 3 ~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~ 73 (75)
T KOG0001|consen 3 FVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLR 73 (75)
T ss_pred EEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecC
Confidence 44556888999999999999999999999999999999999999999999999999999999999877643
No 50
>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=97.40 E-value=0.0028 Score=38.81 Aligned_cols=75 Identities=12% Similarity=0.152 Sum_probs=58.9
Q ss_pred CCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcc-eeEE--ECCeecCCCC--ChhhcCCCCCCEEEEE
Q 045424 12 KPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKS-TPFL--INGNRFDYSK--TADQLGLKDGDEIDAM 86 (98)
Q Consensus 12 ~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~-~rF~--fdG~~l~~~~--Tp~~l~medgD~Idv~ 86 (98)
++.+.++|.|+-++|..+.-++.++++++.|++-.......+... +.|. |--..+..++ |.+++++-.+..|.|.
T Consensus 2 ~~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 2 EESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp STSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred CCCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence 346778899999999999999999999999997776655554443 7765 4567777665 9999999999888763
No 51
>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=96.76 E-value=0.016 Score=34.96 Aligned_cols=60 Identities=20% Similarity=0.253 Sum_probs=48.1
Q ss_pred EEEEEEcCccHHHHHHHHHHHhcCC----CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 28 KRFFQFNHDVEIKRLLIKYCETKSQ----PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 28 ~~~f~Ik~~t~l~kL~~~y~~~~g~----~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
...+.+...+++..|.+...++++- ....+.+..||+.+. .+.-+.|||+|.++.--.||
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 4667777789999999999988753 446788888999998 34569999999998876666
No 52
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=96.73 E-value=0.021 Score=34.37 Aligned_cols=66 Identities=18% Similarity=0.269 Sum_probs=48.2
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
|+|++-.. ..+..+.+...+++..|.+.. +++...+....||+.+. .+.-+.+||.|+++.---||
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 66776432 125577788888898887544 77778899999999994 45669999999987654443
No 53
>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=96.71 E-value=0.044 Score=34.42 Aligned_cols=71 Identities=10% Similarity=0.074 Sum_probs=55.6
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC--eecC--------CCCChhhcCCCCCCEEE
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING--NRFD--------YSKTADQLGLKDGDEID 84 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~--------~~~Tp~~l~medgD~Id 84 (98)
+.++|.|+-++|..+.-++..+++++.|++.... .+..+..+.+..+= +.+. .+.|.+++||....++-
T Consensus 3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~ 81 (85)
T cd01774 3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLF 81 (85)
T ss_pred ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEE
Confidence 4677888889999999999999999999988743 34455677777654 5554 36799999999888876
Q ss_pred EE
Q 045424 85 AM 86 (98)
Q Consensus 85 v~ 86 (98)
|.
T Consensus 82 V~ 83 (85)
T cd01774 82 VQ 83 (85)
T ss_pred Ee
Confidence 64
No 54
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=96.63 E-value=0.039 Score=33.76 Aligned_cols=71 Identities=15% Similarity=0.113 Sum_probs=54.4
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecCC---CCChhhcCCCCCCEEEE
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFDY---SKTADQLGLKDGDEIDA 85 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~---~~Tp~~l~medgD~Idv 85 (98)
+..+|.|+-++|..+.-++..+++++.|++......+.....+.|.- --+.+.. +.|..++++-...++-|
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 55778888899999999999999999999988665655555666654 3445543 46999999988887765
No 55
>COG5417 Uncharacterized small protein [Function unknown]
Probab=96.40 E-value=0.036 Score=34.60 Aligned_cols=69 Identities=12% Similarity=0.163 Sum_probs=58.2
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-----cceeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-----KSTPFLINGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-----~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv 85 (98)
||+-+...+|...-+++.-.-|+++|.+-..+...++. ..++..-.++-+.+++-..+.++.|||+++.
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 45555677899999999999999999998888766642 5778888899999999999999999998764
No 56
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=96.40 E-value=0.025 Score=33.33 Aligned_cols=64 Identities=20% Similarity=0.287 Sum_probs=44.3
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|.| +|+.+.+ ..+++..|.+.+ +++.+.+..-.||+-+..+ .-.+.-+.|||.|+++.--.||
T Consensus 2 ~i~~---Ng~~~~~---~~~tl~~Ll~~l----~~~~~~vavavN~~iv~~~-~~~~~~L~dgD~Ieiv~~V~GG 65 (65)
T PRK06488 2 KLFV---NGETLQT---EATTLALLLAEL----DYEGNWLATAVNGELVHKE-ARAQFVLHEGDRIEILSPMQGG 65 (65)
T ss_pred EEEE---CCeEEEc---CcCcHHHHHHHc----CCCCCeEEEEECCEEcCHH-HcCccccCCCCEEEEEEeccCC
Confidence 4554 6776666 345788777644 6767778889999888743 2234569999999997655554
No 57
>PRK06437 hypothetical protein; Provisional
Probab=96.34 E-value=0.04 Score=33.01 Aligned_cols=59 Identities=12% Similarity=0.231 Sum_probs=46.2
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
++....+.+...+++..|.+ ..|++.+.+....||+.+. .+.-+.+||.|+++.---||
T Consensus 9 g~~~~~~~i~~~~tv~dLL~----~Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG 67 (67)
T PRK06437 9 GHINKTIEIDHELTVNDIIK----DLGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG 67 (67)
T ss_pred CCcceEEEcCCCCcHHHHHH----HcCCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence 34556788888889988885 4588888998899999996 66678999999997654443
No 58
>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=96.27 E-value=0.059 Score=33.64 Aligned_cols=68 Identities=12% Similarity=0.144 Sum_probs=54.3
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE---CCe--ecCCCCChhhcCCCCCCEEEE
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI---NGN--RFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~--~l~~~~Tp~~l~medgD~Idv 85 (98)
|.|.|.--.+....|.|+|.+|+.||++......|.+- ..|+.| .|+ .|+...|.+++|+=..-.|-+
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~l 73 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICL 73 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEE
Confidence 45667655667899999999999999999999999876 788888 344 577888999999876655544
No 59
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=96.19 E-value=0.022 Score=36.19 Aligned_cols=49 Identities=10% Similarity=0.118 Sum_probs=42.6
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC---cceeEEE---CCeec
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF---KSTPFLI---NGNRF 66 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~---~~~rF~f---dG~~l 66 (98)
..|++++.|+.+.|++.++..+..|+...+++.|++. +.+.+.| +|+.|
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~V 56 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIV 56 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEE
Confidence 4688899999999999999999999999999999986 6888888 45544
No 60
>PRK07440 hypothetical protein; Provisional
Probab=96.15 E-value=0.056 Score=32.69 Aligned_cols=68 Identities=19% Similarity=0.258 Sum_probs=49.5
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+.|+|+| +|+.. .+....++..|.+ ..+++.+.+-.-.||+-|..++= ++.-+.+||.|+++.---||
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---NGETR--TCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHRQFW-EQTQVQPGDRLEIVTIVGGG 70 (70)
T ss_pred CceEEEE---CCEEE--EcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCHHHc-CceecCCCCEEEEEEEecCC
Confidence 4677877 66654 4556777887774 66888899999999988875432 34459999999997655444
No 61
>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=96.12 E-value=0.14 Score=31.00 Aligned_cols=67 Identities=15% Similarity=0.175 Sum_probs=48.6
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecC---CCCChhhcCCCCCCEE
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFD---YSKTADQLGLKDGDEI 83 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~---~~~Tp~~l~medgD~I 83 (98)
..+|.|+-++|..+.-+...+++++.|++....... ....+.|+- -.+.+. .+.|.+++||.+.-++
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 456778889999999999999999999977654332 245566654 344554 4889999999954443
No 62
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=96.09 E-value=0.018 Score=44.92 Aligned_cols=59 Identities=14% Similarity=0.170 Sum_probs=50.2
Q ss_pred EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424 28 KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~ 86 (98)
.+.+.|+-++.+..|++..+.+.|++.++++.+|-|+.|+.+-|.+.-+|.-.-..+++
T Consensus 15 ~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi~ 73 (446)
T KOG0006|consen 15 GLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIM 73 (446)
T ss_pred ceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhhh
Confidence 46788999999999999999999999999999999999999999995555444444444
No 63
>smart00455 RBD Raf-like Ras-binding domain.
Probab=95.89 E-value=0.076 Score=32.20 Aligned_cols=57 Identities=11% Similarity=0.179 Sum_probs=44.1
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC--eecCCCCChhhc
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING--NRFDYSKTADQL 75 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG--~~l~~~~Tp~~l 75 (98)
.+|.-++|+...+++++..++..+...-|+++|+.++.+.+..-| .+|.-++-...|
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 345558999999999999999999999999999999888877754 344444333333
No 64
>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=95.88 E-value=0.12 Score=31.92 Aligned_cols=62 Identities=21% Similarity=0.315 Sum_probs=46.7
Q ss_pred CEEEEEEcCccHHHHHHHHHHHhcCC------C-----CcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 27 DKRFFQFNHDVEIKRLLIKYCETKSQ------P-----FKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 27 ~~~~f~Ik~~t~l~kL~~~y~~~~g~------~-----~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
....+.+. .+++..|++..+++++- . ...+.+..||+.+..++. .-++|||+|.++.---||
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 88999999999988752 0 135888999999986542 569999999988766665
No 65
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=95.86 E-value=0.1 Score=36.81 Aligned_cols=77 Identities=19% Similarity=0.210 Sum_probs=57.2
Q ss_pred EEEEEEccCC----CEEEEEEcCccHHHHHHHHHHHhcCCCCcc-eeEEEC-CeecCC-CC-ChhhcCCCCCC----EEE
Q 045424 17 INLIIKSQDG----DKRFFQFNHDVEIKRLLIKYCETKSQPFKS-TPFLIN-GNRFDY-SK-TADQLGLKDGD----EID 84 (98)
Q Consensus 17 I~I~v~~~~g----~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~-~rF~fd-G~~l~~-~~-Tp~~l~medgD----~Id 84 (98)
|+|.|.+.+| ..+.|.+..++++..|++...+..+++... +.|.+. |..|.. ++ .+.++.-.+.| .+.
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 6788999999 578999999999999999999999997755 555553 445533 33 33445544554 578
Q ss_pred EEceecCCC
Q 045424 85 AMYHAFGGG 93 (98)
Q Consensus 85 v~~~q~GG~ 93 (98)
+..+..||-
T Consensus 81 l~~rl~GGK 89 (162)
T PF13019_consen 81 LSLRLRGGK 89 (162)
T ss_pred EEEeccCCC
Confidence 888888883
No 66
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=95.79 E-value=0.0049 Score=37.53 Aligned_cols=71 Identities=17% Similarity=0.163 Sum_probs=61.2
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
|.+.+.+.-|..+.++..+++++..++...+.+.|-.++++++.=-+.-+.+.-|.++++|.||--.+.+.
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 45566666789999999999999999999999999999998888666677788899999999998877764
No 67
>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=95.77 E-value=0.23 Score=30.62 Aligned_cols=69 Identities=12% Similarity=0.163 Sum_probs=50.2
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCC-CCcceeEE--ECCeecCC-CCChhhcCCCCCCEEE
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQ-PFKSTPFL--INGNRFDY-SKTADQLGLKDGDEID 84 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~-~~~~~rF~--fdG~~l~~-~~Tp~~l~medgD~Id 84 (98)
..+|.|+-.+|..+.-++..+++++.|++-.....+. ....+.+. |=.+.+.+ +.|.+++||.+.-++-
T Consensus 4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~q 76 (79)
T cd01770 4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIVQ 76 (79)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEEE
Confidence 4566677799999999999999999999877655432 23556664 55665554 7799999999765543
No 68
>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=95.74 E-value=0.053 Score=40.11 Aligned_cols=77 Identities=19% Similarity=0.207 Sum_probs=52.5
Q ss_pred CCCcEEEEEEc--cCCCEE----EEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC------eecCCCCChhhcCCCCC
Q 045424 13 PQHLINLIIKS--QDGDKR----FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING------NRFDYSKTADQLGLKDG 80 (98)
Q Consensus 13 ~~~~I~I~v~~--~~g~~~----~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG------~~l~~~~Tp~~l~medg 80 (98)
++..|-|.++- .....+ ++-|.++++++.|....+++.|++.+.=-.+|.- +.|.++.|.+..++.||
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 46678887774 445554 6899999999999999999999987644444432 46889999999999999
Q ss_pred CEEEEEcee
Q 045424 81 DEIDAMYHA 89 (98)
Q Consensus 81 D~Idv~~~q 89 (98)
|+|-+....
T Consensus 145 dIi~fQ~~~ 153 (249)
T PF12436_consen 145 DIICFQRAP 153 (249)
T ss_dssp EEEEEEE--
T ss_pred CEEEEEecc
Confidence 988776644
No 69
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=95.62 E-value=0.14 Score=29.82 Aligned_cols=60 Identities=17% Similarity=0.270 Sum_probs=40.1
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|..+. +...+++..|.+.+ ++. ..+.+..||+.+..++ -++--+.+||.|+++.---||
T Consensus 6 Ng~~~~--~~~~~tl~~ll~~l----~~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG 65 (65)
T PRK06944 6 NQQTLS--LPDGATVADALAAY----GAR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG 65 (65)
T ss_pred CCEEEE--CCCCCcHHHHHHhh----CCC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence 565444 45667888888765 332 4578899998886542 223349999999997654444
No 70
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=95.49 E-value=0.084 Score=31.27 Aligned_cols=60 Identities=18% Similarity=0.252 Sum_probs=43.2
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|....+ ...+++..|.+ ..+++...+-..++|.-|..++=. +. +.|||.|+++.---||
T Consensus 6 NG~~~~~--~~~~tl~~ll~----~l~~~~~~vav~~N~~iv~r~~~~-~~-L~~gD~ieIv~~VgGG 65 (65)
T PRK05863 6 NEEQVEV--DEQTTVAALLD----SLGFPEKGIAVAVDWSVLPRSDWA-TK-LRDGARLEVVTAVQGG 65 (65)
T ss_pred CCEEEEc--CCCCcHHHHHH----HcCCCCCcEEEEECCcCcChhHhh-hh-cCCCCEEEEEeeccCC
Confidence 6665544 46677777775 468888999999999977765544 34 8999999997644333
No 71
>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=95.36 E-value=0.35 Score=29.94 Aligned_cols=71 Identities=20% Similarity=0.167 Sum_probs=53.5
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--Cee---cCCCCChhhcCCCCCCEEEEE
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNR---FDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~---l~~~~Tp~~l~medgD~Idv~ 86 (98)
+.++|.|+-++|..+.-+...+++|+.|++.... .|.+...+++.-. =+. ...+.|.+++||-...++-|-
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 4577888889999999999999999999987754 4666666666432 222 234679999999998888763
No 72
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=95.35 E-value=0.15 Score=29.82 Aligned_cols=61 Identities=20% Similarity=0.345 Sum_probs=43.3
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|+.. .+...+++..|.. ..+++...+-...||.-+....- .+--++|||.|+++.---||
T Consensus 6 NG~~~--~~~~~~tl~~lL~----~l~~~~~~vav~vNg~iv~r~~~-~~~~l~~gD~vei~~~vgGG 66 (66)
T PRK05659 6 NGEPR--ELPDGESVAALLA----REGLAGRRVAVEVNGEIVPRSQH-ASTALREGDVVEIVHALGGG 66 (66)
T ss_pred CCeEE--EcCCCCCHHHHHH----hcCCCCCeEEEEECCeEeCHHHc-CcccCCCCCEEEEEEEecCC
Confidence 66644 4556677877774 46888888888999987776543 34459999999997654443
No 73
>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=95.31 E-value=0.35 Score=30.38 Aligned_cols=69 Identities=19% Similarity=0.315 Sum_probs=51.5
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--Cee---cCCCCChhhcCCCCCCEEEEE
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNR---FDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~---l~~~~Tp~~l~medgD~Idv~ 86 (98)
-.|.|+-++|..+.-+...+++|+.|+..... .|.+...+.++-+ =+. ...+.|.+++||..-+++-|.
T Consensus 6 t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 6 ARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred eEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 34555568999999999999999999985544 6777777777643 112 233579999999999988774
No 74
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=95.25 E-value=0.11 Score=31.41 Aligned_cols=45 Identities=13% Similarity=0.211 Sum_probs=38.5
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd 62 (98)
++||+.- ++....|.+.+..++..|..+.+++++++...+++.|.
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~ 46 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ 46 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence 5677765 66677899999999999999999999998778888883
No 75
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=95.09 E-value=0.17 Score=31.81 Aligned_cols=67 Identities=21% Similarity=0.258 Sum_probs=47.9
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
.|+|.| +|.... +....++..|.+. .+++...+-...||+-|.. +.-++.-|.+||.|+++.---||
T Consensus 18 ~m~I~V---NG~~~~--~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr-~~w~~t~L~egD~IEIv~~VgGG 84 (84)
T PRK06083 18 LITISI---NDQSIQ--VDISSSLAQIIAQ----LSLPELGCVFAINNQVVPR-SEWQSTVLSSGDAISLFQAIAGG 84 (84)
T ss_pred eEEEEE---CCeEEE--cCCCCcHHHHHHH----cCCCCceEEEEECCEEeCH-HHcCcccCCCCCEEEEEEEecCC
Confidence 455555 676554 4566778887764 5788888999999988854 34455669999999997654444
No 76
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=94.99 E-value=0.24 Score=29.28 Aligned_cols=61 Identities=20% Similarity=0.146 Sum_probs=42.4
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|++..+ ....++..|.+ ..+.....+.+-.||+-|..+ .-++.-+.+||.|+++.---||
T Consensus 6 Ng~~~~~--~~~~tl~~ll~----~l~~~~~~vaVavN~~iv~r~-~w~~~~L~~gD~Ieii~~v~GG 66 (66)
T PRK08053 6 NDQPMQC--AAGQTVHELLE----QLNQLQPGAALAINQQIIPRE-QWAQHIVQDGDQILLFQVIAGG 66 (66)
T ss_pred CCeEEEc--CCCCCHHHHHH----HcCCCCCcEEEEECCEEeChH-HcCccccCCCCEEEEEEEccCC
Confidence 6665554 55667888775 356666789999999888643 2334459999999987654444
No 77
>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=94.99 E-value=0.26 Score=30.12 Aligned_cols=65 Identities=11% Similarity=0.257 Sum_probs=46.1
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--C--eecCCCCChhhcCCCCCCEEEEE
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--G--NRFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G--~~l~~~~Tp~~l~medgD~Idv~ 86 (98)
++|.-+||....+.+++..++..+...-|++.|+.++...+.+- + ..+..++ +...-.+++|.|.
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~~~~~~~~~~~~---d~~~L~~~El~Ve 70 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLGLDEKKPLDLDT---DSSSLAGEELEVE 70 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEecCCCcCCcCchh---hhhhhcCCEEEEE
Confidence 34555899999999999999999999999999998866555443 3 2222222 2233366777764
No 78
>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=94.22 E-value=0.21 Score=32.20 Aligned_cols=55 Identities=5% Similarity=0.027 Sum_probs=42.4
Q ss_pred cEEEEEEccCCCEEEEEEc--CccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCC
Q 045424 16 LINLIIKSQDGDKRFFQFN--HDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKT 71 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik--~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~T 71 (98)
.|+|++.+ .-..+.+.|. .+++...|+....++.+ .+...+||+|.|+-|.+...
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 46777755 2234677777 88999999999999883 46689999999999886543
No 79
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=94.20 E-value=0.51 Score=28.61 Aligned_cols=60 Identities=13% Similarity=0.174 Sum_probs=46.0
Q ss_pred EEEEEEcCc-cHHHHHHHHHHHhcC-C--CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 28 KRFFQFNHD-VEIKRLLIKYCETKS-Q--PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 28 ~~~f~Ik~~-t~l~kL~~~y~~~~g-~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
...+.+... +++..|.+..+++++ + ....+.+..||+.+.. +.-++|||+|.++.---||
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 456777776 899999999999875 2 1256778889998884 5689999999988755554
No 80
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=93.99 E-value=0.25 Score=30.14 Aligned_cols=61 Identities=16% Similarity=0.182 Sum_probs=44.0
Q ss_pred CEEEEEEcCccHHHHHHHHHHHhcC-CCC--cceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 27 DKRFFQFNHDVEIKRLLIKYCETKS-QPF--KSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 27 ~~~~f~Ik~~t~l~kL~~~y~~~~g-~~~--~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
....+.+...+++..|.+...+++. +.. ..+.+..||+.+. .+.-++|||+|.++.--.||
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 4567778788899999998887762 211 3456788998864 44568999999987654444
No 81
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=93.98 E-value=0.41 Score=28.83 Aligned_cols=45 Identities=13% Similarity=0.103 Sum_probs=36.5
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f 61 (98)
+.||+.-.+.....+.+.+..++..|....+++++.....+++.|
T Consensus 2 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y 46 (84)
T PF00564_consen 2 VRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKY 46 (84)
T ss_dssp EEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEE
T ss_pred EEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEe
Confidence 567776533333349999999999999999999999888899998
No 82
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=93.63 E-value=0.42 Score=27.96 Aligned_cols=61 Identities=23% Similarity=0.326 Sum_probs=42.0
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|+.+ .+...+++..|.+. .+++.+.+.+..||+.+..++ .++.-|.|||.|+++.---||
T Consensus 4 Ng~~~--~~~~~~tv~~ll~~----l~~~~~~v~v~vN~~iv~~~~-~~~~~L~~gD~veii~~V~GG 64 (64)
T TIGR01683 4 NGEPV--EVEDGLTLAALLES----LGLDPRRVAVAVNGEIVPRSE-WDDTILKEGDRIEIVTFVGGG 64 (64)
T ss_pred CCeEE--EcCCCCcHHHHHHH----cCCCCCeEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence 45444 44566678777754 467778889999998886443 333569999999987654443
No 83
>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=93.59 E-value=1 Score=27.58 Aligned_cols=69 Identities=13% Similarity=0.090 Sum_probs=51.3
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecCC---CCChhhcCCCCCCEEEE
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFDY---SKTADQLGLKDGDEIDA 85 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~---~~Tp~~l~medgD~Idv 85 (98)
..+|.|+-++|..+.-++..++++..|++......+- ...+.|.- =-+.+.. +.|.+++||-...++-|
T Consensus 4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~-~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGN-GGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCC-CCCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 4567777799999999999999999999888654432 24455544 3444543 57999999998887765
No 84
>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=93.56 E-value=0.2 Score=31.50 Aligned_cols=44 Identities=11% Similarity=0.066 Sum_probs=38.6
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN 62 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd 62 (98)
..|||.-+. .+.++|.+.-++..|.++.+++.+++.+.+.+.|.
T Consensus 3 ~vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYk 46 (80)
T cd06406 3 YVVKVHFKY--TVAIQVARGLSYATLLQKISSKLELPAEHITLSYK 46 (80)
T ss_pred eEEEEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEec
Confidence 457777644 88999999999999999999999999899999884
No 85
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=93.49 E-value=0.78 Score=27.31 Aligned_cols=65 Identities=22% Similarity=0.232 Sum_probs=44.1
Q ss_pred EEEEEccCCCEEEEEEcCc-cHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 18 NLIIKSQDGDKRFFQFNHD-VEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~-t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|+| +|+... +... +++..|.+ ..+++...+-...||+-|..++ -++.-+.+||.|+++.---||
T Consensus 2 ~I~v---NG~~~~--~~~~~~tv~~lL~----~l~~~~~~vav~vN~~iv~r~~-w~~~~L~~gD~iEIv~~VgGG 67 (67)
T PRK07696 2 NLKI---NGNQIE--VPESVKTVAELLT----HLELDNKIVVVERNKDILQKDD-HTDTSVFDGDQIEIVTFVGGG 67 (67)
T ss_pred EEEE---CCEEEE--cCCCcccHHHHHH----HcCCCCCeEEEEECCEEeCHHH-cCceecCCCCEEEEEEEecCC
Confidence 4554 666544 4444 45666654 5788888999999998887653 233459999999997654443
No 86
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=93.23 E-value=0.35 Score=28.32 Aligned_cols=61 Identities=21% Similarity=0.305 Sum_probs=41.5
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|.. +.+....++..|.+. .+++.+.+....||+.+..++ =++.-+.|||.|+++.---||
T Consensus 5 Ng~~--~~~~~~~tv~~ll~~----l~~~~~~i~V~vNg~~v~~~~-~~~~~L~~gD~V~ii~~v~GG 65 (65)
T cd00565 5 NGEP--REVEEGATLAELLEE----LGLDPRGVAVALNGEIVPRSE-WASTPLQDGDRIEIVTAVGGG 65 (65)
T ss_pred CCeE--EEcCCCCCHHHHHHH----cCCCCCcEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence 4544 344556778877754 457778899999998887653 122359999999987654444
No 87
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=93.19 E-value=0.27 Score=29.12 Aligned_cols=63 Identities=21% Similarity=0.257 Sum_probs=50.3
Q ss_pred EEEEEEcCccHHHHHHHHHHHhcCC--CCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 28 KRFFQFNHDVEIKRLLIKYCETKSQ--PFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 28 ~~~f~Ik~~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
.....+....++..|.+..++++.. ....+.+..||+.+.. .-.+.-+.+||+|.++.--.||
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 5678888999999999999888742 2367999999999988 3666778999999987655554
No 88
>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=93.09 E-value=1.1 Score=27.05 Aligned_cols=58 Identities=14% Similarity=0.265 Sum_probs=40.9
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEEC--CeecCCCCChhhcC
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLIN--GNRFDYSKTADQLG 76 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fd--G~~l~~~~Tp~~l~ 76 (98)
++|.=++|+.....+++..+++.....-|++.|+.++.+.+..- ..+|.-++....|.
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~~L~ 62 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSSSLP 62 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGGGGT
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCceeeec
Confidence 34444899999999999999999999999999998876655543 44555555555544
No 89
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=92.87 E-value=0.81 Score=30.51 Aligned_cols=65 Identities=9% Similarity=0.048 Sum_probs=51.1
Q ss_pred CCcEEEEEEccCCCEE----EEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCe--ecCCCCChhhcCCC
Q 045424 14 QHLINLIIKSQDGDKR----FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGN--RFDYSKTADQLGLK 78 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~----~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~--~l~~~~Tp~~l~me 78 (98)
..+|+|+++-..+.++ .|+|.++.+|.++.....+..+++.+.--|+|=.. .=.++++..+|-+-
T Consensus 28 ~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~c 98 (116)
T KOG3439|consen 28 IRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYEC 98 (116)
T ss_pred cceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHh
Confidence 3889999987666543 79999999999999999999999887777777333 33467787777654
No 90
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=92.65 E-value=0.71 Score=28.80 Aligned_cols=54 Identities=24% Similarity=0.464 Sum_probs=44.3
Q ss_pred CCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 26 GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 26 g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
+..+.+.+...++++.+. +..|++...+-+++ ||+.+..+ .-+++||.|.|+-.
T Consensus 22 ~~~~~~~~~~~~tvkd~I----EsLGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P~ 76 (81)
T PF14451_consen 22 GGPFTHPFDGGATVKDVI----ESLGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYPV 76 (81)
T ss_pred CCceEEecCCCCcHHHHH----HHcCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEec
Confidence 346788899999999987 56899988888777 99988876 56779999999853
No 91
>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=92.53 E-value=0.37 Score=30.66 Aligned_cols=60 Identities=12% Similarity=0.120 Sum_probs=39.6
Q ss_pred cEEEEEEccCCCE----EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCe-ecCCCCChhhc
Q 045424 16 LINLIIKSQDGDK----RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGN-RFDYSKTADQL 75 (98)
Q Consensus 16 ~I~I~v~~~~g~~----~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~-~l~~~~Tp~~l 75 (98)
+|+|+++...+.+ -.|+|..+.+|+.+..-.+++.++..++--|+| +.- .-.+++|..+|
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 4778887766544 379999999999999999999998665555666 443 33568888876
No 92
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=92.51 E-value=0.65 Score=28.95 Aligned_cols=50 Identities=6% Similarity=-0.039 Sum_probs=40.3
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE---CCeecC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI---NGNRFD 67 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~~l~ 67 (98)
|+||+. .++..+.|++.++..+..|.+..+++++++. ..+.+.| +|+.+.
T Consensus 1 ~~vK~~-~~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ 54 (82)
T cd06407 1 VRVKAT-YGEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVL 54 (82)
T ss_pred CEEEEE-eCCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEE
Confidence 456665 3677889999999999999999999999875 7888888 455443
No 93
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=92.38 E-value=1.2 Score=27.63 Aligned_cols=58 Identities=17% Similarity=0.179 Sum_probs=44.5
Q ss_pred EEEEEEcCccHHHHHHHHHHHhcCCCCcc-eeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424 28 KRFFQFNHDVEIKRLLIKYCETKSQPFKS-TPFLINGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~-~rF~fdG~~l~~~~Tp~~l~medgD~Idv 85 (98)
...+.|-..+||..+..--|+.+.++... .-..-||.-|++.+|..+.=|+-|-++-+
T Consensus 17 ~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrl 75 (76)
T PF03671_consen 17 YKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRL 75 (76)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEE
T ss_pred ceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeee
Confidence 34799999999999999999999997754 44555899999999999888877776543
No 94
>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=92.35 E-value=0.74 Score=28.91 Aligned_cols=48 Identities=8% Similarity=0.108 Sum_probs=39.0
Q ss_pred EEEEEEccCCCEEEEEEcC--ccHHHHHHHHHHHhcCCCCcceeEEE---CCeecC
Q 045424 17 INLIIKSQDGDKRFFQFNH--DVEIKRLLIKYCETKSQPFKSTPFLI---NGNRFD 67 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~--~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~ 67 (98)
|+||+. .+|..+.|.+.+ +..+..|....+.+++++ .+.+.| +|+.+.
T Consensus 1 V~vKat-y~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKYlDde~e~v~ 53 (81)
T cd06396 1 VNLKVT-YNGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKYVDEENEEVS 53 (81)
T ss_pred CEEEEE-ECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEEEcCCCCEEE
Confidence 466765 478889999999 889999999999999998 777777 465554
No 95
>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=92.31 E-value=0.68 Score=28.85 Aligned_cols=43 Identities=9% Similarity=0.081 Sum_probs=36.7
Q ss_pred EEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC--cceeEEEC
Q 045424 20 IIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF--KSTPFLIN 62 (98)
Q Consensus 20 ~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~--~~~rF~fd 62 (98)
+|.-++|..+...|++..++..+.+.-|+++++++ ..+|+.+-
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 45558999999999999999999999999999976 56666664
No 96
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=92.21 E-value=0.97 Score=28.16 Aligned_cols=60 Identities=17% Similarity=0.209 Sum_probs=50.8
Q ss_pred EEEEEcCccHHHHHHHHHHHhcCCCCccee-EEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 29 RFFQFNHDVEIKRLLIKYCETKSQPFKSTP-FLINGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 29 ~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~r-F~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
..+.|-..+||..+..--||.+.++...-- ..-||.=|++.+|+...=|+.|..+-+..+
T Consensus 18 kvlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPR 78 (82)
T cd01766 18 KVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPR 78 (82)
T ss_pred eEEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeeccc
Confidence 367899999999999988999999875444 455899999999999999999998877654
No 97
>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=91.99 E-value=1.1 Score=28.45 Aligned_cols=44 Identities=11% Similarity=0.163 Sum_probs=37.8
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f 61 (98)
+|+|||.- +|..+.+.|.++..|+.|.+...+++++. ..+++.|
T Consensus 2 ~ikVKv~~-~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKy 45 (86)
T cd06408 2 KIRVKVHA-QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKM 45 (86)
T ss_pred cEEEEEEe-cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEE
Confidence 57888874 67788999999999999999999999995 5777776
No 98
>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=91.97 E-value=1.9 Score=28.88 Aligned_cols=64 Identities=11% Similarity=0.123 Sum_probs=54.0
Q ss_pred CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCC-------CCCCEEEEEce
Q 045424 25 DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGL-------KDGDEIDAMYH 88 (98)
Q Consensus 25 ~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m-------edgD~Idv~~~ 88 (98)
....+....+.+++.-.|+.....-...+++..|++-+++-|.++.|..+.|+ +.-.++=..++
T Consensus 10 ~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r 80 (119)
T cd01788 10 HKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFR 80 (119)
T ss_pred cceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEe
Confidence 45567888999999999999999999999999999988899999999999999 55555554444
No 99
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=91.94 E-value=1.9 Score=27.48 Aligned_cols=67 Identities=15% Similarity=0.009 Sum_probs=47.7
Q ss_pred EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC-----eec-CCCCChhhcCCCCCCEEEEEceecCCCcc
Q 045424 28 KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING-----NRF-DYSKTADQLGLKDGDEIDAMYHAFGGGHD 95 (98)
Q Consensus 28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG-----~~l-~~~~Tp~~l~medgD~Idv~~~q~GG~~~ 95 (98)
.++-.+.+++++..+...-++.+.+ ....|++-.+ ++| .+..|.++++|.+|-.|-+-.+..-|.|=
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn~DGtWP 87 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERNEDGTWP 87 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--TTS--T
T ss_pred HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeeccCCCCC
Confidence 5678889999999999999999999 7778998732 356 45689999999999998887777777663
No 100
>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=91.92 E-value=0.97 Score=28.50 Aligned_cols=61 Identities=10% Similarity=0.114 Sum_probs=44.1
Q ss_pred cEEEEEEccCCC----EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCe-ecCCCCChhhcC
Q 045424 16 LINLIIKSQDGD----KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGN-RFDYSKTADQLG 76 (98)
Q Consensus 16 ~I~I~v~~~~g~----~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~-~l~~~~Tp~~l~ 76 (98)
+|+|+++..... ...|.|..+.++..++....++.+++.++--|+| +.. ...+++|..+|-
T Consensus 1 kv~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY 67 (87)
T cd01612 1 KVTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLY 67 (87)
T ss_pred CeEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHH
Confidence 467777764443 2479999999999999999999999877766666 443 333456776653
No 101
>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=91.73 E-value=1.7 Score=25.91 Aligned_cols=57 Identities=18% Similarity=0.236 Sum_probs=42.1
Q ss_pred EccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE----CC--eecCCCCChhhcCCC
Q 045424 22 KSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI----NG--NRFDYSKTADQLGLK 78 (98)
Q Consensus 22 ~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f----dG--~~l~~~~Tp~~l~me 78 (98)
+-.||....|.|.++++-+.|++..|++.|+.. .-+-+.| +| ..|..+.+..+..-.
T Consensus 2 ~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~ 65 (80)
T PF09379_consen 2 RLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKK 65 (80)
T ss_dssp EESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred CCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCC
Confidence 346899999999999999999999999999954 6666777 22 345566665555443
No 102
>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures. Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.
Probab=91.60 E-value=0.053 Score=41.74 Aligned_cols=80 Identities=16% Similarity=0.176 Sum_probs=0.0
Q ss_pred CCcEEEEEEccCCCEEEEEEc---C--ccHHHHHHHHHHH----------hcCCCCccee-----EEECCeecCCCCChh
Q 045424 14 QHLINLIIKSQDGDKRFFQFN---H--DVEIKRLLIKYCE----------TKSQPFKSTP-----FLINGNRFDYSKTAD 73 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~~f~Ik---~--~t~l~kL~~~y~~----------~~g~~~~~~r-----F~fdG~~l~~~~Tp~ 73 (98)
...|+|.+++..+..+.+.+. + ++.+..|++++|+ ..+++.++++ ++|+-+++..+.|..
T Consensus 76 ~~sItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~ 155 (309)
T PF12754_consen 76 SKSITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLA 155 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CceEEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHH
Confidence 577999999887766543332 3 6888999999999 7889999999 999999998888988
Q ss_pred hcCCC-------CCCEEEEEceecCCC
Q 045424 74 QLGLK-------DGDEIDAMYHAFGGG 93 (98)
Q Consensus 74 ~l~me-------dgD~Idv~~~q~GG~ 93 (98)
++.=+ .|-++|+.+=-.||.
T Consensus 156 e~l~~~~~~l~~~~~~vE~gvMVlGGa 182 (309)
T PF12754_consen 156 EVLADSESRLLSGGKEVEFGVMVLGGA 182 (309)
T ss_dssp ---------------------------
T ss_pred HHHhcccchhccCCceEEEEEEEECCc
Confidence 87655 455677666556664
No 103
>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=91.02 E-value=1.4 Score=30.28 Aligned_cols=63 Identities=16% Similarity=0.125 Sum_probs=46.6
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE-C-C----eecCCCCChhhcCC
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI-N-G----NRFDYSKTADQLGL 77 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f-d-G----~~l~~~~Tp~~l~m 77 (98)
..+.|+|.-.+|....+.|..+++.+.|++..|++.|+.. ..+.+.+ + + ..+....+..+..-
T Consensus 2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~ 71 (207)
T smart00295 2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDV 71 (207)
T ss_pred CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcC
Confidence 4577888889999999999999999999999999999954 4444444 2 2 34555555555443
No 104
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=90.50 E-value=1.4 Score=26.28 Aligned_cols=44 Identities=18% Similarity=0.169 Sum_probs=36.1
Q ss_pred EEEEEEccCCCEEEEEEc-CccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424 17 INLIIKSQDGDKRFFQFN-HDVEIKRLLIKYCETKSQPFKSTPFLI 61 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik-~~t~l~kL~~~y~~~~g~~~~~~rF~f 61 (98)
++||+.- +|....|.+. +..++..|+...+++++.....+.+.|
T Consensus 1 ~~vK~~~-~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y 45 (81)
T cd05992 1 VRVKVKY-GGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKY 45 (81)
T ss_pred CcEEEEe-cCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEe
Confidence 3566665 4567789999 999999999999999998766777777
No 105
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=90.03 E-value=0.25 Score=31.09 Aligned_cols=55 Identities=22% Similarity=0.371 Sum_probs=38.1
Q ss_pred EEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC--------------CCCChhhcCCCCCCEEEEE
Q 045424 31 FQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD--------------YSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 31 f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~--------------~~~Tp~~l~medgD~Idv~ 86 (98)
+.+.++.+|+.+++..|++..+....-.+...|..|. -+.+..+| +.+|++|-|.
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 4688999999999999998655443333334444332 36678888 9999999874
No 106
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=90.01 E-value=2.9 Score=25.25 Aligned_cols=66 Identities=20% Similarity=0.276 Sum_probs=46.8
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
|+|.+ +|+.+. +...+++..|. +..|++.+.+-...||+.+..++ -++..+++||.|+++.--.||
T Consensus 3 m~i~~---ng~~~e--~~~~~tv~dLL----~~l~~~~~~vav~vNg~iVpr~~-~~~~~l~~gD~ievv~~v~GG 68 (68)
T COG2104 3 MTIQL---NGKEVE--IAEGTTVADLL----AQLGLNPEGVAVAVNGEIVPRSQ-WADTILKEGDRIEVVRVVGGG 68 (68)
T ss_pred EEEEE---CCEEEE--cCCCCcHHHHH----HHhCCCCceEEEEECCEEccchh-hhhccccCCCEEEEEEeecCC
Confidence 45554 455544 45557887776 46788889999999998886433 356779999999997655454
No 107
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=89.14 E-value=0.95 Score=28.85 Aligned_cols=60 Identities=8% Similarity=0.062 Sum_probs=44.0
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCccee----EEEC----CeecCCCCChhhcC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTP----FLIN----GNRFDYSKTADQLG 76 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~r----F~fd----G~~l~~~~Tp~~l~ 76 (98)
+.|.|.=++|..+.++|+++..-+.++++-|.+.|++.+... |... =++|.+..-|-.|-
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 456776689999999999999999999999999999864322 1111 13556666665443
No 108
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=88.03 E-value=2.7 Score=32.70 Aligned_cols=65 Identities=23% Similarity=0.271 Sum_probs=46.8
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
+|+| +|+. +.+...+++..|.+ ..+++.+.+-..+||+-|..++ -.+.-+.|||.|+++.---||
T Consensus 2 ~I~V---NGk~--~el~e~~TL~dLL~----~L~i~~~~VAVeVNgeIVpr~~-w~~t~LkeGD~IEII~~VgGG 66 (326)
T PRK11840 2 RIRL---NGEP--RQVPAGLTIAALLA----ELGLAPKKVAVERNLEIVPRSE-YGQVALEEGDELEIVHFVGGG 66 (326)
T ss_pred EEEE---CCEE--EecCCCCcHHHHHH----HcCCCCCeEEEEECCEECCHHH-cCccccCCCCEEEEEEEecCC
Confidence 4555 5654 45567778888775 4688889999999999886433 234459999999997655555
No 109
>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=87.72 E-value=5 Score=32.28 Aligned_cols=70 Identities=11% Similarity=0.147 Sum_probs=54.2
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCC------CcceeEEE-CCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQP------FKSTPFLI-NGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~------~~~~rF~f-dG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
..|.|... .+.+-.-+--+.|+..|+...-+..+-. .....|.= +|.+|+++.|+++.++.|||+....-
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 4458899999999999999888876642 12344433 89999999999999999999987764
No 110
>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=86.26 E-value=4.5 Score=25.67 Aligned_cols=48 Identities=23% Similarity=0.218 Sum_probs=37.7
Q ss_pred EEEEEccCCCEEEEEEcC-----ccHHHHHHHHHHHhcCCCC-cceeEEE---CCeec
Q 045424 18 NLIIKSQDGDKRFFQFNH-----DVEIKRLLIKYCETKSQPF-KSTPFLI---NGNRF 66 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~-----~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~~l 66 (98)
.||+.- +|....|++.. +..+..|.+..++.++++. ..+.+.| +|..+
T Consensus 2 ~vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V 58 (91)
T cd06398 2 VVKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVV 58 (91)
T ss_pred EEEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEE
Confidence 566653 67777899984 7899999999999999976 7888888 35544
No 111
>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=85.63 E-value=5.6 Score=25.22 Aligned_cols=61 Identities=13% Similarity=0.205 Sum_probs=46.0
Q ss_pred EEEEEEcCccHHHHHHHHHHHh-cCC-----CCcceeEEECC--eecCCCCChhhcCCCCCCEEEEEce
Q 045424 28 KRFFQFNHDVEIKRLLIKYCET-KSQ-----PFKSTPFLING--NRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 28 ~~~f~Ik~~t~l~kL~~~y~~~-~g~-----~~~~~rF~fdG--~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
..-+-|...+++..+=++.+.. .|. +-..+++...| +.+..+.|.++.||..-|+|||+++
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 4467889999999998888764 343 22478999999 9999999999999999999999875
No 112
>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=85.16 E-value=6.2 Score=23.72 Aligned_cols=63 Identities=13% Similarity=0.098 Sum_probs=47.0
Q ss_pred EEEEEEccCCC----EEEEEEcCccHHHHHHHHHHHhcCC--CCcceeEE-E---CC--eecCCCCChhhcCCCC
Q 045424 17 INLIIKSQDGD----KRFFQFNHDVEIKRLLIKYCETKSQ--PFKSTPFL-I---NG--NRFDYSKTADQLGLKD 79 (98)
Q Consensus 17 I~I~v~~~~g~----~~~f~Ik~~t~l~kL~~~y~~~~g~--~~~~~rF~-f---dG--~~l~~~~Tp~~l~med 79 (98)
-.|+|-..++. ...+.|..+++...|+.+..+++++ ++..+.++ + .| +.|.+++-|-.+-+..
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~ 77 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQW 77 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTT
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhC
Confidence 35677667776 8899999999999999999999999 45677774 2 22 3666777776665444
No 113
>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=84.31 E-value=3.3 Score=26.37 Aligned_cols=61 Identities=5% Similarity=-0.003 Sum_probs=43.8
Q ss_pred EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424 29 RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 29 ~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 89 (98)
+.-.|.-.+|+..|.+....+.+++.+...|+.....|.+..|.-+-+.+-...+.+.++-
T Consensus 5 I~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQi 65 (88)
T PF11620_consen 5 IMQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQI 65 (88)
T ss_dssp EEEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEEE
T ss_pred EEEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEEE
Confidence 4556777899999999999999999999999998878999999999999988888776554
No 114
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=84.22 E-value=7.1 Score=23.67 Aligned_cols=52 Identities=17% Similarity=0.118 Sum_probs=36.7
Q ss_pred ccHHHHHHHHHHHhcC-----CCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 36 DVEIKRLLIKYCETKS-----QPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 36 ~t~l~kL~~~y~~~~g-----~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
.+++..|.+..++++. +....+++..|++... .+| -+.|||+|-++.=-.||
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 4688888888887763 2335677777886543 344 49999999988765565
No 115
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=84.22 E-value=3.8 Score=25.05 Aligned_cols=56 Identities=14% Similarity=0.190 Sum_probs=44.1
Q ss_pred cCccHHHHHHHHHHHhcCC-CCcceeEEECCeecCCCCChhhcC-CCCCCEEEEEcee
Q 045424 34 NHDVEIKRLLIKYCETKSQ-PFKSTPFLINGNRFDYSKTADQLG-LKDGDEIDAMYHA 89 (98)
Q Consensus 34 k~~t~l~kL~~~y~~~~g~-~~~~~rF~fdG~~l~~~~Tp~~l~-medgD~Idv~~~q 89 (98)
.+++.+..|...-+..... ....+.|.++|.+|++.....++. +++|..+.+..+.
T Consensus 2 ~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~p 59 (76)
T PF15044_consen 2 SPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEP 59 (76)
T ss_pred ChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecC
Confidence 4677788888877776543 457889999999999988888875 8889999887654
No 116
>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=83.77 E-value=7.3 Score=25.65 Aligned_cols=63 Identities=19% Similarity=0.184 Sum_probs=45.9
Q ss_pred CCcEEEEEEccC-CC-----EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhcC
Q 045424 14 QHLINLIIKSQD-GD-----KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQLG 76 (98)
Q Consensus 14 ~~~I~I~v~~~~-g~-----~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~ 76 (98)
.++|-|.|.... +. ...|.|..+.++..++....++.+++.++--|+| ++.....++|..+|-
T Consensus 22 p~~iPVIvE~~~~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY 91 (112)
T cd01611 22 PDRIPVIVERYPKSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLY 91 (112)
T ss_pred CCceEEEEEEcCCCCcccccCceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHH
Confidence 356777775432 22 3479999999999999999999999887766666 554556677777764
No 117
>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=81.45 E-value=5.4 Score=23.11 Aligned_cols=46 Identities=28% Similarity=0.333 Sum_probs=33.7
Q ss_pred cCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecCCCCChhhcCCCCCCEEEE
Q 045424 34 NHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 34 k~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~~~Tp~~l~medgD~Idv 85 (98)
+...+|..|++...++.+++.. +|=+| +|++| .++++ ++||+..-+
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 3456899999999999998866 77666 89888 56666 788876444
No 118
>PRK00051 hisI phosphoribosyl-AMP cyclohydrolase; Reviewed
Probab=79.84 E-value=7.6 Score=26.30 Aligned_cols=80 Identities=13% Similarity=0.215 Sum_probs=52.9
Q ss_pred CCcEEEEEEc-cCCCEEEEEEcCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcCCC-CCCEEEEEcee
Q 045424 14 QHLINLIIKS-QDGDKRFFQFNHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLGLK-DGDEIDAMYHA 89 (98)
Q Consensus 14 ~~~I~I~v~~-~~g~~~~f~Ik~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv~~~q 89 (98)
+..|...+++ ..|..+-+----...|.+=+ ..... -+.+.-++|..|+.--..+...++.+. |+|.|-+.++|
T Consensus 12 ~GLipaivqd~~tg~VLMlaymn~eAl~~Tl---~tg~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~Ll~~V~q 88 (125)
T PRK00051 12 DGLVPAIAQDAETGEVLMVAWMNEEALAKTL---ETGRAHYWSRSRQKLWRKGETSGHVQKVHEVRLDCDGDAVLLKVEQ 88 (125)
T ss_pred CCcEEEEEEECCCCCEEEEEEcCHHHHHHHH---hcCcEEEEeCccCcccCCCCCcCCeEEEEEEEecCCCCEEEEEEEe
Confidence 5678888888 46776654433334444322 21111 145566788888766666677777777 99999999999
Q ss_pred cCCCccc
Q 045424 90 FGGGHDH 96 (98)
Q Consensus 90 ~GG~~~~ 96 (98)
.|+.+|-
T Consensus 89 ~G~aCHt 95 (125)
T PRK00051 89 VGAACHT 95 (125)
T ss_pred cCCcccC
Confidence 9986653
No 119
>PRK01777 hypothetical protein; Validated
Probab=78.81 E-value=14 Score=23.55 Aligned_cols=69 Identities=10% Similarity=0.088 Sum_probs=45.1
Q ss_pred cEEEEEEc--cCC-CEEEEEEcCccHHHHHHHHHH--Hhc-CCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEcee
Q 045424 16 LINLIIKS--QDG-DKRFFQFNHDVEIKRLLIKYC--ETK-SQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 16 ~I~I~v~~--~~g-~~~~f~Ik~~t~l~kL~~~y~--~~~-g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q 89 (98)
.|.|.|-- .+. ....+.+...++...+..+.- +.+ .++.....+..+|+.+.. +--|+|||.|+++--+
T Consensus 3 ~i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~sgi~~~~pei~~~~~~vgI~Gk~v~~-----d~~L~dGDRVeIyrPL 77 (95)
T PRK01777 3 KIRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKL-----TDVLRDGDRVEIYRPL 77 (95)
T ss_pred eeEEEEEEECCCceEEEEEEcCCCCcHHHHHHHcCCCccCcccccccceEEEeCeECCC-----CCcCCCCCEEEEecCC
Confidence 45555543 333 235788999999999887652 111 233334567778988865 3478999999998543
No 120
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=78.59 E-value=11 Score=29.98 Aligned_cols=67 Identities=16% Similarity=0.274 Sum_probs=46.5
Q ss_pred CCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECC---eecC-CCCChhhcCCCC
Q 045424 11 KKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLING---NRFD-YSKTADQLGLKD 79 (98)
Q Consensus 11 ~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG---~~l~-~~~Tp~~l~med 79 (98)
..|...|.|++ .||..+..+++-+.++..|....+....-.....-.++-+ +.|. +++|.++.+|.+
T Consensus 302 ~~PtTsIQIRL--anG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~N 372 (380)
T KOG2086|consen 302 AEPTTSIQIRL--ANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLN 372 (380)
T ss_pred CCCcceEEEEe--cCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchh
Confidence 33556666666 7898888888899999999999987665544333333333 3444 478888888765
No 121
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=78.49 E-value=6.4 Score=27.61 Aligned_cols=64 Identities=16% Similarity=0.225 Sum_probs=46.7
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCC-------CCcceeEEECCeecCCCCChhhcCCCCCCEEE
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQ-------PFKSTPFLINGNRFDYSKTADQLGLKDGDEID 84 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~-------~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id 84 (98)
.|+++| +|..+++.+.+.++|..+....-...|. .......++||+++..--||... -+|..|.
T Consensus 3 ~i~ltv---NG~~~~~~~~p~~~Ll~~LRd~l~ltgtk~GC~~g~CGACtVlvDG~~v~SCl~~a~~--~~G~~It 73 (156)
T COG2080 3 PITLTV---NGEPVELDVDPRTPLLDVLRDELGLTGTKKGCGHGQCGACTVLVDGEAVNSCLTLAVQ--AEGAEIT 73 (156)
T ss_pred cEEEEE---CCeEEEEEeCCCChHHHHHHHhcCCCCcCCCCCCccCCceEEEECCeEehHHHHHHHH--hCCCeEE
Confidence 355665 8999999999999999988654433332 23578899999999988888753 4565553
No 122
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=77.94 E-value=13 Score=22.47 Aligned_cols=57 Identities=9% Similarity=0.098 Sum_probs=41.5
Q ss_pred EEEEccC---CCEEEEEEcCccHHHHHHHHHHHhcCCC--CcceeEEE--C----CeecCCCCChhhc
Q 045424 19 LIIKSQD---GDKRFFQFNHDVEIKRLLIKYCETKSQP--FKSTPFLI--N----GNRFDYSKTADQL 75 (98)
Q Consensus 19 I~v~~~~---g~~~~f~Ik~~t~l~kL~~~y~~~~g~~--~~~~rF~f--d----G~~l~~~~Tp~~l 75 (98)
|+|-..+ +...++.|.++++...++..-.++++++ ++.+.+.- . .+.|.+++-|-.+
T Consensus 2 ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~~~~er~L~~~e~pl~~ 69 (87)
T cd01768 2 LRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGDGGLERLLLPDECPLQI 69 (87)
T ss_pred EEEeCCcCCCccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECCceEEEEeCCCCChHHH
Confidence 4555555 7778999999999999999999999996 45555442 2 2356667766554
No 123
>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=77.46 E-value=16 Score=23.75 Aligned_cols=62 Identities=18% Similarity=0.200 Sum_probs=42.9
Q ss_pred CCcEEEEEEccCCCE------EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhc
Q 045424 14 QHLINLIIKSQDGDK------RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQL 75 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~------~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l 75 (98)
.++|-|.|....+.. ..|-|..+.++..++....++..++.++--|+| ++..+..+.|..++
T Consensus 14 P~~IPVIvEr~~~s~lp~ldk~KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~el 82 (104)
T PF02991_consen 14 PDKIPVIVERYPKSKLPDLDKKKFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGEL 82 (104)
T ss_dssp TTEEEEEEEE-TTSSS---SSSEEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHH
T ss_pred CCccEEEEEEccCCChhhcCccEEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHH
Confidence 356666665432221 368899999999999999999999876655555 77777778888776
No 124
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.86 E-value=5.9 Score=29.31 Aligned_cols=73 Identities=7% Similarity=0.055 Sum_probs=61.5
Q ss_pred EEEEEEc-cCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCC--CEEEEEcee
Q 045424 17 INLIIKS-QDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDG--DEIDAMYHA 89 (98)
Q Consensus 17 I~I~v~~-~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medg--D~Idv~~~q 89 (98)
..++++. ..+..+..+....+....+..+-....|++.-.++..|.|..|..+.-.+...+|.| =++-|++-|
T Consensus 146 ~~lk~rlTtT~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq 221 (231)
T KOG0013|consen 146 PILKLRLTTTREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQ 221 (231)
T ss_pred cchHHHhhhhhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEEecc
Confidence 3445543 367788899988999999999999999999889999999999999999999999999 677777655
No 125
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=75.07 E-value=13 Score=23.90 Aligned_cols=40 Identities=15% Similarity=0.264 Sum_probs=33.5
Q ss_pred EEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424 21 IKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61 (98)
Q Consensus 21 v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f 61 (98)
++-..|....+.|.++.+|..|+..-++..+.+.+ +.|.|
T Consensus 17 l~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky 56 (97)
T cd06410 17 LRYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY 56 (97)
T ss_pred EEEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence 44457888899999999999999999999998876 55655
No 126
>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=74.82 E-value=1.6 Score=27.02 Aligned_cols=44 Identities=14% Similarity=0.172 Sum_probs=33.0
Q ss_pred CCcceeEEECCeecCCCCChhhcCCC-CCCEEEEEceecCCCccc
Q 045424 53 PFKSTPFLINGNRFDYSKTADQLGLK-DGDEIDAMYHAFGGGHDH 96 (98)
Q Consensus 53 ~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv~~~q~GG~~~~ 96 (98)
+.+.-++|..|+.--..+...++.+. |+|.|.+.++|.|..+|-
T Consensus 23 SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~aCHt 67 (75)
T PF01502_consen 23 SRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGPACHT 67 (75)
T ss_dssp ETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-SSTT
T ss_pred EccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCCCccC
Confidence 44566788888887788888888888 999999999999997653
No 127
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=73.73 E-value=9.8 Score=28.99 Aligned_cols=56 Identities=13% Similarity=0.029 Sum_probs=43.0
Q ss_pred EEEcCccHHHHHHHHHHHh-cCCCC----cceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424 31 FQFNHDVEIKRLLIKYCET-KSQPF----KSTPFLINGNRFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 31 f~Ik~~t~l~kL~~~y~~~-~g~~~----~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~ 86 (98)
.-++..+++..+..++..+ ..+.+ ..+|+.-.|..|-+++|.++++..+|++|-|.
T Consensus 17 ~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~vK 77 (297)
T KOG1639|consen 17 KDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYVK 77 (297)
T ss_pred ecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEEe
Confidence 4456677888888777654 44433 46666668999999999999999999887653
No 128
>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=73.63 E-value=2.8 Score=28.46 Aligned_cols=30 Identities=30% Similarity=0.468 Sum_probs=26.7
Q ss_pred eecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424 64 NRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 64 ~~l~~~~Tp~~l~medgD~Idv~~~q~GG~ 93 (98)
-+|.-++..++|+.++.|.|.|.+=+++|+
T Consensus 89 ~rlgitdlLedLga~~d~sIvVTLVPr~g~ 118 (130)
T PF12143_consen 89 LRLGITDLLEDLGAEDDDSIVVTLVPRGGG 118 (130)
T ss_pred EEEEhhHHHHHhCCCCCCEEEEEEEEccCC
Confidence 366678899999999999999999999985
No 129
>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=72.94 E-value=19 Score=22.14 Aligned_cols=48 Identities=19% Similarity=0.331 Sum_probs=37.4
Q ss_pred ccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeE-EECCeecCCCC
Q 045424 23 SQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPF-LINGNRFDYSK 70 (98)
Q Consensus 23 ~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF-~fdG~~l~~~~ 70 (98)
=+||..-.+.+++..++..+...-|++.|+..+.+-. +..|+..-+.+
T Consensus 6 LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~~~ 54 (73)
T cd01817 6 LPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLVLD 54 (73)
T ss_pred CCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccccC
Confidence 3789999999999999999999999999998876654 44443333333
No 130
>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=72.78 E-value=20 Score=22.63 Aligned_cols=53 Identities=9% Similarity=0.107 Sum_probs=41.0
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC-cceeEEE---CCeecCCCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF-KSTPFLI---NGNRFDYSK 70 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~-~~~rF~f---dG~~l~~~~ 70 (98)
|+||+. .+|..+.+.+.+..++..|.+...+.+.... ..+.+.| +|..+.-+.
T Consensus 1 i~~K~~-y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS 57 (83)
T cd06404 1 VRVKAA-YNGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISS 57 (83)
T ss_pred CeEEEE-ecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCceeecC
Confidence 456664 5888889999999999999999999998865 4677666 466665443
No 131
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.32 E-value=23 Score=22.30 Aligned_cols=75 Identities=17% Similarity=0.181 Sum_probs=56.4
Q ss_pred CCcEEEEEEccCCCE---EEEEEcCccHHHHHHHHHHHhcCCCCc-ceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 14 QHLINLIIKSQDGDK---RFFQFNHDVEIKRLLIKYCETKSQPFK-STPFLINGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~---~~f~Ik~~t~l~kL~~~y~~~~g~~~~-~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
..++..++.-....+ ..+.|-..+||-.+..--++.+.++.. +-...-||.-|++.+|+...=|+.|.++....+
T Consensus 11 g~kv~fk~tltsdpklpfkv~svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agnvflkhgselr~ipr 89 (94)
T KOG3483|consen 11 GSKVSFKITLTSDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPR 89 (94)
T ss_pred cceeEEEEEeccCCCCccceecCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccceeeccCCEEEeccc
Confidence 445555554332322 367788999999999888899998764 444555899999999999999999998877654
No 132
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=71.22 E-value=27 Score=26.79 Aligned_cols=68 Identities=16% Similarity=0.112 Sum_probs=46.3
Q ss_pred CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecC-----CCCChhhcCCCCCC
Q 045424 14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFD-----YSKTADQLGLKDGD 81 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~-----~~~Tp~~l~medgD 81 (98)
...-+|.|+-+||..+.-.+...++|..+-.-..-..|....-+.|.-.==|+. ...+.+.|+|-.--
T Consensus 208 ys~crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa 280 (290)
T KOG2689|consen 208 YSQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSA 280 (290)
T ss_pred ccceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCCceecccccccccHHHhccccch
Confidence 477888888899999999999999999987666666666554444543222222 23466777775544
No 133
>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=69.30 E-value=2.9 Score=26.40 Aligned_cols=19 Identities=37% Similarity=0.608 Sum_probs=16.5
Q ss_pred CCChhhcCCCCCCEEEEEc
Q 045424 69 SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~ 87 (98)
.++++.|+++|||.|.|.-
T Consensus 41 p~dA~~lgi~~Gd~V~v~~ 59 (120)
T cd00508 41 PEDAARLGIKDGDLVRVSS 59 (120)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 3689999999999998874
No 134
>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=67.93 E-value=3.2 Score=26.16 Aligned_cols=21 Identities=24% Similarity=0.550 Sum_probs=17.5
Q ss_pred CCCChhhcCCCCCCEEEEEce
Q 045424 68 YSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~~~ 88 (98)
..++++.|+++|||.|.|.-.
T Consensus 40 n~~dA~~lgi~~Gd~V~v~~~ 60 (116)
T cd02790 40 NPEDAKRLGIEDGEKVRVSSR 60 (116)
T ss_pred CHHHHHHcCCCCCCEEEEEcC
Confidence 447999999999999988743
No 135
>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=67.80 E-value=3.2 Score=26.44 Aligned_cols=20 Identities=25% Similarity=0.315 Sum_probs=16.6
Q ss_pred CCCChhhcCCCCCCEEEEEc
Q 045424 68 YSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~~ 87 (98)
..++++.|++++||.|.|.-
T Consensus 40 ~p~dA~~lgi~~Gd~V~v~s 59 (122)
T cd02792 40 SPELAAERGIKNGDMVWVSS 59 (122)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 34589999999999998763
No 136
>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=67.03 E-value=4.1 Score=27.39 Aligned_cols=15 Identities=60% Similarity=0.997 Sum_probs=9.7
Q ss_pred hhcCCCCCCEEEEEc
Q 045424 73 DQLGLKDGDEIDAMY 87 (98)
Q Consensus 73 ~~l~medgD~Idv~~ 87 (98)
+.|+|+|||.|.|.+
T Consensus 107 ~~L~L~DGD~V~v~V 121 (121)
T PF01982_consen 107 DTLGLKDGDEVEVEV 121 (121)
T ss_dssp HHTT--TT-EEEEEE
T ss_pred hhcCCCCCCEEEEEC
Confidence 569999999998864
No 137
>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=66.42 E-value=3.6 Score=26.10 Aligned_cols=19 Identities=26% Similarity=0.380 Sum_probs=15.8
Q ss_pred CCCChhhcCCCCCCEEEEE
Q 045424 68 YSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~ 86 (98)
..++++.||++|||.|.|.
T Consensus 36 ~p~dA~~lgi~~Gd~V~v~ 54 (116)
T cd02786 36 HPADAAARGIADGDLVVVF 54 (116)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 3567899999999998775
No 138
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=65.99 E-value=37 Score=22.81 Aligned_cols=62 Identities=15% Similarity=0.256 Sum_probs=44.7
Q ss_pred CCcEEEEEEccC--CCEEEE-EEcCccHHHHHHHHHHHhcCCCCcceeEEE-CCeecCCCCChhhcC
Q 045424 14 QHLINLIIKSQD--GDKRFF-QFNHDVEIKRLLIKYCETKSQPFKSTPFLI-NGNRFDYSKTADQLG 76 (98)
Q Consensus 14 ~~~I~I~v~~~~--g~~~~f-~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f-dG~~l~~~~Tp~~l~ 76 (98)
.++|-|.|-... +....| -|-.+.++..++.....+.+++.+++ |+| ++.....+.|..++-
T Consensus 25 PdrIPVIvEk~~~s~dK~KfllVP~d~tV~qF~~iIRkrl~l~~~k~-flfVnn~lp~~s~~mg~lY 90 (121)
T PTZ00380 25 PGHVAVVVEAAEKAGSKVHFLALPRDATVAELEAAVRQALGTSAKKV-TLAIEGSTPAVTATVGDIA 90 (121)
T ss_pred CCccEEEEeecCCCCCceEEEEcCCCCcHHHHHHHHHHHcCCChhHE-EEEECCccCCccchHHHHH
Confidence 456666664322 134456 79999999999999999999999885 666 665555666777663
No 139
>PRK02759 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed
Probab=65.98 E-value=3.6 Score=29.99 Aligned_cols=78 Identities=13% Similarity=0.213 Sum_probs=52.8
Q ss_pred CcEEEEEEc-cCCCEEEEEEcCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcCCC-CCCEEEEEceec
Q 045424 15 HLINLIIKS-QDGDKRFFQFNHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLGLK-DGDEIDAMYHAF 90 (98)
Q Consensus 15 ~~I~I~v~~-~~g~~~~f~Ik~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv~~~q~ 90 (98)
.-|...|++ ..|..+.+----...|.+=+ ..... -+.+..++|..|+.--..+...++.+. |+|.|-+.++|.
T Consensus 15 gLip~ivqd~~tg~vLml~ymn~eal~~Tl---~tg~~~~~SRSr~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~ 91 (203)
T PRK02759 15 GLIPAIVQDALTGEVLMLGYMNREALEKTL---ETGEVTFFSRSKQRLWTKGETSGNTQKVVSIRLDCDNDTLLVLVEPI 91 (203)
T ss_pred CcEEEEEEECCCCCEEEEEecCHHHHHHHH---hcCcEEEEeCCCCcccCCCCCCCCeEEEEEEEecCCCCeEEEEEEec
Confidence 678888888 56666544333333333322 21111 155677889999877777788888887 999999999999
Q ss_pred CCCcc
Q 045424 91 GGGHD 95 (98)
Q Consensus 91 GG~~~ 95 (98)
|+.+|
T Consensus 92 G~aCH 96 (203)
T PRK02759 92 GPACH 96 (203)
T ss_pred CCcCC
Confidence 97665
No 140
>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=65.49 E-value=27 Score=21.78 Aligned_cols=34 Identities=6% Similarity=0.018 Sum_probs=31.7
Q ss_pred EEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424 28 KRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61 (98)
Q Consensus 28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f 61 (98)
.+.+++.+..++..|-...+++..++.+..+|.|
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY 41 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSY 41 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEe
Confidence 5678899999999999999999999999999999
No 141
>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=65.45 E-value=32 Score=21.70 Aligned_cols=57 Identities=21% Similarity=0.257 Sum_probs=36.5
Q ss_pred CccHHHHHHHHHHHhcCCC-----------CcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 35 HDVEIKRLLIKYCETKSQP-----------FKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 35 ~~t~l~kL~~~y~~~~g~~-----------~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
...+++.|.+..++++.-. ...+.++.||+.+..- --.+.-++|||+|.++--.-||
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 3568888888887766210 1256677788776421 1234459999999998755454
No 142
>PHA01623 hypothetical protein
Probab=65.29 E-value=6.4 Score=22.76 Aligned_cols=28 Identities=25% Similarity=0.462 Sum_probs=24.6
Q ss_pred CEEEEEEcCccHHHHHHHHHHHhcCCCC
Q 045424 27 DKRFFQFNHDVEIKRLLIKYCETKSQPF 54 (98)
Q Consensus 27 ~~~~f~Ik~~t~l~kL~~~y~~~~g~~~ 54 (98)
..+.|.|+-+..+.+-++.||...|+..
T Consensus 12 k~~r~sVrldeel~~~Ld~y~~~~g~~r 39 (56)
T PHA01623 12 QKAVFGIYMDKDLKTRLKVYCAKNNLQL 39 (56)
T ss_pred cceeEEEEeCHHHHHHHHHHHHHcCCCH
Confidence 4578899999999999999999999874
No 143
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=65.22 E-value=5 Score=26.65 Aligned_cols=74 Identities=14% Similarity=0.319 Sum_probs=51.3
Q ss_pred CCcEEEEEEccCC-CEEEEEEcCccHHHHHHHHHHHhcCC----CCcceeEEECCeecCCCCChhhcCCC-CCCEEEEEc
Q 045424 14 QHLINLIIKSQDG-DKRFFQFNHDVEIKRLLIKYCETKSQ----PFKSTPFLINGNRFDYSKTADQLGLK-DGDEIDAMY 87 (98)
Q Consensus 14 ~~~I~I~v~~~~g-~~~~f~Ik~~t~l~kL~~~y~~~~g~----~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv~~ 87 (98)
...|.+.|++... ..+-+.---...|.+-. ..|. +.+.-++|..|+.--.-+...++... |+|.+-+.+
T Consensus 16 ~gLvpaIvQd~~t~eVLMlaymN~eAl~kTl-----eTg~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V 90 (111)
T COG0139 16 DGLVPAIVQDAETGEVLMLAYMNEEALAKTL-----ETGEAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLV 90 (111)
T ss_pred CCeEEEEEEecCCCcEEEEEecCHHHHHHHH-----hcCeEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEE
Confidence 5678888888644 44333222223333321 1222 56678899999988888899999888 999999999
Q ss_pred eecCC
Q 045424 88 HAFGG 92 (98)
Q Consensus 88 ~q~GG 92 (98)
+|.||
T Consensus 91 ~q~gg 95 (111)
T COG0139 91 EQIGG 95 (111)
T ss_pred EeCCC
Confidence 99886
No 144
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=64.45 E-value=36 Score=27.89 Aligned_cols=69 Identities=16% Similarity=0.154 Sum_probs=55.8
Q ss_pred EEEEEccCCCEEEE-EEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 18 NLIIKSQDGDKRFF-QFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 18 ~I~v~~~~g~~~~f-~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
+|.|+. .|+.... .+..+.+-.-|+...-...|++++..++.+.|..+.++--+.-|.+.+|-+|.+.-
T Consensus 5 ~v~VKW-~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMmG 74 (473)
T KOG1872|consen 5 TVIVKW-GGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMMG 74 (473)
T ss_pred eEeeee-cCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEeec
Confidence 345554 3433333 38888899999988888899999999999999999988899999999999998853
No 145
>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=63.73 E-value=4.5 Score=25.24 Aligned_cols=18 Identities=39% Similarity=0.649 Sum_probs=13.7
Q ss_pred CCChhhcCCCCCCEEEEE
Q 045424 69 SKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~ 86 (98)
..+++.++++|||.|.|.
T Consensus 36 p~dA~~~Gi~~Gd~V~v~ 53 (110)
T PF01568_consen 36 PEDAAKLGIKDGDWVRVS 53 (110)
T ss_dssp HHHHHHCT--TTCEEEEE
T ss_pred HHHHHHhcCcCCCEEEEE
Confidence 457899999999999886
No 146
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=62.97 E-value=47 Score=27.21 Aligned_cols=69 Identities=19% Similarity=0.228 Sum_probs=49.2
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHh--cCCCCcceeEEE--C--Cee--cCCCCChhhcCCCCCCEEEEEc
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCET--KSQPFKSTPFLI--N--GNR--FDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~--~g~~~~~~rF~f--d--G~~--l~~~~Tp~~l~medgD~Idv~~ 87 (98)
-+++++.+|. ....+.+++.|.-|..+.-.- .|.+++++.+-- + |.. +-.++||.+|||..|+.+.+-+
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 IFRFRSKEGQ-RRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred eEEEecCCCc-eeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 4788888885 467788899998766655443 345666666544 2 442 3468999999999999998876
No 147
>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=62.90 E-value=6.2 Score=21.78 Aligned_cols=25 Identities=28% Similarity=0.520 Sum_probs=16.6
Q ss_pred CCChhhcCCCCCCEEEEEceecCCCc
Q 045424 69 SKTADQLGLKDGDEIDAMYHAFGGGH 94 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~~q~GG~~ 94 (98)
...+.+|.+.-||+|.|. ++.+++|
T Consensus 7 ~~~~dELs~~~Gd~i~v~-~~~~~~W 31 (49)
T PF14604_consen 7 AQDPDELSFKKGDVITVL-EKSDDGW 31 (49)
T ss_dssp SSSTTB-EB-TTEEEEEE-EESSTSE
T ss_pred CCCcCEeeEcCCCEEEEE-EeCCCCE
Confidence 345779999999999998 4444433
No 148
>PLN02346 histidine biosynthesis bifunctional protein hisIE
Probab=62.59 E-value=5 Score=30.51 Aligned_cols=80 Identities=15% Similarity=0.089 Sum_probs=51.2
Q ss_pred CCcEEEEEEcc-CCCEEEEEEcCccHHHHHHHHHHHhcC--CCCcceeEEECCeecCCCCChhhcCCC-CCCEEEEEcee
Q 045424 14 QHLINLIIKSQ-DGDKRFFQFNHDVEIKRLLIKYCETKS--QPFKSTPFLINGNRFDYSKTADQLGLK-DGDEIDAMYHA 89 (98)
Q Consensus 14 ~~~I~I~v~~~-~g~~~~f~Ik~~t~l~kL~~~y~~~~g--~~~~~~rF~fdG~~l~~~~Tp~~l~me-dgD~Idv~~~q 89 (98)
+.-|.+.|++. +|..+.+----...|.+ ....... .+.+..++|..|+.--..+...++... |+|.|-+.++|
T Consensus 52 ~gLipaivQd~~tg~VLml~ymn~eal~~---Tl~tg~~~y~SRSR~~LW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~ 128 (271)
T PLN02346 52 KGLAVAIAQNVDTGAILMQGFANREAISA---TISSRKATFYSRSRSGLWTKGETSGNFINVHDIYLDCDRDSIIYLGTP 128 (271)
T ss_pred CCCEEEEEEECCCCCEEEEEecCHHHHHH---HHhcCcEEEEeCCCCccccCCCCcCCeEEEEEEEecCCCCeEEEEEEe
Confidence 46677777774 55554332222233332 2222111 245667788888777777788888887 99999999999
Q ss_pred cCCCccc
Q 045424 90 FGGGHDH 96 (98)
Q Consensus 90 ~GG~~~~ 96 (98)
.|+.+|-
T Consensus 129 ~G~aCHt 135 (271)
T PLN02346 129 DGPTCHT 135 (271)
T ss_pred cCCcccC
Confidence 9986653
No 149
>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=62.02 E-value=4.8 Score=25.60 Aligned_cols=20 Identities=35% Similarity=0.541 Sum_probs=16.5
Q ss_pred CCCChhhcCCCCCCEEEEEc
Q 045424 68 YSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~~ 87 (98)
..+++++|++++||.|.+.-
T Consensus 40 n~~dA~~lgi~~Gd~V~v~~ 59 (122)
T cd02791 40 HPEDAARLGLKEGDLVRVTS 59 (122)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 34589999999999988763
No 150
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=61.86 E-value=16 Score=28.79 Aligned_cols=66 Identities=12% Similarity=0.184 Sum_probs=47.6
Q ss_pred EE-EEEEccCCCEEEEEEcCccHHHHHHHHHH-HhcCCCCcceeEEECC---e--ecCCCCChhhcCCCCCCE
Q 045424 17 IN-LIIKSQDGDKRFFQFNHDVEIKRLLIKYC-ETKSQPFKSTPFLING---N--RFDYSKTADQLGLKDGDE 82 (98)
Q Consensus 17 I~-I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~-~~~g~~~~~~rF~fdG---~--~l~~~~Tp~~l~medgD~ 82 (98)
++ |.|+-.||.....+.-+++|.+.|...|. ...|.+-..+.|.+.= + ....+.|..++||.+-.+
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 88888999876666688999999997765 4566666666666543 2 234588999999987654
No 151
>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=61.83 E-value=4.8 Score=27.48 Aligned_cols=20 Identities=45% Similarity=0.516 Sum_probs=17.3
Q ss_pred CCCChhhcCCCCCCEEEEEc
Q 045424 68 YSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~~ 87 (98)
..++++.+||+|||.|.|.-
T Consensus 37 np~dA~~~GI~dGd~V~v~s 56 (156)
T cd02783 37 HPKTAKELGIKDGDWVWVES 56 (156)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 45789999999999998874
No 152
>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=61.82 E-value=28 Score=22.08 Aligned_cols=54 Identities=19% Similarity=0.181 Sum_probs=36.7
Q ss_pred EEEEEccCCCEEEEEEc--CccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424 18 NLIIKSQDGDKRFFQFN--HDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik--~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~ 86 (98)
.|+++.++|..+--.|. ..-.|..+.++..+... ..+-|+=+++=||||.|.|.
T Consensus 2 VIRIk~p~gg~vDw~V~~~~~L~F~DvL~~I~~vlp---------------~aT~tAFeYEDE~gDRITVR 57 (91)
T cd06395 2 VIRIKIPNGGAVDWTVQSGPQLLFRDVLDVIGQVLP---------------EATTTAFEYEDEDGDRITVR 57 (91)
T ss_pred eEEEeCCCCCcccccccCcccccHHHHHHHHHHhcc---------------cccccceeeccccCCeeEec
Confidence 46777788888766666 55688888888877542 12334455666788888774
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=61.26 E-value=5 Score=25.42 Aligned_cols=19 Identities=37% Similarity=0.583 Sum_probs=16.0
Q ss_pred CCChhhcCCCCCCEEEEEc
Q 045424 69 SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~ 87 (98)
.++++.|+++|||.|.|.-
T Consensus 37 p~dA~~lgI~dGd~V~v~s 55 (112)
T cd02787 37 PDDIARLGLKAGDRVDLES 55 (112)
T ss_pred HHHHHHhCCCCCCEEEEEe
Confidence 4569999999999998864
No 154
>PRK14132 riboflavin kinase; Provisional
Probab=61.18 E-value=7.1 Score=26.42 Aligned_cols=16 Identities=38% Similarity=0.557 Sum_probs=13.0
Q ss_pred hhhcCCCCCCEEEEEc
Q 045424 72 ADQLGLKDGDEIDAMY 87 (98)
Q Consensus 72 p~~l~medgD~Idv~~ 87 (98)
=+.|+|+|||.|.+.+
T Consensus 111 R~~L~LkDGD~V~I~i 126 (126)
T PRK14132 111 RKFLNLKDGDVVKIVI 126 (126)
T ss_pred HhhcCCCCCCEEEEEC
Confidence 3579999999998753
No 155
>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=61.15 E-value=2.3 Score=24.28 Aligned_cols=49 Identities=16% Similarity=0.024 Sum_probs=25.7
Q ss_pred ccHHHHHHHHHHHhcCC--CCcceeEEECCeecCCCC---ChhhcCCCCCCEEEE
Q 045424 36 DVEIKRLLIKYCETKSQ--PFKSTPFLINGNRFDYSK---TADQLGLKDGDEIDA 85 (98)
Q Consensus 36 ~t~l~kL~~~y~~~~g~--~~~~~rF~fdG~~l~~~~---Tp~~l~medgD~Idv 85 (98)
.++..+|-...++. ++ +.+.++.++.+..|.-+. |..+.-+..||+|.+
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 34555554333444 65 555555444322222222 234678999999875
No 156
>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=61.01 E-value=5.1 Score=25.75 Aligned_cols=19 Identities=32% Similarity=0.464 Sum_probs=15.8
Q ss_pred CCChhhcCCCCCCEEEEEc
Q 045424 69 SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~ 87 (98)
.++++.|+++|||.|.+.-
T Consensus 36 p~~A~~~gi~~Gd~V~v~s 54 (121)
T cd02794 36 PLDAAARGIKDGDRVLVFN 54 (121)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 4569999999999998763
No 157
>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=60.82 E-value=19 Score=22.62 Aligned_cols=37 Identities=11% Similarity=0.437 Sum_probs=32.5
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcC
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKS 51 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g 51 (98)
..+.|-|.+.++.+.-|.+++++-+.+|...||--.+
T Consensus 7 grl~VLVv~n~c~~kL~~~~~~~D~~~i~r~f~TpdN 43 (83)
T PF10623_consen 7 GRLQVLVVSNHCERKLFDTKPDNDPDKIARRFCTPDN 43 (83)
T ss_pred CeEEEEEEeCCcceeEeecCCCCCHHHHHhhccCcCC
Confidence 4788999999999999999999999999999987544
No 158
>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=60.79 E-value=5.2 Score=25.83 Aligned_cols=19 Identities=21% Similarity=0.356 Sum_probs=16.3
Q ss_pred CCCChhhcCCCCCCEEEEE
Q 045424 68 YSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~ 86 (98)
..++++.|+++|||.|.|.
T Consensus 37 ~p~dA~~~gi~~Gd~V~v~ 55 (124)
T cd02785 37 NPIDAAARGIAHGDLVEVY 55 (124)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 4578999999999999775
No 159
>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=60.65 E-value=35 Score=20.62 Aligned_cols=61 Identities=11% Similarity=0.108 Sum_probs=43.2
Q ss_pred EEEEccC---CCEEEEEEcCccHHHHHHHHHHHhcCCCC--cceeEE--E-CC--eecCCCCChhhcCCCC
Q 045424 19 LIIKSQD---GDKRFFQFNHDVEIKRLLIKYCETKSQPF--KSTPFL--I-NG--NRFDYSKTADQLGLKD 79 (98)
Q Consensus 19 I~v~~~~---g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~--~~~rF~--f-dG--~~l~~~~Tp~~l~med 79 (98)
|+|-..+ +...++.|.++++...++..-.++++++. +.+.+. . +| +.|.+++-|-.+-+..
T Consensus 5 lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~e~Pl~~~~~~ 75 (90)
T smart00314 5 LRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDDENPLQLQKLW 75 (90)
T ss_pred EEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCCCcceEehhhC
Confidence 4444444 77889999999999999999999999964 444433 2 34 4666667776665544
No 160
>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=60.56 E-value=5.4 Score=25.51 Aligned_cols=19 Identities=32% Similarity=0.562 Sum_probs=16.2
Q ss_pred CCChhhcCCCCCCEEEEEc
Q 045424 69 SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~ 87 (98)
.++++.|+++|||.|.|+-
T Consensus 39 ~~dA~~lgi~~Gd~V~v~s 57 (115)
T cd02779 39 PEDAKREGLKNGDLVEVYN 57 (115)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 4589999999999998764
No 161
>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=59.39 E-value=43 Score=24.65 Aligned_cols=47 Identities=11% Similarity=0.128 Sum_probs=34.4
Q ss_pred CcEEEEEEcc---CCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424 15 HLINLIIKSQ---DGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61 (98)
Q Consensus 15 ~~I~I~v~~~---~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f 61 (98)
.+|.|++... ....+.+.+....+...|-++.+++.|+++..+||+=
T Consensus 175 nrv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~~ 224 (249)
T PF12436_consen 175 NRVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFFT 224 (249)
T ss_dssp HEEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE-
T ss_pred CeEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEE
Confidence 4567777653 2346899999999999999999999999999999984
No 162
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=59.11 E-value=13 Score=22.93 Aligned_cols=55 Identities=20% Similarity=0.129 Sum_probs=34.5
Q ss_pred cCccHHHHHHHHHHHhcC---CCCcc-e-eEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 34 NHDVEIKRLLIKYCETKS---QPFKS-T-PFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 34 k~~t~l~kL~~~y~~~~g---~~~~~-~-rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
.--++++.|.+.|.++.. ..... . .-.-+.+.+.+.+| -|.|||+|-++.--.||
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 346788999999987765 22221 1 12223344444444 48999999998877776
No 163
>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=58.70 E-value=6 Score=25.25 Aligned_cols=20 Identities=40% Similarity=0.699 Sum_probs=16.4
Q ss_pred CCCChhhcCCCCCCEEEEEc
Q 045424 68 YSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~~ 87 (98)
..++++.++++|||.|.|.-
T Consensus 35 ~p~dA~~~gi~~Gd~V~v~s 54 (123)
T cd02778 35 NPETAARLGIKDGDRVEVSS 54 (123)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 34689999999999998753
No 164
>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=58.62 E-value=5.9 Score=25.56 Aligned_cols=20 Identities=35% Similarity=0.420 Sum_probs=16.6
Q ss_pred CCCChhhcCCCCCCEEEEEc
Q 045424 68 YSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~~ 87 (98)
..++++.+++++||.|.|.-
T Consensus 38 np~dA~~~gi~~Gd~V~v~s 57 (130)
T cd02781 38 NPETAAKLGIADGDWVWVET 57 (130)
T ss_pred CHHHHHHcCCCCCCEEEEEC
Confidence 45689999999999998763
No 165
>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=58.51 E-value=6 Score=25.65 Aligned_cols=18 Identities=33% Similarity=0.527 Sum_probs=15.8
Q ss_pred CCChhhcCCCCCCEEEEE
Q 045424 69 SKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~ 86 (98)
.++++.|+++|||.|.|.
T Consensus 40 p~dA~~lgi~~Gd~V~v~ 57 (127)
T cd02777 40 PLDAAARGIKDGDIVRVF 57 (127)
T ss_pred HHHHHHcCCCCCCEEEEE
Confidence 478999999999998775
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=57.60 E-value=6.3 Score=26.66 Aligned_cols=19 Identities=37% Similarity=0.559 Sum_probs=16.3
Q ss_pred CCChhhcCCCCCCEEEEEc
Q 045424 69 SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~ 87 (98)
-.+++.|+++|||.+.|.-
T Consensus 44 P~dA~~lGI~dGD~V~V~s 62 (137)
T cd02784 44 PRTAEALGLLQGDVVRIRR 62 (137)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 5689999999999998763
No 167
>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=57.14 E-value=6.8 Score=24.38 Aligned_cols=19 Identities=37% Similarity=0.548 Sum_probs=15.9
Q ss_pred CCCChhhcCCCCCCEEEEE
Q 045424 68 YSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~ 86 (98)
..++++.|++++||.|.+.
T Consensus 34 np~dA~~lGi~~Gd~V~v~ 52 (96)
T cd02788 34 SPADAARLGLADGDLVEFS 52 (96)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 4568999999999998765
No 168
>PRK11433 aldehyde oxidoreductase 2Fe-2S subunit; Provisional
Probab=56.52 E-value=51 Score=24.30 Aligned_cols=66 Identities=17% Similarity=0.261 Sum_probs=43.4
Q ss_pred CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCC-------CcceeEEECCeecCCCCChhhcCCCCCCEEE
Q 045424 14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQP-------FKSTPFLINGNRFDYSKTADQLGLKDGDEID 84 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~-------~~~~rF~fdG~~l~~~~Tp~~l~medgD~Id 84 (98)
...|+|+| ||..+.+.+.+.++|...........|.. ......++||+.+..-.|+. -+.+|..|.
T Consensus 49 ~~~i~~~V---NG~~~~~~v~~~~tLLd~LR~~l~ltGtK~GC~~G~CGACTVlVdG~~v~SCl~la--~~~~G~~It 121 (217)
T PRK11433 49 ISPVTLKV---NGKTEQLEVDTRTTLLDALREHLHLTGTKKGCDHGQCGACTVLVNGRRLNACLTLA--VMHQGAEIT 121 (217)
T ss_pred CceEEEEE---CCEEEEEecCCCCcHHHHHHHhcCCCCCCCCCCCCCcCceEEEECCEEeeeeeeeh--hhcCCCEEE
Confidence 44566665 88888889999999888776543333332 24677788999887655553 234555443
No 169
>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=56.06 E-value=6.9 Score=25.33 Aligned_cols=20 Identities=35% Similarity=0.541 Sum_probs=16.4
Q ss_pred CCCChhhcCCCCCCEEEEEc
Q 045424 68 YSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~~ 87 (98)
..++++.++++|||.|.|.-
T Consensus 38 ~p~dA~~~gi~~Gd~V~v~s 57 (129)
T cd02782 38 HPDDAAALGLADGDKVRVTS 57 (129)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 34589999999999997753
No 170
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=55.30 E-value=16 Score=26.32 Aligned_cols=36 Identities=11% Similarity=0.004 Sum_probs=26.2
Q ss_pred CCEEEEEEcCccHHHHHHHHHHHhcCCCC---cceeEEE
Q 045424 26 GDKRFFQFNHDVEIKRLLIKYCETKSQPF---KSTPFLI 61 (98)
Q Consensus 26 g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~---~~~rF~f 61 (98)
|.+..|.|++..+|..+++...++.|++. ++++|.+
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 55678999999999999999999999964 6777776
No 171
>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=55.00 E-value=7.6 Score=24.73 Aligned_cols=19 Identities=21% Similarity=0.407 Sum_probs=15.8
Q ss_pred CCCChhhcCCCCCCEEEEE
Q 045424 68 YSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~ 86 (98)
..++++.|++++||.|.+.
T Consensus 36 ~p~dA~~lgi~~Gd~V~v~ 54 (106)
T cd02789 36 NPEDYKLLGKPEGDKVKVT 54 (106)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 3456999999999998776
No 172
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=54.81 E-value=49 Score=26.35 Aligned_cols=70 Identities=9% Similarity=0.059 Sum_probs=48.7
Q ss_pred EEEEEccCCCEE-EEEEcCccHHHHHHHHHHHhcCCCCcceeEEE---CCeecCC-----CCChhhcCCCCCCEEEEEc
Q 045424 18 NLIIKSQDGDKR-FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI---NGNRFDY-----SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 18 ~I~v~~~~g~~~-~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f---dG~~l~~-----~~Tp~~l~medgD~Idv~~ 87 (98)
.+++........ ...|..+-+.-.+|...-.+.|+.+..+++++ ||+.-.. ++..-.+.+||||.|-|..
T Consensus 338 rvk~l~~~~~v~~s~~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvqe 416 (418)
T KOG2982|consen 338 RVKALNSGPKVIASGLICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQE 416 (418)
T ss_pred eeeeeccCCccccceEEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeeec
Confidence 445544322221 44566677888899999999999999999887 6765443 4455667789999987753
No 173
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=54.69 E-value=10 Score=27.71 Aligned_cols=16 Identities=38% Similarity=0.800 Sum_probs=13.7
Q ss_pred hhcCCCCCCEEEEEce
Q 045424 73 DQLGLKDGDEIDAMYH 88 (98)
Q Consensus 73 ~~l~medgD~Idv~~~ 88 (98)
+.|+|+|||.|.+.+.
T Consensus 201 ~~l~l~dgd~v~i~i~ 216 (217)
T PRK14165 201 KELNLKDGDRVEVLVK 216 (217)
T ss_pred HhcCCCCCCEEEEEEe
Confidence 4699999999998875
No 174
>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=54.08 E-value=7.9 Score=25.27 Aligned_cols=19 Identities=26% Similarity=0.441 Sum_probs=15.9
Q ss_pred CCChhhcCCCCCCEEEEEc
Q 045424 69 SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~ 87 (98)
.++++.++++|||.|.|.-
T Consensus 39 p~dA~~~gi~~Gd~V~v~s 57 (129)
T cd02793 39 PADAAARGIADGDIVRVFN 57 (129)
T ss_pred HHHHHHcCCCCCCEEEEEc
Confidence 4569999999999998763
No 175
>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=53.70 E-value=8 Score=26.05 Aligned_cols=19 Identities=37% Similarity=0.625 Sum_probs=15.8
Q ss_pred CCChhhcCCCCCCEEEEEc
Q 045424 69 SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~ 87 (98)
.++++.++++|||.|.|+-
T Consensus 37 p~dA~~lgI~dGd~V~v~~ 55 (141)
T cd02776 37 PKDAAELGIKDNDWVEVFN 55 (141)
T ss_pred HHHHHHcCCCCCCEEEEEe
Confidence 3569999999999998763
No 176
>COG4841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.46 E-value=14 Score=23.82 Aligned_cols=22 Identities=23% Similarity=0.658 Sum_probs=16.6
Q ss_pred hhcCCCCCCEEEEEceecCCCcc
Q 045424 73 DQLGLKDGDEIDAMYHAFGGGHD 95 (98)
Q Consensus 73 ~~l~medgD~Idv~~~q~GG~~~ 95 (98)
++++|++|+-|-.++ ..||+++
T Consensus 15 ~E~~l~~g~~vrffv-RyGG~~~ 36 (95)
T COG4841 15 EELDLEEGNKVRFFV-RYGGCSS 36 (95)
T ss_pred HhcCCCCCCEEEEEE-EEcCccc
Confidence 578999999999555 4777653
No 177
>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=52.72 E-value=8.7 Score=23.31 Aligned_cols=19 Identities=37% Similarity=0.576 Sum_probs=15.7
Q ss_pred CCCChhhcCCCCCCEEEEE
Q 045424 68 YSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~ 86 (98)
...+++.|++++||.|.+.
T Consensus 28 ~~~da~~lgl~~Gd~v~v~ 46 (101)
T cd02775 28 NPEDAAALGIKDGDLVRVE 46 (101)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 4567889999999998765
No 178
>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=51.95 E-value=11 Score=20.23 Aligned_cols=23 Identities=30% Similarity=0.543 Sum_probs=17.5
Q ss_pred CChhhcCCCCCCEEEEEceecCC
Q 045424 70 KTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~~q~GG 92 (98)
..+.+|.++.||.|.|.-+.-+|
T Consensus 9 ~~~~eLs~~~Gd~i~v~~~~~~~ 31 (48)
T PF00018_consen 9 EDPDELSFKKGDIIEVLEKSDDG 31 (48)
T ss_dssp SSTTBSEB-TTEEEEEEEESSSS
T ss_pred CCCCEEeEECCCEEEEEEecCCC
Confidence 44889999999999997665553
No 179
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=51.94 E-value=44 Score=19.52 Aligned_cols=47 Identities=17% Similarity=0.220 Sum_probs=32.8
Q ss_pred EEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEc
Q 045424 30 FFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 30 ~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~ 87 (98)
...++..+++..|.+.+.... . .++++|-++ -+++.|.+||.|-+.-
T Consensus 9 ~~~~~~~~tl~~lr~~~k~~~-----D-I~I~NGF~~-----~~d~~L~e~D~v~~Ik 55 (57)
T PF14453_consen 9 EIETEENTTLFELRKESKPDA-----D-IVILNGFPT-----KEDIELKEGDEVFLIK 55 (57)
T ss_pred EEEcCCCcCHHHHHHhhCCCC-----C-EEEEcCccc-----CCccccCCCCEEEEEe
Confidence 556777888888887665422 2 468888654 4577899999886653
No 180
>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=51.17 E-value=11 Score=24.95 Aligned_cols=20 Identities=30% Similarity=0.579 Sum_probs=16.6
Q ss_pred CCCChhhcCCCCCCEEEEEc
Q 045424 68 YSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~~ 87 (98)
...+++.|+++|||.|.|.-
T Consensus 35 np~dA~~lgI~~Gd~V~v~s 54 (143)
T cd02780 35 NPEDAAKLGIKTGDRVRVVT 54 (143)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 34589999999999998764
No 181
>KOG4225 consensus Sorbin and SH3 domain-containing protein [Signal transduction mechanisms]
Probab=50.31 E-value=10 Score=30.95 Aligned_cols=20 Identities=40% Similarity=0.685 Sum_probs=17.0
Q ss_pred CChhhcCCCCCCEEEEEcee
Q 045424 70 KTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~~q 89 (98)
+.+++|+|.+||+|+|+-+-
T Consensus 444 qnedeLEl~egDii~VmeKc 463 (489)
T KOG4225|consen 444 QNEDELELREGDIIDVMEKC 463 (489)
T ss_pred CCchhheeccCCEEeeeecc
Confidence 45789999999999998664
No 182
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=50.03 E-value=16 Score=23.59 Aligned_cols=57 Identities=19% Similarity=0.225 Sum_probs=35.7
Q ss_pred ccHHHHHHHHHHHhcCCCCcceeEEECCeecCC-----CCC------hhhcCCCCCCEEEEEceecCC
Q 045424 36 DVEIKRLLIKYCETKSQPFKSTPFLINGNRFDY-----SKT------ADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 36 ~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~-----~~T------p~~l~medgD~Idv~~~q~GG 92 (98)
.+++..+.++.+.....+....-|.-+|+-..+ +++ -+++-++|||+|...-..-||
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 346677777777655555555556666654332 111 245789999999887666555
No 183
>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=50.03 E-value=65 Score=20.47 Aligned_cols=57 Identities=4% Similarity=0.076 Sum_probs=39.7
Q ss_pred EEEEEEccC-C-CEEEEEEcCccHHHHHHHHHHHhcCC-CCcceeEEE--CCe--ecCCCCChh
Q 045424 17 INLIIKSQD-G-DKRFFQFNHDVEIKRLLIKYCETKSQ-PFKSTPFLI--NGN--RFDYSKTAD 73 (98)
Q Consensus 17 I~I~v~~~~-g-~~~~f~Ik~~t~l~kL~~~y~~~~g~-~~~~~rF~f--dG~--~l~~~~Tp~ 73 (98)
|.|..++.+ | ...++.|+++++.+.|=...|+++.+ .++.+.+++ ||. +|.++.=|.
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 456665433 3 34589999999999999999999998 456665333 775 555555444
No 184
>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=49.89 E-value=63 Score=20.32 Aligned_cols=43 Identities=16% Similarity=0.006 Sum_probs=36.4
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f 61 (98)
+.|+. .+|....|.+...-.+..|.++.+.-++++..++-+.|
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 45663 57777888898899999999999999999987788887
No 185
>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=47.20 E-value=21 Score=24.83 Aligned_cols=38 Identities=16% Similarity=0.173 Sum_probs=32.4
Q ss_pred cCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCC
Q 045424 34 NHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKT 71 (98)
Q Consensus 34 k~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~T 71 (98)
-|+.-.+.|+..|+-...++.+.....+||.+|.+.+-
T Consensus 22 lPt~vVe~liskfe~H~kL~~~~~tVti~G~~Lege~K 59 (149)
T PF10787_consen 22 LPTSVVEWLISKFELHPKLDEENTTVTIDGKRLEGEDK 59 (149)
T ss_pred CcHHHHHHHHHHheecccccccceEEEECCeecCchHH
Confidence 36777889999999888888889999999999988664
No 186
>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=46.13 E-value=12 Score=23.03 Aligned_cols=12 Identities=25% Similarity=0.404 Sum_probs=10.5
Q ss_pred cceeEEECCeec
Q 045424 55 KSTPFLINGNRF 66 (98)
Q Consensus 55 ~~~rF~fdG~~l 66 (98)
+++||-|+|..|
T Consensus 1 ~~~RFdf~G~l~ 12 (73)
T PF08620_consen 1 SELRFDFDGNLL 12 (73)
T ss_pred CCccccCCCCEe
Confidence 368999999999
No 187
>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=45.99 E-value=58 Score=19.77 Aligned_cols=49 Identities=12% Similarity=0.085 Sum_probs=27.2
Q ss_pred EEEEcCccHHHHHHHHHHHhcCCCCcceeE--------EECCeecCCCCChhhcCCCCCCEEEEE
Q 045424 30 FFQFNHDVEIKRLLIKYCETKSQPFKSTPF--------LINGNRFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 30 ~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF--------~fdG~~l~~~~Tp~~l~medgD~Idv~ 86 (98)
.|.+++.++...+-.+.-...+ +.+++ -|.|+++ +.+..|+|||+|+.+
T Consensus 18 ~liL~~GaTV~D~a~~iH~di~---~~f~~A~v~g~s~~~~gq~V-----gl~~~L~d~DvVeI~ 74 (75)
T cd01666 18 PVILRRGSTVEDVCNKIHKDLV---KQFKYALVWGSSVKHSPQRV-----GLDHVLEDEDVVQIV 74 (75)
T ss_pred CEEECCCCCHHHHHHHHHHHHH---HhCCeeEEeccCCcCCCeEC-----CCCCEecCCCEEEEe
Confidence 4556677777664433322111 12222 1355554 556679999999876
No 188
>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=45.36 E-value=23 Score=19.16 Aligned_cols=17 Identities=41% Similarity=0.743 Sum_probs=14.2
Q ss_pred hhhcCCCCCCEEEEEce
Q 045424 72 ADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 72 p~~l~medgD~Idv~~~ 88 (98)
.+.|+++.||.|++.+.
T Consensus 16 ~~~l~l~~Gd~v~i~~~ 32 (47)
T PF04014_consen 16 REKLGLKPGDEVEIEVE 32 (47)
T ss_dssp HHHTTSSTTTEEEEEEE
T ss_pred HHHcCCCCCCEEEEEEe
Confidence 46789999999998776
No 189
>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=44.39 E-value=93 Score=22.54 Aligned_cols=70 Identities=11% Similarity=0.067 Sum_probs=42.0
Q ss_pred CCcEEEEEEccCCC----------EEEEEEcCccHHHHHHHHHHHhcCCCCc--c---eeEEECCee----------cCC
Q 045424 14 QHLINLIIKSQDGD----------KRFFQFNHDVEIKRLLIKYCETKSQPFK--S---TPFLINGNR----------FDY 68 (98)
Q Consensus 14 ~~~I~I~v~~~~g~----------~~~f~Ik~~t~l~kL~~~y~~~~g~~~~--~---~rF~fdG~~----------l~~ 68 (98)
++.++|.+....+. +=.|.+... ..|.++.+..=|+... . ++..-+|.. +..
T Consensus 66 ~p~V~V~v~~~~~~~V~V~GeV~~PG~~~l~~~---~tl~~ai~~AGG~~~~~~~~~~i~~~~~g~~~~~~idl~~l~~~ 142 (239)
T TIGR03028 66 QPQVTINVLQYRGQQVSVLGQVNRPGRYPLETA---GRVSDVLALAGGVTPDGADVITLVREREGKIFRKQIDFPALFNP 142 (239)
T ss_pred CCEEEEEEEeccceEEEEEEEecCCceEEcCCC---CcHHHHHHHcCCCCccCCCeEEEEEecCCeEEEEEEEHHHHHhc
Confidence 45566666554332 224666665 4566677776666532 2 222336654 234
Q ss_pred CCChhhcCCCCCCEEEEE
Q 045424 69 SKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~ 86 (98)
.++..++-|++||+|.|-
T Consensus 143 g~~~~ni~L~~GD~I~V~ 160 (239)
T TIGR03028 143 GGDNENILVAGGDIIYVD 160 (239)
T ss_pred CCCcCCcEEcCCCEEEEc
Confidence 566788999999999764
No 190
>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=43.51 E-value=15 Score=23.25 Aligned_cols=14 Identities=29% Similarity=0.332 Sum_probs=9.0
Q ss_pred hhcCCCCCCEEEEE
Q 045424 73 DQLGLKDGDEIDAM 86 (98)
Q Consensus 73 ~~l~medgD~Idv~ 86 (98)
.++-|+|||+|.+.
T Consensus 69 K~YivqDGDIi~f~ 82 (84)
T PF06071_consen 69 KDYIVQDGDIIHFR 82 (84)
T ss_dssp TT-B--TTEEEEEE
T ss_pred CceeEeCCCEEEEE
Confidence 57889999999875
No 191
>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=42.89 E-value=17 Score=20.12 Aligned_cols=17 Identities=35% Similarity=0.726 Sum_probs=13.6
Q ss_pred CChhhcCCCCCCEEEEE
Q 045424 70 KTADQLGLKDGDEIDAM 86 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~ 86 (98)
.+|.+|.++-||+|.|.
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 67888999999999998
No 192
>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=42.31 E-value=26 Score=23.40 Aligned_cols=61 Identities=20% Similarity=0.158 Sum_probs=35.3
Q ss_pred CEEEEEEcCccHHHHHHHHHHHhcC----C-CCcceeEEE-C----------------Cee-cCCCCChhhcCCCCCCEE
Q 045424 27 DKRFFQFNHDVEIKRLLIKYCETKS----Q-PFKSTPFLI-N----------------GNR-FDYSKTADQLGLKDGDEI 83 (98)
Q Consensus 27 ~~~~f~Ik~~t~l~kL~~~y~~~~g----~-~~~~~rF~f-d----------------G~~-l~~~~Tp~~l~medgD~I 83 (98)
.++++..=++.+|..|-....+..- . ..=.+++.| | |.+ -.++.|.+++...-||.|
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 5677777789999988766655210 0 011334444 3 322 356889999999999999
Q ss_pred EEEc
Q 045424 84 DAMY 87 (98)
Q Consensus 84 dv~~ 87 (98)
+|.+
T Consensus 117 dvaI 120 (120)
T PF06487_consen 117 DVAI 120 (120)
T ss_dssp EEEE
T ss_pred EEeC
Confidence 9864
No 193
>KOG0544 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=40.72 E-value=38 Score=22.21 Aligned_cols=37 Identities=16% Similarity=0.188 Sum_probs=24.4
Q ss_pred CCCCCCCCCCCCCCcEEEEEEc--cCCCEEEEEEcCccH
Q 045424 2 LKPSSSKNNKKPQHLINLIIKS--QDGDKRFFQFNHDVE 38 (98)
Q Consensus 2 ~~~~~~~~~~~~~~~I~I~v~~--~~g~~~~f~Ik~~t~ 38 (98)
|+|.+...-+|+.+.++++-.. +||..+-=.+.+.+|
T Consensus 8 i~~Gdg~tfpK~Gqtvt~hYtg~L~dG~kfDSs~dr~kP 46 (108)
T KOG0544|consen 8 ISPGDGRTFPKKGQTVTVHYTGTLQDGKKFDSSRDRGKP 46 (108)
T ss_pred eeCCCCcccCCCCCEEEEEEEeEecCCcEeecccccCCC
Confidence 6788888888889999988654 456544444444433
No 194
>COG1925 FruB Phosphotransferase system, HPr-related proteins [Carbohydrate transport and metabolism]
Probab=39.76 E-value=81 Score=19.81 Aligned_cols=60 Identities=23% Similarity=0.318 Sum_probs=41.8
Q ss_pred EEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCC--hhhcCCCCCCEEEEEce
Q 045424 18 NLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKT--ADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~T--p~~l~medgD~Idv~~~ 88 (98)
++.|....|-. .+|.+.|-++.+.|. ..+.+.++|+.++...- .-.|+..-|+.|.+..+
T Consensus 5 ~~~i~n~~GLH----ARPAa~lv~~a~~f~-------s~i~l~~~g~~~~akSim~lm~Lg~~~G~~i~i~a~ 66 (88)
T COG1925 5 TVTIKNKNGLH----ARPAAKLVKLASKFD-------SEITLTNNGKEANAKSIMGLMALGAKKGDEIELSAE 66 (88)
T ss_pred EEEEECCCccc----hhhHHHHHHHHhcCC-------ceEEEEeCCEEechHhHHHHHHhCcCCCCEEEEEEe
Confidence 44555455532 446666666655553 36899999999998764 56889999999998763
No 195
>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=39.51 E-value=37 Score=21.24 Aligned_cols=35 Identities=29% Similarity=0.516 Sum_probs=22.1
Q ss_pred HHHHhcCCCCcceeEEEC---CeecCCCCChhhcCCCC
Q 045424 45 KYCETKSQPFKSTPFLIN---GNRFDYSKTADQLGLKD 79 (98)
Q Consensus 45 ~y~~~~g~~~~~~rF~fd---G~~l~~~~Tp~~l~med 79 (98)
+.|++...++..+.++=| ++.|.-+.+..+||+..
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 579999999988888765 67888899999999873
No 196
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=39.29 E-value=25 Score=23.06 Aligned_cols=19 Identities=32% Similarity=0.753 Sum_probs=14.9
Q ss_pred cCCCCCCEEEEEceecCCC
Q 045424 75 LGLKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 75 l~medgD~Idv~~~q~GG~ 93 (98)
-+++.||-|++..+|++|-
T Consensus 82 sglKeGdkV~fvferv~gk 100 (108)
T COG5569 82 SGLKEGDKVEFVFERVNGK 100 (108)
T ss_pred hccccCCcEEEEEEeeCCE
Confidence 3677888888888888874
No 197
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=38.98 E-value=54 Score=23.56 Aligned_cols=56 Identities=13% Similarity=0.195 Sum_probs=42.8
Q ss_pred EEEEcCcc-HHHHHHHHHHHhcCCCCcceeEEECCeecC----CCCChhhcCCCCCCEEEE
Q 045424 30 FFQFNHDV-EIKRLLIKYCETKSQPFKSTPFLINGNRFD----YSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 30 ~f~Ik~~t-~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~----~~~Tp~~l~medgD~Idv 85 (98)
.+.|.+.. ++..|...|.+.+--....+||...|.-+- ++.+.-.+-.+.||.|.|
T Consensus 70 vvsv~~~~pk~del~akF~~EH~H~d~EvRy~vaG~GiF~v~~~d~~~~~i~c~~gDLI~v 130 (181)
T COG1791 70 VVSVSPSNPKLDELRAKFLQEHLHTDDEVRYFVAGEGIFDVHSPDGKVYQIRCEKGDLISV 130 (181)
T ss_pred EEEeCCCCccHHHHHHHHHHHhccCCceEEEEEecceEEEEECCCCcEEEEEEccCCEEec
Confidence 34555544 578899999888777778999999998654 344777888999998876
No 198
>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.41 E-value=1.1e+02 Score=19.87 Aligned_cols=61 Identities=10% Similarity=0.129 Sum_probs=43.3
Q ss_pred ccCCCE-EEEEEcCccHHHHHHHH--HH-HhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 23 SQDGDK-RFFQFNHDVEIKRLLIK--YC-ETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 23 ~~~g~~-~~f~Ik~~t~l~kL~~~--y~-~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
-++... .++.+...++......+ .. ...+++.+..+|=.-|+++...+. ++|||.|+++-=
T Consensus 12 lPerq~l~~v~v~egatV~dAi~~Sgll~~~~~idl~~n~~GI~~k~~kl~~~-----l~dgDRVEIyRP 76 (99)
T COG2914 12 LPERQYLCRVQLQEGATVEDAILASGLLELFPDIDLHENKVGIYSKPVKLDDE-----LHDGDRVEIYRP 76 (99)
T ss_pred cCCcceEEEEEeccCcCHHHHHHhcchhhccccCCccccceeEEccccCcccc-----ccCCCEEEEecc
Confidence 455544 37888888888775533 33 345677777888888888877665 899999998743
No 199
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=38.26 E-value=29 Score=24.10 Aligned_cols=24 Identities=29% Similarity=0.331 Sum_probs=21.6
Q ss_pred cCCCCChhhcCCCCCCEEEEEcee
Q 045424 66 FDYSKTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 66 l~~~~Tp~~l~medgD~Idv~~~q 89 (98)
++++.|..+...+=||-|||.+..
T Consensus 114 ~ddnktL~~~kf~iGD~lDVaI~~ 137 (151)
T KOG3391|consen 114 IDDNKTLQQTKFEIGDYLDVAITP 137 (151)
T ss_pred CCccchhhhCCccccceEEEEecC
Confidence 567899999999999999999875
No 200
>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=38.06 E-value=32 Score=20.68 Aligned_cols=19 Identities=32% Similarity=0.517 Sum_probs=14.4
Q ss_pred CChhhcCCCCCCEEEEEce
Q 045424 70 KTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~~ 88 (98)
.=.+.|++..||.|++..+
T Consensus 17 ~i~~~lgl~~Gd~v~v~~~ 35 (74)
T TIGR02609 17 EVLESLGLKEGDTLYVDEE 35 (74)
T ss_pred HHHHHcCcCCCCEEEEEEE
Confidence 3356799999999987544
No 201
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=38.06 E-value=59 Score=28.82 Aligned_cols=34 Identities=15% Similarity=0.052 Sum_probs=30.4
Q ss_pred EEEEEEcCccHHHHHHHHHHHhcCCCCcc-eeEEE
Q 045424 28 KRFFQFNHDVEIKRLLIKYCETKSQPFKS-TPFLI 61 (98)
Q Consensus 28 ~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~-~rF~f 61 (98)
-.+|+||++++++.|....++..|.+.+. +++|+
T Consensus 585 l~qf~iKr~akisdl~~~iae~ln~pqs~~~r~w~ 619 (1089)
T COG5077 585 LAQFVIKRGAKISDLRNNIAEHLNTPQSLYLREWT 619 (1089)
T ss_pred ceeEEeecCCCHHHHHHHHHHHcCCCceeeeEEEE
Confidence 35899999999999999999999998876 88876
No 202
>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=37.80 E-value=60 Score=19.67 Aligned_cols=33 Identities=18% Similarity=0.241 Sum_probs=25.8
Q ss_pred ceeEEECCeecCCCC--ChhhcCCCCCCEEEEEce
Q 045424 56 STPFLINGNRFDYSK--TADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 56 ~~rF~fdG~~l~~~~--Tp~~l~medgD~Idv~~~ 88 (98)
++.+.++|..++... ..-+|++..||.|.+..+
T Consensus 32 ~I~i~~~~~~~dakSil~ll~Lg~~~G~~i~i~~~ 66 (82)
T TIGR01003 32 EITLTKNGKEVNAKSIMGIMMLGAGQGTEVTVSAD 66 (82)
T ss_pred EEEEEECCEEEehHhHHHHHhcCCCCCCEEEEEEe
Confidence 678888998887665 345778999999998764
No 203
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=37.69 E-value=33 Score=22.30 Aligned_cols=21 Identities=33% Similarity=0.544 Sum_probs=15.7
Q ss_pred hhhcCCCCCCEEEEEceecCC
Q 045424 72 ADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 72 p~~l~medgD~Idv~~~q~GG 92 (98)
-+++.++|||.|-+.-..-||
T Consensus 81 kedy~ledgD~ivfiSTlHGg 101 (101)
T KOG4146|consen 81 KEDYPLEDGDHIVFISTLHGG 101 (101)
T ss_pred ccccCcccCCEEEEEEeccCC
Confidence 367789999998776665554
No 204
>PF09014 Sushi_2: Beta-2-glycoprotein-1 fifth domain; InterPro: IPR015104 The fifth domain of beta-2-glycoprotein-1 (b2GP-1) is composed of four well-defined anti-parallel beta-strands and two short alpha-helices, as well as a long highly flexible loop. It plays an important role in the binding of b2GP-1 to negatively charged compounds and subsequent capture for binding of anti-b2GP-1 antibodies []. ; PDB: 1C1Z_A 3OP8_B 2KRI_A 1QUB_A 1G4G_A 1G4F_A.
Probab=37.59 E-value=17 Score=23.05 Aligned_cols=37 Identities=19% Similarity=0.291 Sum_probs=23.8
Q ss_pred CCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 51 SQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 51 g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
-++...-+.+|+|+++...+-. .-+|-.||+|.++=+
T Consensus 5 ~i~vkra~Vly~g~k~~i~d~~-~~~v~Hge~VsffCk 41 (85)
T PF09014_consen 5 KIPVKRARVLYNGEKVWIQDLF-KNGVLHGEIVSFFCK 41 (85)
T ss_dssp --SSSS-EEEETTEEEEHHHHT-TT-BETT-EEEEEEE
T ss_pred ccceeEEEEEECCEEechhhcc-cCceeeCCEEEEEEc
Confidence 3567788999999999863322 236889999998854
No 205
>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=37.05 E-value=24 Score=22.75 Aligned_cols=25 Identities=12% Similarity=0.215 Sum_probs=21.0
Q ss_pred cHHHHHHHHHHHhcCCCCcceeE--EE
Q 045424 37 VEIKRLLIKYCETKSQPFKSTPF--LI 61 (98)
Q Consensus 37 t~l~kL~~~y~~~~g~~~~~~rF--~f 61 (98)
.-...||++|+++++++.+.+.| +|
T Consensus 42 dda~elm~~f~~~F~Vd~~~f~~~~YF 68 (111)
T PF07377_consen 42 DDAEELMEDFFERFNVDLSDFDFDRYF 68 (111)
T ss_pred HHHHHHHHHHHHHhCCCcCccCHHHcc
Confidence 45678999999999999988777 55
No 206
>KOG3309 consensus Ferredoxin [Energy production and conversion]
Probab=36.66 E-value=1.2e+02 Score=21.38 Aligned_cols=54 Identities=6% Similarity=0.063 Sum_probs=35.6
Q ss_pred CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHH-HhcC-----CCCcceeEEECCeec
Q 045424 13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYC-ETKS-----QPFKSTPFLINGNRF 66 (98)
Q Consensus 13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~-~~~g-----~~~~~~rF~fdG~~l 66 (98)
+.+.|+|.....+|.++.++.+-.+.+-.+--.+- +..| +..+.+-.+++-...
T Consensus 40 ~~e~i~Itfv~~dG~~~~i~g~vGdtlLd~ah~n~idleGACEgslACSTCHViv~~~~y 99 (159)
T KOG3309|consen 40 KVEDIKITFVDPDGEEIKIKGKVGDTLLDAAHENNLDLEGACEGSLACSTCHVIVDEEYY 99 (159)
T ss_pred CCceEEEEEECCCCCEEEeeeecchHHHHHHHHcCCCccccccccccccceEEEEcHHHH
Confidence 35569999999999999999999988876643321 1111 123466666654433
No 207
>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=35.70 E-value=23 Score=21.55 Aligned_cols=19 Identities=21% Similarity=0.291 Sum_probs=14.7
Q ss_pred CCCChhhcCCCCCCEEEEE
Q 045424 68 YSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 68 ~~~Tp~~l~medgD~Idv~ 86 (98)
....+.+.-|+|||+|+++
T Consensus 57 ~~~vg~~~~L~dgDvV~Ii 75 (76)
T cd01669 57 GRRVGEDYELKHRDVIKIV 75 (76)
T ss_pred CEEeCCCcEecCCCEEEEe
Confidence 3455667789999999875
No 208
>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=34.93 E-value=82 Score=23.71 Aligned_cols=48 Identities=19% Similarity=0.212 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcC-CCCCCEEEEEceecCCCc
Q 045424 38 EIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLG-LKDGDEIDAMYHAFGGGH 94 (98)
Q Consensus 38 ~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~-medgD~Idv~~~q~GG~~ 94 (98)
++..|+.-.++-+.+.+..+-+. -||+-.+ |++||+|++-++..|=..
T Consensus 211 ~i~~lI~~lS~~~tL~pGDvI~T---------GTP~Gvg~l~~GD~v~~~iegiG~l~ 259 (266)
T COG0179 211 SIPELIAYLSRFMTLEPGDVILT---------GTPSGVGFLKPGDVVEVEIEGIGELE 259 (266)
T ss_pred CHHHHHHHHhCCcccCCCCEEEe---------CCCCCcccCCCCCEEEEEecceeEEE
Confidence 56777777777777777665543 4666555 999999999999887443
No 209
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=33.81 E-value=47 Score=19.31 Aligned_cols=27 Identities=33% Similarity=0.464 Sum_probs=15.9
Q ss_pred eeEEECCeecCCCCChhhcCCCCCCEEEE
Q 045424 57 TPFLINGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 57 ~rF~fdG~~l~~~~Tp~~l~medgD~Idv 85 (98)
-.|..+|+.... -+.++.+.|||.|..
T Consensus 41 W~~~vNG~~~~~--ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 41 WMYYVNGESANV--GAGSYKLKDGDKITW 67 (68)
T ss_dssp EEEEETTEE-SS---CCC-B--TTEEEEE
T ss_pred eEEEECCEEhhc--CcceeEeCCCCEEEe
Confidence 445568876554 677888999999975
No 210
>PRK11675 LexA regulated protein; Provisional
Probab=33.68 E-value=40 Score=21.53 Aligned_cols=27 Identities=7% Similarity=0.161 Sum_probs=22.7
Q ss_pred EEEEEcCccHHHHHHHHHHHhcCCCCc
Q 045424 29 RFFQFNHDVEIKRLLIKYCETKSQPFK 55 (98)
Q Consensus 29 ~~f~Ik~~t~l~kL~~~y~~~~g~~~~ 55 (98)
..+.|+-+..+..-.+.||+..|++..
T Consensus 51 KRveVKldedl~ekL~eyAe~~nitRS 77 (90)
T PRK11675 51 KRVELKLNADLVDALNELAEARNISRS 77 (90)
T ss_pred eeEEEEECHHHHHHHHHHHHHcCCCHH
Confidence 467777788999999999999998754
No 211
>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=32.98 E-value=69 Score=18.64 Aligned_cols=53 Identities=9% Similarity=0.030 Sum_probs=34.5
Q ss_pred EEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCC--CCCCEEEEEcee
Q 045424 29 RFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGL--KDGDEIDAMYHA 89 (98)
Q Consensus 29 ~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~m--edgD~Idv~~~q 89 (98)
+.-.|.+..+ +.+.|+....+-..++|..+....+...+-. ..++.|.+.+..
T Consensus 27 ~V~~v~~~s~--------a~~~gl~~GD~I~~Ing~~i~~~~~~~~~l~~~~~~~~i~l~v~r 81 (90)
T cd00987 27 LVASVDPGSP--------AAKAGLKPGDVILAVNGKPVKSVADLRRALAELKPGDKVTLTVLR 81 (90)
T ss_pred EEEEECCCCH--------HHHcCCCcCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEEEEE
Confidence 3445556555 3456888889999999999986544443322 237788877753
No 212
>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=32.96 E-value=1.1e+02 Score=18.31 Aligned_cols=24 Identities=13% Similarity=0.135 Sum_probs=19.6
Q ss_pred CCcEEEEEEccCCCEEEEEEcCcc
Q 045424 14 QHLINLIIKSQDGDKRFFQFNHDV 37 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~~f~Ik~~t 37 (98)
.....|.+.+.+|+.+.+.|.+.|
T Consensus 53 ~g~yev~~~~~dG~~~ev~vD~~t 76 (83)
T PF13670_consen 53 DGCYEVEARDKDGKKVEVYVDPAT 76 (83)
T ss_pred CCEEEEEEEECCCCEEEEEEcCCC
Confidence 446888888889999999988765
No 213
>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=32.93 E-value=29 Score=19.59 Aligned_cols=24 Identities=38% Similarity=0.595 Sum_probs=16.2
Q ss_pred EEECCeecCCCCChhhcCCCCCCEEEE
Q 045424 59 FLINGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 59 F~fdG~~l~~~~Tp~~l~medgD~Idv 85 (98)
.+.+|.+|.+ -....|.+||+|.+
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 3448888877 34566889998864
No 214
>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=32.90 E-value=11 Score=20.96 Aligned_cols=32 Identities=19% Similarity=0.254 Sum_probs=19.4
Q ss_pred ceeEEECCeecCCCCChh--hcCCCCCC-EEEEEc
Q 045424 56 STPFLINGNRFDYSKTAD--QLGLKDGD-EIDAMY 87 (98)
Q Consensus 56 ~~rF~fdG~~l~~~~Tp~--~l~medgD-~Idv~~ 87 (98)
+++|.|.|..|.-.-|.+ .+.+..|+ -|++.+
T Consensus 11 ~F~~~~rg~~l~v~i~~~~v~v~~~~g~~~l~i~v 45 (54)
T PF03633_consen 11 SFRLRYRGHWLEVEITHEKVTVTLLSGDAPLTIKV 45 (54)
T ss_dssp EEEEEETTEEEEEEEETTEEEEEEEESS--EEEEE
T ss_pred EEEEEECCEEEEEEEECCEEEEEEccCCccEEEEE
Confidence 567777888887655555 44455666 555443
No 215
>PRK09908 xanthine dehydrogenase subunit XdhC; Provisional
Probab=32.60 E-value=1.5e+02 Score=20.81 Aligned_cols=54 Identities=17% Similarity=0.134 Sum_probs=37.8
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCC-------CcceeEEECCeecCCCCChh
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQP-------FKSTPFLINGNRFDYSKTAD 73 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~-------~~~~rF~fdG~~l~~~~Tp~ 73 (98)
.|+++| ||..+.+.+.+.++|..+.... ...|.. ......++||+.+..=-+|.
T Consensus 8 ~i~~~v---NG~~~~~~~~~~~~Ll~~LR~~-gltgtK~GC~~G~CGACtVlvdg~~v~SCl~~a 68 (159)
T PRK09908 8 TIECTI---NGMPFQLHAAPGTPLSELLREQ-GLLSVKQGCCVGECGACTVLVDGTAIDSCLYLA 68 (159)
T ss_pred eEEEEE---CCEEEEEecCCCCcHHHHHHHc-CCCCCCCCcCCCCCCCcEEEECCcEeehhHhhH
Confidence 466665 8888999999999999888753 333332 24667888999887654443
No 216
>PTZ00490 Ferredoxin superfamily; Provisional
Probab=32.31 E-value=1.5e+02 Score=20.31 Aligned_cols=31 Identities=13% Similarity=0.215 Sum_probs=25.4
Q ss_pred CCCcEEEEEEccCCCEEEEEEcCccHHHHHH
Q 045424 13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLL 43 (98)
Q Consensus 13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~ 43 (98)
+...++|.+.+.+|....+.+...++|-...
T Consensus 32 ~~g~v~I~~~~~dG~~~~v~~~~G~sLLeal 62 (143)
T PTZ00490 32 TPGKVKVCVKKRDGTHCDVEVPVGMSLMHAL 62 (143)
T ss_pred CCCcEEEEEEcCCCCEEEEEECCCccHHHHH
Confidence 4678999999999998889888887766644
No 217
>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=31.95 E-value=64 Score=16.70 Aligned_cols=22 Identities=27% Similarity=0.431 Sum_probs=17.8
Q ss_pred CChhhcCCCCCCEEEEEceecC
Q 045424 70 KTADQLGLKDGDEIDAMYHAFG 91 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~~q~G 91 (98)
..+.+|.+.-||.|.+.-+..+
T Consensus 14 ~~~~~l~~~~Gd~v~v~~~~~~ 35 (58)
T smart00326 14 QDPDELSFKKGDIITVLEKSDD 35 (58)
T ss_pred CCCCCCCCCCCCEEEEEEcCCC
Confidence 5678899999999999876533
No 218
>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=31.51 E-value=35 Score=17.33 Aligned_cols=25 Identities=8% Similarity=-0.016 Sum_probs=18.8
Q ss_pred EEcCccHHHHHHHHHHHhcCCCCcc
Q 045424 32 QFNHDVEIKRLLIKYCETKSQPFKS 56 (98)
Q Consensus 32 ~Ik~~t~l~kL~~~y~~~~g~~~~~ 56 (98)
.|+-+..+.+.++.+|++.|.+.+.
T Consensus 3 ti~l~~~~~~~l~~~a~~~g~s~s~ 27 (39)
T PF01402_consen 3 TIRLPDELYERLDELAKELGRSRSE 27 (39)
T ss_dssp EEEEEHHHHHHHHHHHHHHTSSHHH
T ss_pred EEEeCHHHHHHHHHHHHHHCcCHHH
Confidence 3445577888899999999987543
No 219
>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=30.63 E-value=1.4e+02 Score=18.53 Aligned_cols=50 Identities=20% Similarity=0.245 Sum_probs=34.1
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcce--eEEECCeecCCCC
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKST--PFLINGNRFDYSK 70 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~--rF~fdG~~l~~~~ 70 (98)
.+|.+.+ +...+-|-. ..|+.|+.+-|++++++...+ .+.=||-.|..++
T Consensus 5 ~kV~~~~-r~~k~GV~A-~sL~eL~~K~~~~l~l~~~~~~lvL~eDGTeVddEe 56 (78)
T cd01615 5 FKVCDSD-RSRKKGVAA-SSLEELLSKACEKLKLPSAPVTLVLEEDGTEVDDEE 56 (78)
T ss_pred EEEecCC-CCeeEEEEc-CCHHHHHHHHHHHcCCCCCCeEEEEeCCCcEEccHH
Confidence 3555433 345566654 689999999999999954444 4444899886554
No 220
>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=30.55 E-value=1.2e+02 Score=17.76 Aligned_cols=57 Identities=16% Similarity=0.047 Sum_probs=41.1
Q ss_pred CEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChh-hc-CCCCCCEEEEEceecC
Q 045424 27 DKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTAD-QL-GLKDGDEIDAMYHAFG 91 (98)
Q Consensus 27 ~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~-~l-~medgD~Idv~~~q~G 91 (98)
..+...|.+..| +++.|+....+-+.+||.++....... -+ ....|+.|.+.+..-|
T Consensus 15 g~~V~~V~~~sp--------A~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v~R~g 73 (82)
T PF13180_consen 15 GVVVVSVIPGSP--------AAKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTVLRDG 73 (82)
T ss_dssp SEEEEEESTTSH--------HHHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEEEETT
T ss_pred eEEEEEeCCCCc--------HHHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEEEECC
Confidence 455667888888 457889999999999999995433322 22 6789999998887533
No 221
>TIGR03193 4hydroxCoAred 4-hydroxybenzoyl-CoA reductase, gamma subunit. 4-hydroxybenzoyl-CoA reductase converts 4-hydroxybenzoyl-CoA to benzoyl-CoA, a common intermediate in the degradation of aromatic compounds. This protein family represents the gamma chain of this three-subunit enzyme.
Probab=30.41 E-value=1.6e+02 Score=20.39 Aligned_cols=54 Identities=13% Similarity=0.105 Sum_probs=36.0
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCC-------CcceeEEECCeecCCCCChh
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQP-------FKSTPFLINGNRFDYSKTAD 73 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~-------~~~~rF~fdG~~l~~~~Tp~ 73 (98)
|+++| ||..+.+.+.+.++|......-....|.. -.....++||+.+..=-+|.
T Consensus 2 i~~~v---NG~~~~~~~~~~~~Ll~~LR~~lgltg~K~gC~~G~CGACtVlvdg~~v~SCl~~~ 62 (148)
T TIGR03193 2 LRLTV---NGRWREDAVADNMLLVDYLRDTVGLTGTKQGCDGGECGACTVLVDGRPRLACSTLA 62 (148)
T ss_pred EEEEE---CCEEEEeecCCCCcHHHHHHHhcCCCCCCCCCCCCCCCCCEEEECCeEeeccHhhH
Confidence 45555 78888899999998887665432323322 24667888999887655554
No 222
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=30.09 E-value=1.7e+02 Score=20.91 Aligned_cols=60 Identities=7% Similarity=-0.048 Sum_probs=32.2
Q ss_pred cEEEEEEccCC---CEEEEEEcCccHHHHHHHHHHHhcCCCC---cceeEEE--CCee---cCCCCChhhc
Q 045424 16 LINLIIKSQDG---DKRFFQFNHDVEIKRLLIKYCETKSQPF---KSTPFLI--NGNR---FDYSKTADQL 75 (98)
Q Consensus 16 ~I~I~v~~~~g---~~~~f~Ik~~t~l~kL~~~y~~~~g~~~---~~~rF~f--dG~~---l~~~~Tp~~l 75 (98)
.|.|.+..... ..+.|.|.++.++..|.++.+++.+++. ..+|++- +|+- +..+.+.+++
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 35555654332 3468999999999999999999999865 3677553 4432 3456666666
No 223
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=29.88 E-value=1e+02 Score=19.99 Aligned_cols=37 Identities=16% Similarity=0.265 Sum_probs=28.5
Q ss_pred eeEEECCeecCCCCChhhc-CCCCCCEEEEEceecCCC
Q 045424 57 TPFLINGNRFDYSKTADQL-GLKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 57 ~rF~fdG~~l~~~~Tp~~l-~medgD~Idv~~~q~GG~ 93 (98)
..|+|-|..+..+.+..++ |-.+=-.|-|-+.+.|++
T Consensus 2 a~LW~aGK~l~~~k~l~dy~GkNEKtKiivKl~~~g~g 39 (98)
T PF11069_consen 2 AQLWWAGKELQRGKKLSDYIGKNEKTKIIVKLQKRGQG 39 (98)
T ss_pred ceEEeccccccCCCcHHHhcCCCcceeEEEEeccCCCC
Confidence 4699999999999999987 333344677888888765
No 224
>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=29.62 E-value=1.1e+02 Score=18.33 Aligned_cols=35 Identities=17% Similarity=0.415 Sum_probs=21.3
Q ss_pred EEEEccCC---CEEEEEEcCccHHHH--------HHHHHHHhcCCC
Q 045424 19 LIIKSQDG---DKRFFQFNHDVEIKR--------LLIKYCETKSQP 53 (98)
Q Consensus 19 I~v~~~~g---~~~~f~Ik~~t~l~k--------L~~~y~~~~g~~ 53 (98)
+.|...+| ....+.||+...+.+ +-..||++.|+.
T Consensus 37 Flv~~~~g~~~~~~~ieVK~~~~l~~~~~~~k~~~~~~y~~~~g~~ 82 (88)
T PF08722_consen 37 FLVTYRDGNGKKPVAIEVKPSSELEKPRTKEKLEIEREYWEEQGIP 82 (88)
T ss_dssp EEEEESSS--SSEEEEEE--GGGGGSHHHHHHHHHHHHHHHHCT--
T ss_pred EEEEEccCCcceEEEEEEccHHHhcChhHHHHHHHHHHHHHHcCCe
Confidence 34444566 788999999887765 446777777764
No 225
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=29.58 E-value=1.4e+02 Score=24.47 Aligned_cols=47 Identities=11% Similarity=0.019 Sum_probs=35.8
Q ss_pred CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE
Q 045424 13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL 60 (98)
Q Consensus 13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~ 60 (98)
..+.++|.++.++|....-+++.+++++.|++-+...- .....+.|.
T Consensus 380 ~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~~-~~~~e~~~~ 426 (460)
T KOG1363|consen 380 EEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSNG-FHPEEYSLN 426 (460)
T ss_pred cccceeeEEECCCCCeeeeeeecccchhHHHHHHHhcc-CCchhhccc
Confidence 36789999999999999899999999999887765433 333444443
No 226
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=29.45 E-value=2.4e+02 Score=21.92 Aligned_cols=47 Identities=11% Similarity=0.045 Sum_probs=37.1
Q ss_pred CCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE
Q 045424 14 QHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI 61 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f 61 (98)
++.+..+.+-..|.+. =+|..-+.++.|+...++-+.++...+-|.-
T Consensus 51 ~p~LvF~~QLAHGSpt-g~Ie~fsnv~ELY~kIAe~F~Is~~dIlfcT 97 (334)
T KOG3938|consen 51 RPRLVFHCQLAHGSPT-GRIEGFSNVRELYQKIAEAFDISPDDILFCT 97 (334)
T ss_pred CCceeEeeeeccCCcc-ceecccccHHHHHHHHHHHhcCCccceEEEe
Confidence 5666666665677764 3577889999999999999999998887764
No 227
>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=29.39 E-value=60 Score=18.88 Aligned_cols=24 Identities=13% Similarity=0.246 Sum_probs=20.2
Q ss_pred HHHHHHHHHhcCCCCcceeEEECC
Q 045424 40 KRLLIKYCETKSQPFKSTPFLING 63 (98)
Q Consensus 40 ~kL~~~y~~~~g~~~~~~rF~fdG 63 (98)
....+.+|...|++...++.+|..
T Consensus 32 ~~~r~~la~~lgl~~~vvKVWfqN 55 (58)
T TIGR01565 32 REEVREFCEEIGVTRKVFKVWMHN 55 (58)
T ss_pred HHHHHHHHHHhCCCHHHeeeeccc
Confidence 346788999999999999999954
No 228
>KOG2378 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=29.34 E-value=2.5e+02 Score=23.48 Aligned_cols=56 Identities=9% Similarity=0.051 Sum_probs=44.9
Q ss_pred CCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCc--ceeEEECCeecC
Q 045424 12 KPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFK--STPFLINGNRFD 67 (98)
Q Consensus 12 ~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~--~~rF~fdG~~l~ 67 (98)
.+++.|.-+|=..+-..++++++-++..+.++.+.+++.|.+.+ -+...+.|+.+-
T Consensus 231 ~~sDev~~~vy~~Dhsy~tl~~~vs~svqEI~~~va~k~~~seel~LV~v~s~GEkv~ 288 (573)
T KOG2378|consen 231 RGSDEVFCIVYLPDHSYVTLRIRVSASVQEILEAVAEKLGYSEELILVKVSSSGEKVI 288 (573)
T ss_pred cCCCeeeEEEEecCceEEEEEeechhHHHHHHHHHHHHhccccceeEEEEccCCceee
Confidence 35777877787788899999999999999999999999887654 344566787653
No 229
>PF00381 PTS-HPr: PTS HPr component phosphorylation site; InterPro: IPR005698 The histidine-containing phosphocarrier protein (HPr) is a central component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS), which transfers metabolic carbohydrates across the cell membrane in many bacterial species [, ]. PTS catalyses the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is as follows: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to Enzyme I (EI) of the PTS, which in turn transfers it to the phosphoryl carrier protein (HPr) [, ]. Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease complex (enzymes EII/EIII). HPr [, ] is a small cytoplasmic protein of 70 to 90 amino acid residues. In some bacteria, HPr is a domain in a larger protein that includes a EIII(Fru) (IIA) domain and in some cases also the EI domain. A conserved histidine in the N-terminal section of HPr serves as an acceptor for the phosphoryl group of EI. In the central part of HPr, there is a conserved serine which (in Gram-positive bacteria only) is phosphorylated by an ATP-dependent protein kinase; a process which probably play a regulatory role in sugar transport. The overall architecture of the HPr domain has been described as an open faced beta-sandwich in which a beta-sheet is packed against three alpha-helices. Regulatory phosphorylation at the conserved Ser residue does not appear to induce large structural changes to the HPr domain, in particular in the region of the active site [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TXE_A 1QR5_A 1RZR_S 2NZU_L 2OEN_L 2NZV_L 1Y51_B 1Y4Y_A 1Y50_A 2HPR_A ....
Probab=29.28 E-value=1e+02 Score=18.52 Aligned_cols=35 Identities=26% Similarity=0.300 Sum_probs=28.0
Q ss_pred CcceeEEECCeecCCCCChh--hcCCCCCCEEEEEce
Q 045424 54 FKSTPFLINGNRFDYSKTAD--QLGLKDGDEIDAMYH 88 (98)
Q Consensus 54 ~~~~rF~fdG~~l~~~~Tp~--~l~medgD~Idv~~~ 88 (98)
...+.+.++|..++...-.. +|+..-||.|.+..+
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 45788999998888877554 678889999998764
No 230
>PRK11347 antitoxin ChpS; Provisional
Probab=29.19 E-value=56 Score=20.25 Aligned_cols=19 Identities=21% Similarity=0.391 Sum_probs=15.2
Q ss_pred CChhhcCCCCCCEEEEEce
Q 045424 70 KTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~~ 88 (98)
.-.+.|+++.||++++.++
T Consensus 19 ~il~~l~l~~G~~v~i~v~ 37 (83)
T PRK11347 19 IVMKELNLQPGQSVEAQVS 37 (83)
T ss_pred HHHHHcCCCCCCEEEEEEE
Confidence 3467899999999988764
No 231
>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=28.83 E-value=78 Score=19.61 Aligned_cols=50 Identities=16% Similarity=0.309 Sum_probs=34.3
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEE--CCeecCCCC
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLI--NGNRFDYSK 70 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~f--dG~~l~~~~ 70 (98)
.+|.+.+.. ..+-|-. ..|..|+.+-|+.++++...+++.. ||-.|..++
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 456654443 3445544 7899999999999999866665554 898887553
No 232
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=28.68 E-value=1.5e+02 Score=18.65 Aligned_cols=61 Identities=16% Similarity=0.237 Sum_probs=41.5
Q ss_pred CCEEEEEEcCccHHHHHHHHHHHhcCCCCccee-EEECCeecCC----CCCh----hhcCCCCCCEEEEE
Q 045424 26 GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTP-FLINGNRFDY----SKTA----DQLGLKDGDEIDAM 86 (98)
Q Consensus 26 g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~r-F~fdG~~l~~----~~Tp----~~l~medgD~Idv~ 86 (98)
.+.+.|.|.+...=..+..++.+.+|+.+..++ +...|..-.. ..|+ +=.-|.+|+.|+++
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 568999999999999999999999999876655 3334432211 1122 12346777777765
No 233
>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=28.57 E-value=93 Score=17.68 Aligned_cols=15 Identities=20% Similarity=0.189 Sum_probs=11.6
Q ss_pred EEEEEccCCCEEEEE
Q 045424 18 NLIIKSQDGDKRFFQ 32 (98)
Q Consensus 18 ~I~v~~~~g~~~~f~ 32 (98)
.|++++.||..+...
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 588999999866655
No 234
>PRK09798 antitoxin MazE; Provisional
Probab=28.23 E-value=60 Score=20.08 Aligned_cols=19 Identities=21% Similarity=0.184 Sum_probs=14.8
Q ss_pred CChhhcCCCCCCEEEEEce
Q 045424 70 KTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~~ 88 (98)
.=.+.|+++.||.+++.++
T Consensus 20 ~~l~~l~l~~g~~vei~v~ 38 (82)
T PRK09798 20 TLMQALNLNIDDEVKIDLV 38 (82)
T ss_pred HHHHHcCCCCCCEEEEEEE
Confidence 3457889999999988764
No 235
>PRK05388 argJ bifunctional ornithine acetyltransferase/N-acetylglutamate synthase protein; Validated
Probab=27.87 E-value=82 Score=25.26 Aligned_cols=43 Identities=14% Similarity=0.029 Sum_probs=32.0
Q ss_pred CCCCcceeEEECCeecCCCCChhhcC--------CCCCCEEEEEceecCCC
Q 045424 51 SQPFKSTPFLINGNRFDYSKTADQLG--------LKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 51 g~~~~~~rF~fdG~~l~~~~Tp~~l~--------medgD~Idv~~~q~GG~ 93 (98)
.++++.+.++|+|..|-.+..|.+.+ |+.+++|++.+.+-.|.
T Consensus 322 ~~d~~~v~i~~~~v~v~~~G~~~~~~~e~~~~~~m~~~~ei~I~vdL~~G~ 372 (395)
T PRK05388 322 DFDPDRLDIYLGGVLVAKNGGPAPFYREEDASAYMKQEDEITIRVDLGLGD 372 (395)
T ss_pred ccchhheEEEECCEEEEeCCCCCCCCcHHHHHHHhCCCCEEEEEEEeCCCC
Confidence 34667889999888888777776544 66678899998886554
No 236
>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=27.82 E-value=1.6e+02 Score=20.37 Aligned_cols=54 Identities=15% Similarity=0.140 Sum_probs=37.6
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCC-------CcceeEEECCeecCCCCCh
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQP-------FKSTPFLINGNRFDYSKTA 72 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~-------~~~~rF~fdG~~l~~~~Tp 72 (98)
.|++.| ||..+.+.+.++++|..+........|.. -.....++||+.+..=.||
T Consensus 3 ~i~f~v---NG~~~~~~~~~~~~Ll~~LR~~~~ltgtK~gC~~G~CGACtVlvdG~~v~SCl~~ 63 (151)
T TIGR03198 3 QFRFTV---NGQAWEVAAVPTTRLSDLLRKELQLTGTKVSCGIGRCGACSVLIDGKLANACLTM 63 (151)
T ss_pred cEEEEE---CCEEEEeecCCCcHHHHHHHhccCCCCCCCCCCCCcCCccEEEECCcEEechHHH
Confidence 466665 88889999999999888776544434332 2466788899887754444
No 237
>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=27.69 E-value=76 Score=18.05 Aligned_cols=22 Identities=36% Similarity=0.419 Sum_probs=14.7
Q ss_pred ecCCCCChhhcCCCCCCEEEEE
Q 045424 65 RFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 65 ~l~~~~Tp~~l~medgD~Idv~ 86 (98)
.+.++...+..+|..||+|-..
T Consensus 18 ~v~~~s~a~~~gl~~GD~I~~i 39 (79)
T cd00989 18 EVVPGSPAAKAGLKAGDRILAI 39 (79)
T ss_pred eECCCCHHHHcCCCCCCEEEEE
Confidence 3445555666889999988543
No 238
>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=27.58 E-value=80 Score=20.79 Aligned_cols=55 Identities=7% Similarity=0.100 Sum_probs=37.4
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCC-CCcceeEEECCeecCCC
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQ-PFKSTPFLINGNRFDYS 69 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~-~~~~~rF~fdG~~l~~~ 69 (98)
..+++.++...|.-+.+++|.+-.|+-+.+.----.++ ....+.++=+|..|.-.
T Consensus 9 K~~~~~W~G~~GrL~~ir~K~~r~~Em~~N~QiT~ENI~EI~~i~iiKNGKsL~L~ 64 (122)
T PF09627_consen 9 KDVNTQWQGFRGRLVMIRVKNTRTMEMWYNNQITPENIQEIDTIHIIKNGKSLTLK 64 (122)
T ss_dssp GGEEEEEGGGTSBEEEEEE-HHHHHHHHHHTSS-TTTGGG--EEEEEETTEEEEEE
T ss_pred ceeeeEEecCcceEEEEEeeCCeeeeehhhCCCChHHceeeeeeeeecCCcEEEEE
Confidence 35788888888999999999988887776543333444 23577788899877643
No 239
>PRK10850 PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr; Provisional
Probab=27.36 E-value=1.1e+02 Score=18.90 Aligned_cols=33 Identities=18% Similarity=0.235 Sum_probs=26.5
Q ss_pred ceeEEECCeecCCCC--ChhhcCCCCCCEEEEEce
Q 045424 56 STPFLINGNRFDYSK--TADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 56 ~~rF~fdG~~l~~~~--Tp~~l~medgD~Idv~~~ 88 (98)
++.+.++|+.++..+ ..-+|+..-||.|.+..+
T Consensus 32 ~v~l~~~~~~~~akSil~lm~Lg~~~G~~v~i~~~ 66 (85)
T PRK10850 32 EITVTSNGKSASAKSLFKLQTLGLTQGTVVTISAE 66 (85)
T ss_pred EEEEEECCeEEchHhHHHHHhcCCCCCCEEEEEEe
Confidence 788889998888765 345788899999998764
No 240
>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=27.24 E-value=29 Score=21.85 Aligned_cols=59 Identities=10% Similarity=0.120 Sum_probs=40.2
Q ss_pred CccHHHHHHHHHHHhcCCCCcceeE-EECCeecCCCCChhhcC---CCCCCEEEEEceecCCCcc
Q 045424 35 HDVEIKRLLIKYCETKSQPFKSTPF-LINGNRFDYSKTADQLG---LKDGDEIDAMYHAFGGGHD 95 (98)
Q Consensus 35 ~~t~l~kL~~~y~~~~g~~~~~~rF-~fdG~~l~~~~Tp~~l~---medgD~Idv~~~q~GG~~~ 95 (98)
.++.|..++..|-... +.+.+-. -+-...+.++.||++++ =.|.|++-|-.-..||...
T Consensus 2 ~s~~LR~~Ir~~L~ER--~~NT~EI~~~~~~~M~~~s~Pe~~~NiL~~D~~I~ri~T~rk~G~~~ 64 (92)
T PF12976_consen 2 DSQNLRDLIRNYLSER--PRNTIEISAWLASQMDPNSCPEDVTNILEADESIVRIGTVRKSGMRL 64 (92)
T ss_pred chhHHHHHHHHHHhcC--cccHHHHHHHHHhccCCCCCHHHHHHHHhccccceeeeeeccccccc
Confidence 3577888888886544 2332221 12345788999999998 2488898888888888643
No 241
>KOG3784 consensus Sorting nexin protein SNX27 [General function prediction only; Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=27.12 E-value=1.4e+02 Score=24.09 Aligned_cols=41 Identities=15% Similarity=0.129 Sum_probs=34.8
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCc
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFK 55 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~ 55 (98)
..+.+.|.-++|..+++++..+.+-..++.+.|.+.|++..
T Consensus 106 ~~v~l~v~lpng~~i~i~~~~s~tt~~vl~~v~~kl~l~~e 146 (407)
T KOG3784|consen 106 EEVELDVFLPNGEKITINCLVSDTASLVLKSVCRKLGLPDE 146 (407)
T ss_pred ceeEEEEEccCCceEEEEEEecccHHHHHHHHHhhcCCchH
Confidence 34555565599999999999999999999999999999753
No 242
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=26.88 E-value=1.4e+02 Score=23.89 Aligned_cols=53 Identities=23% Similarity=0.338 Sum_probs=40.7
Q ss_pred EcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCC--CCChhhcCCCCCCEEEE
Q 045424 33 FNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDY--SKTADQLGLKDGDEIDA 85 (98)
Q Consensus 33 Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~--~~Tp~~l~medgD~Idv 85 (98)
+-.+-.|..|........|+.....-+.|++..+.. ..+..+++|.+||.+-.
T Consensus 19 v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~l 73 (380)
T KOG0012|consen 19 VTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLAL 73 (380)
T ss_pred cccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEec
Confidence 334445666666666677888888889999888775 58999999999998754
No 243
>PRK11377 dihydroxyacetone kinase subunit M; Provisional
Probab=26.77 E-value=1.5e+02 Score=24.11 Aligned_cols=63 Identities=13% Similarity=0.178 Sum_probs=42.7
Q ss_pred CcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCC--hhhcCCCCCCEEEEEce
Q 045424 15 HLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKT--ADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 15 ~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~T--p~~l~medgD~Idv~~~ 88 (98)
...+++|....|- ..+|-..|-++-..|. .++++.++|+.++...- .-.|+..-||.|.+..+
T Consensus 156 ~~~~~~v~n~~GL----HARPAa~lv~~a~~f~-------s~I~i~~~g~~vdakSi~~lm~Lg~~~Gd~v~i~a~ 220 (473)
T PRK11377 156 RSLSVVIKNRNGL----HVRPASRLVYTLSTFN-------ADMLLEKNGKCVTPESLNQIALLQVRYNDTLRLIAK 220 (473)
T ss_pred eEEEEEEcCCCCC----cHhHHHHHHHHHhhCC-------CeEEEEECCeEEchHhHHHHHhcCCCCCCEEEEEEe
Confidence 3455555555553 2445555555555542 36888899998888763 47899999999998764
No 244
>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=26.70 E-value=57 Score=18.19 Aligned_cols=34 Identities=32% Similarity=0.532 Sum_probs=20.8
Q ss_pred ceeEEECCee-cCC---CCChhhcCCCCCCEEEEEcee
Q 045424 56 STPFLINGNR-FDY---SKTADQLGLKDGDEIDAMYHA 89 (98)
Q Consensus 56 ~~rF~fdG~~-l~~---~~Tp~~l~medgD~Idv~~~q 89 (98)
.+.+.++|.. |.. ...++.|+|..||.+.+.++.
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 4556666555 554 345677889999999888764
No 245
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=26.49 E-value=1.6e+02 Score=18.05 Aligned_cols=50 Identities=16% Similarity=0.243 Sum_probs=34.8
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeE--EECCeecCCCC
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPF--LINGNRFDYSK 70 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF--~fdG~~l~~~~ 70 (98)
.+|.+.+ +...+-|-. ..|+.|..+-|++++++...+++ .=||-.|..++
T Consensus 3 ~kV~~~~-r~~k~GV~A-~sL~eL~~K~~~~l~l~~~~~~l~L~eDGT~VddEe 54 (74)
T smart00266 3 FKVRDHD-RNVRKGVAA-SSLEELLSKVCDKLALPDSPVTLVLEEDGTIVDDEE 54 (74)
T ss_pred EEEecCC-CCeeEEEEc-CCHHHHHHHHHHHhCCCCCCcEEEEecCCcEEccHH
Confidence 3555533 345666654 68999999999999998554444 44899886544
No 246
>PHA00738 putative HTH transcription regulator
Probab=26.41 E-value=1.4e+02 Score=19.71 Aligned_cols=46 Identities=11% Similarity=0.161 Sum_probs=33.2
Q ss_pred cCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCC
Q 045424 24 QDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYS 69 (98)
Q Consensus 24 ~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~ 69 (98)
..|..++|++++..+.-+|.+.--+-+..-.+..-+.-||..+...
T Consensus 60 K~Gr~vyY~Ln~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 105 (108)
T PHA00738 60 KEGRTLYAKIRENSKEIQILNSELEGFKKLSENTDLTKDGHQVKTK 105 (108)
T ss_pred EECCEEEEEECCCccHHHHHhhHHHHHHhhccCcccccCCCeeecC
Confidence 5799999999999999999876555443323445566788877643
No 247
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=26.36 E-value=1.7e+02 Score=19.05 Aligned_cols=33 Identities=12% Similarity=0.234 Sum_probs=23.0
Q ss_pred EEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCC
Q 045424 17 INLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQP 53 (98)
Q Consensus 17 I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~ 53 (98)
|+|.+.+.+|....+.+...++|... +.+.|++
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~tLl~a----~~~~gi~ 33 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGMSLLEA----AHENDIE 33 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCCcHHHH----HHHcCCC
Confidence 57888788898888888887655544 3444553
No 248
>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=26.32 E-value=33 Score=21.63 Aligned_cols=13 Identities=31% Similarity=0.258 Sum_probs=11.1
Q ss_pred hcCCCCCCEEEEE
Q 045424 74 QLGLKDGDEIDAM 86 (98)
Q Consensus 74 ~l~medgD~Idv~ 86 (98)
++-|+|||+|.+.
T Consensus 70 ~Yiv~DGDi~~f~ 82 (83)
T cd04867 70 DYVVQDGDIIFFK 82 (83)
T ss_pred ceEeeCCeEEEEE
Confidence 7889999999874
No 249
>PRK15078 polysaccharide export protein Wza; Provisional
Probab=26.08 E-value=3.3e+02 Score=21.42 Aligned_cols=48 Identities=13% Similarity=0.054 Sum_probs=33.1
Q ss_pred HHHHHHHHHhcCCC----CcceeEEECCeecC--------CCCChhhcCCCCCCEEEEEc
Q 045424 40 KRLLIKYCETKSQP----FKSTPFLINGNRFD--------YSKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 40 ~kL~~~y~~~~g~~----~~~~rF~fdG~~l~--------~~~Tp~~l~medgD~Idv~~ 87 (98)
..|+++.+..-|+. ...+.+.=+|+... ..++..+.-|++||+|.|--
T Consensus 192 ~tlldaIa~AGG~~~~a~~~~V~l~R~g~~~~i~l~~ll~~g~~~~ni~L~~GDvI~Vp~ 251 (379)
T PRK15078 192 LTILDAINAAGGLTDDADWRNVVLTHNGKEERISLQALMQNGDLSQNRLLYPGDILYVPR 251 (379)
T ss_pred ccHHHHHHHccCCCcccccceEEEEECCeEEEEEHHHHHhcCCcccCceeCCCCEEEECC
Confidence 35777777776764 34666766777532 34567788899999998843
No 250
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=25.77 E-value=1.8e+02 Score=18.23 Aligned_cols=55 Identities=13% Similarity=0.117 Sum_probs=30.7
Q ss_pred EEEEEcCccHHHHHHHHH--HHhc-CCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 29 RFFQFNHDVEIKRLLIKY--CETK-SQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 29 ~~f~Ik~~t~l~kL~~~y--~~~~-g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
+.+.+...+++..-..+- .+++ +++....++=.-|+.+. .+--|++||-||++--
T Consensus 16 ~~l~vp~GtTv~~Ai~~Sgi~~~~p~idl~~~~vGIfGk~~~-----~d~~L~~GDRVEIYRP 73 (84)
T PF03658_consen 16 LTLEVPEGTTVAQAIEASGILEQFPEIDLEKNKVGIFGKLVK-----LDTVLRDGDRVEIYRP 73 (84)
T ss_dssp EEEEEETT-BHHHHHHHHTHHHH-TT--TTTSEEEEEE-S-------TT-B--TT-EEEEE-S
T ss_pred EEEECCCcCcHHHHHHHcCchhhCcccCcccceeeeeeeEcC-----CCCcCCCCCEEEEecc
Confidence 478899999988866543 3333 45666677777787766 4456889999999853
No 251
>PHA01748 hypothetical protein
Probab=25.54 E-value=78 Score=18.30 Aligned_cols=25 Identities=16% Similarity=0.258 Sum_probs=20.3
Q ss_pred EEEEcCccHHHHHHHHHHHhcCCCC
Q 045424 30 FFQFNHDVEIKRLLIKYCETKSQPF 54 (98)
Q Consensus 30 ~f~Ik~~t~l~kL~~~y~~~~g~~~ 54 (98)
.+.|+-+..+..-++.||++.|++.
T Consensus 4 ~iSvrLp~el~~eld~~a~~~g~~R 28 (60)
T PHA01748 4 VITFKIEEDLLELLDRYAIKHGLNR 28 (60)
T ss_pred EEEEECCHHHHHHHHHHHHHhCCCH
Confidence 4666777888899999999999864
No 252
>COG4112 Predicted phosphoesterase (MutT family) [General function prediction only]
Probab=25.45 E-value=43 Score=24.06 Aligned_cols=21 Identities=29% Similarity=0.385 Sum_probs=17.8
Q ss_pred CCCCCCEEEEEceecCCCccc
Q 045424 76 GLKDGDEIDAMYHAFGGGHDH 96 (98)
Q Consensus 76 ~medgD~Idv~~~q~GG~~~~ 96 (98)
-++++|.|-++-+..||+-.|
T Consensus 67 vi~~edevliyeRltgggE~R 87 (203)
T COG4112 67 VIMDEDEVLIYERLTGGGEKR 87 (203)
T ss_pred EEecCCEEEEEEeccCcchhh
Confidence 367899999999999998665
No 253
>cd08972 PF_Nei_N N-terminal domain of the plant and fungal Nei and related proteins. This family contains the N-terminal domain of plant and Fungi Nei and related proteins. It belongs to the FpgNei_N, [N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII)] domain superfamily. DNA glycosylases maintain genome integrity by recognizing base lesions created by ionizing radiation, alkylating or oxidizing agents, and endogenous reactive oxygen species. They initiate the base-excision repair process, which is completed with the help of enzymes such as phosphodiesterases, AP endonucleases, DNA polymerases and DNA ligases. DNA glycosylases cleave the N-glycosyl bond between the sugar and the damaged base, creating an AP (apurinic/apyrimidinic) site. Most FpgNei DNA glycosylases use their N-terminal proline residue as the key catalytic nucleophile, and the reaction proceeds via a Schiff base intermediate. The plant and fungal FpgNei glycosylases prefer the
Probab=25.45 E-value=1.8e+02 Score=19.40 Aligned_cols=31 Identities=19% Similarity=0.521 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCCCcEEEEEEccCCCEEEEE
Q 045424 2 LKPSSSKNNKKPQHLINLIIKSQDGDKRFFQ 32 (98)
Q Consensus 2 ~~~~~~~~~~~~~~~I~I~v~~~~g~~~~f~ 32 (98)
++|+.+.++..|..+..+.+.-.+|..+.|.
T Consensus 96 ~~~~~~~~~~~~~kh~~~~l~l~~g~~L~f~ 126 (137)
T cd08972 96 LRPPKEEDQTWPPRFYKFVLTLEDGTELAFT 126 (137)
T ss_pred cccccccCCCCCCceEEEEEEeCCCCEEEEe
Confidence 3444444443344566666665667666663
No 254
>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=25.25 E-value=75 Score=18.79 Aligned_cols=21 Identities=33% Similarity=0.586 Sum_probs=15.7
Q ss_pred hhcCCCCCCEEEEEceecCCC
Q 045424 73 DQLGLKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 73 ~~l~medgD~Idv~~~q~GG~ 93 (98)
.--+++.||.|.+.+.+.+++
T Consensus 39 ~l~~l~~Gd~V~F~~~~~~~~ 59 (70)
T PF11604_consen 39 DLAGLKPGDKVRFTFERTDDG 59 (70)
T ss_dssp EESS-STT-EEEEEEEEETTC
T ss_pred hhhcCCCCCEEEEEEEECCCC
Confidence 445789999999999998876
No 255
>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=25.23 E-value=44 Score=20.24 Aligned_cols=14 Identities=14% Similarity=0.100 Sum_probs=11.5
Q ss_pred hhcCCCCCCEEEEE
Q 045424 73 DQLGLKDGDEIDAM 86 (98)
Q Consensus 73 ~~l~medgD~Idv~ 86 (98)
.+..|+|||+|.+.
T Consensus 62 ~d~~l~d~DVv~i~ 75 (76)
T cd04938 62 KDVILGKNDILKFK 75 (76)
T ss_pred CCEEecCCCEEEEE
Confidence 36779999999875
No 256
>smart00537 DCX Domain in the Doublecortin (DCX) gene product. Tandemly-repeated domain in doublin, the Doublecortin gene product. Proposed to bind tubulin. Doublecortin (DCX) is mutated in human X-linked neuronal migration defects.
Probab=25.04 E-value=1.8e+02 Score=17.96 Aligned_cols=52 Identities=21% Similarity=0.238 Sum_probs=33.9
Q ss_pred EEEEEc--CccHHHHHHHHHHHhcCCCCc-ceeEEE--CCeecCCCCChhhcCCCCCCEEEE
Q 045424 29 RFFQFN--HDVEIKRLLIKYCETKSQPFK-STPFLI--NGNRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 29 ~~f~Ik--~~t~l~kL~~~y~~~~g~~~~-~~rF~f--dG~~l~~~~Tp~~l~medgD~Idv 85 (98)
+.+-|+ +..+|..|++...+..++... .+|=+| +|.+|. +.++ ++||+..-+
T Consensus 21 ~~~~v~~~~~~s~d~lL~~lt~~v~l~~~~~Vr~lyt~~G~~v~---~l~~--l~~g~~yVa 77 (89)
T smart00537 21 VRLVVNRKRFKSFEALLQDLTEVVKLDLPHGVRKLYTLDGKKVT---SLDE--LEDGGSYVA 77 (89)
T ss_pred EEEEEChhhcCCHHHHHHHHhhhcccCCCCCeeEEEcCCCCEEC---CHHH--hCcCCEEEE
Confidence 445555 467899999999996555433 577666 786654 4555 447775544
No 257
>cd00990 PDZ_glycyl_aminopeptidase PDZ domain associated with archaeal and bacterial M61 glycyl-aminopeptidases. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand is presumed to form the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=24.87 E-value=68 Score=18.42 Aligned_cols=22 Identities=36% Similarity=0.445 Sum_probs=15.1
Q ss_pred ecCCCCChhhcCCCCCCEEEEE
Q 045424 65 RFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 65 ~l~~~~Tp~~l~medgD~Idv~ 86 (98)
.+.++...+..+|..||+|--.
T Consensus 18 ~V~~~s~a~~aGl~~GD~I~~I 39 (80)
T cd00990 18 FVRDDSPADKAGLVAGDELVAV 39 (80)
T ss_pred EECCCChHHHhCCCCCCEEEEE
Confidence 3455666677788889888543
No 258
>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=24.58 E-value=1e+02 Score=17.27 Aligned_cols=25 Identities=12% Similarity=0.248 Sum_probs=16.2
Q ss_pred CCcEEEEEEccCCCEE---EEEEcCccH
Q 045424 14 QHLINLIIKSQDGDKR---FFQFNHDVE 38 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~---~f~Ik~~t~ 38 (98)
.-.++|.+++.+|.++ .|.+++.+.
T Consensus 14 ~I~ltVt~kda~G~pv~n~~f~l~r~~~ 41 (47)
T PF05688_consen 14 TIPLTVTVKDANGNPVPNAPFTLTRGDA 41 (47)
T ss_pred eEEEEEEEECCCCCCcCCceEEEEecCc
Confidence 4445555666677765 688887654
No 259
>COG2996 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]
Probab=24.31 E-value=72 Score=24.54 Aligned_cols=30 Identities=27% Similarity=0.383 Sum_probs=20.6
Q ss_pred eEEECCe---ecCCCCC-hhhcCCCCCCEEEEEc
Q 045424 58 PFLINGN---RFDYSKT-ADQLGLKDGDEIDAMY 87 (98)
Q Consensus 58 rF~fdG~---~l~~~~T-p~~l~medgD~Idv~~ 87 (98)
-|+.+|+ .|-...+ |++=+++.||+|.||+
T Consensus 21 ~fL~~~~~~~~ilL~k~~~~~~e~evGdev~vFi 54 (287)
T COG2996 21 YFLDAGEDGTTILLPKSEPEEDELEVGDEVTVFI 54 (287)
T ss_pred EEEecCCCceEEeccccCCcCCccccCcEEEEEE
Confidence 3555443 3444444 7888899999999996
No 260
>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=24.30 E-value=1.9e+02 Score=18.17 Aligned_cols=39 Identities=8% Similarity=0.098 Sum_probs=34.1
Q ss_pred cEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCC
Q 045424 16 LINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPF 54 (98)
Q Consensus 16 ~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~ 54 (98)
+.-|+|-+.||....+.|..+.+-..+.+.-+++.....
T Consensus 2 k~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~ 40 (85)
T cd01787 2 KQVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQD 40 (85)
T ss_pred ceEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCC
Confidence 456888889999999999999999999999999887754
No 261
>PLN03060 inositol phosphatase-like protein; Provisional
Probab=24.15 E-value=36 Score=24.90 Aligned_cols=24 Identities=8% Similarity=0.109 Sum_probs=19.2
Q ss_pred CccHHHHHHHHHHHhcCCCCccee
Q 045424 35 HDVEIKRLLIKYCETKSQPFKSTP 58 (98)
Q Consensus 35 ~~t~l~kL~~~y~~~~g~~~~~~r 58 (98)
|..-...||+|||.-.|.+++++|
T Consensus 67 Pee~~~~IF~Alc~a~~~dp~~~r 90 (206)
T PLN03060 67 NATDRDAIFKAYIEALGEDPDQYR 90 (206)
T ss_pred ChHHHHHHHHHHHHHcCCCHHHHH
Confidence 667778899999999998876543
No 262
>PF10114 PocR: Sensory domain found in PocR; InterPro: IPR018771 This entry is thought to act as a sensory domain in histidine kinases catalysing the reaction: ATP + protein L-histidine = ADP + protein N- phospho-L-histidine.
Probab=24.07 E-value=1.2e+02 Score=20.34 Aligned_cols=29 Identities=10% Similarity=0.184 Sum_probs=23.2
Q ss_pred cHHHHHHHHHHHhcCCCCcceeEEECCeecC
Q 045424 37 VEIKRLLIKYCETKSQPFKSTPFLINGNRFD 67 (98)
Q Consensus 37 t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~ 67 (98)
..|+++.+.|++..|++. .-+-.+|..|.
T Consensus 8 ~~lq~i~~~fs~~tgl~~--~i~d~~G~~l~ 36 (173)
T PF10114_consen 8 EELQEIQDSFSKATGLSI--VIVDPDGNPLT 36 (173)
T ss_pred HHHHHHHHHHHHHHCCcE--EEEeCCCCEEe
Confidence 568999999999999874 44557899884
No 263
>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=23.81 E-value=79 Score=20.24 Aligned_cols=21 Identities=19% Similarity=0.320 Sum_probs=14.8
Q ss_pred CCcEEEEEEccCCCEEEEEEcCcc
Q 045424 14 QHLINLIIKSQDGDKRFFQFNHDV 37 (98)
Q Consensus 14 ~~~I~I~v~~~~g~~~~f~Ik~~t 37 (98)
+..+.|.| .|..++|+|.++.
T Consensus 35 ~~F~~i~V---~g~avTFrv~~N~ 55 (91)
T PF11548_consen 35 SSFINISV---VGPAVTFRVRPNN 55 (91)
T ss_dssp GGEEEEEE---ETTEEEEEE---T
T ss_pred ccceeeee---cCceEEEEeccCc
Confidence 56778887 6889999999886
No 264
>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=23.74 E-value=1.8e+02 Score=18.04 Aligned_cols=14 Identities=21% Similarity=0.589 Sum_probs=12.5
Q ss_pred CcceeEEECCeecC
Q 045424 54 FKSTPFLINGNRFD 67 (98)
Q Consensus 54 ~~~~rF~fdG~~l~ 67 (98)
.+.++|..||+.+.
T Consensus 101 v~~V~i~vdG~~~~ 114 (117)
T PF10646_consen 101 VKKVQILVDGKPLE 114 (117)
T ss_pred ccEEEEEECCEEcC
Confidence 78999999999875
No 265
>PRK10897 phosphohistidinoprotein-hexose phosphotransferase component of N-regulated PTS system (Npr); Provisional
Probab=23.65 E-value=1.2e+02 Score=18.93 Aligned_cols=34 Identities=12% Similarity=0.102 Sum_probs=26.3
Q ss_pred cceeEEEC-CeecCCCC--ChhhcCCCCCCEEEEEce
Q 045424 55 KSTPFLIN-GNRFDYSK--TADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 55 ~~~rF~fd-G~~l~~~~--Tp~~l~medgD~Idv~~~ 88 (98)
.++.|.++ |+.++..+ ..-+|+..-||.|.+..+
T Consensus 32 s~v~l~~~~g~~~~akSil~lm~Lg~~~G~~i~v~~~ 68 (90)
T PRK10897 32 AEVLLRNDEGTEAEANSVIALLMLDSAKGRQIEVEAT 68 (90)
T ss_pred CEEEEEeCCCcEEchHhHHHHHHhCCCCCCEEEEEEE
Confidence 37888885 88777765 456788999999998764
No 266
>cd01617 DCX Ubiquitin-like domain of DCX. DCX The ubiquitin-like DCX domain is present in tandem within the N-terminal half of the doublecortin protein. Doublecortin is expressed in migrating neurons. Mutations in the gene encoding doublecortin cause lissencephaly in males and 'double-cortex syndrome' in females.
Probab=23.50 E-value=1.8e+02 Score=17.49 Aligned_cols=53 Identities=21% Similarity=0.125 Sum_probs=37.7
Q ss_pred EEEEEEcCc--cHHHHHHHHHHHhcCCCCcceeEEE--CC-eecCCCCChhhcCCCCCCEEEE
Q 045424 28 KRFFQFNHD--VEIKRLLIKYCETKSQPFKSTPFLI--NG-NRFDYSKTADQLGLKDGDEIDA 85 (98)
Q Consensus 28 ~~~f~Ik~~--t~l~kL~~~y~~~~g~~~~~~rF~f--dG-~~l~~~~Tp~~l~medgD~Idv 85 (98)
.+.|-|++. .+|..|++...+...+....+|=+| +| ..+.. --++++|...-+
T Consensus 15 g~~~~i~~~~~~sfd~lL~~lt~~l~l~~~~Vr~lyt~~g~~~v~~-----~~~l~~g~~yVa 72 (80)
T cd01617 15 GVRLLVNRRRFKSFDALLDDLTEKVQLDPGAVRKLYTLDGGHRVSL-----LDELEDGGVYVA 72 (80)
T ss_pred CEEEEEChhhhCCHHHHHHHHHHHhCCCCCcEEEEEcCCCCeEecc-----HHHhcCCCEEEE
Confidence 356777776 4799999999999998888888777 66 55543 224566665433
No 267
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=23.33 E-value=65 Score=19.58 Aligned_cols=15 Identities=20% Similarity=0.556 Sum_probs=9.8
Q ss_pred hhcCCCCCCEEEEEc
Q 045424 73 DQLGLKDGDEIDAMY 87 (98)
Q Consensus 73 ~~l~medgD~Idv~~ 87 (98)
+.++++.||+|+|.+
T Consensus 66 k~~g~~~Gd~V~v~l 80 (80)
T PF08922_consen 66 KAIGKEAGDTVEVTL 80 (80)
T ss_dssp HHHT--TTSEEEEEE
T ss_pred HHcCCCCCCEEEEEC
Confidence 467888888888854
No 268
>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=23.08 E-value=91 Score=20.66 Aligned_cols=25 Identities=16% Similarity=0.216 Sum_probs=19.4
Q ss_pred EEEEcCccHHHHHHHHHHHhcCCCC
Q 045424 30 FFQFNHDVEIKRLLIKYCETKSQPF 54 (98)
Q Consensus 30 ~f~Ik~~t~l~kL~~~y~~~~g~~~ 54 (98)
.+.|.-..+|+.|++.+.+++|+.+
T Consensus 36 r~~v~~~~Tl~~li~~~~~~~~lev 60 (125)
T PF09358_consen 36 RIEVNGDMTLQELIDYFKEKYGLEV 60 (125)
T ss_dssp EEEEES--BHHHHHHHHHHTTS-EE
T ss_pred EEEEcCCCCHHHHHHHHHHHhCceE
Confidence 5777778999999999999999965
No 269
>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=23.07 E-value=1.2e+02 Score=16.66 Aligned_cols=26 Identities=12% Similarity=0.051 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHhcCCCCcceeEEECC
Q 045424 38 EIKRLLIKYCETKSQPFKSTPFLING 63 (98)
Q Consensus 38 ~l~kL~~~y~~~~g~~~~~~rF~fdG 63 (98)
=.+.|-+++++..|.+.+.+...|+-
T Consensus 19 l~~~it~~~~~~lg~~~~~i~V~i~E 44 (60)
T PF01361_consen 19 LAEAITDAVVEVLGIPPERISVVIEE 44 (60)
T ss_dssp HHHHHHHHHHHHHTS-GGGEEEEEEE
T ss_pred HHHHHHHHHHHHhCcCCCeEEEEEEE
Confidence 34557788888999999888887753
No 270
>PF13509 S1_2: S1 domain; PDB: 3GO5_A.
Probab=22.98 E-value=64 Score=18.45 Aligned_cols=21 Identities=29% Similarity=0.436 Sum_probs=11.0
Q ss_pred cCCCCChhhcCCCCCCEEEEEce
Q 045424 66 FDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 66 l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
|.....|+ .++-||.|+||+=
T Consensus 29 Lp~~e~~~--~~~~Gd~v~VFvY 49 (61)
T PF13509_consen 29 LPKSEVPE--PLKVGDEVEVFVY 49 (61)
T ss_dssp EEGGG--------TTSEEEEEEE
T ss_pred echHHcCC--CCCCCCEEEEEEE
Confidence 44455554 4889999999973
No 271
>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=22.82 E-value=42 Score=21.59 Aligned_cols=63 Identities=21% Similarity=0.295 Sum_probs=31.7
Q ss_pred EEEEEEc---CccHHHHHHHHHHHhcCCCCcceeEEECCeecCC------CCC------hhhcCCCCCCEEEEEceecCC
Q 045424 28 KRFFQFN---HDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDY------SKT------ADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 28 ~~~f~Ik---~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~------~~T------p~~l~medgD~Idv~~~q~GG 92 (98)
...+.+. ...+++.|..-.|+..=.+. . -++.+|..|+| +++ -.++.++|||.|.+.-..=||
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 KHKVSLPSDGEPATIKDLIDYLRDNLLKER-P-ELFLEGGSVRPGILVLINDADWELLGEEDYVLKDGDNITFISTLHGG 96 (96)
T ss_dssp EEEEEE-SSCSC-BHHHHHHHHCCCT-SSG-H-HHHBSSSSB-TTEEEEETTCEHHHHTCCCSB--TTEEEEEEETTT--
T ss_pred eEEEEcCCCCCCcCHHHHHHHHHHhccCCC-H-hHEecCCeEcCcEEEEEcCccceeecCcceEcCCCCEEEEEccCCCC
Confidence 3455555 66788888877666432221 1 22233445544 233 235678999999887666555
No 272
>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=22.75 E-value=1.5e+02 Score=19.11 Aligned_cols=28 Identities=4% Similarity=0.033 Sum_probs=23.7
Q ss_pred CEEEEEEcCccHHHHHHHHHHHhcCCCC
Q 045424 27 DKRFFQFNHDVEIKRLLIKYCETKSQPF 54 (98)
Q Consensus 27 ~~~~f~Ik~~t~l~kL~~~y~~~~g~~~ 54 (98)
+.+.+++.+.+.+-.=+.+||+..++..
T Consensus 2 r~~~~rl~~Gedl~~~l~~~~~~~~i~~ 29 (120)
T PF03479_consen 2 RVFVIRLDPGEDLLESLEAFAREHGIRS 29 (120)
T ss_dssp EEEEEEEETTSBHHHHHHHHHHHHT-SS
T ss_pred cEEEEEECCCCHHHHHHHHHHHHCCCcE
Confidence 4578899999999999999999999864
No 273
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=22.68 E-value=1.3e+02 Score=19.51 Aligned_cols=29 Identities=28% Similarity=0.357 Sum_probs=22.5
Q ss_pred cceeEEECCeecCCCCChhhcCCCCCCEEEEEce
Q 045424 55 KSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 55 ~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~ 88 (98)
+.-+..+||.+..++. ..+.||+|++.+.
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 4678899999997765 4678999988753
No 274
>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=22.55 E-value=1.7e+02 Score=17.00 Aligned_cols=43 Identities=16% Similarity=0.109 Sum_probs=28.3
Q ss_pred HHhcCCCCcceeEEECCeecCCCCChhhc-C-CCCCCEEEEEcee
Q 045424 47 CETKSQPFKSTPFLINGNRFDYSKTADQL-G-LKDGDEIDAMYHA 89 (98)
Q Consensus 47 ~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l-~-medgD~Idv~~~q 89 (98)
+++.|+....+-+..||.++........+ . ...|+.+.+.+..
T Consensus 23 a~~aGL~~GDiI~~Ing~~v~~~~d~~~~l~~~~~g~~v~l~v~r 67 (79)
T cd00991 23 AENAVLHTGDVIYSINGTPITTLEDFMEALKPTKPGEVITVTVLP 67 (79)
T ss_pred HHhcCCCCCCEEEEECCEEcCCHHHHHHHHhcCCCCCEEEEEEEE
Confidence 35568888899999999999843322211 1 2347788777764
No 275
>KOG1620 consensus Inositol polyphosphate multikinase, component of the ARGR transcription regulatory complex [Transcription; Lipid transport and metabolism; Signal transduction mechanisms]
Probab=22.54 E-value=2.1e+02 Score=21.69 Aligned_cols=56 Identities=18% Similarity=0.105 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHhcCCCC--cceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCCC
Q 045424 38 EIKRLLIKYCETKSQPF--KSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGGG 93 (98)
Q Consensus 38 ~l~kL~~~y~~~~g~~~--~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG~ 93 (98)
++.+|++.++.+.+.-. ..+-|.|||.....+.-|...-..+..+||......|+.
T Consensus 197 qL~~l~~~~~~~~~~rf~ssSlLviYd~~~~~~~~~p~~~~~v~v~lidfah~~~~~~ 254 (284)
T KOG1620|consen 197 QLLGLKAVLEEQEGYRFYSSSLLVIYDGEILADSGDPEIAPEVDVKLIDFAHVTFSNT 254 (284)
T ss_pred HHHHHHHHHHHhhceeeecceEEEEEeccccccCCCcccccccceeEeeeeecccCCc
Confidence 45566666676666543 678899999977777777665455566677654444443
No 276
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=22.52 E-value=1.4e+02 Score=15.96 Aligned_cols=54 Identities=17% Similarity=0.171 Sum_probs=32.7
Q ss_pred cCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEE
Q 045424 24 QDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 24 ~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~ 86 (98)
.+|..+. +...+++..+.+.... +++...+....+|+.+..+ --+.+||.|+++
T Consensus 6 ~~g~~~~--~~~~~t~~~~~~~~~~--~~~~~~va~~vng~~vdl~-----~~l~~~~~ve~v 59 (60)
T cd01668 6 PKGEIIE--LPAGATVLDFAYAIHT--EIGNRCVGAKVNGKLVPLS-----TVLKDGDIVEII 59 (60)
T ss_pred CCCCEEE--cCCCCCHHHHHHHHCh--HhhhheEEEEECCEECCCC-----CCCCCCCEEEEE
Confidence 5666544 5667777776653321 2333445566788876543 337889998875
No 277
>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=22.50 E-value=1.5e+02 Score=17.08 Aligned_cols=39 Identities=13% Similarity=0.201 Sum_probs=27.2
Q ss_pred CCCCcceeEEECCeecCCCCChhh-cC-CCCCCEEEEEcee
Q 045424 51 SQPFKSTPFLINGNRFDYSKTADQ-LG-LKDGDEIDAMYHA 89 (98)
Q Consensus 51 g~~~~~~rF~fdG~~l~~~~Tp~~-l~-medgD~Idv~~~q 89 (98)
++....+-...+|..+...+.... +. ...|+.+.+.+..
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 688889999999999985333322 22 4568888887754
No 278
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=22.31 E-value=2.1e+02 Score=17.79 Aligned_cols=50 Identities=10% Similarity=0.055 Sum_probs=34.1
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCc--ceeEEECCeecCCCC
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFK--STPFLINGNRFDYSK 70 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~--~~rF~fdG~~l~~~~ 70 (98)
.+|.+.+. .+.+-|-. ..|+.|..+-|+.++++.. .+.+.=||..|..++
T Consensus 5 fkV~~~~r-~~k~GV~A-~sL~EL~~K~~~~l~~~~~~~~lvL~eDGT~Vd~Ee 56 (78)
T cd06539 5 FRVSNHDR-SSRRGVMA-SSLQELISKTLDALVITSGLVTLVLEEDGTVVDTEE 56 (78)
T ss_pred EEEecCCC-CceEEEEe-cCHHHHHHHHHHHhCCCCCCcEEEEeCCCCEEccHH
Confidence 45555433 34555543 6899999999999999654 455555898886544
No 279
>COG0243 BisC Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]
Probab=22.30 E-value=56 Score=27.65 Aligned_cols=19 Identities=37% Similarity=0.606 Sum_probs=16.0
Q ss_pred CCChhhcCCCCCCEEEEEc
Q 045424 69 SKTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 69 ~~Tp~~l~medgD~Idv~~ 87 (98)
-.+++.+|++|||.|.|+-
T Consensus 677 p~DA~~~GI~~GD~V~V~~ 695 (765)
T COG0243 677 PEDAAKLGIKDGDLVRVEN 695 (765)
T ss_pred HHHHHHcCCCcCCEEEEEc
Confidence 3578899999999999864
No 280
>PRK13782 phosphocarrier protein Chr; Provisional
Probab=22.30 E-value=1.9e+02 Score=17.37 Aligned_cols=33 Identities=12% Similarity=0.156 Sum_probs=26.1
Q ss_pred ceeEEECCeecCCCC--ChhhcCCCCCCEEEEEce
Q 045424 56 STPFLINGNRFDYSK--TADQLGLKDGDEIDAMYH 88 (98)
Q Consensus 56 ~~rF~fdG~~l~~~~--Tp~~l~medgD~Idv~~~ 88 (98)
++.+.++|..++..+ ..-+|++.-||.|.+..+
T Consensus 32 ~i~l~~~~~~vdaKSil~llsLg~~~g~~v~v~~~ 66 (82)
T PRK13782 32 DIFIEKDGKKVNAKSIMGLMSLAIGTGSMITIITE 66 (82)
T ss_pred EEEEEECCeEEecHhHHHHHhcCCCCCCEEEEEEe
Confidence 677888998888765 455788899999998754
No 281
>PRK05841 flgE flagellar hook protein FlgE; Validated
Probab=22.16 E-value=1.8e+02 Score=24.65 Aligned_cols=42 Identities=21% Similarity=0.284 Sum_probs=33.8
Q ss_pred CCCcEEEEEEccCCCEEEEEEcCc---------cHHHHHHHHHHHhcCCCC
Q 045424 13 PQHLINLIIKSQDGDKRFFQFNHD---------VEIKRLLIKYCETKSQPF 54 (98)
Q Consensus 13 ~~~~I~I~v~~~~g~~~~f~Ik~~---------t~l~kL~~~y~~~~g~~~ 54 (98)
.++.|+|.|...+|....|..+.. ..+..|+..+.++.|++.
T Consensus 245 ~~~~~~i~~~~~~g~~~~~~~~~~~~~~~~~~f~~~~~l~~~~~~~~~~~~ 295 (603)
T PRK05841 245 TNRKLNITIQKEDGKKEDFVFTYGDAEKGENQFKTLGDLKKLLKEKTGLDL 295 (603)
T ss_pred CCCeEEEEEecCCCcEEEEEEeecCccccCCceeechhhhhhhhhcccccc
Confidence 388999999998898876666665 357789999999998864
No 282
>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=22.05 E-value=1.4e+02 Score=18.13 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=16.9
Q ss_pred HHHHHHHHhcCCC------CcceeEEECCe
Q 045424 41 RLLIKYCETKSQP------FKSTPFLINGN 64 (98)
Q Consensus 41 kL~~~y~~~~g~~------~~~~rF~fdG~ 64 (98)
+|++.++++.|++ ...+.|.++|.
T Consensus 1 ~ll~~l~~~lgl~~l~~d~~g~~~l~~~~~ 30 (119)
T PF05932_consen 1 QLLAELGERLGLPPLEFDEDGACSLTVDGD 30 (119)
T ss_dssp HHHHHHHHHHTCSCEESSTTSEEEEEETTT
T ss_pred CHHHHHHHHhCCCCCCCCCCCEEEEEECCe
Confidence 5789999999993 24566666544
No 283
>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=21.98 E-value=54 Score=18.38 Aligned_cols=11 Identities=36% Similarity=0.667 Sum_probs=8.2
Q ss_pred CCCCCCEEEEE
Q 045424 76 GLKDGDEIDAM 86 (98)
Q Consensus 76 ~medgD~Idv~ 86 (98)
-|.|||+|.|-
T Consensus 34 Rl~dGDV~~v~ 44 (47)
T PF10948_consen 34 RLADGDVVEVT 44 (47)
T ss_pred hhhcCCEEEec
Confidence 37788888764
No 284
>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=21.93 E-value=48 Score=28.04 Aligned_cols=18 Identities=22% Similarity=0.440 Sum_probs=15.4
Q ss_pred CChhhcCCCCCCEEEEEc
Q 045424 70 KTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~ 87 (98)
++++.||++|||.|.|+-
T Consensus 712 ~dA~~lGI~dGD~V~V~s 729 (797)
T TIGR02166 712 IDAQKRGITNGDMVRIFN 729 (797)
T ss_pred HHHHHhCCCcCCEEEEEe
Confidence 458899999999998864
No 285
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=21.89 E-value=1.8e+02 Score=25.34 Aligned_cols=65 Identities=12% Similarity=0.090 Sum_probs=37.1
Q ss_pred EEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCCCChhhcCCCCCCEEEEEceecCC
Q 045424 19 LIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYSKTADQLGLKDGDEIDAMYHAFGG 92 (98)
Q Consensus 19 I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~~Tp~~l~medgD~Idv~~~q~GG 92 (98)
|.|-++.|..+.+.-. .|++.=-+..+ ...|- ....-.+||+. -|-+.-|++||+|++...-.++
T Consensus 406 V~VfTPkG~~~~Lp~g-aT~lDfAy~iH-t~iG~--~~~gAkvng~~-----v~l~~~L~~GD~VeIits~~~~ 470 (743)
T PRK10872 406 VYVFTPKGDVVDLPAG-STPLDFAYHIH-SDVGH--RCIGAKIGGRI-----VPFTYQLQMGDQIEIITQKQPN 470 (743)
T ss_pred EEEECCCCCeEEcCCC-CcHHHHHHHHh-HHHHh--hceEEEECCEE-----CCCCcCCCCCCEEEEEeCCCCC
Confidence 6677788885554332 34444333222 22222 22223466755 4566779999999999765543
No 286
>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=21.86 E-value=43 Score=24.66 Aligned_cols=23 Identities=9% Similarity=0.186 Sum_probs=18.7
Q ss_pred CccHHHHHHHHHHHhcCCCCcce
Q 045424 35 HDVEIKRLLIKYCETKSQPFKST 57 (98)
Q Consensus 35 ~~t~l~kL~~~y~~~~g~~~~~~ 57 (98)
|..-...||+|||.-.|.++.++
T Consensus 69 Pee~~~~IF~Alc~a~~~dp~~~ 91 (214)
T TIGR03060 69 PEEHLDALFDALCNSNGFDPEQL 91 (214)
T ss_pred ChHHHHHHHHHHHHhcCCCHHHH
Confidence 66777889999999999887554
No 287
>cd04753 Commd5_HCaRG COMM_Domain containing protein 5, also called HCaRG (hypertension-related, calcium-regulated gene). HCaRG is a nuclear protein that might be involved in cell proliferation; it is negatively regulated by extracellular calcium concentration, and its basal mRNA levels are higher in hypertensive animals. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=21.84 E-value=2.4e+02 Score=18.36 Aligned_cols=35 Identities=20% Similarity=0.184 Sum_probs=27.1
Q ss_pred CCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHH
Q 045424 13 PQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCE 48 (98)
Q Consensus 13 ~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~ 48 (98)
..+.|.++++-++|...+|.+.. ++|..|.-..|.
T Consensus 58 ~~PtI~LkLkl~dg~~~~fe~~~-~kF~~Lry~~a~ 92 (110)
T cd04753 58 LQPSILMEMKLSDGKSHRFEVPV-AKFHELRYNVAL 92 (110)
T ss_pred cCCeEEEEEEecCCCeEEEEeeH-HHHHHHHHHHHH
Confidence 45688888888899999999874 788887755553
No 288
>TIGR01196 edd 6-phosphogluconate dehydratase. A close homolog, designated MocB (mannityl opine catabolism), is found in a mannopine catabolism region of a plasmid of Agrobacterium tumefaciens. However, it is not essential for mannopine catabolism, branches within the cluster of 6-phosphogluconate dehydratases (with a short branch length) in a tree rooted by the presence of other dehydyatases. It may represent an authentic 6-phosphogluconate dehydratase, redundant with the chromosomal copy shown to exist in plasmid-cured strains. This model includes mocB above the trusted cutoff, although the designation is somewhat tenuous.
Probab=21.71 E-value=2.9e+02 Score=23.54 Aligned_cols=71 Identities=11% Similarity=0.073 Sum_probs=44.4
Q ss_pred CCCCCCCcEEEEEEccCCCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEEECCeecCCC--------CChhhcC----
Q 045424 9 NNKKPQHLINLIIKSQDGDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFLINGNRFDYS--------KTADQLG---- 76 (98)
Q Consensus 9 ~~~~~~~~I~I~v~~~~g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~fdG~~l~~~--------~Tp~~l~---- 76 (98)
.+.+++..|.|+-..+.|.-+-=-.+.+.++..|+ ..|+ ++-++-||+.=-.+ -|||-..
T Consensus 463 g~i~~g~VvViR~eGPkg~GMpEm~~~t~~l~~L~-----~~Gl---~VALITDGRfSGaS~~g~~igHVsPEAa~GGPI 534 (601)
T TIGR01196 463 GELERDFVAVVRFQGPKANGMPELHKLTPPLGVLQ-----DRGF---KVALVTDGRMSGASGKVPAAIHVTPEAALGGPI 534 (601)
T ss_pred CCCCCCcEEEEeCCCCCCCCchhhccCCchhHHHH-----hCCC---eEEEEccCccCCcCCCCCeEEEEChhhhcCCce
Confidence 34566777777777766543332234555565664 4566 58888898543333 2677665
Q ss_pred --CCCCCEEEEEc
Q 045424 77 --LKDGDEIDAMY 87 (98)
Q Consensus 77 --medgD~Idv~~ 87 (98)
++|||+|.+-+
T Consensus 535 AlV~dGD~I~iD~ 547 (601)
T TIGR01196 535 AKIRDGDLIRVDA 547 (601)
T ss_pred EEEecCCEEEEEc
Confidence 78999997754
No 289
>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=21.62 E-value=50 Score=28.79 Aligned_cols=18 Identities=39% Similarity=0.693 Sum_probs=15.4
Q ss_pred CChhhcCCCCCCEEEEEc
Q 045424 70 KTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~ 87 (98)
++++.+|++|||.|.|+-
T Consensus 817 ~DA~~~GI~dGD~V~V~n 834 (912)
T TIGR03479 817 KDAAEKGIKDGDQVRIFN 834 (912)
T ss_pred HHHHHcCCCcCCEEEEEe
Confidence 467889999999999973
No 290
>COG2929 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.05 E-value=61 Score=20.85 Aligned_cols=45 Identities=13% Similarity=0.196 Sum_probs=31.9
Q ss_pred HHhcCCCCcceeEEECC-eecCCCCChhh--------cCCC-CCCEEEEEceecC
Q 045424 47 CETKSQPFKSTPFLING-NRFDYSKTADQ--------LGLK-DGDEIDAMYHAFG 91 (98)
Q Consensus 47 ~~~~g~~~~~~rF~fdG-~~l~~~~Tp~~--------l~me-dgD~Idv~~~q~G 91 (98)
++++|++.+...+.|.+ ..|-..+++.+ +|+- +|-++-|+...+|
T Consensus 15 l~KHGv~F~da~~vf~d~~~vv~~d~~~~~~E~R~~aiG~~~~~~l~~vvft~rg 69 (93)
T COG2929 15 LEKHGVSFADAEGVFWDPDAVVVPDKRHSYGEPRYIAIGYLNDGRLLVVVFTLRG 69 (93)
T ss_pred HHHcCCCHHHhhhhhcCCceeeeccccccccchhhhheeecCCceEEEEEEEEcC
Confidence 57889999888888877 77777777776 3443 4466667666666
No 291
>PRK13266 Thf1-like protein; Reviewed
Probab=20.80 E-value=46 Score=24.64 Aligned_cols=24 Identities=4% Similarity=0.065 Sum_probs=19.1
Q ss_pred CccHHHHHHHHHHHhcCCCCccee
Q 045424 35 HDVEIKRLLIKYCETKSQPFKSTP 58 (98)
Q Consensus 35 ~~t~l~kL~~~y~~~~g~~~~~~r 58 (98)
|..-...||+|||.-.|.++.++|
T Consensus 69 Pee~~~~IF~Alc~a~~~dp~~~r 92 (225)
T PRK13266 69 PEEHKDSIFNALCQAVGFDPEQLR 92 (225)
T ss_pred ChHHHHHHHHHHHHHcCCCHHHHH
Confidence 566778899999999998876543
No 292
>PRK14990 anaerobic dimethyl sulfoxide reductase subunit A; Provisional
Probab=20.60 E-value=55 Score=27.93 Aligned_cols=18 Identities=22% Similarity=0.512 Sum_probs=15.3
Q ss_pred CChhhcCCCCCCEEEEEc
Q 045424 70 KTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~ 87 (98)
++++.+|++|||.|.|+-
T Consensus 729 ~dA~~~GI~dGD~V~V~n 746 (814)
T PRK14990 729 LDAQKRGINNGDKVRIFN 746 (814)
T ss_pred HHHHHcCCCCCCEEEEEc
Confidence 457899999999999874
No 293
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=20.53 E-value=1.7e+02 Score=18.10 Aligned_cols=51 Identities=14% Similarity=0.192 Sum_probs=28.6
Q ss_pred ccHHHHHHHHHHH-hcCCCCc----ceeEEECCe----ecCCCCChhhcCCCCCCEEEEE
Q 045424 36 DVEIKRLLIKYCE-TKSQPFK----STPFLINGN----RFDYSKTADQLGLKDGDEIDAM 86 (98)
Q Consensus 36 ~t~l~kL~~~y~~-~~g~~~~----~~rF~fdG~----~l~~~~Tp~~l~medgD~Idv~ 86 (98)
..+++.|.+...+ +.|.... .-+++|+.. .-....+.++||+.+|.++.|.
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 3578888877754 5565432 445566433 3445678999999999988774
No 294
>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=20.37 E-value=55 Score=27.72 Aligned_cols=18 Identities=28% Similarity=0.475 Sum_probs=15.3
Q ss_pred CChhhcCCCCCCEEEEEc
Q 045424 70 KTADQLGLKDGDEIDAMY 87 (98)
Q Consensus 70 ~Tp~~l~medgD~Idv~~ 87 (98)
.+++.+|++|||.|.|.-
T Consensus 664 ~dA~~~GI~dGD~V~V~s 681 (770)
T TIGR00509 664 DDAAARGIADGDIVRVFN 681 (770)
T ss_pred HHHHHcCCCCCCEEEEEC
Confidence 567889999999998863
No 295
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=20.21 E-value=2.2e+02 Score=17.36 Aligned_cols=35 Identities=9% Similarity=-0.033 Sum_probs=29.9
Q ss_pred CCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE
Q 045424 26 GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL 60 (98)
Q Consensus 26 g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~ 60 (98)
.+...|.|.+...=..+..++...+|+.+..++-+
T Consensus 14 ~n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~ 48 (77)
T TIGR03636 14 ENKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTL 48 (77)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeE
Confidence 36789999999999999999999999987666543
No 296
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; GO: 0005524 ATP binding, 0043565 sequence-specific DNA binding, 0006270 DNA-dependent DNA replication initiation, 0006275 regulation of DNA replication; PDB: 2HCB_B 3R8F_C 1L8Q_A 3PVP_B 3PVV_A 1J1V_A.
Probab=20.08 E-value=49 Score=19.53 Aligned_cols=19 Identities=11% Similarity=0.111 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHhcCCCCcc
Q 045424 38 EIKRLLIKYCETKSQPFKS 56 (98)
Q Consensus 38 ~l~kL~~~y~~~~g~~~~~ 56 (98)
+.+.|+++.|+.+|++.+.
T Consensus 1 t~~~Ii~~Va~~~~v~~~~ 19 (70)
T PF08299_consen 1 TIEDIIEAVAEYFGVSVED 19 (70)
T ss_dssp -HHHHHHHHHHHTT--HHH
T ss_pred CHHHHHHHHHHHHCCCHHH
Confidence 3577889999999987644
No 297
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=20.04 E-value=2.4e+02 Score=17.57 Aligned_cols=35 Identities=11% Similarity=-0.013 Sum_probs=30.0
Q ss_pred CCEEEEEEcCccHHHHHHHHHHHhcCCCCcceeEE
Q 045424 26 GDKRFFQFNHDVEIKRLLIKYCETKSQPFKSTPFL 60 (98)
Q Consensus 26 g~~~~f~Ik~~t~l~kL~~~y~~~~g~~~~~~rF~ 60 (98)
.+...|.|.+...=..++.++...+|+.+..++-+
T Consensus 21 ~n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~ 55 (84)
T PRK14548 21 ENKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTL 55 (84)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeE
Confidence 46789999999999999999999999987666643
Done!