Query 033077
Match_columns 128
No_of_seqs 71 out of 73
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 09:32:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033077.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033077hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01804 midnolin_N Ubiquitin-l 97.5 0.00024 5.1E-09 48.1 5.1 36 65-100 1-36 (78)
2 cd01791 Ubl5 UBL5 ubiquitin-li 97.2 0.00088 1.9E-08 45.4 5.2 35 66-100 2-36 (73)
3 cd01806 Nedd8 Nebb8-like ubiq 97.1 0.0012 2.7E-08 42.6 4.9 35 66-100 1-35 (76)
4 cd01805 RAD23_N Ubiquitin-like 97.1 0.0013 2.8E-08 43.1 4.9 35 66-100 1-35 (77)
5 cd01803 Ubiquitin Ubiquitin. U 97.1 0.0015 3.3E-08 42.2 5.0 36 66-101 1-36 (76)
6 cd01792 ISG15_repeat1 ISG15 ub 97.0 0.0017 3.6E-08 43.8 4.9 35 66-100 3-37 (80)
7 cd01809 Scythe_N Ubiquitin-lik 97.0 0.0021 4.6E-08 41.1 5.0 35 66-100 1-35 (72)
8 cd01807 GDX_N ubiquitin-like d 96.9 0.0025 5.5E-08 42.0 5.0 36 66-101 1-36 (74)
9 smart00213 UBQ Ubiquitin homol 96.6 0.0062 1.3E-07 37.5 4.8 35 66-101 1-35 (64)
10 cd01810 ISG15_repeat2 ISG15 ub 96.5 0.0074 1.6E-07 39.9 5.0 33 68-100 1-33 (74)
11 cd01812 BAG1_N Ubiquitin-like 96.4 0.0085 1.8E-07 38.4 4.6 35 66-101 1-35 (71)
12 PTZ00044 ubiquitin; Provisiona 96.3 0.01 2.3E-07 38.8 5.0 35 66-100 1-35 (76)
13 cd01790 Herp_N Homocysteine-re 96.1 0.012 2.6E-07 41.2 4.7 35 65-99 1-37 (79)
14 cd01802 AN1_N ubiquitin-like d 96.0 0.02 4.4E-07 41.1 5.5 39 62-100 24-62 (103)
15 cd01813 UBP_N UBP ubiquitin pr 96.0 0.014 2.9E-07 39.4 4.2 34 67-101 2-35 (74)
16 cd01769 UBL Ubiquitin-like dom 95.8 0.019 4.2E-07 35.6 4.1 31 70-100 2-32 (69)
17 PF11976 Rad60-SLD: Ubiquitin- 95.7 0.044 9.5E-07 35.4 5.8 37 66-102 1-37 (72)
18 PF00240 ubiquitin: Ubiquitin 95.7 0.019 4.2E-07 36.6 4.1 29 73-101 3-31 (69)
19 cd01798 parkin_N amino-termina 95.5 0.03 6.5E-07 36.4 4.3 34 68-101 1-34 (70)
20 cd01797 NIRF_N amino-terminal 95.4 0.033 7.2E-07 37.9 4.5 35 66-100 1-37 (78)
21 cd01808 hPLIC_N Ubiquitin-like 95.3 0.047 1E-06 35.7 4.8 34 66-100 1-34 (71)
22 cd01794 DC_UbP_C dendritic cel 95.3 0.035 7.7E-07 37.0 4.2 32 69-100 2-33 (70)
23 cd01796 DDI1_N DNA damage indu 95.0 0.052 1.1E-06 35.9 4.3 33 68-100 1-34 (71)
24 TIGR00601 rad23 UV excision re 94.4 0.071 1.5E-06 46.4 4.8 35 66-100 1-35 (378)
25 cd01800 SF3a120_C Ubiquitin-li 94.0 0.092 2E-06 35.0 3.8 29 72-100 4-32 (76)
26 PLN02560 enoyl-CoA reductase 93.7 0.1 2.3E-06 44.1 4.5 34 66-99 1-37 (308)
27 cd01793 Fubi Fubi ubiquitin-li 93.5 0.19 4E-06 33.1 4.5 33 66-100 1-33 (74)
28 PF00076 RRM_1: RNA recognitio 93.0 0.82 1.8E-05 27.8 6.7 56 42-98 3-59 (70)
29 cd00196 UBQ Ubiquitin-like pro 92.1 0.34 7.4E-06 26.9 3.8 28 73-100 5-32 (69)
30 cd01763 Sumo Small ubiquitin-r 91.9 0.63 1.4E-05 31.9 5.6 42 60-101 6-47 (87)
31 PF11543 UN_NPL4: Nuclear pore 90.9 0.53 1.1E-05 32.6 4.4 38 63-101 2-39 (80)
32 PF08817 YukD: WXG100 protein 90.0 0.76 1.6E-05 30.9 4.5 39 64-102 1-39 (79)
33 PF14560 Ubiquitin_2: Ubiquiti 88.7 1.8 4E-05 29.3 5.7 37 66-102 2-40 (87)
34 KOG0010 Ubiquitin-like protein 88.4 0.64 1.4E-05 42.4 4.2 37 64-101 14-50 (493)
35 PF09379 FERM_N: FERM N-termin 87.9 1.1 2.4E-05 29.2 4.1 35 70-104 1-35 (80)
36 cd01775 CYR1_RA Ubiquitin doma 87.7 1.3 2.9E-05 32.5 4.8 38 65-102 2-39 (97)
37 PF14533 USP7_C2: Ubiquitin-sp 87.3 1.1 2.5E-05 35.5 4.6 50 60-112 15-67 (213)
38 PF13881 Rad60-SLD_2: Ubiquiti 87.3 1.8 3.9E-05 31.8 5.2 35 65-99 2-37 (111)
39 cd01795 USP48_C USP ubiquitin- 87.1 0.84 1.8E-05 34.2 3.5 34 71-104 10-43 (107)
40 cd01799 Hoil1_N Ubiquitin-like 86.8 1.1 2.4E-05 30.3 3.7 28 74-101 11-38 (75)
41 PF14259 RRM_6: RNA recognitio 84.8 7 0.00015 24.2 6.5 56 42-98 3-59 (70)
42 smart00666 PB1 PB1 domain. Pho 84.5 3.5 7.6E-05 27.0 5.2 26 75-100 10-35 (81)
43 smart00362 RRM_2 RNA recogniti 84.1 6.2 0.00013 22.9 6.4 56 41-97 3-58 (72)
44 PRK13552 frdB fumarate reducta 84.0 1.8 3.8E-05 35.2 4.3 45 63-116 2-55 (239)
45 smart00295 B41 Band 4.1 homolo 81.1 4.9 0.00011 29.6 5.4 40 63-102 1-40 (207)
46 PF00788 RA: Ras association ( 80.9 8.6 0.00019 25.1 6.0 35 67-101 4-42 (93)
47 cd01801 Tsc13_N Ubiquitin-like 79.9 1.4 2.9E-05 29.4 1.9 22 78-100 16-37 (77)
48 KOG0011 Nucleotide excision re 79.7 2.3 4.9E-05 37.4 3.6 35 66-100 1-35 (340)
49 PRK08640 sdhB succinate dehydr 79.1 3.8 8.2E-05 33.6 4.6 52 63-116 3-61 (249)
50 PLN02560 enoyl-CoA reductase 77.5 1.4 3E-05 37.4 1.7 70 44-117 19-92 (308)
51 smart00666 PB1 PB1 domain. Pho 75.5 12 0.00027 24.4 5.5 51 44-99 16-69 (81)
52 PF00564 PB1: PB1 domain; Int 75.2 13 0.00029 24.2 5.6 36 67-102 3-38 (84)
53 PF00789 UBX: UBX domain; Int 72.0 22 0.00048 23.3 6.1 41 62-102 3-43 (82)
54 cd01768 RA RA (Ras-associating 71.6 15 0.00033 24.3 5.3 34 68-101 2-38 (87)
55 smart00360 RRM RNA recognition 71.5 17 0.00036 20.8 6.4 55 42-97 1-57 (71)
56 COG4829 CatC1 Muconolactone de 70.5 4.2 9.1E-05 30.0 2.5 39 76-119 5-45 (98)
57 smart00314 RA Ras association 70.3 22 0.00048 23.7 5.9 35 67-101 4-41 (90)
58 PF13180 PDZ_2: PDZ domain; PD 69.3 12 0.00025 24.5 4.3 33 49-82 47-80 (82)
59 KOG4410 5-formyltetrahydrofola 66.2 7.2 0.00016 34.5 3.5 38 83-127 339-376 (396)
60 cd01767 UBX UBX (ubiquitin reg 66.2 19 0.00042 23.7 4.9 34 66-99 3-36 (77)
61 PF13019 Telomere_Sde2: Telome 63.1 13 0.00027 29.6 4.0 35 66-100 1-39 (162)
62 cd05992 PB1 The PB1 domain is 62.9 22 0.00048 22.9 4.6 28 74-101 8-36 (81)
63 cd01811 OASL_repeat1 2'-5' oli 62.8 23 0.0005 25.4 4.9 36 66-101 1-36 (80)
64 cd01770 p47_UBX p47-like ubiqu 62.2 27 0.00059 23.8 5.1 35 65-99 4-38 (79)
65 smart00166 UBX Domain present 61.8 27 0.00059 23.2 5.0 33 63-95 2-34 (80)
66 PF02991 Atg8: Autophagy prote 59.8 31 0.00067 25.1 5.3 45 58-102 9-59 (104)
67 cd01772 SAKS1_UBX SAKS1-like U 59.7 33 0.00071 23.1 5.1 35 64-98 3-37 (79)
68 PF00564 PB1: PB1 domain; Int 59.6 43 0.00093 21.7 5.6 53 43-100 16-71 (84)
69 cd01789 Alp11_N Ubiquitin-like 59.3 26 0.00057 23.8 4.7 26 76-101 13-38 (84)
70 TIGR01659 sex-lethal sex-letha 58.6 47 0.001 28.5 7.0 60 41-101 197-258 (346)
71 PRK07570 succinate dehydrogena 56.0 25 0.00055 28.9 4.8 47 66-117 3-57 (250)
72 KOG0001 Ubiquitin and ubiquiti 54.3 39 0.00084 19.9 4.4 32 68-99 2-33 (75)
73 cd00988 PDZ_CTP_protease PDZ d 54.3 41 0.00089 21.5 4.8 35 49-83 48-82 (85)
74 cd00590 RRM RRM (RNA recogniti 53.8 42 0.0009 19.3 6.5 56 41-97 3-59 (74)
75 KOG0003 Ubiquitin/60s ribosoma 53.6 15 0.00033 28.2 2.9 34 66-99 1-34 (128)
76 PLN02799 Molybdopterin synthas 53.0 34 0.00074 22.6 4.3 25 75-99 18-42 (82)
77 KOG0071 GTP-binding ADP-ribosy 50.1 21 0.00045 28.9 3.3 39 24-62 98-147 (180)
78 PRK06598 aspartate-semialdehyd 49.4 34 0.00073 30.0 4.8 65 16-98 235-299 (369)
79 cd00989 PDZ_metalloprotease PD 49.0 52 0.0011 20.6 4.5 32 50-82 46-77 (79)
80 TIGR01661 ELAV_HUD_SF ELAV/HuD 48.8 94 0.002 25.0 7.0 59 41-100 93-153 (352)
81 PRK06728 aspartate-semialdehyd 48.4 37 0.00081 29.4 4.9 62 17-98 215-276 (347)
82 cd01611 GABARAP Ubiquitin doma 48.4 64 0.0014 23.7 5.5 49 53-102 13-67 (112)
83 TIGR01659 sex-lethal sex-letha 48.2 72 0.0016 27.4 6.5 56 41-97 111-168 (346)
84 TIGR01745 asd_gamma aspartate- 47.0 37 0.0008 29.8 4.7 64 16-98 234-297 (366)
85 PF04073 tRNA_edit: Aminoacyl- 46.1 39 0.00085 23.6 3.9 51 46-96 2-55 (123)
86 PF07929 PRiA4_ORF3: Plasmid p 45.5 26 0.00057 26.5 3.2 37 65-101 4-43 (179)
87 COG0089 RplW Ribosomal protein 45.3 34 0.00073 24.9 3.5 30 73-102 19-48 (94)
88 TIGR01628 PABP-1234 polyadenyl 45.2 82 0.0018 27.7 6.6 56 42-98 5-62 (562)
89 cd04334 ProRS-INS INS is an am 45.1 54 0.0012 24.2 4.7 54 44-99 31-86 (160)
90 PF02192 PI3K_p85B: PI3-kinase 45.0 27 0.00059 24.3 2.9 24 78-101 2-25 (78)
91 cd01815 BMSC_UbP_N Ubiquitin-l 44.6 19 0.00042 25.0 2.1 17 83-99 18-34 (75)
92 CHL00030 rpl23 ribosomal prote 43.6 36 0.00078 24.4 3.5 27 75-101 19-45 (93)
93 cd01789 Alp11_N Ubiquitin-like 43.3 44 0.00094 22.7 3.7 33 45-77 19-54 (84)
94 PF10302 DUF2407: DUF2407 ubiq 42.6 20 0.00042 25.8 1.9 22 78-99 14-37 (97)
95 TIGR03221 muco_delta muconolac 42.6 32 0.00069 25.0 3.0 38 77-120 5-45 (90)
96 PRK00140 rplK 50S ribosomal pr 41.8 47 0.001 25.4 4.1 67 52-118 40-106 (141)
97 cd06411 PB1_p51 The PB1 domain 41.2 49 0.0011 23.4 3.7 27 77-103 8-34 (78)
98 cd06405 PB1_Mekk2_3 The PB1 do 41.0 1.1E+02 0.0025 21.9 5.6 48 45-98 16-63 (79)
99 cd01814 NTGP5 Ubiquitin-like N 40.6 37 0.0008 25.6 3.2 35 65-99 4-39 (113)
100 PF02824 TGS: TGS domain; Int 39.5 77 0.0017 20.3 4.2 26 73-100 6-31 (60)
101 cd00986 PDZ_LON_protease PDZ d 38.8 92 0.002 19.9 4.6 32 50-82 41-73 (79)
102 PLN03213 repressor of silencin 38.4 1.4E+02 0.003 28.6 7.2 56 42-98 15-70 (759)
103 PTZ00380 microtubule-associate 37.4 1.2E+02 0.0026 22.9 5.6 50 53-103 16-68 (121)
104 PF06918 DUF1280: Protein of u 37.4 99 0.0022 25.3 5.5 81 20-104 64-147 (224)
105 TIGR03636 L23_arch archaeal ri 37.4 53 0.0011 22.8 3.4 27 75-101 14-40 (77)
106 PF00276 Ribosomal_L23: Riboso 37.2 58 0.0012 22.8 3.6 27 76-102 21-47 (91)
107 PRK05738 rplW 50S ribosomal pr 37.2 53 0.0011 23.2 3.4 29 74-102 19-47 (92)
108 PRK12385 fumarate reductase ir 36.8 66 0.0014 26.2 4.4 35 65-99 6-48 (244)
109 PF13085 Fer2_3: 2Fe-2S iron-s 36.8 75 0.0016 23.3 4.3 33 67-99 1-42 (110)
110 cd04336 YeaK YeaK is an unchar 36.1 1.7E+02 0.0036 21.2 6.1 48 41-88 16-66 (153)
111 PLN03134 glycine-rich RNA-bind 36.1 1.7E+02 0.0037 21.7 6.2 57 41-98 38-96 (144)
112 COG1943 Transposase and inacti 35.9 1.8E+02 0.0039 21.6 6.3 66 52-119 36-101 (136)
113 TIGR01632 L11_bact 50S ribosom 35.5 71 0.0015 24.5 4.2 67 52-118 38-105 (140)
114 KOG0070 GTP-binding ADP-ribosy 35.0 75 0.0016 25.7 4.3 39 24-62 98-147 (181)
115 cd01774 Faf1_like2_UBX Faf1 ik 34.9 1.2E+02 0.0026 20.9 4.9 33 64-96 3-35 (85)
116 PRK14548 50S ribosomal protein 34.6 61 0.0013 22.9 3.4 27 75-101 21-47 (84)
117 PRK12576 succinate dehydrogena 34.3 65 0.0014 26.8 4.0 39 60-98 3-47 (279)
118 cd06407 PB1_NLP A PB1 domain i 33.6 1E+02 0.0022 21.3 4.3 28 74-101 8-35 (82)
119 PF11065 DUF2866: Protein of u 32.7 53 0.0011 22.7 2.7 40 61-100 15-56 (65)
120 smart00649 RL11 Ribosomal prot 32.7 87 0.0019 23.6 4.2 67 52-118 32-98 (132)
121 cd01666 TGS_DRG_C TGS_DRG_C: 32.1 45 0.00097 22.8 2.3 21 79-99 18-38 (75)
122 PF00025 Arf: ADP-ribosylation 32.0 1.2E+02 0.0026 22.4 4.8 38 25-62 96-144 (175)
123 cd04332 YbaK_like YbaK-like. 31.5 1.2E+02 0.0026 21.0 4.5 51 47-99 10-61 (136)
124 cd01788 ElonginB Ubiquitin-lik 30.7 1.2E+02 0.0026 23.3 4.6 35 65-100 2-36 (119)
125 CHL00127 rpl11 ribosomal prote 30.7 96 0.0021 23.8 4.2 67 52-118 40-106 (140)
126 PLN00129 succinate dehydrogena 30.3 83 0.0018 26.6 4.1 47 61-116 39-94 (276)
127 PF10407 Cytokin_check_N: Cdc1 30.2 92 0.002 21.6 3.6 30 77-106 4-33 (73)
128 PRK14732 coaE dephospho-CoA ki 30.1 73 0.0016 24.7 3.5 29 77-105 166-194 (196)
129 cd05992 PB1 The PB1 domain is 30.0 1.5E+02 0.0033 18.9 6.1 50 45-99 16-69 (81)
130 TIGR01687 moaD_arch MoaD famil 30.0 81 0.0018 20.9 3.3 24 76-100 16-39 (88)
131 TIGR01682 moaD molybdopterin c 29.6 78 0.0017 20.8 3.1 25 76-100 16-41 (80)
132 TIGR00481 Raf kinase inhibitor 28.8 51 0.0011 24.7 2.4 34 64-99 98-131 (141)
133 PF14749 Acyl-CoA_ox_N: Acyl-c 28.3 34 0.00073 24.3 1.3 27 28-54 17-46 (125)
134 PF07262 DUF1436: Protein of u 28.0 82 0.0018 24.7 3.4 25 77-101 133-157 (158)
135 cd06406 PB1_P67 A PB1 domain i 27.6 1.9E+02 0.0041 20.5 4.9 33 67-101 4-36 (80)
136 PF05868 Rotavirus_VP7: Rotavi 27.2 17 0.00037 30.8 -0.5 15 107-121 210-224 (249)
137 PF04967 HTH_10: HTH DNA bindi 27.1 50 0.0011 21.4 1.8 17 44-60 19-35 (53)
138 PF01376 Enterotoxin_b: Heat-l 26.8 1.1E+02 0.0024 22.6 3.7 58 63-120 33-90 (102)
139 PTZ00191 60S ribosomal protein 26.8 95 0.0021 24.3 3.6 29 73-101 80-108 (145)
140 COG0484 DnaJ DnaJ-class molecu 26.7 57 0.0012 28.9 2.6 28 81-108 11-39 (371)
141 PHA02575 1 deoxynucleoside mon 25.9 85 0.0018 26.0 3.3 38 61-99 175-225 (227)
142 PRK01143 rpl11p 50S ribosomal 25.5 1.3E+02 0.0028 23.6 4.2 67 52-118 36-103 (163)
143 cd00754 MoaD Ubiquitin domain 25.5 99 0.0022 19.7 3.0 25 76-100 16-40 (80)
144 PF14268 YoaP: YoaP-like 25.5 37 0.0008 21.6 0.9 13 115-127 17-29 (44)
145 PF01524 Gemini_V1: Geminiviru 25.3 37 0.00081 24.2 1.0 27 39-67 3-29 (78)
146 COG2747 FlgM Negative regulato 24.5 45 0.00097 24.2 1.3 15 83-97 58-72 (93)
147 PRK14539 50S ribosomal protein 24.5 1.2E+02 0.0026 24.8 4.0 73 46-118 27-103 (196)
148 PF08783 DWNN: DWNN domain; I 24.5 57 0.0012 22.6 1.8 22 79-100 13-35 (74)
149 cd00991 PDZ_archaeal_metallopr 24.5 2E+02 0.0044 18.5 4.6 32 50-82 44-76 (79)
150 TIGR01661 ELAV_HUD_SF ELAV/HuD 24.5 3.2E+02 0.007 21.9 6.4 57 41-98 273-331 (352)
151 smart00143 PI3K_p85B PI3-kinas 24.4 74 0.0016 22.4 2.4 22 78-99 2-23 (78)
152 PF07340 Herpes_IE1: Cytomegal 24.2 1.8E+02 0.004 26.3 5.3 29 26-54 34-70 (392)
153 PTZ00434 cytosolic glyceraldeh 24.2 77 0.0017 28.0 2.9 37 62-100 245-283 (361)
154 PTZ00065 60S ribosomal protein 24.2 84 0.0018 24.2 2.8 32 67-98 51-82 (130)
155 PF02680 DUF211: Uncharacteriz 23.7 2.8E+02 0.006 20.4 5.3 54 45-98 13-70 (95)
156 TIGR01649 hnRNP-L_PTB hnRNP-L/ 23.6 3E+02 0.0065 24.1 6.5 53 43-98 102-154 (481)
157 PF02426 MIase: Muconolactone 23.5 1E+02 0.0023 22.0 3.1 37 77-119 6-45 (91)
158 PRK13744 conjugal transfer pro 23.4 69 0.0015 22.7 2.1 36 60-95 36-73 (83)
159 PF12053 DUF3534: Domain of un 22.8 2.2E+02 0.0047 22.2 4.9 36 66-102 1-38 (145)
160 COG0793 Prc Periplasmic protea 21.7 1.7E+02 0.0036 25.7 4.6 38 47-84 145-183 (406)
161 cd04333 ProX_deacylase This CD 21.6 3.2E+02 0.0069 19.7 5.7 56 40-95 15-73 (148)
162 PRK03557 zinc transporter ZitB 21.4 4.7E+02 0.01 21.6 9.1 68 28-100 204-277 (312)
163 cd04335 PrdX_deacylase This CD 21.3 3.3E+02 0.0072 19.8 6.3 47 43-89 18-65 (156)
164 PF12857 TOBE_3: TOBE-like dom 20.8 1.4E+02 0.0029 18.9 2.9 26 61-86 16-42 (58)
165 COG0486 ThdF Predicted GTPase 20.7 3.3E+02 0.0071 25.0 6.2 59 59-117 320-393 (454)
166 cd06257 DnaJ DnaJ domain or J- 20.7 1.4E+02 0.003 17.5 2.8 20 82-101 8-27 (55)
167 cd04938 TGS_Obg-like TGS_Obg-l 20.6 2.8E+02 0.0061 18.7 4.6 44 79-127 25-70 (76)
168 PF13473 Cupredoxin_1: Cupredo 20.6 94 0.002 21.3 2.3 29 56-84 35-63 (104)
169 PF05157 T2SE_Nter: Type II se 20.6 1.7E+02 0.0037 19.2 3.5 72 27-100 10-81 (109)
170 cd06407 PB1_NLP A PB1 domain i 20.4 3E+02 0.0065 18.9 6.3 50 44-98 15-68 (82)
171 PRK12280 rplW 50S ribosomal pr 20.3 1.4E+02 0.003 23.6 3.4 26 76-101 23-48 (158)
172 PF12091 DUF3567: Protein of u 20.1 1.4E+02 0.0031 21.5 3.2 26 26-59 47-72 (85)
173 TIGR03793 TOMM_pelo TOMM prope 20.1 2.8E+02 0.0061 19.2 4.6 29 59-87 35-63 (77)
174 PF12993 DUF3877: Domain of un 20.0 1.1E+02 0.0023 24.8 2.8 60 13-82 80-139 (175)
No 1
>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=97.51 E-value=0.00024 Score=48.09 Aligned_cols=36 Identities=33% Similarity=0.521 Sum_probs=33.7
Q ss_pred eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
+|+|+|.-..|..++|.|+.++||.|||+.|+..+.
T Consensus 1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~ 36 (78)
T cd01804 1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLK 36 (78)
T ss_pred CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhC
Confidence 489999999999999999999999999999998874
No 2
>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=97.22 E-value=0.00088 Score=45.40 Aligned_cols=35 Identities=20% Similarity=0.193 Sum_probs=32.8
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-..|..+.+.|+.++||.|||++|+..+.
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~ 36 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTG 36 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhC
Confidence 78999999999999999999999999999998874
No 3
>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=97.11 E-value=0.0012 Score=42.64 Aligned_cols=35 Identities=20% Similarity=0.385 Sum_probs=32.8
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-.+|..+.+.|..+.||.+||..|+..+.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g 35 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEG 35 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhC
Confidence 78999999999999999999999999999998874
No 4
>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=97.09 E-value=0.0013 Score=43.08 Aligned_cols=35 Identities=29% Similarity=0.421 Sum_probs=32.9
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-.+|..+.+.|..+.||.+||+.|+..+.
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~ 35 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKG 35 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhC
Confidence 78999999999999999999999999999999874
No 5
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=97.06 E-value=0.0015 Score=42.20 Aligned_cols=36 Identities=28% Similarity=0.388 Sum_probs=33.2
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
|+|+|.-.+|..+.+.|..+.||++||+.|+..+..
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~ 36 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGI 36 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCC
Confidence 789999999999999999999999999999998743
No 6
>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=97.01 E-value=0.0017 Score=43.84 Aligned_cols=35 Identities=31% Similarity=0.475 Sum_probs=33.0
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-..|..+.+.|..++||+|||+.|+..+.
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~ 37 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIG 37 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhC
Confidence 89999999999999999999999999999998874
No 7
>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=96.98 E-value=0.0021 Score=41.11 Aligned_cols=35 Identities=31% Similarity=0.414 Sum_probs=32.8
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-.+|..+++.|..+.||.+||+.|++.+.
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~g 35 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVG 35 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC
Confidence 78999999999999999999999999999999874
No 8
>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=96.90 E-value=0.0025 Score=42.04 Aligned_cols=36 Identities=22% Similarity=0.341 Sum_probs=33.4
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
|+|+|.-.+|..+++.|..+.||.+||+.|+..+..
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi 36 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNV 36 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCC
Confidence 789999999999999999999999999999998753
No 9
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=96.58 E-value=0.0062 Score=37.53 Aligned_cols=35 Identities=26% Similarity=0.337 Sum_probs=31.1
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
|+|+|.-.+ ..+++.|+.+.||++||..|+..+..
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~ 35 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGI 35 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCC
Confidence 678888888 79999999999999999999998854
No 10
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=96.49 E-value=0.0074 Score=39.90 Aligned_cols=33 Identities=24% Similarity=0.188 Sum_probs=29.8
Q ss_pred EEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 68 ISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 68 l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|.-.+|.++++.|..++||++||+.|+....
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~g 33 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRER 33 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhC
Confidence 468888999999999999999999999998764
No 11
>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=96.36 E-value=0.0085 Score=38.41 Aligned_cols=35 Identities=26% Similarity=0.353 Sum_probs=30.7
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
|+|+|.-. |..+++.|..++||.+||+.|+..+..
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi 35 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGV 35 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCC
Confidence 57788776 899999999999999999999998754
No 12
>PTZ00044 ubiquitin; Provisional
Probab=96.34 E-value=0.01 Score=38.77 Aligned_cols=35 Identities=29% Similarity=0.395 Sum_probs=32.9
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|.|+|.-.+|.++.+.|..+.||.+||+.|+....
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~g 35 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEG 35 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHC
Confidence 68999999999999999999999999999999875
No 13
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=96.13 E-value=0.012 Score=41.19 Aligned_cols=35 Identities=20% Similarity=0.155 Sum_probs=30.2
Q ss_pred eeEEEEEcCCCceeeEEE--eCCCcHHHHHHHHHHHH
Q 033077 65 AMRISILKLDGTSFDVAV--MNSATVKDLKLAIKKKV 99 (128)
Q Consensus 65 Am~l~V~k~Dgs~~~VvV--~~~ATV~dLKkAI~~~~ 99 (128)
+|+|+|...++..+++.| ..++||+|||..|+..+
T Consensus 1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~ 37 (79)
T cd01790 1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVY 37 (79)
T ss_pred CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhc
Confidence 489999999999955555 78999999999999876
No 14
>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=96.00 E-value=0.02 Score=41.12 Aligned_cols=39 Identities=28% Similarity=0.338 Sum_probs=35.2
Q ss_pred cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
+-..|.|+|.-++|.++.+.|..+.||.+||+.|+....
T Consensus 24 ~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~g 62 (103)
T cd01802 24 FYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEG 62 (103)
T ss_pred cCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhC
Confidence 345799999999999999999999999999999988753
No 15
>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=95.95 E-value=0.014 Score=39.43 Aligned_cols=34 Identities=29% Similarity=0.399 Sum_probs=29.2
Q ss_pred EEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 67 RISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 67 ~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
+|+| |..|..|+|.|..++||++||+.|+..+.-
T Consensus 2 ~i~v-k~~g~~~~v~v~~~~Tv~~lK~~i~~~tgv 35 (74)
T cd01813 2 PVIV-KWGGQEYSVTTLSEDTVLDLKQFIKTLTGV 35 (74)
T ss_pred EEEE-EECCEEEEEEECCCCCHHHHHHHHHHHHCC
Confidence 4443 678999999999999999999999999863
No 16
>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=95.77 E-value=0.019 Score=35.65 Aligned_cols=31 Identities=32% Similarity=0.483 Sum_probs=28.0
Q ss_pred EEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 70 ILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 70 V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|...+|..+.+.++.++||.+||+.|++.+.
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~ 32 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEG 32 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHC
Confidence 5566899999999999999999999999885
No 17
>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=95.74 E-value=0.044 Score=35.43 Aligned_cols=37 Identities=22% Similarity=0.186 Sum_probs=34.0
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
|+|.|.-.+|..+.+.|..+.||..|..++....+..
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~ 37 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIP 37 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTT
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCC
Confidence 7899999999999999999999999999998887653
No 18
>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=95.74 E-value=0.019 Score=36.64 Aligned_cols=29 Identities=34% Similarity=0.452 Sum_probs=26.7
Q ss_pred CCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 73 LDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 73 ~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.+|..|+|.|..+.||.+||+.|+..+..
T Consensus 3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~ 31 (69)
T PF00240_consen 3 LSGKTFTLEVDPDDTVADLKQKIAEETGI 31 (69)
T ss_dssp TTSEEEEEEEETTSBHHHHHHHHHHHHTS
T ss_pred CCCcEEEEEECCCCCHHHhhhhccccccc
Confidence 57899999999999999999999999863
No 19
>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=95.49 E-value=0.03 Score=36.43 Aligned_cols=34 Identities=24% Similarity=0.331 Sum_probs=30.5
Q ss_pred EEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 68 ISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 68 l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
|+|.-.+|..+++.|..+.||++||+.|+..+..
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi 34 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGV 34 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCC
Confidence 4678889999999999999999999999998753
No 20
>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=95.42 E-value=0.033 Score=37.88 Aligned_cols=35 Identities=26% Similarity=0.403 Sum_probs=30.8
Q ss_pred eEEEEEcCCCce-eeE-EEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTS-FDV-AVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~-~~V-vV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-..|.. +.+ +|..+.||.+||+.|+....
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~g 37 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFN 37 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhC
Confidence 789999999986 788 57889999999999998764
No 21
>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=95.30 E-value=0.047 Score=35.69 Aligned_cols=34 Identities=24% Similarity=0.447 Sum_probs=29.1
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-..|. +.+.|..++||.+||+.|+....
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~ 34 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFK 34 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhC
Confidence 46788888886 58999999999999999998874
No 22
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=95.28 E-value=0.035 Score=37.01 Aligned_cols=32 Identities=19% Similarity=0.239 Sum_probs=28.3
Q ss_pred EEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 69 SILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 69 ~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
.|.-..|..+++.|..++||++||..|+....
T Consensus 2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~g 33 (70)
T cd01794 2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEG 33 (70)
T ss_pred eEEcCCCCEEEEEECCcChHHHHHHHHHHHhC
Confidence 46677899999999999999999999998764
No 23
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=94.95 E-value=0.052 Score=35.89 Aligned_cols=33 Identities=15% Similarity=0.276 Sum_probs=28.3
Q ss_pred EEEEcC-CCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 68 ISILKL-DGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 68 l~V~k~-Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|.-. +|..++|.|..++||.+||..|+..+.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~g 34 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESG 34 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhC
Confidence 355566 788899999999999999999998875
No 24
>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=94.35 E-value=0.071 Score=46.45 Aligned_cols=35 Identities=26% Similarity=0.397 Sum_probs=32.6
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-++|..|.|.|..+.||.+||+.|+....
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g 35 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQG 35 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhC
Confidence 78999999999999999999999999999998753
No 25
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=94.00 E-value=0.092 Score=34.97 Aligned_cols=29 Identities=28% Similarity=0.414 Sum_probs=27.0
Q ss_pred cCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 72 KLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 72 k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
+++|..++|.|..+.||.+||.-|+..+.
T Consensus 4 ~l~g~~~~l~v~~~~TV~~lK~~i~~~~g 32 (76)
T cd01800 4 KLNGQMLNFTLQLSDPVSVLKVKIHEETG 32 (76)
T ss_pred ccCCeEEEEEECCCCcHHHHHHHHHHHHC
Confidence 78999999999999999999999998874
No 26
>PLN02560 enoyl-CoA reductase
Probab=93.69 E-value=0.1 Score=44.11 Aligned_cols=34 Identities=38% Similarity=0.576 Sum_probs=28.9
Q ss_pred eEEEEEcCCCcee---eEEEeCCCcHHHHHHHHHHHH
Q 033077 66 MRISILKLDGTSF---DVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 66 m~l~V~k~Dgs~~---~VvV~~~ATV~dLKkAI~~~~ 99 (128)
|+|+|.-..|..+ .|.|+.+|||.|||++|++..
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~ 37 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRK 37 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHc
Confidence 5677777777776 789999999999999999875
No 27
>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=93.47 E-value=0.19 Score=33.14 Aligned_cols=33 Identities=18% Similarity=0.255 Sum_probs=27.9
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.- +..+++.|..+.||++||..|+....
T Consensus 1 mqi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~g 33 (74)
T cd01793 1 MQLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEG 33 (74)
T ss_pred CEEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhC
Confidence 6777753 47899999999999999999998864
No 28
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=93.02 E-value=0.82 Score=27.76 Aligned_cols=56 Identities=18% Similarity=0.310 Sum_probs=47.9
Q ss_pred ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEc-CCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077 42 LADVPKKPTLSDVDTLISLEMGSAMRISILK-LDGTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k-~Dgs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
+++||.++|.++|.....- +|.-..+.+.+ ..+..-......=.+..+-++|++..
T Consensus 3 v~nlp~~~t~~~l~~~f~~-~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l 59 (70)
T PF00076_consen 3 VGNLPPDVTEEELRDFFSQ-FGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEEL 59 (70)
T ss_dssp EESETTTSSHHHHHHHHHT-TSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred EcCCCCcCCHHHHHHHHHH-hhhcccccccccccccccceEEEEEcCHHHHHHHHHHc
Confidence 5789999999999999998 99999999988 57777777777778889999998754
No 29
>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=92.11 E-value=0.34 Score=26.92 Aligned_cols=28 Identities=36% Similarity=0.494 Sum_probs=25.2
Q ss_pred CCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 73 LDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 73 ~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
.++....+.+..+.|+.+||+.|...+.
T Consensus 5 ~~~~~~~~~~~~~~tv~~l~~~i~~~~~ 32 (69)
T cd00196 5 NDGKTVELLVPSGTTVADLKEKLAKKLG 32 (69)
T ss_pred cCCCEEEEEcCCCCcHHHHHHHHHHHHC
Confidence 3889999999999999999999999874
No 30
>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=91.86 E-value=0.63 Score=31.90 Aligned_cols=42 Identities=17% Similarity=0.169 Sum_probs=37.4
Q ss_pred hhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 60 LEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 60 le~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.+..+-|+|.|.-.+|..+.+.|..+.|+..||.|++.....
T Consensus 6 ~~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi 47 (87)
T cd01763 6 GEISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGL 47 (87)
T ss_pred CCCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCC
Confidence 345678999999999999999999999999999999988753
No 31
>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=90.89 E-value=0.53 Score=32.55 Aligned_cols=38 Identities=29% Similarity=0.357 Sum_probs=27.2
Q ss_pred CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.++|-|+|+--||. +.|.|+.++|+.+|+..|+..+..
T Consensus 2 ~~~milRvrS~dG~-~Rie~~~~~t~~~L~~kI~~~l~~ 39 (80)
T PF11543_consen 2 ASSMILRVRSKDGM-KRIEVSPSSTLSDLKEKISEQLSI 39 (80)
T ss_dssp ----EEEEE-SSEE-EEEEE-TTSBHHHHHHHHHHHS--
T ss_pred CccEEEEEECCCCC-EEEEcCCcccHHHHHHHHHHHcCC
Confidence 46899999988884 678899999999999999998854
No 32
>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=89.98 E-value=0.76 Score=30.88 Aligned_cols=39 Identities=15% Similarity=0.178 Sum_probs=29.8
Q ss_pred CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
+-++|+|.-.+|..+++.+|.+.+|++|--.|-+.+...
T Consensus 1 ~~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~ 39 (79)
T PF08817_consen 1 QLCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLP 39 (79)
T ss_dssp -EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---
T ss_pred CEEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCc
Confidence 346888888778999999999999999999999999853
No 33
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=88.68 E-value=1.8 Score=29.26 Aligned_cols=37 Identities=22% Similarity=0.214 Sum_probs=29.4
Q ss_pred eEEEEEcCCCc--eeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 66 MRISILKLDGT--SFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 66 m~l~V~k~Dgs--~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
++|+|.-.... .....++.+.||.|||.-|++.|.--
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~ 40 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIP 40 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence 45666665554 88889999999999999999999543
No 34
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=88.40 E-value=0.64 Score=42.44 Aligned_cols=37 Identities=22% Similarity=0.391 Sum_probs=33.8
Q ss_pred CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
..++|+|.--++ .++|.|+.++||.+||.+|...|..
T Consensus 14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a 50 (493)
T KOG0010|consen 14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGA 50 (493)
T ss_pred ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCC
Confidence 459999999888 9999999999999999999999943
No 35
>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=87.86 E-value=1.1 Score=29.16 Aligned_cols=35 Identities=29% Similarity=0.243 Sum_probs=30.9
Q ss_pred EEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhh
Q 033077 70 ILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQ 104 (128)
Q Consensus 70 V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~ 104 (128)
|.=+||+...+.|..++|+.||=..|..+.++.+.
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~ 35 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEK 35 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSG
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCc
Confidence 45689999999999999999999999999987643
No 36
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=87.73 E-value=1.3 Score=32.53 Aligned_cols=38 Identities=24% Similarity=0.223 Sum_probs=34.1
Q ss_pred eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
+.-|+|-|.|++.-.+..+-++||.||=..++++|.+-
T Consensus 2 ~y~IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~ 39 (97)
T cd01775 2 SYCIRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFYLP 39 (97)
T ss_pred ceEEEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhcCC
Confidence 34688999999999999999999999999999998653
No 37
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=87.30 E-value=1.1 Score=35.48 Aligned_cols=50 Identities=26% Similarity=0.328 Sum_probs=28.3
Q ss_pred hhcCCeeEEEEEcCCC---ceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceee
Q 033077 60 LEMGSAMRISILKLDG---TSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHI 112 (128)
Q Consensus 60 le~GqAm~l~V~k~Dg---s~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~I 112 (128)
+|.=..++++.+.... ..+.+-||+++||.||-.++++++.. .+.+.++|
T Consensus 15 lE~kk~~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~---~~~~~~~l 67 (213)
T PF14533_consen 15 LENKKQFKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGF---SEEGTGKL 67 (213)
T ss_dssp HHSB--EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT-------TT----E
T ss_pred HhCceEEEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCC---CcCCcCcE
Confidence 3445668999886554 46889999999999999999999987 33455555
No 38
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=87.26 E-value=1.8 Score=31.78 Aligned_cols=35 Identities=26% Similarity=0.153 Sum_probs=28.9
Q ss_pred eeEEEEEcCCCc-eeeEEEeCCCcHHHHHHHHHHHH
Q 033077 65 AMRISILKLDGT-SFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 65 Am~l~V~k~Dgs-~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
.+.|..+..||+ .-+...+.+.||++||.+|-+.-
T Consensus 2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~W 37 (111)
T PF13881_consen 2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEW 37 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSS
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHC
Confidence 578899999999 88888999999999999997743
No 39
>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=87.13 E-value=0.84 Score=34.24 Aligned_cols=34 Identities=18% Similarity=0.104 Sum_probs=27.5
Q ss_pred EcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhh
Q 033077 71 LKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQ 104 (128)
Q Consensus 71 ~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~ 104 (128)
+|+.-...++.|..++||.+||.-|+.+|...+.
T Consensus 10 ~r~~~~~~~L~V~~~~TVg~LK~lImQ~f~V~P~ 43 (107)
T cd01795 10 HRKVRGEKALLVSANQTLKELKIQIMHAFSVAPF 43 (107)
T ss_pred hccCCCCceEEeCccccHHHHHHHHHHHhcCCcc
Confidence 3444455678899999999999999999987655
No 40
>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=86.77 E-value=1.1 Score=30.33 Aligned_cols=28 Identities=18% Similarity=0.024 Sum_probs=23.9
Q ss_pred CCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 74 DGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 74 Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.|.++.+.|..+.||++||.-|+..+..
T Consensus 11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gi 38 (75)
T cd01799 11 HTVTIWLTVRPDMTVAQLKDKVFLDYGF 38 (75)
T ss_pred CCCeEEEEECCCCcHHHHHHHHHHHHCc
Confidence 3577889999999999999999988754
No 41
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=84.81 E-value=7 Score=24.20 Aligned_cols=56 Identities=21% Similarity=0.325 Sum_probs=41.2
Q ss_pred ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCC-CceeeEEEeCCCcHHHHHHHHHHH
Q 033077 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLD-GTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~D-gs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
+.+||+.+|.++|.....-. |.-..+.+.+.. +..-......=+|..+.++|++..
T Consensus 3 i~nlp~~~~~~~l~~~f~~~-g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~ 59 (70)
T PF14259_consen 3 ISNLPPSTTEEDLRNFFSRF-GPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELL 59 (70)
T ss_dssp EESSTTT--HHHHHHHCTTS-SBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHH
T ss_pred EeCCCCCCCHHHHHHHHHhc-CCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHC
Confidence 57899999999999987764 876677777653 445555555667999999999885
No 42
>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=84.45 E-value=3.5 Score=26.99 Aligned_cols=26 Identities=19% Similarity=0.376 Sum_probs=12.4
Q ss_pred CceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 75 GTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 75 gs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
+....+.|+.++|..||+..|+..|.
T Consensus 10 ~~~~~~~~~~~~s~~dL~~~i~~~~~ 35 (81)
T smart00666 10 GETRRLSVPRDISFEDLRSKVAKRFG 35 (81)
T ss_pred CEEEEEEECCCCCHHHHHHHHHHHhC
Confidence 34444444444555555555554443
No 43
>smart00362 RRM_2 RNA recognition motif.
Probab=84.12 E-value=6.2 Score=22.88 Aligned_cols=56 Identities=25% Similarity=0.338 Sum_probs=39.5
Q ss_pred cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHH
Q 033077 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKK 97 (128)
Q Consensus 41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~ 97 (128)
++.+||...|.+||...+. .+|.--.+.+.+..+.........=.+..+.++|++.
T Consensus 3 ~i~~l~~~~~~~~l~~~~~-~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~ 58 (72)
T smart00362 3 FVGNLPPDVTEEDLKELFS-KFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEA 58 (72)
T ss_pred EEcCCCCcCCHHHHHHHHH-hcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHH
Confidence 3578999999999999886 7898777777776533333333444566777777753
No 44
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=84.05 E-value=1.8 Score=35.23 Aligned_cols=45 Identities=9% Similarity=0.233 Sum_probs=36.1
Q ss_pred CCeeEEEEEcCCC---------ceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccc
Q 033077 63 GSAMRISILKLDG---------TSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQV 116 (128)
Q Consensus 63 GqAm~l~V~k~Dg---------s~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~ 116 (128)
|+-|+|.|.|.|. .+|.|.+....||+|+=..|+... ...|+|++
T Consensus 2 ~~~~~~~i~R~~p~~~~~~~~~~~y~v~~~~~~tvLdaL~~Ik~~~---------D~sL~fr~ 55 (239)
T PRK13552 2 GRTLTFNIFRYNPQDPGSKPHMVTYQLEETPGMTLFIALNRIREEQ---------DPSLQFDF 55 (239)
T ss_pred CceEEEEEEeeCCCCCCCCcceEEEEecCCCCCCHHHHHHHHHhcC---------CCCeeEec
Confidence 7789999999884 458999999999999999998753 23477764
No 45
>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=81.13 E-value=4.9 Score=29.62 Aligned_cols=40 Identities=23% Similarity=0.304 Sum_probs=36.1
Q ss_pred CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
++.+.+.|.-.||+...|.+..++||.|+-..|.+.+...
T Consensus 1 ~~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~ 40 (207)
T smart00295 1 PKPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIR 40 (207)
T ss_pred CCcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCC
Confidence 3578899999999999999999999999999999998763
No 46
>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=80.95 E-value=8.6 Score=25.14 Aligned_cols=35 Identities=17% Similarity=0.173 Sum_probs=30.1
Q ss_pred EEEEEcCCCc----eeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 67 RISILKLDGT----SFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 67 ~l~V~k~Dgs----~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.|.|--.|++ +-.|-|+.++|+.|+=+++-++|..
T Consensus 4 ~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l 42 (93)
T PF00788_consen 4 VLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGL 42 (93)
T ss_dssp EEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTT
T ss_pred EEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 4666667887 8899999999999999999999976
No 47
>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=79.93 E-value=1.4 Score=29.43 Aligned_cols=22 Identities=36% Similarity=0.421 Sum_probs=17.8
Q ss_pred eeEEEeCCCcHHHHHHHHHHHHh
Q 033077 78 FDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 78 ~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
+++. +.+|||.|||++|...+.
T Consensus 16 ~~~~-~~~aTV~dlk~~i~~~~~ 37 (77)
T cd01801 16 LKVS-SGDATIADLKKLIAKSSP 37 (77)
T ss_pred cccC-CCCccHHHHHHHHHHHcC
Confidence 4454 788999999999998763
No 48
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=79.72 E-value=2.3 Score=37.38 Aligned_cols=35 Identities=23% Similarity=0.412 Sum_probs=32.7
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|+|+|.-+.++.|++.|..+-||.++|+.|+....
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g 35 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKG 35 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccC
Confidence 78999999999999999999999999999997764
No 49
>PRK08640 sdhB succinate dehydrogenase iron-sulfur subunit; Reviewed
Probab=79.06 E-value=3.8 Score=33.56 Aligned_cols=52 Identities=15% Similarity=0.349 Sum_probs=37.5
Q ss_pred CCeeEEEEEcCCC-------ceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccc
Q 033077 63 GSAMRISILKLDG-------TSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQV 116 (128)
Q Consensus 63 GqAm~l~V~k~Dg-------s~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~ 116 (128)
|.-|++.|.|.|+ .+|.|.+..+.||+|+=..|+... +..+.+. ...|+|+|
T Consensus 3 ~~~~~~~i~R~~~~~~~~~~q~y~v~~~~~~tvLdaL~~I~~~~-~~~~g~~-~~~l~fr~ 61 (249)
T PRK08640 3 EKTVRLIIKRQDGPDSKPYWEEFEIPYRPNMNVISALMEIRRNP-VNAKGEK-TTPVVWDM 61 (249)
T ss_pred CcEEEEEEEeeCCCCCCceeEEEEecCCCCCcHHHHHHHHHhcc-ccccccc-CCCeeEec
Confidence 4568999999884 458898888999999999998763 3323211 13388876
No 50
>PLN02560 enoyl-CoA reductase
Probab=77.54 E-value=1.4 Score=37.37 Aligned_cols=70 Identities=20% Similarity=0.326 Sum_probs=44.8
Q ss_pred CCCCCCCHHHHHHhhhhhcC----CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeecccc
Q 033077 44 DVPKKPTLSDVDTLISLEMG----SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVF 117 (128)
Q Consensus 44 DlP~~vT~~Ev~s~Iale~G----qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~V 117 (128)
|+|++.|++||..+|+-..| ...||++...+|..=.+.+..+.|+.|+. |+.--++. -...|+ .||||-|
T Consensus 19 ev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~g--v~~gstLy-~kDLGp-Qi~wrtV 92 (308)
T PLN02560 19 EVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYG--LGDGGTVV-FKDLGP-QVSYRTL 92 (308)
T ss_pred EcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcC--CCCCceEE-EEeCCC-cCchhhh
Confidence 78999999999999998776 34555554445554456666777877752 22221222 223444 5999876
No 51
>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=75.46 E-value=12 Score=24.36 Aligned_cols=51 Identities=20% Similarity=0.345 Sum_probs=39.7
Q ss_pred CCCCCCCHHHHHHhhhhhcCC---eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 44 DVPKKPTLSDVDTLISLEMGS---AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 44 DlP~~vT~~Ev~s~Iale~Gq---Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
-+|+++|.+++.+.|+-.++. .++|.-.-.||..++ +. +=.||..|++.+-
T Consensus 16 ~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~--l~---sd~Dl~~a~~~~~ 69 (81)
T smart00666 16 SVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVS--LT---SDEDLEEAIEEYD 69 (81)
T ss_pred EECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEE--ec---CHHHHHHHHHHHH
Confidence 488999999999999999988 588888866676332 32 2459999998765
No 52
>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=75.17 E-value=13 Score=24.16 Aligned_cols=36 Identities=14% Similarity=0.198 Sum_probs=25.5
Q ss_pred EEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 67 RISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 67 ~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
++.+.-.++....+.++++.|..+|+..|+..|...
T Consensus 3 ~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~ 38 (84)
T PF00564_consen 3 RVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLL 38 (84)
T ss_dssp EEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTS
T ss_pred EEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCC
Confidence 444444444444578888889999999999988663
No 53
>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=72.02 E-value=22 Score=23.29 Aligned_cols=41 Identities=20% Similarity=0.230 Sum_probs=35.9
Q ss_pred cCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 62 MGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 62 ~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
.....+|.|+=-||+.+.-....+.||.+|..-|+......
T Consensus 3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~ 43 (82)
T PF00789_consen 3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSP 43 (82)
T ss_dssp TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCT
T ss_pred CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCC
Confidence 35678999999999999999999999999999998887543
No 54
>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=71.58 E-value=15 Score=24.31 Aligned_cols=34 Identities=24% Similarity=0.259 Sum_probs=28.4
Q ss_pred EEEEcCC---CceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 68 ISILKLD---GTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 68 l~V~k~D---gs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
|.|-..| +++-.|.|+.++|..|+=+++.++|..
T Consensus 2 ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~k~~l 38 (87)
T cd01768 2 LRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLKKFGL 38 (87)
T ss_pred EEEeCCcCCCccEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 4555666 888999999999999999999888854
No 55
>smart00360 RRM RNA recognition motif.
Probab=71.55 E-value=17 Score=20.84 Aligned_cols=55 Identities=16% Similarity=0.288 Sum_probs=37.9
Q ss_pred ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCC--ceeeEEEeCCCcHHHHHHHHHH
Q 033077 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLDG--TSFDVAVMNSATVKDLKLAIKK 97 (128)
Q Consensus 42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dg--s~~~VvV~~~ATV~dLKkAI~~ 97 (128)
++.||..+|-++|...+. .+|.-..+.+.+... .+.......=.|..+.++|++.
T Consensus 1 i~~l~~~~~~~~l~~~f~-~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~ 57 (71)
T smart00360 1 VGNLPPDVTEEELRELFS-KFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEA 57 (71)
T ss_pred CCCCCcccCHHHHHHHHH-hhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHH
Confidence 367899999999999887 788777777776532 2222233333667788888753
No 56
>COG4829 CatC1 Muconolactone delta-isomerase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=70.50 E-value=4.2 Score=30.02 Aligned_cols=39 Identities=18% Similarity=0.020 Sum_probs=29.5
Q ss_pred ceeeEEEeCC--CcHHHHHHHHHHHHhhhhhhcCCceeeecccccc
Q 033077 76 TSFDVAVMNS--ATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIA 119 (128)
Q Consensus 76 s~~~VvV~~~--ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW~ 119 (128)
.+++|.||-+ |-+.+=-+|=++..+..+|++| +|+++|+
T Consensus 5 v~Mtv~~PdsMdad~~er~~A~Eka~s~~Lq~~G-----~~~~lWR 45 (98)
T COG4829 5 VTMTVRVPDSMDADAVERVRAREKARSRELQAQG-----KLLRLWR 45 (98)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHHHHHHHHHhcc-----hHHHHHh
Confidence 3578888765 7777777888888888888765 5777775
No 57
>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=70.28 E-value=22 Score=23.72 Aligned_cols=35 Identities=20% Similarity=0.206 Sum_probs=28.6
Q ss_pred EEEEEcCC---CceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 67 RISILKLD---GTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 67 ~l~V~k~D---gs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.|.|-..| ++.-.|-|..++|+.|+=+++.++|..
T Consensus 4 ~lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l 41 (90)
T smart00314 4 VLRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHL 41 (90)
T ss_pred EEEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 34455556 889999999999999999999888864
No 58
>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=69.27 E-value=12 Score=24.51 Aligned_cols=33 Identities=21% Similarity=0.469 Sum_probs=27.1
Q ss_pred CCHHHHHHhh-hhhcCCeeEEEEEcCCCceeeEEE
Q 033077 49 PTLSDVDTLI-SLEMGSAMRISILKLDGTSFDVAV 82 (128)
Q Consensus 49 vT~~Ev~s~I-ale~GqAm~l~V~k~Dgs~~~VvV 82 (128)
-+..++...| ....|+.++|+|.| +|..+.+.|
T Consensus 47 ~~~~~~~~~l~~~~~g~~v~l~v~R-~g~~~~~~v 80 (82)
T PF13180_consen 47 NSSEDLVNILSKGKPGDTVTLTVLR-DGEELTVEV 80 (82)
T ss_dssp SSHHHHHHHHHCSSTTSEEEEEEEE-TTEEEEEEE
T ss_pred CCHHHHHHHHHhCCCCCEEEEEEEE-CCEEEEEEE
Confidence 4678888888 78999999999999 666666655
No 59
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=66.23 E-value=7.2 Score=34.47 Aligned_cols=38 Identities=24% Similarity=0.333 Sum_probs=32.3
Q ss_pred eCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccccceeeecCC
Q 033077 83 MNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAPSIQSCSS 127 (128)
Q Consensus 83 ~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW~~fcL~f~~ 127 (128)
++++.|.|||.++++ ++-.+-.|||+--.+...|-|.|
T Consensus 339 ~rd~rv~dlk~~lr~-------~~~~pm~iswkg~~~k~flh~~~ 376 (396)
T KOG4410|consen 339 SRDIRVKDLKSELRK-------RECTPMSISWKGHFGKCFLHFGN 376 (396)
T ss_pred ccccchHHHHHHHHh-------cCCCceeEeeecCCcceeEecCC
Confidence 789999999999864 56779999999888888888876
No 60
>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=66.19 E-value=19 Score=23.66 Aligned_cols=34 Identities=15% Similarity=0.235 Sum_probs=30.2
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
.+|.|+=-||+.+....+.++||.+|...|+.+-
T Consensus 3 t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~ 36 (77)
T cd01767 3 TKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNG 36 (77)
T ss_pred EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcC
Confidence 5788888999999999999999999999998653
No 61
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=63.05 E-value=13 Score=29.56 Aligned_cols=35 Identities=20% Similarity=0.464 Sum_probs=30.9
Q ss_pred eEEEEEcCCC----ceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 66 MRISILKLDG----TSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 66 m~l~V~k~Dg----s~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
|.|.|.-+|| .++.+.+|.++||.+|+..|.....
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~ 39 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLP 39 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcC
Confidence 5688889999 7889999999999999999988763
No 62
>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=62.94 E-value=22 Score=22.91 Aligned_cols=28 Identities=25% Similarity=0.292 Sum_probs=23.3
Q ss_pred CCceeeEEEe-CCCcHHHHHHHHHHHHhh
Q 033077 74 DGTSFDVAVM-NSATVKDLKLAIKKKVND 101 (128)
Q Consensus 74 Dgs~~~VvV~-~~ATV~dLKkAI~~~~~~ 101 (128)
.|....+.++ .++|..+|+..|...|..
T Consensus 8 ~~~~~~~~~~~~~~s~~~L~~~i~~~~~~ 36 (81)
T cd05992 8 GGEIRRFVVVSRSISFEDLRSKIAEKFGL 36 (81)
T ss_pred cCCCEEEEEecCCCCHHHHHHHHHHHhCC
Confidence 3567777887 899999999999999965
No 63
>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=62.85 E-value=23 Score=25.43 Aligned_cols=36 Identities=11% Similarity=0.233 Sum_probs=32.7
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
+.++|.....+.+..-|....+|+.||--|++-...
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~ 36 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNC 36 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCc
Confidence 468999999999999999999999999999998854
No 64
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=62.19 E-value=27 Score=23.77 Aligned_cols=35 Identities=23% Similarity=0.173 Sum_probs=31.2
Q ss_pred eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
..+|-|+=.||+.+.-....+.||.+|...|..+.
T Consensus 4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~ 38 (79)
T cd01770 4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNAR 38 (79)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhC
Confidence 46788888999999999999999999999998764
No 65
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=61.81 E-value=27 Score=23.17 Aligned_cols=33 Identities=18% Similarity=0.196 Sum_probs=30.5
Q ss_pred CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHH
Q 033077 63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAI 95 (128)
Q Consensus 63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI 95 (128)
|...+|.|+=-||+.+....+.+.||.+|...|
T Consensus 2 ~~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v 34 (80)
T smart00166 2 SDQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFV 34 (80)
T ss_pred CCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHH
Confidence 467899999999999999999999999999999
No 66
>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=59.82 E-value=31 Score=25.11 Aligned_cols=45 Identities=13% Similarity=0.168 Sum_probs=34.8
Q ss_pred hhhhcCCeeEEEEEcCCCceee------EEEeCCCcHHHHHHHHHHHHhhh
Q 033077 58 ISLEMGSAMRISILKLDGTSFD------VAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 58 Iale~GqAm~l~V~k~Dgs~~~------VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
|.-.+-..+=|.|.|..++.++ .-||.+.||.|+...|++.+.+.
T Consensus 9 ir~kyP~~IPVIvEr~~~s~lp~ldk~KfLvp~~~tv~qf~~~ir~rl~l~ 59 (104)
T PF02991_consen 9 IREKYPDKIPVIVERYPKSKLPDLDKKKFLVPKDLTVGQFVYIIRKRLQLS 59 (104)
T ss_dssp HHHHSTTEEEEEEEE-TTSSS---SSSEEEEETTSBHHHHHHHHHHHTT--
T ss_pred HHHHCCCccEEEEEEccCCChhhcCccEEEEcCCCchhhHHHHhhhhhcCC
Confidence 5566778888999998887754 45899999999999999999764
No 67
>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=59.75 E-value=33 Score=23.09 Aligned_cols=35 Identities=23% Similarity=0.372 Sum_probs=31.2
Q ss_pred CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077 64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
...+|.|+=.||+.+....+.+.|+.++...|+.+
T Consensus 3 ~~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~ 37 (79)
T cd01772 3 TETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELN 37 (79)
T ss_pred cEEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHc
Confidence 45789999999999999999999999999999854
No 68
>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=59.64 E-value=43 Score=21.68 Aligned_cols=53 Identities=19% Similarity=0.347 Sum_probs=42.3
Q ss_pred cCCCCCCCHHHHHHhhhhhcCC---eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 43 ADVPKKPTLSDVDTLISLEMGS---AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 43 ~DlP~~vT~~Ev~s~Iale~Gq---Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
-.+|.++|.+++...|+-.+|. .++|.-.-.||..++| .+=.||..|++.+-.
T Consensus 16 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i-----~sd~Dl~~a~~~~~~ 71 (84)
T PF00564_consen 16 ISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTI-----SSDEDLQEAIEQAKE 71 (84)
T ss_dssp EEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEE-----SSHHHHHHHHHHHHH
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEe-----CCHHHHHHHHHHHHh
Confidence 4688999999999999999988 6888888778865555 345789999987764
No 69
>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=59.29 E-value=26 Score=23.81 Aligned_cols=26 Identities=23% Similarity=0.273 Sum_probs=21.2
Q ss_pred ceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 76 TSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 76 s~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
-..+..++.+.||.+||..+++.|..
T Consensus 13 ~~~ekr~~~~~Tv~~lK~kl~~~~G~ 38 (84)
T cd01789 13 FSFEKKYSRGLTIAELKKKLELVVGT 38 (84)
T ss_pred eeeeEecCCCCcHHHHHHHHHHHHCC
Confidence 34455589999999999999999844
No 70
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=58.60 E-value=47 Score=28.48 Aligned_cols=60 Identities=23% Similarity=0.310 Sum_probs=46.1
Q ss_pred cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
++..||..+|-++|..+.+ .+|.-..+.|.+. .+.+--.....=++..+..+||+..-..
T Consensus 197 fV~nLp~~vtee~L~~~F~-~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~ 258 (346)
T TIGR01659 197 YVTNLPRTITDDQLDTIFG-KYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNV 258 (346)
T ss_pred EEeCCCCcccHHHHHHHHH-hcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCC
Confidence 5668999999999998874 7888777777765 4555455666778999999999976543
No 71
>PRK07570 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated
Probab=55.99 E-value=25 Score=28.93 Aligned_cols=47 Identities=9% Similarity=0.309 Sum_probs=34.0
Q ss_pred eEEEEEcCCC-------ceeeEE-EeCCCcHHHHHHHHHHHHhhhhhhcCCceeeecccc
Q 033077 66 MRISILKLDG-------TSFDVA-VMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVF 117 (128)
Q Consensus 66 m~l~V~k~Dg-------s~~~Vv-V~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~V 117 (128)
|++.|.|.|+ ..|.|. +....||+|+=..|+..... .+...|||++-
T Consensus 3 ~~~~i~R~~~~~~~~~~q~y~v~~~~~~~tvLd~L~~Ik~~~~~-----~~~~~l~fr~s 57 (250)
T PRK07570 3 LTLKIWRQKGPDDKGKFETYEVDDISPDMSFLEMLDVLNEQLIE-----KGEEPVAFDHD 57 (250)
T ss_pred EEEEEEecCCCCCCceeEEEEecCCCCCCcHHHHHHHHHHHhhc-----cCCCCeeEecc
Confidence 6889999873 347887 67889999999999776521 22224888763
No 72
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=54.34 E-value=39 Score=19.88 Aligned_cols=32 Identities=31% Similarity=0.426 Sum_probs=27.6
Q ss_pred EEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 68 ISILKLDGTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 68 l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
+.+..+.|..+.+.|....+|..+|.-|+...
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~ 33 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKE 33 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhc
Confidence 35666899999999999999999998888775
No 73
>cd00988 PDZ_CTP_protease PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=54.34 E-value=41 Score=21.45 Aligned_cols=35 Identities=26% Similarity=0.430 Sum_probs=26.9
Q ss_pred CCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEe
Q 033077 49 PTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVM 83 (128)
Q Consensus 49 vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~ 83 (128)
.+..++...+.=..|..++|+|.|.+|..+.+.|.
T Consensus 48 ~~~~~~~~~l~~~~~~~i~l~v~r~~~~~~~~~~~ 82 (85)
T cd00988 48 LSLEDVVKLLRGKAGTKVRLTLKRGDGEPREVTLT 82 (85)
T ss_pred CCHHHHHHHhcCCCCCEEEEEEEcCCCCEEEEEEE
Confidence 34578877775556899999999987888887764
No 74
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=53.80 E-value=42 Score=19.35 Aligned_cols=56 Identities=21% Similarity=0.299 Sum_probs=39.6
Q ss_pred cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCc-eeeEEEeCCCcHHHHHHHHHH
Q 033077 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGT-SFDVAVMNSATVKDLKLAIKK 97 (128)
Q Consensus 41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs-~~~VvV~~~ATV~dLKkAI~~ 97 (128)
.+++||..+|-++|...++- +|.-..+.+.+.... ........=.|..+.+.|++.
T Consensus 3 ~i~~l~~~~~~~~i~~~~~~-~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~ 59 (74)
T cd00590 3 FVGNLPPDVTEEDLRELFSK-FGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEA 59 (74)
T ss_pred EEeCCCCccCHHHHHHHHHh-cCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHH
Confidence 36789999999999998877 488888888876532 122222333467788888764
No 75
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=53.58 E-value=15 Score=28.16 Aligned_cols=34 Identities=29% Similarity=0.437 Sum_probs=30.8
Q ss_pred eEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 66 MRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
|.+.|.++-|.++.|.|..+-||.-+|.-|+++-
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~ 34 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKE 34 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhcccc
Confidence 4678899999999999999999999999998865
No 76
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=52.98 E-value=34 Score=22.60 Aligned_cols=25 Identities=12% Similarity=0.118 Sum_probs=19.8
Q ss_pred CceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 75 GTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 75 gs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
-....+.++.++||.+|.+.+...+
T Consensus 18 ~~~~~~~~~~~~tv~~L~~~l~~~~ 42 (82)
T PLN02799 18 VSDMTLELPAGSTTADCLAELVAKF 42 (82)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHC
Confidence 3556777888999999999986654
No 77
>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]
Probab=50.07 E-value=21 Score=28.87 Aligned_cols=39 Identities=15% Similarity=0.307 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhhhcCCccc-----------CCCCCCCHHHHHHhhhhhc
Q 033077 24 MKKARLHSTLTALLDDPILA-----------DVPKKPTLSDVDTLISLEM 62 (128)
Q Consensus 24 ~~~~~~~~~L~~ll~DplL~-----------DlP~~vT~~Ev~s~Iale~ 62 (128)
.+++--+.+|.+|++||.++ |+|....+.||...+.||.
T Consensus 98 dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe~ 147 (180)
T KOG0071|consen 98 DRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELER 147 (180)
T ss_pred hhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhcccc
Confidence 56788889999999998775 4788889999999998885
No 78
>PRK06598 aspartate-semialdehyde dehydrogenase; Reviewed
Probab=49.39 E-value=34 Score=29.99 Aligned_cols=65 Identities=8% Similarity=0.198 Sum_probs=45.4
Q ss_pred hcccCchhHHHHHHHHHHHhhhcCCcccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHH
Q 033077 16 VGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAI 95 (128)
Q Consensus 16 ~~~~~~~~~~~~~~~~~L~~ll~DplL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI 95 (128)
...|+.+|.||.. +.+.||++. -.+|+ + -....|+=|.+.-..++.|...+..|+.+++.++
T Consensus 235 ~~g~t~EE~K~~~---EtrKIL~~~-~~~l~-------------v-s~tcVRVPV~~gHs~sv~ve~~~~~~~~~i~~~L 296 (369)
T PRK06598 235 GNGQSREEWKGQA---ETNKILGLT-KNPIP-------------V-DGLCVRVGAMRCHSQALTIKLKKDVPLAEIEEIL 296 (369)
T ss_pred cCCchHHHHHHHH---HHHHHhCCC-CCCCe-------------E-EEEEEEcceeccEEEEEEEEECCCCCHHHHHHHH
Confidence 3567888887654 888998651 01111 1 2345666667666777788889999999999999
Q ss_pred HHH
Q 033077 96 KKK 98 (128)
Q Consensus 96 ~~~ 98 (128)
+..
T Consensus 297 ~~~ 299 (369)
T PRK06598 297 AAH 299 (369)
T ss_pred Hhc
Confidence 974
No 79
>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=49.02 E-value=52 Score=20.60 Aligned_cols=32 Identities=9% Similarity=0.309 Sum_probs=24.4
Q ss_pred CHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEE
Q 033077 50 TLSDVDTLISLEMGSAMRISILKLDGTSFDVAV 82 (128)
Q Consensus 50 T~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV 82 (128)
+.+++..+++-..|..+.+++.|. |..+.+.+
T Consensus 46 ~~~~~~~~l~~~~~~~~~l~v~r~-~~~~~~~l 77 (79)
T cd00989 46 SWEDLVDAVQENPGKPLTLTVERN-GETITLTL 77 (79)
T ss_pred CHHHHHHHHHHCCCceEEEEEEEC-CEEEEEEe
Confidence 568888888777789999999884 45566654
No 80
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=48.75 E-value=94 Score=25.02 Aligned_cols=59 Identities=22% Similarity=0.306 Sum_probs=44.1
Q ss_pred cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCC--CceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLD--GTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~D--gs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
++..||..+|.++|..+.. .+|.-.++.+.+.. +.+--+....=.+..+-++||+..=.
T Consensus 93 ~v~~l~~~~~~~~l~~~f~-~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g 153 (352)
T TIGR01661 93 YVSGLPKTMTQHELESIFS-PFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNG 153 (352)
T ss_pred EECCccccCCHHHHHHHHh-ccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCC
Confidence 4568999999999988875 67888888887654 33334445566889999999986543
No 81
>PRK06728 aspartate-semialdehyde dehydrogenase; Provisional
Probab=48.42 E-value=37 Score=29.41 Aligned_cols=62 Identities=18% Similarity=0.373 Sum_probs=40.2
Q ss_pred cccCchhHHHHHHHHHHHhhhcCCcccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHH
Q 033077 17 GDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIK 96 (128)
Q Consensus 17 ~~~~~~~~~~~~~~~~L~~ll~DplL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~ 96 (128)
..|+.+|.|+.. +.+.||++| +++ + .....|+=|.+.-..++.|...+..++.+++.|++
T Consensus 215 ~g~t~EE~K~~~---E~~KIL~~~---~l~-------------V-satcvRVPV~~gHs~sv~ve~~~~~~~~~~~~~l~ 274 (347)
T PRK06728 215 NDFTFEEVKMIQ---ETKKILEDP---NLK-------------M-AATCVRVPVISGHSESVYIELEKEATVAEIKEVLF 274 (347)
T ss_pred CCccHHHHHHHH---HHHHHhCCC---CCc-------------E-EEEEEecceeccEEEEEEEEECCCCCHHHHHHHHH
Confidence 457888887554 899999765 222 1 12234444444444555555678999999999997
Q ss_pred HH
Q 033077 97 KK 98 (128)
Q Consensus 97 ~~ 98 (128)
..
T Consensus 275 ~~ 276 (347)
T PRK06728 275 DA 276 (347)
T ss_pred cC
Confidence 53
No 82
>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=48.38 E-value=64 Score=23.67 Aligned_cols=49 Identities=12% Similarity=0.201 Sum_probs=35.8
Q ss_pred HHHHhhhhhcCCeeEEEEEcCCCceee------EEEeCCCcHHHHHHHHHHHHhhh
Q 033077 53 DVDTLISLEMGSAMRISILKLDGTSFD------VAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 53 Ev~s~Iale~GqAm~l~V~k~Dgs~~~------VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
|....+ -.+...+=|.|.|...+.+| ..||.+.||.++...|++.+.+.
T Consensus 13 e~~~ir-~kyp~~iPVIvE~~~~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~ 67 (112)
T cd01611 13 EVERIR-AKYPDRIPVIVERYPKSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLR 67 (112)
T ss_pred HHHHHH-HHCCCceEEEEEEcCCCCcccccCceEEecCCCCHHHHHHHHHHHhCCC
Confidence 444433 36777788888877665543 36899999999999999988654
No 83
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=48.24 E-value=72 Score=27.35 Aligned_cols=56 Identities=25% Similarity=0.334 Sum_probs=39.8
Q ss_pred cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcC--CCceeeEEEeCCCcHHHHHHHHHH
Q 033077 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSFDVAVMNSATVKDLKLAIKK 97 (128)
Q Consensus 41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~--Dgs~~~VvV~~~ATV~dLKkAI~~ 97 (128)
+..+||.++|-++|..+.+ .+|.-..+.|.+. .+.+.-.....=+|..+-++||+.
T Consensus 111 fVgnLp~~~te~~L~~lF~-~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~ 168 (346)
T TIGR01659 111 IVNYLPQDMTDRELYALFR-TIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKN 168 (346)
T ss_pred EEeCCCCCCCHHHHHHHHH-hcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHH
Confidence 4568999999999999987 5788777777654 333322333344788888899875
No 84
>TIGR01745 asd_gamma aspartate-semialdehyde dehydrogenase, gamma-proteobacterial.
Probab=46.98 E-value=37 Score=29.81 Aligned_cols=64 Identities=14% Similarity=0.290 Sum_probs=46.7
Q ss_pred hcccCchhHHHHHHHHHHHhhhcCCcccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHH
Q 033077 16 VGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAI 95 (128)
Q Consensus 16 ~~~~~~~~~~~~~~~~~L~~ll~DplL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI 95 (128)
...|+.+|.|+.. +.+.||++. .+||- -....|+=|.+.-..++.|...+..++.+++.++
T Consensus 234 ~~g~t~EE~K~~~---EtrKILg~~--~~l~V--------------saTcVRVPV~~gHs~sv~ve~~~~vs~e~i~~~L 294 (366)
T TIGR01745 234 DNGQSREEWKGQA---ETNKILGTS--STIPV--------------DGLCVRIGALRCHSQAFTIKLKKDVSLETIEEII 294 (366)
T ss_pred CCCCcHHHHHHHH---HHHHHhCCC--CCCcE--------------EEEEEecceeccEEEEEEEEECCCCCHHHHHHHH
Confidence 3568888888654 899999763 12331 2345666677777777788889999999999999
Q ss_pred HHH
Q 033077 96 KKK 98 (128)
Q Consensus 96 ~~~ 98 (128)
+..
T Consensus 295 ~~~ 297 (366)
T TIGR01745 295 RAH 297 (366)
T ss_pred HhC
Confidence 874
No 85
>PF04073 tRNA_edit: Aminoacyl-tRNA editing domain; InterPro: IPR007214 This domain of unknown function is found in numerous prokaryote organisms. The structure of YbaK shows a novel fold. This domain also occurs in a number of prolyl-tRNA synthetases (proRS) from prokaryotes. Thus, the domain is thought to be involved in oligonucleotide binding, with possible roles in recognition/discrimination or editing of prolyl-tRNA [].; PDB: 3MEM_A 2J3L_A 2J3M_A 1WDV_B 2Z0X_A 2Z0K_A 2CX5_C 1DBX_B 1DBU_A 1VJF_A ....
Probab=46.11 E-value=39 Score=23.60 Aligned_cols=51 Identities=20% Similarity=0.270 Sum_probs=36.7
Q ss_pred CCCCCHHHHHHhhhhhcCCeeEEEEEcC-CCceeeEEEeCCCcH--HHHHHHHH
Q 033077 46 PKKPTLSDVDTLISLEMGSAMRISILKL-DGTSFDVAVMNSATV--KDLKLAIK 96 (128)
Q Consensus 46 P~~vT~~Ev~s~Iale~GqAm~l~V~k~-Dgs~~~VvV~~~ATV--~dLKkAI~ 96 (128)
|+-.|++|+-..+.+..++-.+-.|.+. ++..+-|+++.+..| .-|++++.
T Consensus 2 ~~~~t~~~~a~~~~~~~~~~~Ktlv~~~~~~~~~lv~~~~d~~ld~~kl~~~~g 55 (123)
T PF04073_consen 2 PPTRTIEDAAKALGVPPEQIVKTLVLKDKKGRPVLVVLPGDHRLDLKKLAKALG 55 (123)
T ss_dssp TTTSSHHHHHHHHTCSGGGEEEEEEEEETTTEEEEEEEETTSEB-HHHHHHHHT
T ss_pred cCCCcHHHHHHHcCCCHHHEEEEEEEEECCCCEEEEEECCCCEecHHHHhcccc
Confidence 6778999999999999999999999996 445555555555433 34444443
No 86
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=45.54 E-value=26 Score=26.51 Aligned_cols=37 Identities=14% Similarity=0.069 Sum_probs=26.2
Q ss_pred eeEEEEEcCC-Cc--eeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 65 AMRISILKLD-GT--SFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 65 Am~l~V~k~D-gs--~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
+.+|.|.=.+ .. -=.|.||.+.|+.+|=.+|+..|.-
T Consensus 4 ~y~lkV~L~~~~p~iwRri~Vp~~~tl~~Lh~~Iq~afgw 43 (179)
T PF07929_consen 4 VYQLKVSLKGSKPPIWRRIEVPADITLADLHEVIQAAFGW 43 (179)
T ss_dssp EEEEEEEETT-SS-EEEEEEEETT-BHHHHHHHHHHHTT-
T ss_pred EEEEEEEEcCCCCCeEEEEEECCCCCHHHHHHHHHHHhCc
Confidence 4566664333 22 3388999999999999999999954
No 87
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=45.32 E-value=34 Score=24.94 Aligned_cols=30 Identities=17% Similarity=0.125 Sum_probs=25.4
Q ss_pred CCCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 73 LDGTSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 73 ~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
.+...+...|..+||=.|+|+||+..|+-.
T Consensus 19 ~~~nk~vF~V~~~AtK~~IK~AvE~lF~Vk 48 (94)
T COG0089 19 EKENKYVFIVDPDATKPEIKAAVEELFGVK 48 (94)
T ss_pred hhCCEEEEEECCCCCHHHHHHHHHHHhCCe
Confidence 345678888999999999999999999644
No 88
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=45.21 E-value=82 Score=27.67 Aligned_cols=56 Identities=14% Similarity=0.188 Sum_probs=43.1
Q ss_pred ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCC--ceeeEEEeCCCcHHHHHHHHHHH
Q 033077 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLDG--TSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dg--s~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
..+||.++|-++|.... -.+|.-..|.|+|... .+.-.....=.+..|-.+||+..
T Consensus 5 VgnLp~~vte~~L~~~F-~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~l 62 (562)
T TIGR01628 5 VGDLDPDVTEAKLYDLF-KPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETM 62 (562)
T ss_pred EeCCCCCCCHHHHHHHH-HhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHh
Confidence 56899999999998765 4778888899988754 44455555668888999999753
No 89
>cd04334 ProRS-INS INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and single-celled parasites. ProRS catalyzes the attachment of proline to tRNA(Pro); proline is first activated by ATP, and then transferred to the acceptor end of tRNA(Pro). ProRS can inadvertently process noncognate amino acids such as alanine and cysteine, and to avoid such errors, in post-transfer editing, the INS domain deacylates mischarged Ala-tRNA(Pro), thus ensuring the fidelity of translation. Misacylated Cys-tRNA(Pro) is not edited by ProRS. In addition to the INS editing domain, the prokaryote-like ProRS protein contains catalytic and anticodon-binding domains which form a dimeric interface.
Probab=45.14 E-value=54 Score=24.24 Aligned_cols=54 Identities=11% Similarity=0.234 Sum_probs=38.7
Q ss_pred CCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCC--ceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 44 DVPKKPTLSDVDTLISLEMGSAMRISILKLDG--TSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 44 DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dg--s~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
+-|+..|.+|+...+.+..++..+--+.+.++ ..+=++++.+. =.++|+ +++.+
T Consensus 31 ~hp~~~t~~~~a~~~~~~~~~~~K~l~~~~~~~~~~~l~~~~~d~-~vd~~k-l~~~~ 86 (160)
T cd04334 31 ATPGQKTIEELAEFLGVPPSQTVKTLLVKADGEEELVAVLLRGDH-ELNEVK-LENLL 86 (160)
T ss_pred cCcCCCCHHHHHHHhCcCHHHeEEEEEEEECCCCCEEEEEecCCc-hhCHHH-HHHhc
Confidence 56788999999999999999988888888877 44444445544 445555 45544
No 90
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=45.00 E-value=27 Score=24.35 Aligned_cols=24 Identities=17% Similarity=0.281 Sum_probs=18.5
Q ss_pred eeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 78 FDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 78 ~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
+++.|+.+||+.|+|.-+=+....
T Consensus 2 i~l~~~~~~Tl~~iK~~lw~~A~~ 25 (78)
T PF02192_consen 2 IPLRVSRDATLSEIKEELWEEAKK 25 (78)
T ss_dssp EEEEEETT-BHHHHHHHHHHHGGG
T ss_pred eEEEccCcCcHHHHHHHHHHHHHh
Confidence 678999999999999977655543
No 91
>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=44.61 E-value=19 Score=25.00 Aligned_cols=17 Identities=24% Similarity=0.210 Sum_probs=15.5
Q ss_pred eCCCcHHHHHHHHHHHH
Q 033077 83 MNSATVKDLKLAIKKKV 99 (128)
Q Consensus 83 ~~~ATV~dLKkAI~~~~ 99 (128)
|-++||.+||+.|+..+
T Consensus 18 ~~~~TV~~LK~kI~~~~ 34 (75)
T cd01815 18 PGGYQVSTLKQLIAAQL 34 (75)
T ss_pred CccCcHHHHHHHHHHhh
Confidence 67899999999999886
No 92
>CHL00030 rpl23 ribosomal protein L23
Probab=43.58 E-value=36 Score=24.42 Aligned_cols=27 Identities=15% Similarity=0.111 Sum_probs=23.8
Q ss_pred CceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 75 GTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 75 gs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
...+...|..+||=.|.|+||+..|.-
T Consensus 19 ~n~y~F~V~~~anK~eIK~avE~lf~V 45 (93)
T CHL00030 19 KNQYTFDVDSGSTKTEIKHWIELFFGV 45 (93)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 457888999999999999999999943
No 93
>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=43.34 E-value=44 Score=22.73 Aligned_cols=33 Identities=18% Similarity=0.401 Sum_probs=27.8
Q ss_pred CCCCCCHHHHHHhhhhhcCC---eeEEEEEcCCCce
Q 033077 45 VPKKPTLSDVDTLISLEMGS---AMRISILKLDGTS 77 (128)
Q Consensus 45 lP~~vT~~Ev~s~Iale~Gq---Am~l~V~k~Dgs~ 77 (128)
+|+..|+.++...|....|- .|+|.+...++..
T Consensus 19 ~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~ 54 (84)
T cd01789 19 YSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKL 54 (84)
T ss_pred cCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCe
Confidence 89999999999999888874 6999887776554
No 94
>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=42.57 E-value=20 Score=25.76 Aligned_cols=22 Identities=27% Similarity=0.403 Sum_probs=18.0
Q ss_pred eeEEE--eCCCcHHHHHHHHHHHH
Q 033077 78 FDVAV--MNSATVKDLKLAIKKKV 99 (128)
Q Consensus 78 ~~VvV--~~~ATV~dLKkAI~~~~ 99 (128)
+++.| +++.||..||+.|+...
T Consensus 14 l~L~I~~~~~~Tv~~LK~lIR~~~ 37 (97)
T PF10302_consen 14 LPLDIPSPNTTTVAWLKQLIRERL 37 (97)
T ss_pred ceeecCCCCcccHHHHHHHHHhhc
Confidence 44444 48999999999999887
No 95
>TIGR03221 muco_delta muconolactone delta-isomerase. Members of this protein family are muconolactone delta-isomerase (EC 5.3.3.4), the CatC protein of the ortho cleavage pathway for metabolizing aromatic compounds by way of catechol.
Probab=42.57 E-value=32 Score=24.97 Aligned_cols=38 Identities=16% Similarity=0.170 Sum_probs=22.0
Q ss_pred eeeEEEeCCCc---HHHHHHHHHHHHhhhhhhcCCceeeeccccccc
Q 033077 77 SFDVAVMNSAT---VKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAP 120 (128)
Q Consensus 77 ~~~VvV~~~AT---V~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW~~ 120 (128)
.|+|.+|.+.. +.++|.. ++..+.-.|++| -|+|+|+-
T Consensus 5 ~m~V~~P~~~~~~~~~~i~a~-Eka~a~eLq~~G-----k~~~lWRv 45 (90)
T TIGR03221 5 RMDVNLPVDMPAEKAAAIKAR-EKAYAQELQREG-----KWRHLWRV 45 (90)
T ss_pred EEEeeCCCCCCHHHHHHHHHH-HHHHHHHHHhCC-----ceEEEEEe
Confidence 57888888744 3444443 444444455544 37777763
No 96
>PRK00140 rplK 50S ribosomal protein L11; Validated
Probab=41.78 E-value=47 Score=25.38 Aligned_cols=67 Identities=13% Similarity=0.051 Sum_probs=43.2
Q ss_pred HHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccc
Q 033077 52 SDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFI 118 (128)
Q Consensus 52 ~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW 118 (128)
+|++...+--.|-.+++.|.--++.+|++.|....|-.=||+|..-.--.......--..||..+|.
T Consensus 40 k~fN~~T~~~~g~~vpV~i~v~~drsf~~~v~~Pp~s~ll~k~~g~~~gs~~p~~~~vG~it~~~v~ 106 (141)
T PRK00140 40 KAFNARTQDQKGLPIPVVITVYEDRSFTFITKTPPASVLLKKAAGIEKGSGEPNKEKVGKITRAQVR 106 (141)
T ss_pred HHHHHHHhhcCCCeEEEEEEEecCCeEEEEEcCCCHHHHHHHHhCCCCCCCCCCCeEEeeEcHHHHH
Confidence 5555555555688888877777778999999777777778888764432221212223556666653
No 97
>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=41.22 E-value=49 Score=23.44 Aligned_cols=27 Identities=11% Similarity=0.204 Sum_probs=21.9
Q ss_pred eeeEEEeCCCcHHHHHHHHHHHHhhhh
Q 033077 77 SFDVAVMNSATVKDLKLAIKKKVNDME 103 (128)
Q Consensus 77 ~~~VvV~~~ATV~dLKkAI~~~~~~~~ 103 (128)
++.+.|++.++..+|...|..++.+..
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~ 34 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQA 34 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCCh
Confidence 445556889999999999999997653
No 98
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. 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, f
Probab=41.02 E-value=1.1e+02 Score=21.86 Aligned_cols=48 Identities=17% Similarity=0.287 Sum_probs=36.8
Q ss_pred CCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077 45 VPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 45 lP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
.|..+-.+||..-..-++||.|.+.----. ..||- -+=.||-+||+-.
T Consensus 16 f~RPvkf~dl~~kv~~afGq~mdl~ytn~e-----L~iPl-~~Q~DLDkAie~l 63 (79)
T cd06405 16 FPRPVKFKDLQQKVTTAFGQPMDLHYTNNE-----LLIPL-KNQEDLDRAIELL 63 (79)
T ss_pred cCCCccHHHHHHHHHHHhCCeeeEEEeccc-----EEEec-cCHHHHHHHHHHH
Confidence 678899999999999999999999875433 33332 3457999999753
No 99
>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=40.61 E-value=37 Score=25.59 Aligned_cols=35 Identities=20% Similarity=0.181 Sum_probs=27.0
Q ss_pred eeEEEEEcCCCcee-eEEEeCCCcHHHHHHHHHHHH
Q 033077 65 AMRISILKLDGTSF-DVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 65 Am~l~V~k~Dgs~~-~VvV~~~ATV~dLKkAI~~~~ 99 (128)
.+-|..+=-||+-+ |--+..++||++||+.|+...
T Consensus 4 ~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~ 39 (113)
T cd01814 4 QIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQW 39 (113)
T ss_pred cEEEEEEccCCCccCccccChhhHHHHHHHHHHHhc
Confidence 34566666788555 667789999999999998765
No 100
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=39.48 E-value=77 Score=20.27 Aligned_cols=26 Identities=23% Similarity=0.350 Sum_probs=21.9
Q ss_pred CCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 73 LDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 73 ~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
-||+..+ +++.+|+.|+-++|-.-+.
T Consensus 6 pdG~~~~--~~~g~T~~d~A~~I~~~l~ 31 (60)
T PF02824_consen 6 PDGSIKE--LPEGSTVLDVAYSIHSSLA 31 (60)
T ss_dssp TTSCEEE--EETTBBHHHHHHHHSHHHH
T ss_pred CCCCeee--CCCCCCHHHHHHHHCHHHH
Confidence 6888877 8999999999998877663
No 101
>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=38.79 E-value=92 Score=19.90 Aligned_cols=32 Identities=6% Similarity=0.180 Sum_probs=23.9
Q ss_pred CHHHHHHhhh-hhcCCeeEEEEEcCCCceeeEEE
Q 033077 50 TLSDVDTLIS-LEMGSAMRISILKLDGTSFDVAV 82 (128)
Q Consensus 50 T~~Ev~s~Ia-le~GqAm~l~V~k~Dgs~~~VvV 82 (128)
+.+++...+. ...|+.++|.+.|. |....+.+
T Consensus 41 ~~~~~~~~l~~~~~~~~v~l~v~r~-g~~~~~~v 73 (79)
T cd00986 41 EAEELIDYIQSKKEGDTVKLKVKRE-EKELPEDL 73 (79)
T ss_pred CHHHHHHHHHhCCCCCEEEEEEEEC-CEEEEEEE
Confidence 5788888886 56799999999984 55555554
No 102
>PLN03213 repressor of silencing 3; Provisional
Probab=38.41 E-value=1.4e+02 Score=28.58 Aligned_cols=56 Identities=14% Similarity=0.249 Sum_probs=50.6
Q ss_pred ccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 42 L~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
...|+.++|-++|....+ ++|+--++.|.|.-|..|..|=..+.+..++++||...
T Consensus 15 VGNLSydVTEDDLravFS-eFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaL 70 (759)
T PLN03213 15 VGGLGESVGRDDLLKIFS-PMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTY 70 (759)
T ss_pred EeCCCCCCCHHHHHHHHH-hcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHh
Confidence 457999999999999876 78999999999999999999999998899999999854
No 103
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=37.41 E-value=1.2e+02 Score=22.94 Aligned_cols=50 Identities=12% Similarity=0.235 Sum_probs=35.1
Q ss_pred HHHHhhhhhcCCeeEEEEEcCCCc--eeeE-EEeCCCcHHHHHHHHHHHHhhhh
Q 033077 53 DVDTLISLEMGSAMRISILKLDGT--SFDV-AVMNSATVKDLKLAIKKKVNDME 103 (128)
Q Consensus 53 Ev~s~Iale~GqAm~l~V~k~Dgs--~~~V-vV~~~ATV~dLKkAI~~~~~~~~ 103 (128)
|... |.-.+-..+=|.|.|...+ .-.. .||.+.||.|+...|++.+.+.+
T Consensus 16 e~~~-Ir~kyPdrIPVIvEk~~~s~dK~KfllVP~d~tV~qF~~iIRkrl~l~~ 68 (121)
T PTZ00380 16 ECAR-LQAKYPGHVAVVVEAAEKAGSKVHFLALPRDATVAELEAAVRQALGTSA 68 (121)
T ss_pred HHHH-HHHHCCCccEEEEeecCCCCCceEEEEcCCCCcHHHHHHHHHHHcCCCh
Confidence 4444 4446777777888776543 2234 68999999999999999887643
No 104
>PF06918 DUF1280: Protein of unknown function (DUF1280); InterPro: IPR009689 This family represents a conserved region approximately 200 residues long within a number of proteins of unknown function that seem to be specific to Caenorhabditis elegans.
Probab=37.40 E-value=99 Score=25.29 Aligned_cols=81 Identities=17% Similarity=0.281 Sum_probs=57.2
Q ss_pred CchhHHHHHHHHHHHhhh-cCCcccCCCCCCCHHHHHHhhhhhcC-CeeEEEEEcCCCceeeEEEeC-CCcHHHHHHHHH
Q 033077 20 NSSTMKKARLHSTLTALL-DDPILADVPKKPTLSDVDTLISLEMG-SAMRISILKLDGTSFDVAVMN-SATVKDLKLAIK 96 (128)
Q Consensus 20 ~~~~~~~~~~~~~L~~ll-~DplL~DlP~~vT~~Ev~s~Iale~G-qAm~l~V~k~Dgs~~~VvV~~-~ATV~dLKkAI~ 96 (128)
+-|...+..+++-+...+ -|| +|+--.+.++...++...- ..-+..+.|..++.=.|.|.+ -+++.++++.+.
T Consensus 64 ~LSd~~lk~~K~~~k~~lg~Dv----f~Sr~~i~~l~k~~s~~~~y~i~~~~~~k~~~~g~~v~v~~~~v~~~dv~~~l~ 139 (224)
T PF06918_consen 64 NLSDGFLKKFKKFLKEFLGFDV----FPSRKSIDELEKKVSSIDDYEISTEKITKKTGSGKEVTVVTCVVSIKDVEKLLS 139 (224)
T ss_pred cCCHHHHHHHHHHHHHhCCCCC----CCCHHHHHHHHHhcCcccceEEEEEEccccCCCCeEEEEEEEEEEecCHHHHHH
Confidence 334556788888888877 799 7888888999888887764 333334444334444555543 468999999999
Q ss_pred HHHhhhhh
Q 033077 97 KKVNDMEQ 104 (128)
Q Consensus 97 ~~~~~~~~ 104 (128)
+..+.+.+
T Consensus 140 ~rle~l~~ 147 (224)
T PF06918_consen 140 RRLEQLSK 147 (224)
T ss_pred HHHHHHHH
Confidence 99987755
No 105
>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=37.40 E-value=53 Score=22.79 Aligned_cols=27 Identities=26% Similarity=0.245 Sum_probs=23.9
Q ss_pred CceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 75 GTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 75 gs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
...+...|..+||=.|.|+||+..|.-
T Consensus 14 ~n~y~F~V~~~anK~eIK~avE~lf~V 40 (77)
T TIGR03636 14 ENKLTFIVDRKATKGDIKRAVEKLFDV 40 (77)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 357888999999999999999999954
No 106
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=37.20 E-value=58 Score=22.78 Aligned_cols=27 Identities=26% Similarity=0.225 Sum_probs=23.5
Q ss_pred ceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 76 TSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 76 s~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
-.+...|+.+||=.|+|.||+..|...
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~ 47 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVK 47 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCC
Confidence 467788999999999999999999543
No 107
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=37.16 E-value=53 Score=23.23 Aligned_cols=29 Identities=21% Similarity=0.218 Sum_probs=24.8
Q ss_pred CCceeeEEEeCCCcHHHHHHHHHHHHhhh
Q 033077 74 DGTSFDVAVMNSATVKDLKLAIKKKVNDM 102 (128)
Q Consensus 74 Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~ 102 (128)
+...+...|+.+||=.|.|+||+..|.-.
T Consensus 19 ~~n~~~F~V~~~a~K~eIK~aie~lf~Vk 47 (92)
T PRK05738 19 KQNKYVFEVAPDATKPEIKAAVEKLFGVK 47 (92)
T ss_pred hCCEEEEEECCCCCHHHHHHHHHHHcCCc
Confidence 35688889999999999999999999543
No 108
>PRK12385 fumarate reductase iron-sulfur subunit; Provisional
Probab=36.83 E-value=66 Score=26.17 Aligned_cols=35 Identities=17% Similarity=0.363 Sum_probs=28.8
Q ss_pred eeEEEEEcCCC--------ceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 65 AMRISILKLDG--------TSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 65 Am~l~V~k~Dg--------s~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
-|++.|.|.|. ..++|.+..+.||+|+=..|+...
T Consensus 6 ~v~~~i~R~~~~~~~~~~~~~~~v~~~~~~tvl~~L~~ik~~~ 48 (244)
T PRK12385 6 NLKIEVLRYNPEVDTEPHSQTYEVPYDETTSLLDALGYIKDNL 48 (244)
T ss_pred EEEEEEEeeCCCCCCCceeEEEEeeCCCCCcHHHHHHHHHHhc
Confidence 58899999884 346777789999999999998754
No 109
>PF13085 Fer2_3: 2Fe-2S iron-sulfur cluster binding domain; PDB: 3P4Q_N 1KFY_N 3CIR_N 3P4R_B 2B76_N 1KF6_B 3P4P_N 3P4S_B 1L0V_B 1ZOY_B ....
Probab=36.79 E-value=75 Score=23.34 Aligned_cols=33 Identities=27% Similarity=0.367 Sum_probs=26.5
Q ss_pred EEEEEcCCC---------ceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 67 RISILKLDG---------TSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 67 ~l~V~k~Dg---------s~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
|++|.|.|. ..|.|.+....||+|+=..|+...
T Consensus 1 t~~I~R~~~~~~~~~~~~~~y~v~~~~~~tVLd~L~~Ik~~~ 42 (110)
T PF13085_consen 1 TLRIFRFDPESDEGEPYYQEYEVPVEPGMTVLDALNYIKEEQ 42 (110)
T ss_dssp EEEEEE--TTSTTSS-EEEEEEEEGGSTSBHHHHHHHHHHHT
T ss_pred CEEEEEcCCCCCCCCCeEEEEEecCCCCCcHHHHHHHHHhcc
Confidence 578888887 358899999999999999998876
No 110
>cd04336 YeaK YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, and ProX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express a single-domain INS homolog such as YbaK, ProX, or PrdX which supplies the function of INS in trans.
Probab=36.11 E-value=1.7e+02 Score=21.18 Aligned_cols=48 Identities=15% Similarity=0.191 Sum_probs=36.1
Q ss_pred cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCc---eeeEEEeCCCcH
Q 033077 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGT---SFDVAVMNSATV 88 (128)
Q Consensus 41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs---~~~VvV~~~ATV 88 (128)
.+-+-|+..|.+|+.....+..++..+--+.+.+.. .+-|+++.+..|
T Consensus 16 ~~~~~~~~~t~~~~a~~~~~~~~~~~Ktll~~~~~~~~~~vlvv~~~~~~v 66 (153)
T cd04336 16 RVLDHPPEGTSEEVAAIRGTELGQGAKALLCKVKDGSRRFVLAVLPADKKL 66 (153)
T ss_pred EEEecCCCCCHHHHHHHhCCCcccceEEEEEEecCCCceEEEEEEeCcccc
Confidence 344677889999999999999999999888888863 454555655544
No 111
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=36.08 E-value=1.7e+02 Score=21.72 Aligned_cols=57 Identities=11% Similarity=0.125 Sum_probs=40.3
Q ss_pred cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCC--CceeeEEEeCCCcHHHHHHHHHHH
Q 033077 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLD--GTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~D--gs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
+...||.++|-++|..... .+|.-..+.|.+.. +.+--.....=++..+.++||+..
T Consensus 38 fVgnL~~~~te~~L~~~F~-~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~l 96 (144)
T PLN03134 38 FIGGLSWGTDDASLRDAFA-HFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEM 96 (144)
T ss_pred EEeCCCCCCCHHHHHHHHh-cCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHc
Confidence 3467999999999999987 58988787777653 323233334446778888898753
No 112
>COG1943 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=35.92 E-value=1.8e+02 Score=21.64 Aligned_cols=66 Identities=9% Similarity=0.108 Sum_probs=46.7
Q ss_pred HHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeecccccc
Q 033077 52 SDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIA 119 (128)
Q Consensus 52 ~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW~ 119 (128)
.++..++|-+.+=.+---+.--|=..+=+.+|....+..+-.++...-+.+.-. ......|++.|+
T Consensus 36 ~~~l~~~~~~~~~eI~a~~v~pdHVHlli~~pp~~~~~~~~~~lkg~ss~~~~~--~~~~~~~~~~~~ 101 (136)
T COG1943 36 RSILREVAEQKNFEILAMEVMPDHVHLLITLPPKDSVSSIVNRLKGRSSRRLRE--KFPDLKWQRFWE 101 (136)
T ss_pred HHHHHHHHHhCCCEEEEEEecCCEEEEEEecCCCCCHHHHHHHHHhHHHHHHHH--hccchhhhhccC
Confidence 456666777777666666666677778888899999999988888777665432 344566775555
No 113
>TIGR01632 L11_bact 50S ribosomal protein L11. This model represents bacterial, chloroplast, and most mitochondrial forms of 50S ribosomal protein L11.
Probab=35.46 E-value=71 Score=24.47 Aligned_cols=67 Identities=15% Similarity=0.078 Sum_probs=42.3
Q ss_pred HHHHHhhhh-hcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccc
Q 033077 52 SDVDTLISL-EMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFI 118 (128)
Q Consensus 52 ~Ev~s~Ial-e~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW 118 (128)
+|++...+- ..|-.+.+.|-=-++.+|++.|-...|=.=||+|..-.--.......--..||+.+|.
T Consensus 38 k~fN~~T~~~~~G~~vpV~Itv~~drsf~~~v~~Pp~s~ll~kaag~~~gs~~p~~~~~G~it~~qv~ 105 (140)
T TIGR01632 38 KQFNARTADYEPGLPVPVVITVYEDKSFTFIVKTPPVSYLLKKAAGVEKGSKNPKKEKVGKITRKQVR 105 (140)
T ss_pred HHHHHHHhhhcCCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCCCCCCCCCeEEeEecHHHHH
Confidence 566666665 5788888877777788999999666666667777653322111112233567777764
No 114
>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.00 E-value=75 Score=25.67 Aligned_cols=39 Identities=18% Similarity=0.354 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHhhhcCCccc-----------CCCCCCCHHHHHHhhhhhc
Q 033077 24 MKKARLHSTLTALLDDPILA-----------DVPKKPTLSDVDTLISLEM 62 (128)
Q Consensus 24 ~~~~~~~~~L~~ll~DplL~-----------DlP~~vT~~Ev~s~Iale~ 62 (128)
.+++..+++|.+++++|.|. |+|...++.||..+++|+.
T Consensus 98 ~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~~ 147 (181)
T KOG0070|consen 98 ERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLGLHS 147 (181)
T ss_pred HHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhhhhc
Confidence 46777889999999776543 5788899999999998874
No 115
>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=34.89 E-value=1.2e+02 Score=20.92 Aligned_cols=33 Identities=9% Similarity=0.154 Sum_probs=30.3
Q ss_pred CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHH
Q 033077 64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIK 96 (128)
Q Consensus 64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~ 96 (128)
.+++|.|+=-||+.+.-....+.||.+|...|.
T Consensus 3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~ 35 (85)
T cd01774 3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLF 35 (85)
T ss_pred ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHH
Confidence 578999999999999999999999999999984
No 116
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=34.55 E-value=61 Score=22.88 Aligned_cols=27 Identities=22% Similarity=0.223 Sum_probs=23.8
Q ss_pred CceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 75 GTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 75 gs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
...+...|...||=.|.|+||+..|.-
T Consensus 21 ~n~y~F~V~~~anK~eIK~AvE~lf~V 47 (84)
T PRK14548 21 ENKLTFIVDRRATKPDIKRAVEELFDV 47 (84)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 357888999999999999999999954
No 117
>PRK12576 succinate dehydrogenase iron-sulfur subunit; Provisional
Probab=34.26 E-value=65 Score=26.79 Aligned_cols=39 Identities=15% Similarity=0.169 Sum_probs=31.9
Q ss_pred hhcCCeeEEEEEcCCC------ceeeEEEeCCCcHHHHHHHHHHH
Q 033077 60 LEMGSAMRISILKLDG------TSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 60 le~GqAm~l~V~k~Dg------s~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
+..++-++|.|.|.|. ..++|.++...||+|+=..|+..
T Consensus 3 ~~~~~~~~~~i~R~~~~~~~~~~~~~v~~~~~~tvLd~L~~i~~~ 47 (279)
T PRK12576 3 QSPEKEVIFKVKRYDPEKGSWWQEYKVKVDRFTQVTEALRRIKEE 47 (279)
T ss_pred CCCCcEEEEEEEecCCCCCCeEEEEEEecCCCCHHHHHHHHhCCc
Confidence 4567889999999986 45788889999999988887643
No 118
>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=33.60 E-value=1e+02 Score=21.34 Aligned_cols=28 Identities=18% Similarity=0.126 Sum_probs=22.5
Q ss_pred CCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 74 DGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 74 Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.|..+-+.++.+.++.||+..|++.|..
T Consensus 8 ~~d~~r~~l~~~~~~~~L~~~i~~r~~~ 35 (82)
T cd06407 8 GEEKIRFRLPPSWGFTELKQEIAKRFKL 35 (82)
T ss_pred CCeEEEEEcCCCCCHHHHHHHHHHHhCC
Confidence 4457777888888999999999888864
No 119
>PF11065 DUF2866: Protein of unknown function (DUF2866); InterPro: IPR021294 This bacterial family of proteins have no known function.
Probab=32.73 E-value=53 Score=22.74 Aligned_cols=40 Identities=25% Similarity=0.288 Sum_probs=33.6
Q ss_pred hcCCeeEEE--EEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 61 EMGSAMRIS--ILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 61 e~GqAm~l~--V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
.-|.+-+|. .-+.||...-.+|+-++|=+|...||.+++.
T Consensus 15 PWG~~cRiVEW~i~~~g~~~RrvVpa~~T~~EIa~~ir~hv~ 56 (65)
T PF11065_consen 15 PWGRGCRIVEWTIDHDGRISRRVVPADSTEAEIAEAIRSHVP 56 (65)
T ss_pred CCCCceEEEEEEecCCcceeEEeecccCChHHHHHHHHccCC
Confidence 356677764 3588999999999999999999999999884
No 120
>smart00649 RL11 Ribosomal protein L11/L12.
Probab=32.65 E-value=87 Score=23.60 Aligned_cols=67 Identities=12% Similarity=0.096 Sum_probs=42.2
Q ss_pred HHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccc
Q 033077 52 SDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFI 118 (128)
Q Consensus 52 ~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW 118 (128)
+|++...+--.|-.+.+.|---+..+|++.|....|-.=||+|..-.-......+.--..||..+|.
T Consensus 32 k~fN~~T~~~~g~~vpV~I~v~~dksf~~~v~~P~~s~ll~k~~g~~kgs~~p~~~~~g~it~~~v~ 98 (132)
T smart00649 32 KEFNARTKDKKGLPIPVKITVYNDKSFTFIIKTPPASFLLKKAAGIEKGSKKPGKKKVGNITLDQVY 98 (132)
T ss_pred HHHHHHHhhcCCCeEeEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCCCCCCCCCeeeeEEcHHHHH
Confidence 5566666666788888887778888999999776666777777643321111111223456666653
No 121
>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=32.14 E-value=45 Score=22.84 Aligned_cols=21 Identities=29% Similarity=0.340 Sum_probs=17.9
Q ss_pred eEEEeCCCcHHHHHHHHHHHH
Q 033077 79 DVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 79 ~VvV~~~ATV~dLKkAI~~~~ 99 (128)
++++++.|||.|+=.+|-+-+
T Consensus 18 ~liL~~GaTV~D~a~~iH~di 38 (75)
T cd01666 18 PVILRRGSTVEDVCNKIHKDL 38 (75)
T ss_pred CEEECCCCCHHHHHHHHHHHH
Confidence 688899999999998887644
No 122
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=31.97 E-value=1.2e+02 Score=22.38 Aligned_cols=38 Identities=26% Similarity=0.477 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhhhcCCcc-----------cCCCCCCCHHHHHHhhhhhc
Q 033077 25 KKARLHSTLTALLDDPIL-----------ADVPKKPTLSDVDTLISLEM 62 (128)
Q Consensus 25 ~~~~~~~~L~~ll~DplL-----------~DlP~~vT~~Ev~s~Iale~ 62 (128)
++....+.|..+++++.+ .|+|...+.+|+...+.++.
T Consensus 96 ~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~~ 144 (175)
T PF00025_consen 96 RLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLEK 144 (175)
T ss_dssp GHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGGG
T ss_pred eecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhhh
Confidence 455566677777765544 37888899999999998887
No 123
>cd04332 YbaK_like YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express an INS homolog in trans (e.g. YbaK, ProX, or PrdX).
Probab=31.52 E-value=1.2e+02 Score=20.96 Aligned_cols=51 Identities=22% Similarity=0.212 Sum_probs=36.1
Q ss_pred CCCCHHHHHHhhhhhcCCeeEEEEEcCCC-ceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 47 KKPTLSDVDTLISLEMGSAMRISILKLDG-TSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 47 ~~vT~~Ev~s~Iale~GqAm~l~V~k~Dg-s~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
...|.+++.....+..++.++-.+++.+. ..+-|+++.+. -.++++ +++.+
T Consensus 10 ~~~t~~~~~~~~~~~~~~~~K~l~l~~~~~~~v~v~~~~d~-~~d~~~-l~~~~ 61 (136)
T cd04332 10 GAKTIEEAAEALGVPPGQIAKTLVLKDDKGGLVLVVVPGDH-ELDLKK-LAKAL 61 (136)
T ss_pred CCCCHHHHHHHcCCCHHHeEEEEEEEcCCCcEEEEEEeccc-ccCHHH-HHHHh
Confidence 33899999999999999999999999888 55555555543 344443 44444
No 124
>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=30.75 E-value=1.2e+02 Score=23.26 Aligned_cols=35 Identities=20% Similarity=0.173 Sum_probs=25.7
Q ss_pred eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 65 AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 65 Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
.|=|.|+|. .+++=...-.+.||.|||+-|+-.+.
T Consensus 2 dvFlmIrR~-KTTiF~dakes~tVlelK~~iegI~k 36 (119)
T cd01788 2 DVFLMIRRH-KTTIFTDAKESTTVYELKRIVEGILK 36 (119)
T ss_pred ceEEEEEec-ceEEEeecCCcccHHHHHHHHHHHhc
Confidence 345666664 44555667788999999999998774
No 125
>CHL00127 rpl11 ribosomal protein L11; Validated
Probab=30.74 E-value=96 Score=23.76 Aligned_cols=67 Identities=12% Similarity=0.081 Sum_probs=41.8
Q ss_pred HHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccc
Q 033077 52 SDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFI 118 (128)
Q Consensus 52 ~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW 118 (128)
+|++...+--.|-.+.+.|.=-++.+|+++|-...|-.=||+|..-.--.......--..||+.+|.
T Consensus 40 k~fN~~T~~~~g~~vpV~Itv~~drsf~~~v~~Pp~s~ll~ka~gi~~gs~~p~~~~~G~it~~~v~ 106 (140)
T CHL00127 40 KEYNARTKDKIGLIIPVEISVYEDKSYTFILKTPPASVLLAKAAGIKKGSGEPNKKKVGSITIKQLE 106 (140)
T ss_pred HHHHHHhhhcCCCeEEEEEEEeCCceEEEEEcCCCHHHHHHHHhCCCcCCCCCCCeecceecHHHHH
Confidence 5666666666787777777767888999999666666667877654322111112223456666553
No 126
>PLN00129 succinate dehydrogenase [ubiquinone] iron-sulfur subunit
Probab=30.31 E-value=83 Score=26.58 Aligned_cols=47 Identities=15% Similarity=0.292 Sum_probs=33.8
Q ss_pred hcCCeeEEEEEcCCC--------ceeeEEEeC-CCcHHHHHHHHHHHHhhhhhhcCCceeeeccc
Q 033077 61 EMGSAMRISILKLDG--------TSFDVAVMN-SATVKDLKLAIKKKVNDMEQSNLGHRHISWQV 116 (128)
Q Consensus 61 e~GqAm~l~V~k~Dg--------s~~~VvV~~-~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~ 116 (128)
+..+-+++.|.|.|. .+|.|.+.. ..||+|.=..|+... ...|+|++
T Consensus 39 ~~~~~~~~~i~R~~p~~~~~~~~~~y~v~~~~~~~tVLd~L~~Ik~~~---------D~sLsfr~ 94 (276)
T PLN00129 39 KPSNLKEFQIYRWNPDNPGKPHLQSYKVDLNDCGPMVLDVLIKIKNEQ---------DPSLTFRR 94 (276)
T ss_pred CCCceEEEEEEeeCCCCCCCceeEEEEeCCCCCCchHHHHHHHHHHcC---------CCCeEEec
Confidence 445569999999874 346777754 699999888887643 23677775
No 127
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=30.18 E-value=92 Score=21.58 Aligned_cols=30 Identities=17% Similarity=0.207 Sum_probs=23.7
Q ss_pred eeeEEEeCCCcHHHHHHHHHHHHhhhhhhc
Q 033077 77 SFDVAVMNSATVKDLKLAIKKKVNDMEQSN 106 (128)
Q Consensus 77 ~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~ 106 (128)
.|=+-...+.|+.+|+..|...|..+...+
T Consensus 4 KFLhlt~~~~tl~~L~~eI~~~f~kLYP~~ 33 (73)
T PF10407_consen 4 KFLHLTDPNNTLSQLKEEIEERFKKLYPNE 33 (73)
T ss_pred EEEEEeCCCCcHHHHHHHHHHHHHHHCCCC
Confidence 344556779999999999999998765543
No 128
>PRK14732 coaE dephospho-CoA kinase; Provisional
Probab=30.14 E-value=73 Score=24.73 Aligned_cols=29 Identities=21% Similarity=0.121 Sum_probs=24.3
Q ss_pred eeeEEEeCCCcHHHHHHHHHHHHhhhhhh
Q 033077 77 SFDVAVMNSATVKDLKLAIKKKVNDMEQS 105 (128)
Q Consensus 77 ~~~VvV~~~ATV~dLKkAI~~~~~~~~~r 105 (128)
.-+++|.++.++.+|++.|++.+....+|
T Consensus 166 ~aD~vI~N~~~~~~l~~~v~~l~~~~~~~ 194 (196)
T PRK14732 166 RADYIVRNDGNREGLKEECKILYSTLLKK 194 (196)
T ss_pred hCCEEEECCCCHHHHHHHHHHHHHHHHHh
Confidence 34788999999999999999988776654
No 129
>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=30.02 E-value=1.5e+02 Score=18.88 Aligned_cols=50 Identities=24% Similarity=0.395 Sum_probs=36.0
Q ss_pred CC-CCCCHHHHHHhhhhhcCC---eeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 45 VP-KKPTLSDVDTLISLEMGS---AMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 45 lP-~~vT~~Ev~s~Iale~Gq---Am~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
+| ..+|.+++.+.|+=.+|. .++|+-.-.|| +.+.-.+ =.||..|++..-
T Consensus 16 ~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~---d~v~l~s--d~Dl~~a~~~~~ 69 (81)
T cd05992 16 VVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDG---DLVTISS--DEDLEEAIEEAR 69 (81)
T ss_pred EecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCC---CEEEeCC--HHHHHHHHHHHh
Confidence 45 899999999999999888 46666665555 3333233 369999998764
No 130
>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=30.01 E-value=81 Score=20.92 Aligned_cols=24 Identities=21% Similarity=0.216 Sum_probs=19.1
Q ss_pred ceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 76 TSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 76 s~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
+...|.++ .+||.||.+++...+.
T Consensus 16 ~~~~v~~~-~~tv~~l~~~l~~~~p 39 (88)
T TIGR01687 16 KSEEIEIE-GKTVGDLLNELMARYP 39 (88)
T ss_pred ceEEEEeC-CCCHHHHHHHHHHHCc
Confidence 45667676 8999999999987764
No 131
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=29.55 E-value=78 Score=20.80 Aligned_cols=25 Identities=20% Similarity=0.191 Sum_probs=20.1
Q ss_pred ceeeEEEeCC-CcHHHHHHHHHHHHh
Q 033077 76 TSFDVAVMNS-ATVKDLKLAIKKKVN 100 (128)
Q Consensus 76 s~~~VvV~~~-ATV~dLKkAI~~~~~ 100 (128)
....+.++.+ +||.||..++...+.
T Consensus 16 ~~~~~~~~~~~~tv~~L~~~L~~~~p 41 (80)
T TIGR01682 16 DEETLELPDESTTVGELKEHLAKEGP 41 (80)
T ss_pred CeEEEECCCCCcCHHHHHHHHHHhCc
Confidence 4467778877 899999999988764
No 132
>TIGR00481 Raf kinase inhibitor-like protein, YbhB/YbcL family.
Probab=28.82 E-value=51 Score=24.72 Aligned_cols=34 Identities=18% Similarity=0.271 Sum_probs=27.4
Q ss_pred CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 64 SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 64 qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
....++|--+|...++ ++..+|..||.+||+.++
T Consensus 98 HrY~f~vyALd~~~l~--l~~~~~~~~l~~ai~ghv 131 (141)
T TIGR00481 98 HRYLFTVYALDTEKLD--LDPGFSLADLGDAMEGHI 131 (141)
T ss_pred EEEEEEEEEecCCCCC--CCCCCCHHHHHHHHhhCE
Confidence 3567888888866666 457999999999999876
No 133
>PF14749 Acyl-CoA_ox_N: Acyl-coenzyme A oxidase N-terminal; PDB: 2FON_A 1W07_B 1IS2_B 2DDH_A.
Probab=28.29 E-value=34 Score=24.29 Aligned_cols=27 Identities=15% Similarity=0.242 Sum_probs=12.4
Q ss_pred HHHHHHHhhh-cCCcccC-CC-CCCCHHHH
Q 033077 28 RLHSTLTALL-DDPILAD-VP-KKPTLSDV 54 (128)
Q Consensus 28 ~~~~~L~~ll-~DplL~D-lP-~~vT~~Ev 54 (128)
..+..|..++ +||.+.+ .| ...|-+|.
T Consensus 17 ~~rr~i~~~i~~dP~f~~~~~~~~lsr~e~ 46 (125)
T PF14749_consen 17 ERRREIESLIESDPIFSKPPDRYFLSREER 46 (125)
T ss_dssp HHHHHHHHHHHT-GGG---TTGGGS-HHHH
T ss_pred HHHHHHHHHHhhChhhhcCCCcccCCHHHH
Confidence 3344555555 9999998 44 33444443
No 134
>PF07262 DUF1436: Protein of unknown function (DUF1436); InterPro: IPR009888 This family consists of several hypothetical bacterial proteins of around 160 residues in length. The function of this family is unknown.; PDB: 2GKP_A.
Probab=27.99 E-value=82 Score=24.69 Aligned_cols=25 Identities=12% Similarity=0.163 Sum_probs=19.8
Q ss_pred eeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 77 SFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 77 ~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
..+|++|-++|..||=+||+-+|+.
T Consensus 133 ~~~I~lp~d~s~eElG~Alr~Afsr 157 (158)
T PF07262_consen 133 ADDIILPIDSSDEELGAALRLAFSR 157 (158)
T ss_dssp S--EEEETTS-HHHHHHHHHHHHHT
T ss_pred CccEEEecCCCHHHHHHHHHHHHhc
Confidence 3589999999999999999999863
No 135
>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=27.62 E-value=1.9e+02 Score=20.48 Aligned_cols=33 Identities=12% Similarity=0.069 Sum_probs=24.9
Q ss_pred EEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 67 RISILKLDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 67 ~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.|.|.--+ ++.|.||...+..+|...|...+..
T Consensus 4 vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl 36 (80)
T cd06406 4 VVKVHFKY--TVAIQVARGLSYATLLQKISSKLEL 36 (80)
T ss_pred EEEEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCC
Confidence 34444333 7788889999999999999988865
No 136
>PF05868 Rotavirus_VP7: Rotavirus major outer capsid protein VP7; InterPro: IPR008818 This family consists of several Rotavirus major outer capsid protein VP7 sequences. The rotavirus capsid is composed of three concentric protein layers. Proteins VP4 and VP7 comprise the outer layer. VP4 forms spikes and is the viral attachment protein. VP7 is a glycoprotein and the major constituent of the outer protein layer [].; GO: 0016021 integral to membrane, 0019012 virion
Probab=27.18 E-value=17 Score=30.79 Aligned_cols=15 Identities=20% Similarity=0.257 Sum_probs=12.3
Q ss_pred CCceeeeccccccce
Q 033077 107 LGHRHISWQVFIAPS 121 (128)
Q Consensus 107 ~g~~~ISWk~VW~~f 121 (128)
...+.|||-.||+++
T Consensus 210 tvs~~i~WgnVWt~v 224 (249)
T PF05868_consen 210 TVSQRISWGNVWTNV 224 (249)
T ss_pred ceeeccchhhhHHHH
Confidence 347899999999875
No 137
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=27.06 E-value=50 Score=21.44 Aligned_cols=17 Identities=29% Similarity=0.638 Sum_probs=14.7
Q ss_pred CCCCCCCHHHHHHhhhh
Q 033077 44 DVPKKPTLSDVDTLISL 60 (128)
Q Consensus 44 DlP~~vT~~Ev~s~Ial 60 (128)
|.|.++|++||-..+.+
T Consensus 19 d~PR~~tl~elA~~lgi 35 (53)
T PF04967_consen 19 DVPRRITLEELAEELGI 35 (53)
T ss_pred CCCCcCCHHHHHHHhCC
Confidence 68999999999888765
No 138
>PF01376 Enterotoxin_b: Heat-labile enterotoxin beta chain; InterPro: IPR001835 Escherichia coli heat-labile enterotoxin is a bacterial protein toxin with an AB5 multimer structure, in which the B pentamer has a membrane-binding function and the A chain (IPR001144 from INTERPRO) is needed for enzymatic activity []. The B subunits are arranged as a donut-shaped pentamer, each subunit participating in ~30 hydrogen bonds and 6 salt bridges with its two neighbours []. The A subunit has a less well-defined secondary structure. It predominantly interacts with the pentamer via the C-terminal A2 fragment, which runs through the charged central pore of the B subunits. A putative catalytic residue in the A1 fragment (Glu112) lies close to a hydrophobic region, which packs two loops together. It is thought that this region might be important for catalysis and membrane translocation [].; GO: 0009405 pathogenesis, 0005576 extracellular region; PDB: 1LTA_D 2XRS_O 1LTS_E 1LTT_H 1TET_P 1JQY_Y 1PZI_D 1DJR_E 1EEF_D 1LTB_E ....
Probab=26.77 E-value=1.1e+02 Score=22.57 Aligned_cols=58 Identities=21% Similarity=0.227 Sum_probs=36.7
Q ss_pred CCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccccc
Q 033077 63 GSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFIAP 120 (128)
Q Consensus 63 GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW~~ 120 (128)
|..=.+.|---.|..|.|.||-+--+.--|+||+|.-.-..-.--..-+|+=--||.+
T Consensus 33 gkrem~iitf~ngatfqvevpgsqhi~sqkk~iermkdtlr~ay~t~~kv~klcvwnn 90 (102)
T PF01376_consen 33 GKREMVIITFKNGATFQVEVPGSQHIDSQKKAIERMKDTLRIAYLTEIKVSKLCVWNN 90 (102)
T ss_dssp TTEEEEEEEETTS-EEEE--SSTTSTTTHHHHHHHHHHHHHHHHHHT-EEEEEEEETT
T ss_pred CceeEEEEEecCCcEEEEecCCccchhhhHHHHHHHHhHHHHHHHhhcchhheeeecC
Confidence 5555556666789999999999999999999999865332111122446666667765
No 139
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=26.76 E-value=95 Score=24.28 Aligned_cols=29 Identities=21% Similarity=0.182 Sum_probs=25.1
Q ss_pred CCCceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 73 LDGTSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 73 ~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
.+...+...|...|+=.|.|+||+..|+-
T Consensus 80 E~~N~yvF~Vd~kAnK~qIK~AVEklf~V 108 (145)
T PTZ00191 80 EDNNTLVFIVDQRANKTQIKKAVEKLYDV 108 (145)
T ss_pred hhCCEEEEEEcCCCCHHHHHHHHHHHhCC
Confidence 34578899999999999999999999854
No 140
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=26.72 E-value=57 Score=28.94 Aligned_cols=28 Identities=25% Similarity=0.290 Sum_probs=21.3
Q ss_pred EEeCCCcHHHHHHHHHHHH-hhhhhhcCC
Q 033077 81 AVMNSATVKDLKLAIKKKV-NDMEQSNLG 108 (128)
Q Consensus 81 vV~~~ATV~dLKkAI~~~~-~~~~~r~~g 108 (128)
-|+++||..|+|+|-++.. .++|.++.|
T Consensus 11 GV~k~As~~EIKkAYRkLA~kyHPD~n~g 39 (371)
T COG0484 11 GVSKDASEEEIKKAYRKLAKKYHPDRNPG 39 (371)
T ss_pred CCCCCCCHHHHHHHHHHHHHHhCCCCCCC
Confidence 3689999999999998765 455665543
No 141
>PHA02575 1 deoxynucleoside monophosphate kinase; Provisional
Probab=25.86 E-value=85 Score=26.05 Aligned_cols=38 Identities=26% Similarity=0.361 Sum_probs=30.4
Q ss_pred hcCCeeEEEEEcCC-------------CceeeEEEeCCCcHHHHHHHHHHHH
Q 033077 61 EMGSAMRISILKLD-------------GTSFDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 61 e~GqAm~l~V~k~D-------------gs~~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
+.| +..+.|.|.+ ...++++|.++.|..||...|.+.+
T Consensus 175 e~G-g~iV~V~R~~~~vd~H~SE~gLd~~~~D~vI~NdGtleeL~~qV~~ll 225 (227)
T PHA02575 175 AMG-ATVIHVVRDTGLVDTHSTEAGLPIQPGDIVITNNGTLEELKSKILNLI 225 (227)
T ss_pred HcC-CEEEEEecCCCCccCCCCccCCCCCCCCEEEEcCCCHHHHHHHHHHHh
Confidence 345 4778888866 3678999999999999999997765
No 142
>PRK01143 rpl11p 50S ribosomal protein L11P; Validated
Probab=25.54 E-value=1.3e+02 Score=23.63 Aligned_cols=67 Identities=12% Similarity=0.151 Sum_probs=38.9
Q ss_pred HHHHHhhhhhcCCeeEEEEEc-CCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccc
Q 033077 52 SDVDTLISLEMGSAMRISILK-LDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFI 118 (128)
Q Consensus 52 ~Ev~s~Iale~GqAm~l~V~k-~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW 118 (128)
+|++...+=-.|..+.+.|.= -++.+|++.|-...|-.=||+|..-.--.......--..||+.+|.
T Consensus 36 k~fN~~T~~~~g~~vpV~Itv~~~drsf~~~vk~Pp~s~ll~kaag~~kgs~~p~~~~vG~It~~qv~ 103 (163)
T PRK01143 36 QEINEKTKDFKGMQVPVKVIVDTDTKKFEIEVGIPPTTALIKKELGIEKGSGEPGHEVVGNLSFEQVV 103 (163)
T ss_pred HHHHHHhhhcCCCeEeEEEEEEeCCceEEEEECCCCHHHHHHHHhCCcCCCCCCCCceeeeecHHHHH
Confidence 444555554456676665555 4677999999666666677887653321111111223567887764
No 143
>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=25.51 E-value=99 Score=19.72 Aligned_cols=25 Identities=20% Similarity=0.215 Sum_probs=19.6
Q ss_pred ceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 76 TSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 76 s~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
....+.++.+.||.||.+.+...+.
T Consensus 16 ~~~~~~~~~~~tv~~ll~~l~~~~~ 40 (80)
T cd00754 16 DEEELELPEGATVGELLDALEARYP 40 (80)
T ss_pred ceEEEECCCCCcHHHHHHHHHHHCc
Confidence 3466777788999999999887653
No 144
>PF14268 YoaP: YoaP-like
Probab=25.50 E-value=37 Score=21.56 Aligned_cols=13 Identities=0% Similarity=-0.217 Sum_probs=10.9
Q ss_pred cccccceeeecCC
Q 033077 115 QVFIAPSIQSCSS 127 (128)
Q Consensus 115 k~VW~~fcL~f~~ 127 (128)
+-+|.+|||.|+|
T Consensus 17 P~pft~yalFYnG 29 (44)
T PF14268_consen 17 PCPFTTYALFYNG 29 (44)
T ss_pred CCceeEEEEEECC
Confidence 3579999999987
No 145
>PF01524 Gemini_V1: Geminivirus V1 protein; InterPro: IPR002511 Disruption of the V1 gene in Tomato yellow leaf curl virus (TYLCV) stopped its ability to systemically infect Solanum lycopersicum (Tomato) (Lycopersicon esculentum) plants, suggesting that the V1 gene product is required for successful infection of the host [].; GO: 0019048 virus-host interaction, 0060967 negative regulation of gene silencing by RNA, 0030430 host cell cytoplasm
Probab=25.33 E-value=37 Score=24.24 Aligned_cols=27 Identities=19% Similarity=0.507 Sum_probs=22.4
Q ss_pred CCcccCCCCCCCHHHHHHhhhhhcCCeeE
Q 033077 39 DPILADVPKKPTLSDVDTLISLEMGSAMR 67 (128)
Q Consensus 39 DplL~DlP~~vT~~Ev~s~Iale~GqAm~ 67 (128)
||+|++.|. |+--++--+|+.+=|.+.
T Consensus 3 DPLlnefP~--tvHGfRCMLAiKYlq~~~ 29 (78)
T PF01524_consen 3 DPLLNEFPE--TVHGFRCMLAIKYLQLVE 29 (78)
T ss_pred ccccccCCc--cccchhHHHHHHHHHHcc
Confidence 899999998 777788888988877643
No 146
>COG2747 FlgM Negative regulator of flagellin synthesis (anti-sigma28 factor) [Transcription / Cell motility and secretion / Intracellular trafficking and secretion]
Probab=24.54 E-value=45 Score=24.22 Aligned_cols=15 Identities=33% Similarity=0.543 Sum_probs=12.7
Q ss_pred eCCCcHHHHHHHHHH
Q 033077 83 MNSATVKDLKLAIKK 97 (128)
Q Consensus 83 ~~~ATV~dLKkAI~~ 97 (128)
.+...|.+||+||+.
T Consensus 58 ~~~~kVeeiK~aI~~ 72 (93)
T COG2747 58 IREEKVEELKQAIEN 72 (93)
T ss_pred hhHHHHHHHHHHHHc
Confidence 467899999999984
No 147
>PRK14539 50S ribosomal protein L11/unknown domain fusion protein; Provisional
Probab=24.53 E-value=1.2e+02 Score=24.79 Aligned_cols=73 Identities=14% Similarity=0.111 Sum_probs=44.4
Q ss_pred CCCCCH----HHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeeccccc
Q 033077 46 PKKPTL----SDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVFI 118 (128)
Q Consensus 46 P~~vT~----~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW 118 (128)
|..+.+ .|++...+--.|-.+.+.|.--++.+|++.|...+|-.=||+|..-.-........--..||..+|.
T Consensus 27 ~~GVNi~~FcKefN~~Tk~~~G~~VPV~ItV~~DRsf~f~vktPptS~LLkKaagi~kGs~~p~k~~vG~Itl~qv~ 103 (196)
T PRK14539 27 GVGINMPEFTKQFNDATRDRGGEPVPVQITVYKDKSFDFKLFTAPASFKIKQAAKIKSGSANSKTTIVGTITLSQLE 103 (196)
T ss_pred ccCCCHHHHHHHHHHHhhhcCCceEEEEEEEecCCeEEEEEeCCCHHHHHHHHhCCCCCCCCCCCeEEEEecHHHHH
Confidence 444444 4445545555677777766666778999999777777778888764332221212224567776654
No 148
>PF08783 DWNN: DWNN domain; InterPro: IPR014891 The ~75-residue DWNN (Domain With No Name) domain is highly conserved through eukaryotic species but is absent in prokaryotes. The DWNN domain is found only at the N terminus of the RBBP6 family of proteins which includes: Mammalian RBBP6, a splicing-associated protein that plays a role in the induction of apoptosis and regulation of the cell cycle. Drosophila melanogaster (Fruit fly) SNAMA (something that sticks like glue), a protein that appears to play a role in apoptosis. All of the identified RBBP6 homologues include the DWNN domain, a CCHC-type zinc finger (see PDOC50158 from PROSITEDOC) and a RING-type zinc finger (see PDOC00449 from PROSITEDOC). The three domain form is found in plants, protozoa, fungi and microsporidia. The RBBP6 homologues in vertebrates, insects and worms are longer and include additional domains. In addition to forming part of the full-length RBBP6 protein, the DWNN domain is also expressed in vertebrates as a small protein containing a DWNN domain and a short C-terminal tail (RBBP6 variant 3). The DWNN domain adopts a fold similar to the ubiquitin one, characterised by two alpha-helices and four beta-sheets ordered as beta-beta-alpha-beta-alpha-beta along the sequence. The similarity of DWNN domain to ubiquitin and the presence of the RING finger suggest that the DWNN domain may act as an ubiquitin-like modifier, possibly playing a role in the regulation of the splicing machinery [, ]. ; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 2C7H_A.
Probab=24.50 E-value=57 Score=22.58 Aligned_cols=22 Identities=32% Similarity=0.294 Sum_probs=15.2
Q ss_pred eEEEeC-CCcHHHHHHHHHHHHh
Q 033077 79 DVAVMN-SATVKDLKLAIKKKVN 100 (128)
Q Consensus 79 ~VvV~~-~ATV~dLKkAI~~~~~ 100 (128)
.|.... .-+|.|||++|..+-.
T Consensus 13 ~i~fdG~~Isv~dLKr~I~~~~~ 35 (74)
T PF08783_consen 13 TITFDGTSISVFDLKREIIEKKK 35 (74)
T ss_dssp EEEESSSEEEHHHHHHHHHHHHT
T ss_pred EEEECCCeeEHHHHHHHHHHHhC
Confidence 444433 3789999999966543
No 149
>cd00991 PDZ_archaeal_metalloprotease PDZ domain of archaeal zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=24.47 E-value=2e+02 Score=18.53 Aligned_cols=32 Identities=19% Similarity=0.251 Sum_probs=23.2
Q ss_pred CHHHHHHhhhhh-cCCeeEEEEEcCCCceeeEEE
Q 033077 50 TLSDVDTLISLE-MGSAMRISILKLDGTSFDVAV 82 (128)
Q Consensus 50 T~~Ev~s~Iale-~GqAm~l~V~k~Dgs~~~VvV 82 (128)
+.+++..++.-. .|+.++++|.|. |....+.+
T Consensus 44 ~~~d~~~~l~~~~~g~~v~l~v~r~-g~~~~~~~ 76 (79)
T cd00991 44 TLEDFMEALKPTKPGEVITVTVLPS-TTKLTNVS 76 (79)
T ss_pred CHHHHHHHHhcCCCCCEEEEEEEEC-CEEEEEEE
Confidence 678888888754 589999999984 54555444
No 150
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=24.47 E-value=3.2e+02 Score=21.94 Aligned_cols=57 Identities=9% Similarity=0.121 Sum_probs=40.6
Q ss_pred cccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCC--CceeeEEEeCCCcHHHHHHHHHHH
Q 033077 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKLD--GTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 41 lL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~D--gs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
++..||.+.|-++|..+.. .+|.-..+.|.+.. |.+=-.....=.++.+=.+||+..
T Consensus 273 fV~NL~~~~~e~~L~~~F~-~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~l 331 (352)
T TIGR01661 273 FVYNLSPDTDETVLWQLFG-PFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSL 331 (352)
T ss_pred EEeCCCCCCCHHHHHHHHH-hCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHh
Confidence 4568999999999999987 68999999998864 434222233345666666777654
No 151
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=24.40 E-value=74 Score=22.39 Aligned_cols=22 Identities=23% Similarity=0.353 Sum_probs=18.0
Q ss_pred eeEEEeCCCcHHHHHHHHHHHH
Q 033077 78 FDVAVMNSATVKDLKLAIKKKV 99 (128)
Q Consensus 78 ~~VvV~~~ATV~dLKkAI~~~~ 99 (128)
+++.|+.+||+.++|+-+=+..
T Consensus 2 i~l~v~~~aTl~~IK~~lw~~A 23 (78)
T smart00143 2 VTLRVLREATLSTIKHELFKQA 23 (78)
T ss_pred eeEEccccccHHHHHHHHHHHH
Confidence 5788999999999998775544
No 152
>PF07340 Herpes_IE1: Cytomegalovirus IE1 protein; InterPro: IPR010855 Expression from a human cytomegalovirus early promoter (E1.7) has been shown to be activated in trans by the IE2 gene product. Although the IE1 gene product alone had no effect on this early viral promoter, maximal early promoter activity was detected when both IE1 and IE2 gene products were present []. The IE1 protein from cytomegalovirus is also known as UL123.; GO: 0050792 regulation of viral reproduction, 0042025 host cell nucleus
Probab=24.23 E-value=1.8e+02 Score=26.26 Aligned_cols=29 Identities=34% Similarity=0.623 Sum_probs=18.5
Q ss_pred HHHHHHHHH----hhh--cCCcccCCCCCC--CHHHH
Q 033077 26 KARLHSTLT----ALL--DDPILADVPKKP--TLSDV 54 (128)
Q Consensus 26 ~~~~~~~L~----~ll--~DplL~DlP~~v--T~~Ev 54 (128)
...+++.|+ ..| .||++.++|.++ |++||
T Consensus 34 ~~fLek~l~~E~~~~lsLGDPLf~~~~~~~~kt~e~i 70 (392)
T PF07340_consen 34 VQFLEKMLADETNTQLSLGDPLFPDVSEDPFKTFEDI 70 (392)
T ss_pred HHHHHHHHHHHHhcccccCCCCCCCCCCCchhhHHHH
Confidence 344555553 444 899999999664 45655
No 153
>PTZ00434 cytosolic glyceraldehyde 3-phosphate dehydrogenase; Provisional
Probab=24.19 E-value=77 Score=28.02 Aligned_cols=37 Identities=19% Similarity=0.408 Sum_probs=27.0
Q ss_pred cCCeeEEEEEcCCCceeeEEE--eCCCcHHHHHHHHHHHHh
Q 033077 62 MGSAMRISILKLDGTSFDVAV--MNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 62 ~GqAm~l~V~k~Dgs~~~VvV--~~~ATV~dLKkAI~~~~~ 100 (128)
.|.|+|+=+. ++|-.|+++ .+.+|+.|++.|++++-.
T Consensus 245 ~G~a~RVPt~--nvS~vDLt~~l~k~~t~eein~a~k~aa~ 283 (361)
T PTZ00434 245 TGMSFRVPTP--DVSVVDLTFRATRDTSIQEIDAAIKRASQ 283 (361)
T ss_pred eeEEEecccC--cEeEEEEEEEeCCCCCHHHHHHHHHHhhh
Confidence 4556555554 666666554 788999999999998764
No 154
>PTZ00065 60S ribosomal protein L14; Provisional
Probab=24.18 E-value=84 Score=24.19 Aligned_cols=32 Identities=28% Similarity=0.313 Sum_probs=27.5
Q ss_pred EEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077 67 RISILKLDGTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 67 ~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
.+.+.++-.+.|-|-++++|.-..+++|++..
T Consensus 51 ~i~~k~l~LT~~~v~i~r~a~t~~v~ka~~~a 82 (130)
T PTZ00065 51 SIPLKRLKLTDEKIKINRGARTGTLKKALKKD 82 (130)
T ss_pred EEeccceEEccEEEecCCCCCcHHHHHHHHHc
Confidence 35677788899999999999999999998764
No 155
>PF02680 DUF211: Uncharacterized ArCR, COG1888; InterPro: IPR003831 This entry describes proteins of unknown function.; PDB: 3BPD_I 2RAQ_F 2X3D_E.
Probab=23.66 E-value=2.8e+02 Score=20.42 Aligned_cols=54 Identities=19% Similarity=0.378 Sum_probs=39.7
Q ss_pred CCCCCCHHHHHHhhh-hhcCCeeEEEEEcCCCceeeEE--E-eCCCcHHHHHHHHHHH
Q 033077 45 VPKKPTLSDVDTLIS-LEMGSAMRISILKLDGTSFDVA--V-MNSATVKDLKLAIKKK 98 (128)
Q Consensus 45 lP~~vT~~Ev~s~Ia-le~GqAm~l~V~k~Dgs~~~Vv--V-~~~ATV~dLKkAI~~~ 98 (128)
-|+.|++-|+-..|+ ++-..+..++|.--|-.+..+. | -.+--..++++||+..
T Consensus 13 KP~~p~i~e~A~~l~~~~gV~gVnitv~EvD~ete~lkitiEG~~id~d~i~~~Ie~~ 70 (95)
T PF02680_consen 13 KPHEPSIVELAKALSELEGVDGVNITVVEVDVETENLKITIEGDDIDFDEIKEAIEEL 70 (95)
T ss_dssp EESSS-HHHHHHHHHTSTTEEEEEEEEEEE-SSEEEEEEEEEESSE-HHHHHHHHHHT
T ss_pred cCCCCCHHHHHHHHHhCCCcceEEEEEEEeeccccEEEEEEEeCCCCHHHHHHHHHHc
Confidence 479999999988776 5556899999999998766544 4 4457889999999863
No 156
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=23.55 E-value=3e+02 Score=24.11 Aligned_cols=53 Identities=15% Similarity=0.125 Sum_probs=41.4
Q ss_pred cCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077 43 ADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 43 ~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
.+||..+|.++|..+.+ .+|.-.++.|.+..+..+ ...+-.++.+=.+||+..
T Consensus 102 ~nl~~~vt~~~L~~~F~-~~G~V~~v~i~~~~~~~~--afVef~~~~~A~~A~~~L 154 (481)
T TIGR01649 102 ENPMYPITLDVLYQIFN-PYGKVLRIVTFTKNNVFQ--ALVEFESVNSAQHAKAAL 154 (481)
T ss_pred cCCCCCCCHHHHHHHHh-ccCCEEEEEEEecCCceE--EEEEECCHHHHHHHHHHh
Confidence 47888999999998888 899999999988776544 444556677888888643
No 157
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=23.54 E-value=1e+02 Score=22.04 Aligned_cols=37 Identities=22% Similarity=0.315 Sum_probs=21.4
Q ss_pred eeeEEEeCCCc---HHHHHHHHHHHHhhhhhhcCCceeeecccccc
Q 033077 77 SFDVAVMNSAT---VKDLKLAIKKKVNDMEQSNLGHRHISWQVFIA 119 (128)
Q Consensus 77 ~~~VvV~~~AT---V~dLKkAI~~~~~~~~~r~~g~~~ISWk~VW~ 119 (128)
.++|.+|.+.+ +.++|..=+++.... +++| -|+|+|+
T Consensus 6 ~m~v~~P~~~~~~~~~~~~a~E~~~a~eL-q~~G-----~~~~lWr 45 (91)
T PF02426_consen 6 RMTVNVPPDMPPEEVDRLKAREKARAQEL-QRQG-----KWRHLWR 45 (91)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHHHHHHHH-HHCC-----eeeEEEE
Confidence 57888888755 445555555554443 4333 3777775
No 158
>PRK13744 conjugal transfer protein TrbG; Provisional
Probab=23.42 E-value=69 Score=22.69 Aligned_cols=36 Identities=19% Similarity=0.217 Sum_probs=26.7
Q ss_pred hhcCCeeEEEEEcCCCceee--EEEeCCCcHHHHHHHH
Q 033077 60 LEMGSAMRISILKLDGTSFD--VAVMNSATVKDLKLAI 95 (128)
Q Consensus 60 le~GqAm~l~V~k~Dgs~~~--VvV~~~ATV~dLKkAI 95 (128)
=+-|..|--+|-|-..++.- -.+.+++||.|||+-+
T Consensus 36 daggkrivayvykssrstvfenpdivktctvrdlkkdf 73 (83)
T PRK13744 36 DAGGKRIVAYVYKSSRSTVFENPDIVKTCTVRDLKKDF 73 (83)
T ss_pred CCCCcEEEEEEeecccceeccCCCceeeeehhhhhhhh
Confidence 35688899999988776541 1245789999999864
No 159
>PF12053 DUF3534: Domain of unknown function (DUF3534); InterPro: IPR021922 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 150 amino acids in length. This domain is found associated with PF00595 from PFAM. This domain has a conserved GILD sequence motif. ; PDB: 2NS5_A.
Probab=22.75 E-value=2.2e+02 Score=22.19 Aligned_cols=36 Identities=22% Similarity=0.253 Sum_probs=19.8
Q ss_pred eEEEEEcCCCceeeEEEe-CCCcHHHH-HHHHHHHHhhh
Q 033077 66 MRISILKLDGTSFDVAVM-NSATVKDL-KLAIKKKVNDM 102 (128)
Q Consensus 66 m~l~V~k~Dgs~~~VvV~-~~ATV~dL-KkAI~~~~~~~ 102 (128)
|+|+|+=++ +.+-|-.. .+-||.+| .+|++||-...
T Consensus 1 mkvtV~fg~-~~vvVPC~dg~~tV~~L~~~A~~RY~K~~ 38 (145)
T PF12053_consen 1 MKVTVCFGR-TRVVVPCGDGQLTVRDLIQQALRRYRKAK 38 (145)
T ss_dssp -EEEEEETT-EEEEEEESSS---HHHHHHHHHHHHHHHT
T ss_pred CeEEEEeCC-eEEEEEeCCCCccHHHHHHHHhHhHHHhh
Confidence 788887433 33333332 34899998 57888887654
No 160
>COG0793 Prc Periplasmic protease [Cell envelope biogenesis, outer membrane]
Probab=21.73 E-value=1.7e+02 Score=25.72 Aligned_cols=38 Identities=24% Similarity=0.412 Sum_probs=29.8
Q ss_pred CCCCHHHHHHhhhhhcCCeeEEEEEcC-CCceeeEEEeC
Q 033077 47 KKPTLSDVDTLISLEMGSAMRISILKL-DGTSFDVAVMN 84 (128)
Q Consensus 47 ~~vT~~Ev~s~Iale~GqAm~l~V~k~-Dgs~~~VvV~~ 84 (128)
.+.+++|+-..|.-..|..++|+|.|. ++.+++|.+.+
T Consensus 145 ~~~~~~~av~~irG~~Gt~V~L~i~r~~~~k~~~v~l~R 183 (406)
T COG0793 145 GGVSLDEAVKLIRGKPGTKVTLTILRAGGGKPFTVTLTR 183 (406)
T ss_pred cCCCHHHHHHHhCCCCCCeEEEEEEEcCCCceeEEEEEE
Confidence 345668899999999999999999997 45667665543
No 161
>cd04333 ProX_deacylase This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro) deacylase and also the cis-acting prolyl-tRNA synthetase-editing domain (ProRS-INS). While ProX and ProRS-INS hydrolyze misacylated Ala-tRNA(Pro), the E. coli YbaK hydrolyzes misacylated Cys-tRNA(Pro). A few CD members are N-terminal, YbaK-ProX-like domains of an uncharacterized protein with a C-terminal, predicted Fe-S protein domain.
Probab=21.64 E-value=3.2e+02 Score=19.74 Aligned_cols=56 Identities=16% Similarity=0.196 Sum_probs=39.9
Q ss_pred CcccCCC-CCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCc--HHHHHHHH
Q 033077 40 PILADVP-KKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSAT--VKDLKLAI 95 (128)
Q Consensus 40 plL~DlP-~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~AT--V~dLKkAI 95 (128)
..+-..| ...|.+|+...+.+..++-++-.+.+.++..+-|+++.+.. ...|++++
T Consensus 15 ~~~~~~~~~~~t~~e~a~~~~~~~~~~~K~l~~~~~~~~~~v~~~~~~~ld~~kl~~~l 73 (148)
T cd04333 15 LEVIELPESTRTAALAAEALGCEPGQIAKSLVFRVDDEPVLVVTSGDARVDNKKFKALF 73 (148)
T ss_pred CeEEECCCCcchHHHHHHHcCCChhHEEEEEEEEECCcEEEEEEeCCcccCHHHHHHHh
Confidence 4455566 46789999999999999999999988888666555555533 34444444
No 162
>PRK03557 zinc transporter ZitB; Provisional
Probab=21.40 E-value=4.7e+02 Score=21.63 Aligned_cols=68 Identities=13% Similarity=0.238 Sum_probs=43.3
Q ss_pred HHHHHHHhhhcCCcccCCCCCCCHHHHHHhhhhhcCC---eeEEEEEcCCCc---eeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 28 RLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGS---AMRISILKLDGT---SFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 28 ~~~~~L~~ll~DplL~DlP~~vT~~Ev~s~Iale~Gq---Am~l~V~k~Dgs---~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
.+++.+..|++ --|++..++++...|...... -=.|++.+.... .+.|+|+.+.+..++.+.|++.+.
T Consensus 204 l~~~~~~~Lld-----~~p~~~~~~~i~~~i~~~~~gV~~vh~l~~~~~G~~~~v~~hv~v~~~~~~~~i~~~i~~~l~ 277 (312)
T PRK03557 204 LLKESVNELLE-----GAPVSLDIAELKRRLCREIPEVRNVHHVHVWMVGEKPVMTLHVQVIPPHDHDALLDRIQDYLM 277 (312)
T ss_pred HHHHHHHHHHc-----cCCCCCCHHHHHHHHHhcCCCceeEEEEEEEEeCCeEEEEEEEEECCCCCHHHHHHHHHHHHH
Confidence 44555555552 256677789998887654332 335777787543 246667667777777777777764
No 163
>cd04335 PrdX_deacylase This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the YbaK and ProX proteins, and the prolyl-tRNA synthetase-editing domain (ProRS-INS), specifically hydrolyzes Ala-tRNA(Pro). In this CD, many of the eukaryotic editing domains are N-terminal and cis-acting, expressed from a multidomain ProRS, however, similar to the bacterial PrdX, the mammalian, amphibian, and echinoderm PrdX-like proteins are trans-acting, single-domain proteins.
Probab=21.32 E-value=3.3e+02 Score=19.82 Aligned_cols=47 Identities=17% Similarity=0.214 Sum_probs=35.6
Q ss_pred cCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCC-ceeeEEEeCCCcHH
Q 033077 43 ADVPKKPTLSDVDTLISLEMGSAMRISILKLDG-TSFDVAVMNSATVK 89 (128)
Q Consensus 43 ~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dg-s~~~VvV~~~ATV~ 89 (128)
-+-|+-.|.+|+-..+.+..++.++--|.+.++ ..+-|+++.+..|-
T Consensus 18 ~~~~~~~t~e~~a~~~~~~~~~~~Ktlv~~~~~~~~vlv~~~gd~~vn 65 (156)
T cd04335 18 VEHPPVFTVEEADEVLGELPGAHTKNLFLKDKKGRLYLVTALHDKKVD 65 (156)
T ss_pred EecCCcCCHHHHHHhhccCCCceEEEEEEEcCCCCEEEEEEcCCcccC
Confidence 357788999999999999999999988888766 44445555555543
No 164
>PF12857 TOBE_3: TOBE-like domain; InterPro: IPR024765 The TOBE (transport-associated OB) domain [] always occurs as a dimer and it is found in ABC transporters immediately after the ATPase domain. This entry represents a TOBE-like domain, found in the C terminus of ATPase subunit CysA. CysA is part of the CysATWP ABC transporter complex, involved in sulphate/thiosulphate import [, ].
Probab=20.84 E-value=1.4e+02 Score=18.91 Aligned_cols=26 Identities=23% Similarity=0.549 Sum_probs=21.6
Q ss_pred hcCCeeEEEEEcC-CCceeeEEEeCCC
Q 033077 61 EMGSAMRISILKL-DGTSFDVAVMNSA 86 (128)
Q Consensus 61 e~GqAm~l~V~k~-Dgs~~~VvV~~~A 86 (128)
..|-..+|.+... +|..+.|.+++..
T Consensus 16 ~~G~~vRlEl~~~~~~~~iEvel~~~~ 42 (58)
T PF12857_consen 16 PVGPEVRLELKRLDDGEPIEVELPRER 42 (58)
T ss_pred ecCCeEEEEEEECCCCCEEEEEeCHhH
Confidence 3577889999777 7899999998876
No 165
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=20.75 E-value=3.3e+02 Score=25.01 Aligned_cols=59 Identities=15% Similarity=0.092 Sum_probs=41.4
Q ss_pred hhhcCCeeEEEEEcCCCce---------------eeEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeecccc
Q 033077 59 SLEMGSAMRISILKLDGTS---------------FDVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQVF 117 (128)
Q Consensus 59 ale~GqAm~l~V~k~Dgs~---------------~~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk~V 117 (128)
.+..+....+.+.|.|... +.|......-+.+|+++|++.|.-......+.---||||+
T Consensus 320 ~~~~~~~~i~v~NK~DL~~~~~~~~~~~~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~~~~~~~~~i~~~Rh~ 393 (454)
T COG0486 320 LLPKKKPIIVVLNKADLVSKIELESEKLANGDAIISISAKTGEGLDALREAIKQLFGKGLGNQEGLFLSNLRHI 393 (454)
T ss_pred hcccCCCEEEEEechhcccccccchhhccCCCceEEEEecCccCHHHHHHHHHHHHhhcccccccceeecHHHH
Confidence 4778888888888877643 5556667789999999999999765332233334457764
No 166
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=20.65 E-value=1.4e+02 Score=17.55 Aligned_cols=20 Identities=25% Similarity=0.210 Sum_probs=16.3
Q ss_pred EeCCCcHHHHHHHHHHHHhh
Q 033077 82 VMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 82 V~~~ATV~dLKkAI~~~~~~ 101 (128)
|+.++|..++|+|..+..-.
T Consensus 8 l~~~~~~~~ik~~y~~l~~~ 27 (55)
T cd06257 8 VPPDASDEEIKKAYRKLALK 27 (55)
T ss_pred CCCCCCHHHHHHHHHHHHHH
Confidence 45789999999999888743
No 167
>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF. The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=20.63 E-value=2.8e+02 Score=18.74 Aligned_cols=44 Identities=16% Similarity=0.001 Sum_probs=28.5
Q ss_pred eEEEeCCCcHHHHHHHHHHHHhhhhhhcCCceeeecc--ccccceeeecCC
Q 033077 79 DVAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWQ--VFIAPSIQSCSS 127 (128)
Q Consensus 79 ~VvV~~~ATV~dLKkAI~~~~~~~~~r~~g~~~ISWk--~VW~~fcL~f~~ 127 (128)
++.+++++||.|+-..|-.-+.. +-...+-|+ .+=+.|.|.-+|
T Consensus 25 ~~~l~~g~tv~d~a~~IH~d~~~-----~F~~A~v~~~~~vg~d~~l~d~D 70 (76)
T cd04938 25 CVLVKKGTTVGDVARKIHGDLEK-----GFIEAVGGRRRLEGKDVILGKND 70 (76)
T ss_pred eEEEcCCCCHHHHHHHHhHHHHh-----ccEEEEEccCEEECCCEEecCCC
Confidence 78889999999998887654421 233445555 565666665443
No 168
>PF13473 Cupredoxin_1: Cupredoxin-like domain; PDB: 1IBZ_D 1IC0_E 1IBY_D.
Probab=20.61 E-value=94 Score=21.26 Aligned_cols=29 Identities=10% Similarity=0.338 Sum_probs=22.8
Q ss_pred HhhhhhcCCeeEEEEEcCCCceeeEEEeC
Q 033077 56 TLISLEMGSAMRISILKLDGTSFDVAVMN 84 (128)
Q Consensus 56 s~Iale~GqAm~l~V~k~Dgs~~~VvV~~ 84 (128)
+.|.+..|+..+|++...|...-+++++.
T Consensus 35 ~~i~v~~G~~v~l~~~N~~~~~h~~~i~~ 63 (104)
T PF13473_consen 35 STITVKAGQPVTLTFTNNDSRPHEFVIPD 63 (104)
T ss_dssp -EEEEETTCEEEEEEEE-SSS-EEEEEGG
T ss_pred CEEEEcCCCeEEEEEEECCCCcEEEEECC
Confidence 46889999999999999998888887766
No 169
>PF05157 T2SE_Nter: Type II secretion system (T2SS), protein E, N-terminal domain; InterPro: IPR007831 This domain is found at the N terminus of members of the general secretory system II protein E. Proteins in this subfamily are typically involved in Type IV pilus biogenesis (e.g. Q9X4G8 from SWISSPROT), though some are involved in other processes; for instance aggregation in Myxococcus xanthus (e.g. Q9RF11 from SWISSPROT) [].; GO: 0005524 ATP binding, 0006810 transport; PDB: 2D27_A 2D28_C.
Probab=20.58 E-value=1.7e+02 Score=19.16 Aligned_cols=72 Identities=17% Similarity=0.126 Sum_probs=37.5
Q ss_pred HHHHHHHHhhhcCCcccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHHHh
Q 033077 27 ARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKKVN 100 (128)
Q Consensus 27 ~~~~~~L~~ll~DplL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~~~ 100 (128)
+.+-..|+..++=|++..-+..+..+ +...+-.++=+.-++-..+.++..+.|.+.+... .+....++..+.
T Consensus 10 ~~l~~~la~~~~l~~~~~~~~~~~~~-~~~~l~~~~~~~~~~lPl~~~~~~l~va~~dP~~-~~~~~~l~~~~~ 81 (109)
T PF05157_consen 10 DQLLEALAEQLGLPFVDLDELPVDPE-LLDRLPLEFARRNRVLPLRQDDGTLVVAVADPLD-PEALDELEFLLG 81 (109)
T ss_dssp HHHHHHHHHHHT--B--GGGS-SS------G--HHHHHHHTEEEEEECTTCEEEEES-TT--HHHHHHHHHHH-
T ss_pred HHHHHHHHHHhCCCeechhhcCCCHH-HHHhhHHHHHHHcCEEEEEEECCEEEEEEcCCCC-HHHHHHHHHHcC
Confidence 44666777777778765433333333 2233666666666777888888888888765533 555566666553
No 170
>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=20.42 E-value=3e+02 Score=18.94 Aligned_cols=50 Identities=18% Similarity=0.163 Sum_probs=38.1
Q ss_pred CCCCCCCHHHHHHhhhhhcC----CeeEEEEEcCCCceeeEEEeCCCcHHHHHHHHHHH
Q 033077 44 DVPKKPTLSDVDTLISLEMG----SAMRISILKLDGTSFDVAVMNSATVKDLKLAIKKK 98 (128)
Q Consensus 44 DlP~~vT~~Ev~s~Iale~G----qAm~l~V~k~Dgs~~~VvV~~~ATV~dLKkAI~~~ 98 (128)
.||+..+.+++...|+=.++ +.++|.=.=.+|....+ ++=.||.-||.=+
T Consensus 15 ~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~l-----tsd~DL~eai~i~ 68 (82)
T cd06407 15 RLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLL-----TCDADLEECIDVY 68 (82)
T ss_pred EcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEe-----ecHHHHHHHHHHH
Confidence 58999999999999987665 57888877777766555 3557999998744
No 171
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=20.30 E-value=1.4e+02 Score=23.59 Aligned_cols=26 Identities=15% Similarity=0.128 Sum_probs=23.2
Q ss_pred ceeeEEEeCCCcHHHHHHHHHHHHhh
Q 033077 76 TSFDVAVMNSATVKDLKLAIKKKVND 101 (128)
Q Consensus 76 s~~~VvV~~~ATV~dLKkAI~~~~~~ 101 (128)
..+...|..+||=.|.|+||+..|.-
T Consensus 23 N~ytF~V~~~anK~eIK~AVE~iF~V 48 (158)
T PRK12280 23 NVYTFKVDRRANKIEIKKAVEFIFKV 48 (158)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 46888999999999999999999943
No 172
>PF12091 DUF3567: Protein of unknown function (DUF3567); InterPro: IPR021951 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved EIVDK sequence motif.
Probab=20.13 E-value=1.4e+02 Score=21.53 Aligned_cols=26 Identities=23% Similarity=0.464 Sum_probs=20.0
Q ss_pred HHHHHHHHHhhhcCCcccCCCCCCCHHHHHHhhh
Q 033077 26 KARLHSTLTALLDDPILADVPKKPTLSDVDTLIS 59 (128)
Q Consensus 26 ~~~~~~~L~~ll~DplL~DlP~~vT~~Ev~s~Ia 59 (128)
-+.||..++.++.+. ||.|||+..|+
T Consensus 47 Ae~Fr~~V~~li~~~--------Pt~EevDdfL~ 72 (85)
T PF12091_consen 47 AEMFREDVQALIASE--------PTQEEVDDFLG 72 (85)
T ss_pred HHHHHHHHHHHHhcC--------CCHHHHHHHHH
Confidence 577899999998432 58999987764
No 173
>TIGR03793 TOMM_pelo TOMM propeptide domain. This model represents a domain that is conserved among a large number of putative thiazole/oxazole-modified microcins (TOMM). Oddly, most of this seqence region appears homologous to nitrile hydratase subunits. This family is expanded especially in Pelotomaculum thermopropionicum SI.
Probab=20.07 E-value=2.8e+02 Score=19.16 Aligned_cols=29 Identities=3% Similarity=0.156 Sum_probs=23.9
Q ss_pred hhhcCCeeEEEEEcCCCceeeEEEeCCCc
Q 033077 59 SLEMGSAMRISILKLDGTSFDVAVMNSAT 87 (128)
Q Consensus 59 ale~GqAm~l~V~k~Dgs~~~VvV~~~AT 87 (128)
++..-+.++|.|.--.....-+++|..+.
T Consensus 35 G~~~P~~~~i~VvE~t~~~~~lVlP~~P~ 63 (77)
T TIGR03793 35 GVQVPAEVEVKVVEESPTVLYLVLPVNPD 63 (77)
T ss_pred CCCCCCceEEEEEEcCCCeEEEEecCCCC
Confidence 67777888899988888999999987654
No 174
>PF12993 DUF3877: Domain of unknown function, E. rectale Gene description (DUF3877); InterPro: IPR024539 This entry represents proteins of unknown function found primarily in Firmicutes. The Eubacterium rectale gene appears to be upregulated in the presence of Bacteroides thetaiotaomicron compared to growth in pure culture [].
Probab=20.00 E-value=1.1e+02 Score=24.85 Aligned_cols=60 Identities=20% Similarity=0.285 Sum_probs=44.2
Q ss_pred hhhhcccCchhHHHHHHHHHHHhhhcCCcccCCCCCCCHHHHHHhhhhhcCCeeEEEEEcCCCceeeEEE
Q 033077 13 EVEVGDYNSSTMKKARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFDVAV 82 (128)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~L~~ll~DplL~DlP~~vT~~Ev~s~Iale~GqAm~l~V~k~Dgs~~~VvV 82 (128)
|.+-.+|-|.+.|-.-|=+.|-.++..| .+|+++|..+-+ .++.. +.+.+.+..-|+.+|
T Consensus 80 P~~g~~YVhe~~~~~eFik~lIe~v~~h-------gcT~e~I~~~F~-~ys~~--~~~e~~~~~eFD~~i 139 (175)
T PF12993_consen 80 PEEGSEYVHEHTKENEFIKELIELVGKH-------GCTLEDILELFH-KYSDN--VHCEEMDNGEFDYLI 139 (175)
T ss_pred CcHHHHHHHhcCCCCHHHHHHHHHHhcC-------CcCHHHHHHHHH-HhcCC--eEEEeecCCCCCEEE
Confidence 5667778787777666666666666544 899999999888 67774 455777777888777
Done!