Query 034276
Match_columns 99
No_of_seqs 102 out of 591
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 11:42:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034276.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034276hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01764 Urm1 Urm1-like ubuitin 100.0 3.2E-34 6.9E-39 186.2 9.6 94 3-99 1-94 (94)
2 PF09138 Urm1: Urm1 (Ubiquitin 100.0 2.2E-30 4.7E-35 168.8 7.5 96 2-99 1-96 (96)
3 KOG4146 Ubiquitin-like protein 99.9 1.1E-26 2.4E-31 149.7 8.7 97 1-99 5-101 (101)
4 TIGR01687 moaD_arch MoaD famil 99.9 3.3E-26 7.1E-31 145.3 8.8 88 3-99 1-88 (88)
5 COG5131 URM1 Ubiquitin-like pr 99.9 3.6E-24 7.8E-29 137.1 8.6 95 1-99 1-96 (96)
6 PLN02799 Molybdopterin synthas 99.9 2.7E-22 5.9E-27 126.0 7.7 81 1-99 2-82 (82)
7 cd00754 MoaD Ubiquitin domain 99.9 6.7E-22 1.4E-26 122.7 7.8 80 3-99 1-80 (80)
8 PRK11130 moaD molybdopterin sy 99.9 3.5E-21 7.5E-26 121.3 8.8 81 2-99 1-81 (81)
9 TIGR01682 moaD molybdopterin c 99.8 5E-21 1.1E-25 119.9 8.3 80 3-99 1-80 (80)
10 PF02597 ThiS: ThiS family; I 99.8 1.3E-20 2.8E-25 115.9 7.3 77 5-99 1-77 (77)
11 COG1977 MoaD Molybdopterin con 99.8 2.5E-19 5.5E-24 113.9 6.1 84 2-99 1-84 (84)
12 PRK06944 sulfur carrier protei 99.3 1.6E-11 3.4E-16 73.7 6.4 57 22-99 9-65 (65)
13 cd00565 ThiS ThiaminS ubiquiti 99.2 1.6E-11 3.4E-16 74.1 5.2 58 22-99 8-65 (65)
14 PRK08364 sulfur carrier protei 99.2 1.3E-10 2.8E-15 71.3 7.4 66 3-99 5-70 (70)
15 TIGR01683 thiS thiamine biosyn 99.1 1.6E-10 3.5E-15 69.5 5.3 58 22-99 7-64 (64)
16 PRK06437 hypothetical protein; 98.9 3.1E-09 6.7E-14 64.8 6.0 55 21-99 13-67 (67)
17 PRK06488 sulfur carrier protei 98.9 2.9E-09 6.3E-14 64.1 5.7 52 33-99 14-65 (65)
18 PRK08053 sulfur carrier protei 98.9 4.7E-09 1E-13 63.6 5.3 57 23-99 10-66 (66)
19 KOG3474 Molybdopterin converti 98.9 1.7E-09 3.6E-14 67.4 3.3 82 2-99 3-84 (84)
20 PF14451 Ub-Mut7C: Mut7-C ubiq 98.8 1.1E-08 2.4E-13 64.8 6.3 73 1-96 2-77 (81)
21 PRK01777 hypothetical protein; 98.8 3.7E-08 8E-13 64.1 6.6 75 1-97 4-78 (95)
22 PRK05659 sulfur carrier protei 98.7 2.8E-08 6E-13 59.7 5.4 57 23-99 10-66 (66)
23 COG2104 ThiS Sulfur transfer p 98.7 1.1E-07 2.5E-12 58.4 6.9 57 23-99 12-68 (68)
24 PRK05863 sulfur carrier protei 98.6 2E-07 4.3E-12 56.3 5.3 56 23-99 10-65 (65)
25 PRK07440 hypothetical protein; 98.5 2.6E-07 5.6E-12 56.8 5.3 57 23-99 14-70 (70)
26 PF06805 Lambda_tail_I: Bacter 98.5 5.8E-07 1.2E-11 57.0 6.8 81 1-99 1-82 (82)
27 PRK07696 sulfur carrier protei 98.4 7.3E-07 1.6E-11 54.3 5.2 57 23-99 10-67 (67)
28 PRK06083 sulfur carrier protei 98.4 9.8E-07 2.1E-11 56.2 5.1 53 32-99 32-84 (84)
29 PRK11840 bifunctional sulfur c 98.2 3.7E-06 8E-11 65.2 5.5 57 23-99 10-66 (326)
30 PF03658 Ub-RnfH: RnfH family 97.5 0.00093 2E-08 42.7 7.2 72 1-96 1-74 (84)
31 cd01804 midnolin_N Ubiquitin-l 97.0 0.004 8.7E-08 38.5 6.6 73 1-99 2-76 (78)
32 cd01806 Nedd8 Nebb8-like ubiq 97.0 0.0046 9.9E-08 37.1 6.7 74 1-99 1-76 (76)
33 cd00196 UBQ Ubiquitin-like pro 96.8 0.0087 1.9E-07 32.3 6.2 59 21-95 10-69 (69)
34 cd01803 Ubiquitin Ubiquitin. U 96.8 0.0067 1.5E-07 36.3 6.1 74 1-99 1-76 (76)
35 COG4723 Phage-related protein, 96.7 0.0017 3.6E-08 47.0 3.0 82 3-99 6-88 (198)
36 PF02824 TGS: TGS domain; Int 96.4 0.008 1.7E-07 35.5 4.2 49 23-93 11-59 (60)
37 cd01668 TGS_RelA_SpoT TGS_RelA 95.5 0.067 1.4E-06 30.3 5.3 49 23-93 11-59 (60)
38 cd01802 AN1_N ubiquitin-like d 95.3 0.077 1.7E-06 34.6 5.8 63 20-99 39-103 (103)
39 cd01666 TGS_DRG_C TGS_DRG_C: 95.3 0.028 6.1E-07 34.9 3.6 56 22-93 18-74 (75)
40 PTZ00044 ubiquitin; Provisiona 95.2 0.11 2.3E-06 31.3 5.9 74 1-99 1-76 (76)
41 cd01616 TGS The TGS domain, na 95.1 0.13 2.8E-06 28.2 5.6 49 23-93 11-59 (60)
42 cd01805 RAD23_N Ubiquitin-like 94.7 0.15 3.2E-06 30.7 5.6 68 1-93 1-72 (77)
43 cd01793 Fubi Fubi ubiquitin-li 94.6 0.19 4.2E-06 30.3 5.9 72 1-99 1-74 (74)
44 PF11976 Rad60-SLD: Ubiquitin- 94.0 0.27 5.9E-06 29.1 5.6 59 20-93 12-71 (72)
45 cd01763 Sumo Small ubiquitin-r 94.0 0.71 1.5E-05 28.8 7.7 64 20-99 23-87 (87)
46 cd01812 BAG1_N Ubiquitin-like 93.9 0.36 7.8E-06 28.3 6.0 68 1-94 1-70 (71)
47 cd01669 TGS_Ygr210_C TGS_Ygr21 93.8 0.24 5.1E-06 30.7 5.1 51 23-93 25-75 (76)
48 cd01807 GDX_N ubiquitin-like d 93.2 0.41 8.9E-06 28.7 5.5 69 1-94 1-71 (74)
49 TIGR00601 rad23 UV excision re 92.3 0.41 9E-06 38.0 5.8 68 1-93 1-73 (378)
50 PRK07570 succinate dehydrogena 92.2 1.3 2.8E-05 33.2 8.0 85 1-95 1-102 (250)
51 TIGR02988 YaaA_near_RecF S4 do 91.9 0.21 4.6E-06 28.9 2.9 23 67-92 36-58 (59)
52 cd01810 ISG15_repeat2 ISG15 ub 91.5 0.5 1.1E-05 28.4 4.3 63 20-99 10-74 (74)
53 cd01809 Scythe_N Ubiquitin-lik 91.5 1.1 2.5E-05 26.1 5.8 69 1-94 1-71 (72)
54 PF14453 ThiS-like: ThiS-like 91.4 0.32 6.9E-06 28.9 3.2 25 66-94 31-55 (57)
55 COG2501 S4-like RNA binding pr 91.0 0.32 7E-06 30.2 3.1 52 32-92 10-61 (73)
56 cd01813 UBP_N UBP ubiquitin pr 90.6 1.7 3.7E-05 26.4 6.1 69 1-94 1-73 (74)
57 KOG1769 Ubiquitin-like protein 89.5 3.1 6.6E-05 27.3 6.9 63 21-99 33-96 (99)
58 PF11834 DUF3354: Domain of un 88.9 2.1 4.5E-05 26.2 5.5 40 22-68 21-60 (69)
59 PF13085 Fer2_3: 2Fe-2S iron-s 88.9 3 6.5E-05 27.7 6.6 67 21-94 19-91 (110)
60 cd01800 SF3a120_C Ubiquitin-li 88.9 2 4.4E-05 25.9 5.5 63 20-99 9-73 (76)
61 PRK12577 succinate dehydrogena 87.9 3.1 6.7E-05 32.2 7.2 85 1-94 1-98 (329)
62 PF11543 UN_NPL4: Nuclear pore 87.5 0.53 1.1E-05 29.4 2.3 68 12-94 10-79 (80)
63 cd04938 TGS_Obg-like TGS_Obg-l 87.3 1.3 2.8E-05 27.4 3.9 51 22-93 25-75 (76)
64 COG2914 Uncharacterized protei 86.7 1.8 3.9E-05 28.4 4.4 56 22-96 20-77 (99)
65 PF00498 FHA: FHA domain; Int 86.4 0.41 8.9E-06 27.8 1.3 26 65-92 42-67 (68)
66 PF13275 S4_2: S4 domain; PDB: 86.1 0.38 8.3E-06 29.2 1.0 52 32-92 6-57 (65)
67 cd01791 Ubl5 UBL5 ubiquitin-li 85.4 3.6 7.7E-05 25.0 5.2 57 20-93 13-71 (73)
68 PRK11507 ribosome-associated p 84.8 1.4 3.1E-05 27.1 3.1 52 32-92 10-61 (70)
69 cd01792 ISG15_repeat1 ISG15 ub 84.5 4.5 9.8E-05 24.6 5.4 69 1-93 3-74 (80)
70 PLN02560 enoyl-CoA reductase 82.6 6.1 0.00013 30.5 6.5 74 1-92 1-80 (308)
71 smart00363 S4 S4 RNA-binding d 80.4 1.9 4.1E-05 23.3 2.3 26 66-94 27-52 (60)
72 cd01667 TGS_ThrRS_N TGS _ThrRS 80.2 7.3 0.00016 21.0 5.6 46 32-94 15-60 (61)
73 cd01797 NIRF_N amino-terminal 79.0 7.7 0.00017 23.7 5.0 71 1-95 1-74 (78)
74 PF01479 S4: S4 domain; Inter 79.0 1.4 3.1E-05 24.0 1.5 21 67-90 28-48 (48)
75 smart00213 UBQ Ubiquitin homol 78.8 8.5 0.00018 21.4 4.8 33 1-47 1-33 (64)
76 PRK12385 fumarate reductase ir 78.6 5.9 0.00013 29.4 5.1 59 32-94 33-93 (244)
77 PF14478 DUF4430: Domain of un 78.5 2.3 4.9E-05 25.3 2.4 31 61-92 37-67 (68)
78 TIGR00691 spoT_relA (p)ppGpp s 78.5 6.7 0.00015 33.4 6.0 52 23-96 372-423 (683)
79 PF08817 YukD: WXG100 protein 78.2 7.7 0.00017 23.6 4.8 65 19-92 13-78 (79)
80 PRK08640 sdhB succinate dehydr 78.1 9.8 0.00021 28.4 6.2 68 21-94 23-98 (249)
81 PF14950 DUF4502: Domain of un 78.0 2.9 6.3E-05 33.1 3.4 32 60-96 324-355 (358)
82 KOG1349 Gpi-anchor transamidas 77.8 3.4 7.5E-05 31.8 3.6 38 32-72 108-148 (309)
83 PF00240 ubiquitin: Ubiquitin 76.4 12 0.00026 21.5 5.9 57 20-93 7-65 (69)
84 PF12053 DUF3534: Domain of un 75.8 5.1 0.00011 28.0 3.8 38 1-51 1-38 (145)
85 TIGR00384 dhsB succinate dehyd 74.7 10 0.00022 27.4 5.4 63 21-96 17-85 (220)
86 PRK12576 succinate dehydrogena 74.0 18 0.0004 27.4 6.8 49 21-75 27-76 (279)
87 COG0479 FrdB Succinate dehydro 73.7 25 0.00053 26.3 7.3 69 19-94 18-89 (234)
88 PF13019 Telomere_Sde2: Telome 73.0 27 0.00058 24.8 6.9 43 1-52 1-43 (162)
89 PRK13552 frdB fumarate reducta 72.6 11 0.00025 27.8 5.3 66 22-94 25-93 (239)
90 PF09379 FERM_N: FERM N-termin 71.8 10 0.00022 22.5 4.1 31 20-55 8-38 (80)
91 PLN00129 succinate dehydrogena 70.5 35 0.00076 26.1 7.6 68 21-94 62-132 (276)
92 cd01808 hPLIC_N Ubiquitin-like 70.2 19 0.00042 21.0 5.5 68 1-94 1-70 (71)
93 KOG0126 Predicted RNA-binding 68.4 4.7 0.0001 29.7 2.3 21 75-95 38-58 (219)
94 COG1163 DRG Predicted GTPase [ 67.5 7.2 0.00016 31.0 3.4 50 32-94 312-364 (365)
95 PF01802 Herpes_V23: Herpesvir 66.9 8.3 0.00018 29.8 3.6 60 35-99 54-114 (296)
96 cd00165 S4 S4/Hsp/ tRNA synthe 66.8 7.5 0.00016 21.4 2.6 25 67-94 28-52 (70)
97 COG5227 SMT3 Ubiquitin-like pr 66.6 5.4 0.00012 26.1 2.1 50 32-92 43-93 (103)
98 PHA03259 Capsid triplex subuni 66.0 7.6 0.00017 30.2 3.2 60 36-99 55-114 (302)
99 PRK12386 fumarate reductase ir 66.0 28 0.0006 26.1 6.2 45 32-77 28-73 (251)
100 COG0522 RpsD Ribosomal protein 64.8 5.5 0.00012 29.2 2.2 26 64-92 118-143 (205)
101 PF01561 Hanta_G2: Hantavirus 64.0 5.8 0.00013 32.4 2.3 48 33-81 258-317 (485)
102 smart00455 RBD Raf-like Ras-bi 63.3 9.3 0.0002 23.1 2.7 25 19-48 10-34 (70)
103 PRK11025 23S rRNA pseudouridyl 62.5 8.8 0.00019 29.3 3.0 25 66-94 46-70 (317)
104 TIGR02958 sec_mycoba_snm4 secr 62.3 30 0.00065 28.0 6.1 68 19-95 12-80 (452)
105 cd01794 DC_UbP_C dendritic cel 62.1 24 0.00053 21.0 4.4 57 20-93 10-68 (70)
106 PRK10872 relA (p)ppGpp synthet 61.7 25 0.00054 30.5 5.8 26 66-95 441-466 (743)
107 cd01796 DDI1_N DNA damage indu 60.1 33 0.00072 20.2 5.7 55 20-92 11-69 (71)
108 PF02080 TrkA_C: TrkA-C domain 58.3 10 0.00022 21.8 2.2 21 75-95 39-59 (71)
109 cd01760 RBD Ubiquitin-like dom 56.0 21 0.00046 21.8 3.4 23 21-48 12-34 (72)
110 cd00060 FHA Forkhead associate 55.8 13 0.00028 22.4 2.5 27 66-94 67-93 (102)
111 PF01957 NfeD: NfeD-like C-ter 55.3 17 0.00036 23.7 3.1 32 61-94 101-132 (144)
112 TIGR01017 rpsD_bact ribosomal 53.7 14 0.00031 26.7 2.7 25 67-94 117-141 (200)
113 cd06407 PB1_NLP A PB1 domain i 53.1 53 0.0012 20.4 5.0 35 1-49 1-35 (82)
114 PRK09602 translation-associate 53.1 36 0.00078 27.1 5.1 54 22-95 342-395 (396)
115 COG1188 Ribosome-associated he 53.1 17 0.00037 23.9 2.7 23 67-93 36-58 (100)
116 CHL00113 rps4 ribosomal protei 52.9 14 0.00031 26.9 2.6 60 32-94 76-140 (201)
117 PRK05327 rpsD 30S ribosomal pr 52.5 15 0.00033 26.6 2.7 26 66-94 119-144 (203)
118 smart00666 PB1 PB1 domain. Pho 52.0 48 0.001 19.6 4.9 24 21-49 13-36 (81)
119 PF06241 DUF1012: Protein of u 51.7 19 0.00042 26.4 3.1 30 68-98 123-152 (206)
120 PF09014 Sushi_2: Beta-2-glyco 50.9 8.3 0.00018 24.6 1.0 27 67-93 13-39 (85)
121 PF06071 YchF-GTPase_C: Protei 50.8 6.5 0.00014 25.0 0.5 16 77-92 66-81 (84)
122 COG0481 LepA Membrane GTPase L 50.7 74 0.0016 26.9 6.6 56 32-95 170-233 (603)
123 PF02196 RBD: Raf-like Ras-bin 50.4 33 0.00072 20.6 3.6 23 21-48 13-35 (71)
124 smart00314 RA Ras association 50.3 53 0.0011 19.9 4.6 24 20-48 17-40 (90)
125 PHA03258 Capsid triplex subuni 48.3 14 0.00031 28.8 2.1 61 35-99 58-120 (304)
126 COG1465 Predicted alternative 48.0 37 0.00081 26.8 4.3 75 10-95 256-359 (376)
127 cd04867 TGS_YchF_C TGS_YchF_C: 47.9 11 0.00023 24.0 1.1 16 77-92 66-81 (83)
128 TIGR00005 rluA_subfam pseudour 47.4 27 0.00059 26.1 3.5 25 66-93 32-56 (299)
129 cd01769 UBL Ubiquitin-like dom 46.2 52 0.0011 18.2 6.2 58 20-93 9-67 (69)
130 cd01798 parkin_N amino-termina 45.7 59 0.0013 18.8 4.6 57 20-93 10-68 (70)
131 PRK05950 sdhB succinate dehydr 45.6 78 0.0017 23.0 5.6 55 32-94 27-88 (232)
132 PHA03257 Capsid triplex subuni 45.3 17 0.00036 28.5 2.0 61 35-99 59-122 (316)
133 TIGR01266 fum_ac_acetase fumar 45.0 75 0.0016 25.8 5.7 58 34-92 323-391 (415)
134 PF04110 APG12: Ubiquitin-like 44.9 65 0.0014 20.5 4.4 38 2-47 1-39 (87)
135 PRK11180 rluD 23S rRNA pseudou 44.8 29 0.00062 26.6 3.3 26 66-94 44-69 (325)
136 PF10844 DUF2577: Protein of u 44.0 22 0.00047 22.8 2.2 16 83-98 76-91 (100)
137 COG0146 HyuB N-methylhydantoin 44.0 32 0.00069 29.0 3.6 40 60-99 479-518 (563)
138 PF00564 PB1: PB1 domain; Int 43.9 40 0.00087 20.0 3.3 23 23-50 16-38 (84)
139 PF13510 Fer2_4: 2Fe-2S iron-s 43.8 69 0.0015 19.5 4.4 61 23-91 13-78 (82)
140 TIGR03354 VI_FHA type VI secre 43.5 25 0.00054 28.1 2.8 28 67-94 69-96 (396)
141 COG0564 RluA Pseudouridylate s 43.2 26 0.00057 26.6 2.8 27 66-96 38-64 (289)
142 PRK00413 thrS threonyl-tRNA sy 42.9 67 0.0015 26.7 5.4 50 23-94 12-61 (638)
143 PLN02856 fumarylacetoacetase 42.8 82 0.0018 25.6 5.7 61 34-95 331-402 (424)
144 PF10302 DUF2407: DUF2407 ubiq 42.1 46 0.00099 21.4 3.5 37 2-48 2-38 (97)
145 cd01815 BMSC_UbP_N Ubiquitin-l 41.7 37 0.00081 21.0 2.9 49 32-93 19-73 (75)
146 cd01612 APG12_C Ubiquitin-like 41.4 53 0.0012 20.6 3.6 39 2-48 1-40 (87)
147 PF05402 PqqD: Coenzyme PQQ sy 41.2 20 0.00043 20.6 1.5 21 32-52 28-48 (68)
148 COG0024 Map Methionine aminope 41.1 79 0.0017 23.9 5.1 60 32-92 34-95 (255)
149 PF00788 RA: Ras association ( 40.9 57 0.0012 19.4 3.7 23 21-48 19-41 (93)
150 PF08825 E2_bind: E2 binding d 40.1 25 0.00054 22.1 1.9 16 32-47 5-20 (84)
151 cd01790 Herp_N Homocysteine-re 39.8 64 0.0014 20.0 3.8 26 18-48 13-38 (79)
152 PF09356 Phage_BR0599: Phage c 39.2 48 0.001 20.5 3.1 28 67-94 24-51 (80)
153 PRK06789 flagellar motor switc 38.8 67 0.0015 19.8 3.7 45 21-76 11-55 (74)
154 PRK10839 16S rRNA pseudouridyl 37.9 35 0.00075 24.6 2.7 25 66-93 26-50 (232)
155 PRK12575 succinate dehydrogena 37.7 1E+02 0.0022 22.8 5.1 68 21-94 23-91 (235)
156 PLN00051 RNA-binding S4 domain 37.1 36 0.00079 25.8 2.7 23 67-92 218-240 (267)
157 PRK11092 bifunctional (p)ppGpp 37.0 28 0.00062 29.9 2.4 27 65-95 422-448 (702)
158 TIGR03028 EpsE polysaccharide 36.5 1.3E+02 0.0027 22.0 5.5 52 32-93 181-235 (239)
159 COG1917 Uncharacterized conser 36.4 45 0.00097 21.6 2.8 32 63-94 65-96 (131)
160 TIGR03069 PS_II_S4 photosystem 36.3 38 0.00081 25.4 2.7 23 67-92 210-232 (257)
161 COG0490 Putative regulatory, l 36.1 49 0.0011 23.5 3.1 29 65-94 117-145 (162)
162 cd01768 RA RA (Ras-associating 35.5 92 0.002 18.6 4.0 24 20-48 14-37 (87)
163 PF02311 AraC_binding: AraC-li 35.4 26 0.00057 21.6 1.5 31 64-94 25-55 (136)
164 cd01789 Alp11_N Ubiquitin-like 35.1 1.1E+02 0.0023 18.7 6.3 61 21-93 15-79 (84)
165 PF14533 USP7_C2: Ubiquitin-sp 34.9 45 0.00097 24.1 2.9 24 20-48 35-58 (213)
166 PRK12444 threonyl-tRNA synthet 34.9 1.2E+02 0.0025 25.5 5.6 46 32-94 20-65 (639)
167 PF00842 Ala_racemase_C: Alani 34.8 70 0.0015 21.4 3.6 32 64-95 52-95 (129)
168 PF07385 DUF1498: Protein of u 34.5 44 0.00096 25.0 2.8 35 62-96 136-170 (225)
169 PF11694 DUF3290: Protein of u 34.3 74 0.0016 22.1 3.7 46 32-77 77-122 (149)
170 cd01784 rasfadin_RA Ubiquitin- 33.7 1.3E+02 0.0028 19.3 5.3 27 15-48 11-37 (87)
171 KOG0257 Kynurenine aminotransf 33.4 27 0.00058 28.4 1.6 57 35-96 70-126 (420)
172 KOG1654 Microtubule-associated 33.3 1.2E+02 0.0025 20.5 4.4 37 23-74 49-85 (116)
173 PHA03399 pif3 per os infectivi 32.9 66 0.0014 23.6 3.4 46 48-95 124-174 (200)
174 PHA02582 10 baseplate wedge su 32.4 59 0.0013 27.5 3.4 33 62-98 216-248 (604)
175 COG1716 FOG: FHA domain [Signa 32.0 45 0.00097 22.7 2.4 31 61-95 127-157 (191)
176 KOG1748 Acyl carrier protein/N 32.0 29 0.00064 23.8 1.4 37 5-47 91-127 (131)
177 PRK10475 23S rRNA pseudouridin 31.7 47 0.001 25.4 2.6 24 66-93 32-55 (290)
178 PF09358 UBA_e1_C: Ubiquitin-a 31.4 53 0.0011 21.9 2.6 17 32-48 41-57 (125)
179 PTZ00258 GTP-binding protein; 30.4 30 0.00065 27.7 1.4 17 77-93 369-385 (390)
180 cd01817 RGS12_RBD Ubiquitin do 30.3 68 0.0015 19.8 2.7 21 22-47 13-33 (73)
181 PRK09601 GTP-binding protein Y 30.3 30 0.00066 27.4 1.4 16 77-92 345-360 (364)
182 TIGR03859 PQQ_PqqD coenzyme PQ 30.3 48 0.001 20.3 2.1 21 32-53 42-62 (81)
183 cd01783 DAGK_delta_RA Ubiquiti 29.9 1E+02 0.0022 20.0 3.6 52 4-70 4-56 (97)
184 PF01561 Hanta_G2: Hantavirus 29.7 38 0.00083 27.8 1.9 19 81-99 187-205 (485)
185 PF01568 Molydop_binding: Moly 29.7 32 0.00069 21.4 1.2 27 65-96 30-56 (110)
186 PF05687 DUF822: Plant protein 29.7 12 0.00027 26.2 -0.8 33 4-47 26-58 (150)
187 PF08154 NLE: NLE (NUC135) dom 29.3 1.2E+02 0.0027 17.7 4.7 29 2-39 1-31 (65)
188 TIGR00686 phnA alkylphosphonat 29.0 65 0.0014 21.5 2.6 18 77-94 44-61 (109)
189 KOG0005 Ubiquitin-like protein 29.0 1.4E+02 0.003 18.1 4.1 34 1-47 1-34 (70)
190 COG1886 FliN Flagellar motor s 28.8 1.3E+02 0.0029 20.3 4.2 38 32-76 82-119 (136)
191 COG3263 NhaP-type Na+/H+ and K 28.6 60 0.0013 27.2 2.9 29 65-95 442-470 (574)
192 cd06406 PB1_P67 A PB1 domain i 28.6 78 0.0017 19.9 2.8 23 21-48 13-35 (80)
193 PF14483 Cut8_M: Cut8 dimerisa 28.5 28 0.00062 18.7 0.7 23 33-55 12-34 (38)
194 PF11470 TUG-UBL1: GLUT4 regul 28.4 91 0.002 18.6 3.0 23 21-48 9-31 (65)
195 cd01787 GRB7_RA RA (RAS-associ 28.3 1E+02 0.0022 19.6 3.3 21 22-47 16-36 (85)
196 TIGR00495 crvDNA_42K 42K curve 28.3 1.4E+02 0.0029 23.8 4.8 61 32-92 42-109 (389)
197 COG3273 Uncharacterized conser 28.2 80 0.0017 23.2 3.2 30 64-93 148-177 (204)
198 PF04126 Cyclophil_like: Cyclo 28.1 68 0.0015 21.1 2.6 29 1-43 1-29 (120)
199 PRK04950 ProP expression regul 27.7 56 0.0012 24.2 2.3 28 33-64 7-34 (213)
200 KOG1758 Mitochondrial F1F0-ATP 27.6 90 0.002 22.1 3.2 77 1-93 27-106 (159)
201 PF03831 PhnA: PhnA protein; 27.2 37 0.0008 20.0 1.1 13 81-93 7-19 (56)
202 PF03671 Ufm1: Ubiquitin fold 26.9 1.7E+02 0.0036 18.3 4.2 50 2-59 2-53 (76)
203 PF13180 PDZ_2: PDZ domain; PD 26.7 23 0.00049 21.1 0.1 29 64-92 36-67 (82)
204 cd01799 Hoil1_N Ubiquitin-like 26.7 1.5E+02 0.0033 17.8 4.9 57 20-93 14-73 (75)
205 PRK10348 ribosome-associated h 26.1 86 0.0019 21.5 2.9 22 67-92 36-57 (133)
206 COG4110 Uncharacterized protei 26.1 1.1E+02 0.0024 22.2 3.5 41 37-77 65-111 (200)
207 cd05484 retropepsin_like_LTR_2 26.0 79 0.0017 19.1 2.5 14 64-77 2-15 (91)
208 COG5206 GPI8 Glycosylphosphati 25.4 1E+02 0.0022 24.2 3.4 37 33-72 109-148 (382)
209 COG1030 NfeD Membrane-bound se 25.0 1E+02 0.0022 25.2 3.6 34 60-94 387-420 (436)
210 PF11760 CbiG_N: Cobalamin syn 25.0 1.9E+02 0.004 18.2 4.1 59 7-73 1-59 (84)
211 cd01775 CYR1_RA Ubiquitin doma 24.8 2.1E+02 0.0045 18.7 5.3 22 21-47 15-36 (97)
212 PF00077 RVP: Retroviral aspar 24.7 53 0.0011 20.0 1.6 16 62-77 5-20 (100)
213 PRK10220 hypothetical protein; 24.7 87 0.0019 21.0 2.6 17 78-94 46-62 (111)
214 PTZ00062 glutaredoxin; Provisi 24.6 1.2E+02 0.0025 22.0 3.5 51 32-82 31-83 (204)
215 cd05992 PB1 The PB1 domain is 24.3 1.6E+02 0.0034 17.1 4.5 25 22-50 13-37 (81)
216 smart00295 B41 Band 4.1 homolo 24.3 2.2E+02 0.0047 19.3 4.8 23 21-48 16-38 (207)
217 PF02626 AHS2: Allophanate hyd 24.2 57 0.0012 24.7 1.9 33 64-98 54-86 (271)
218 COG3837 Uncharacterized conser 24.1 70 0.0015 22.7 2.2 28 65-92 67-94 (161)
219 COG1126 GlnQ ABC-type polar am 24.1 78 0.0017 23.9 2.5 26 74-99 15-40 (240)
220 cd02779 MopB_CT_Arsenite-Ox Th 24.1 64 0.0014 20.5 1.9 27 65-96 33-59 (115)
221 KOG0011 Nucleotide excision re 24.0 2.7E+02 0.0058 22.2 5.5 33 1-46 1-33 (340)
222 COG1637 Predicted nuclease of 23.6 73 0.0016 24.2 2.3 34 62-95 25-58 (253)
223 PF14560 Ubiquitin_2: Ubiquiti 23.4 1.8E+02 0.0039 17.5 4.6 65 20-93 15-81 (87)
224 PRK08172 putative acyl carrier 23.3 11 0.00023 23.4 -1.9 16 32-47 63-78 (82)
225 TIGR00492 alr alanine racemase 23.2 92 0.002 23.9 2.9 29 66-94 296-335 (367)
226 TIGR00517 acyl_carrier acyl ca 23.0 12 0.00025 22.3 -1.7 13 33-45 63-75 (77)
227 PRK02079 pyrroloquinoline quin 22.9 82 0.0018 19.8 2.2 19 32-50 47-65 (88)
228 TIGR00269 conserved hypothetic 22.7 46 0.001 21.3 1.0 30 33-62 39-68 (104)
229 COG3456 Predicted component of 22.5 84 0.0018 25.7 2.6 25 67-92 71-95 (430)
230 COG0787 Alr Alanine racemase [ 22.4 1.3E+02 0.0028 23.9 3.6 32 64-95 286-328 (360)
231 cd01767 UBX UBX (ubiquitin reg 22.3 1.8E+02 0.0039 17.1 4.6 34 2-48 4-37 (77)
232 cd08010 yceG_like proteins sim 22.3 1.3E+02 0.0028 22.4 3.5 24 19-47 27-50 (245)
233 cd02787 MopB_CT_ydeP The MopB_ 22.1 82 0.0018 19.8 2.1 27 66-97 32-58 (112)
234 COG0113 HemB Delta-aminolevuli 22.0 88 0.0019 24.7 2.6 34 6-47 204-243 (330)
235 PF12436 USP7_ICP0_bdg: ICP0-b 21.9 81 0.0017 23.3 2.3 57 32-94 93-151 (249)
236 COG4009 Uncharacterized protei 21.9 69 0.0015 20.4 1.6 14 82-95 32-45 (88)
237 PF12860 PAS_7: PAS fold 21.9 1.8E+02 0.0039 17.8 3.7 60 32-94 37-105 (115)
238 COG5417 Uncharacterized small 21.7 2.2E+02 0.0048 17.9 5.7 75 1-93 5-81 (81)
239 PRK13503 transcriptional activ 21.6 1.2E+02 0.0026 21.8 3.1 31 64-94 37-67 (278)
240 TIGR00247 conserved hypothetic 21.6 1.9E+02 0.0042 22.3 4.4 51 20-75 39-96 (342)
241 PRK14132 riboflavin kinase; Pr 21.5 65 0.0014 21.9 1.6 11 82-92 114-124 (126)
242 cd02790 MopB_CT_Formate-Dh_H F 21.2 79 0.0017 19.7 1.9 26 66-96 36-61 (116)
243 cd06826 PLPDE_III_AR2 Type III 21.2 1.5E+02 0.0032 23.0 3.7 32 64-95 288-330 (365)
244 PF12646 DUF3783: Domain of un 21.1 82 0.0018 18.1 1.8 18 31-48 38-55 (58)
245 PF12724 Flavodoxin_5: Flavodo 21.0 59 0.0013 21.5 1.3 19 81-99 38-56 (143)
246 COG1585 Membrane protein impli 20.7 1.8E+02 0.0039 19.8 3.7 30 63-94 100-129 (140)
247 PF01959 DHQS: 3-dehydroquinat 20.7 1.6E+02 0.0035 23.4 3.8 35 64-98 301-340 (354)
248 PF08207 EFP_N: Elongation fac 20.7 54 0.0012 18.8 0.9 20 59-78 3-22 (58)
249 PRK08671 methionine aminopepti 20.7 3E+02 0.0064 20.7 5.2 55 32-93 25-81 (291)
250 PRK05350 acyl carrier protein; 20.4 15 0.00032 22.4 -1.7 14 33-46 66-79 (82)
251 COG3106 Predicted ATPase [Gene 20.3 84 0.0018 25.7 2.2 30 64-95 387-416 (467)
252 PLN02927 antheraxanthin epoxid 20.2 91 0.002 26.7 2.5 32 61-92 600-634 (668)
253 PRK13754 conjugal transfer fer 20.2 76 0.0016 23.1 1.8 25 34-63 71-95 (186)
254 PF05006 DUF666: Protein of un 20.1 52 0.0011 23.2 0.9 45 49-95 83-132 (155)
255 cd01816 Raf_RBD Ubiquitin doma 20.1 1.3E+02 0.0027 18.8 2.5 20 21-45 12-31 (74)
No 1
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=100.00 E-value=3.2e-34 Score=186.16 Aligned_cols=94 Identities=53% Similarity=0.916 Sum_probs=88.3
Q ss_pred EEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccC
Q 034276 3 LTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT 82 (99)
Q Consensus 3 v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t 82 (99)
|+|+|+|+|+.++|+++++.+++|.+ +++||++||++|+++||..++++|.++|++||+|+|||||+||++++|++|
T Consensus 1 i~v~f~ggl~~~~~~~~~~~~~~~~~---~~~tV~dll~~L~~~~~~~~~~lf~~~g~lr~~i~VlvN~~di~~l~g~~t 77 (94)
T cd01764 1 IKVEFLGGLELLFGNQKEHHVVLDGE---KPVTVGDLLDYVASNLLEERPDLFIEGGSVRPGIIVLINDTDWELLGEEDY 77 (94)
T ss_pred CEEEEechHHHHhCCceEEEEeccCC---CCCcHHHHHHHHHHhCchhhhhhEecCCcccCCEEEEECCccccccCCccc
Confidence 68999999999999988777778732 578999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCEEEEEecCCCC
Q 034276 83 TLEEKDVVVFISTLHGG 99 (99)
Q Consensus 83 ~L~dgD~V~i~p~v~GG 99 (99)
+|+|||+|+||||+|||
T Consensus 78 ~L~dgD~v~i~P~v~GG 94 (94)
T cd01764 78 ILEDGDHVVFISTLHGG 94 (94)
T ss_pred CCCCcCEEEEECCCCCC
Confidence 99999999999999998
No 2
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=99.97 E-value=2.2e-30 Score=168.76 Aligned_cols=96 Identities=53% Similarity=0.946 Sum_probs=82.5
Q ss_pred eEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCcc
Q 034276 2 QLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLD 81 (99)
Q Consensus 2 ~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~ 81 (99)
+|+|+|.|+++.+|++++++.+++| ..++..|+++|+.+|++++...++++|.+++++||+|+||||+.||+++++++
T Consensus 1 ~i~vEF~GGlE~Lf~~~k~h~v~l~--~~~~~~ti~~Li~~l~~nll~~r~elF~~~~~vrPGILvLINd~DwEl~g~~~ 78 (96)
T PF09138_consen 1 KITVEFSGGLELLFGNQKKHKVSLP--SDGEPATIKDLIDYLRDNLLKERPELFLEGGSVRPGILVLINDADWELLGEED 78 (96)
T ss_dssp EEEEEEETTCGGGTTT-SEEEEEE---SSCSC-BHHHHHHHHCCCT-SSGHHHHBSSSSB-TTEEEEETTCEHHHHTCCC
T ss_pred CEEEEEcCcHHHHhCCceeEEEEcC--CCCCCcCHHHHHHHHHHhccCCCHhHEecCCeEcCcEEEEEcCccceeecCcc
Confidence 6999999999999999988999998 23468999999999999998889999999999999999999999999999999
Q ss_pred CccCCCCEEEEEecCCCC
Q 034276 82 TTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 82 t~L~dgD~V~i~p~v~GG 99 (99)
|+|++||.|.|+|++|||
T Consensus 79 y~l~~~D~I~FiSTLHGG 96 (96)
T PF09138_consen 79 YVLKDGDNITFISTLHGG 96 (96)
T ss_dssp SB--TTEEEEEEETTT--
T ss_pred eEcCCCCEEEEEccCCCC
Confidence 999999999999999998
No 3
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=1.1e-26 Score=149.70 Aligned_cols=97 Identities=43% Similarity=0.746 Sum_probs=90.3
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCc
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL 80 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~ 80 (99)
|.|+|+|.|++..+|++++.+.+.++. +.+.+||++||+++.++|-+.+.++|..+|++||+++++||+.||++|+.+
T Consensus 5 ~~vkvef~Gg~dllfn~~k~~~~~l~~--~e~~~tvgdll~yi~~~~ie~r~~lFi~~gsvrpGii~lINd~DWElleke 82 (101)
T KOG4146|consen 5 HEVKVEFLGGLDLLFNKQKIHLTRLEV--GESPATVGDLLDYIFGKYIETRDSLFIHHGSVRPGIIVLINDMDWELLEKE 82 (101)
T ss_pred eeEEEEEcCceeeeECCeEEEEEeccc--CCCcccHHHHHHHHHHHHhcCCcceEeeCCcCcCcEEEEEeccchhhhccc
Confidence 579999999999999998877777762 346899999999999999988989999999999999999999999999999
Q ss_pred cCccCCCCEEEEEecCCCC
Q 034276 81 DTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 81 ~t~L~dgD~V~i~p~v~GG 99 (99)
+++|++||.|.|++++|||
T Consensus 83 dy~ledgD~ivfiSTlHGg 101 (101)
T KOG4146|consen 83 DYPLEDGDHIVFISTLHGG 101 (101)
T ss_pred ccCcccCCEEEEEEeccCC
Confidence 9999999999999999998
No 4
>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=99.94 E-value=3.3e-26 Score=145.33 Aligned_cols=88 Identities=24% Similarity=0.365 Sum_probs=80.3
Q ss_pred EEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccC
Q 034276 3 LTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT 82 (99)
Q Consensus 3 v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t 82 (99)
|||+|||.||+++|+. +.+++++ ++|+++|++.|.++||.+...+|++++.++++++|+||++.++...+ |
T Consensus 1 v~V~~fa~lre~~g~~-~~~v~~~------~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~--~ 71 (88)
T TIGR01687 1 VRVKYFATLRDITGKK-SEEIEIE------GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG--T 71 (88)
T ss_pred CEEEEEhHHHHHhCCc-eEEEEeC------CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC--C
Confidence 6899999999999974 4566665 68999999999999999888899999999999999999999988765 8
Q ss_pred ccCCCCEEEEEecCCCC
Q 034276 83 TLEEKDVVVFISTLHGG 99 (99)
Q Consensus 83 ~L~dgD~V~i~p~v~GG 99 (99)
+|++||+|+||||+|||
T Consensus 72 ~l~dgdev~i~PpvsGG 88 (88)
T TIGR01687 72 ELKDGDVVAIFPPVSGG 88 (88)
T ss_pred CCCCCCEEEEeCCCcCC
Confidence 99999999999999998
No 5
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=3.6e-24 Score=137.12 Aligned_cols=95 Identities=32% Similarity=0.557 Sum_probs=84.6
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHH-hcCcccccccccCCccccceEEEEcCccceecCC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGT-NLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQ 79 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~-~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g 79 (99)
|.+||+|.|+|...|+ +|++++.+.. .++++|..++++++. .|...+..+|.++|++||+++++||++||++++.
T Consensus 1 ~~~KvellGgld~~fn-qR~~el~~~~---~e~~~vg~liD~~~~~i~~p~~~sifie~g~lrpGiI~LINd~DWeLlek 76 (96)
T COG5131 1 HEMKVELLGGLDVEFN-QREIELTREE---VEGSSVGTLIDALRYFIYAPTRDSIFIEHGELRPGIICLINDMDWELLEK 76 (96)
T ss_pred CCceEEEeccchhhhc-ceeeEEEEcc---cCCcchhhHHHHHHHHHhCCccceeeecCCCCcccEEEEEcCccHhhhhc
Confidence 6799999999999999 6777777663 268999999999987 3344577899999999999999999999999999
Q ss_pred ccCccCCCCEEEEEecCCCC
Q 034276 80 LDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 80 ~~t~L~dgD~V~i~p~v~GG 99 (99)
.+++|++||.|.|+|++|||
T Consensus 77 e~y~ledgDiIvfistlHGg 96 (96)
T COG5131 77 ERYPLEDGDIIVFISTLHGG 96 (96)
T ss_pred ccccCCCCCEEEEEecccCC
Confidence 99999999999999999998
No 6
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=99.87 E-value=2.7e-22 Score=126.03 Aligned_cols=81 Identities=15% Similarity=0.169 Sum_probs=70.8
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCc
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL 80 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~ 80 (99)
|+|||+|||.||+.+|.. +.+++++ +++|+++|++.|..+||.+.. ++..+++++|++.+. .
T Consensus 2 m~i~V~~fa~~re~~g~~-~~~~~~~-----~~~tv~~L~~~l~~~~p~l~~--------~~~~~~vavN~~~v~----~ 63 (82)
T PLN02799 2 VEIKVLFFARARELTGVS-DMTLELP-----AGSTTADCLAELVAKFPSLEE--------VRSCCVLALNEEYTT----E 63 (82)
T ss_pred eEEEEEehHHHHHHhCCC-eEEEECC-----CCCcHHHHHHHHHHHChhHHH--------HhhCcEEEECCEEcC----C
Confidence 799999999999999964 4678888 789999999999999987542 344688999999863 7
Q ss_pred cCccCCCCEEEEEecCCCC
Q 034276 81 DTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 81 ~t~L~dgD~V~i~p~v~GG 99 (99)
+|+|++||+|+||||++||
T Consensus 64 ~~~l~dgDeVai~PpvsGG 82 (82)
T PLN02799 64 SAALKDGDELAIIPPISGG 82 (82)
T ss_pred CcCcCCCCEEEEeCCCCCC
Confidence 8999999999999999998
No 7
>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=99.87 E-value=6.7e-22 Score=122.65 Aligned_cols=80 Identities=20% Similarity=0.215 Sum_probs=71.9
Q ss_pred EEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccC
Q 034276 3 LTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT 82 (99)
Q Consensus 3 v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t 82 (99)
|+|+|||.|++.+|+. +.+++++ +++|++||++.|.++||.. .+..++.+.|+|||+.+. .++
T Consensus 1 i~v~~f~~l~~~~g~~-~~~~~~~-----~~~tv~~ll~~l~~~~~~~-------~~~~~~~~~v~vNg~~v~----~~~ 63 (80)
T cd00754 1 VKVLYFARLREAAGKD-EEELELP-----EGATVGELLDALEARYPGL-------LEELLARVRIAVNGEYVR----LDT 63 (80)
T ss_pred CEEEEeHHHHHHhCCc-eEEEECC-----CCCcHHHHHHHHHHHCchH-------HHhhhhcEEEEECCeEcC----CCc
Confidence 6899999999999975 4678887 6899999999999999875 456778999999999998 589
Q ss_pred ccCCCCEEEEEecCCCC
Q 034276 83 TLEEKDVVVFISTLHGG 99 (99)
Q Consensus 83 ~L~dgD~V~i~p~v~GG 99 (99)
+|++||+|+||||++||
T Consensus 64 ~l~~gD~v~i~ppv~GG 80 (80)
T cd00754 64 PLKDGDEVAIIPPVSGG 80 (80)
T ss_pred ccCCCCEEEEeCCCCCC
Confidence 99999999999999998
No 8
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=99.86 E-value=3.5e-21 Score=121.26 Aligned_cols=81 Identities=16% Similarity=0.200 Sum_probs=65.2
Q ss_pred eEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCcc
Q 034276 2 QLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLD 81 (99)
Q Consensus 2 ~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~ 81 (99)
+|||+|||.||+++|.+ + ++++. +++||++|++.|.++||... ..+. .++ +.+.||++-+ +.+
T Consensus 1 ~v~V~~Fa~lre~~g~~-~--~~v~~----~~~tv~~l~~~L~~~~~~~~-~~~~-~~~----~~~aVN~~~~----~~~ 63 (81)
T PRK11130 1 MIKVLFFAQVRELVGTD-A--LELAA----DFPTVEALRQHLAQKGDRWA-LALE-DGK----LLAAVNQTLV----SFD 63 (81)
T ss_pred CEEEEEeHHHHHHhCCc-e--EEecC----CCCCHHHHHHHHHHhCccHH-hhhc-CCC----EEEEECCEEc----CCC
Confidence 48999999999999964 3 44542 47899999999999998863 3333 333 5689999543 579
Q ss_pred CccCCCCEEEEEecCCCC
Q 034276 82 TTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 82 t~L~dgD~V~i~p~v~GG 99 (99)
|+|++||+|+|||||+||
T Consensus 64 ~~l~dgDeVai~PPVsGG 81 (81)
T PRK11130 64 HPLTDGDEVAFFPPVTGG 81 (81)
T ss_pred CCCCCCCEEEEeCCCCCC
Confidence 999999999999999998
No 9
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=99.85 E-value=5e-21 Score=119.88 Aligned_cols=80 Identities=21% Similarity=0.243 Sum_probs=68.6
Q ss_pred EEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccC
Q 034276 3 LTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT 82 (99)
Q Consensus 3 v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t 82 (99)
|||+|||.||+.+|+. +.+++++. +++|+++|++.|.++||+ ++. .++.++|+||++.+. .+|
T Consensus 1 v~V~~fa~lr~~~g~~-~~~~~~~~----~~~tv~~L~~~L~~~~p~----l~~----~~~~~~v~vn~~~v~----~~~ 63 (80)
T TIGR01682 1 IKVLYFARLREQAGTD-EETLELPD----ESTTVGELKEHLAKEGPE----LAA----SRGQVMVAVNEEYVT----DDA 63 (80)
T ss_pred CEEEEeHHHHHHhCCC-eEEEECCC----CCcCHHHHHHHHHHhCch----hhh----hccceEEEECCEEcC----CCc
Confidence 6899999999999974 45788883 359999999999999984 332 356899999999987 389
Q ss_pred ccCCCCEEEEEecCCCC
Q 034276 83 TLEEKDVVVFISTLHGG 99 (99)
Q Consensus 83 ~L~dgD~V~i~p~v~GG 99 (99)
+|++||+|+||||++||
T Consensus 64 ~l~dgDevai~PpvsGG 80 (80)
T TIGR01682 64 LLNEGDEVAFIPPVSGG 80 (80)
T ss_pred CcCCCCEEEEeCCCCCC
Confidence 99999999999999998
No 10
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=99.83 E-value=1.3e-20 Score=115.91 Aligned_cols=77 Identities=27% Similarity=0.346 Sum_probs=70.9
Q ss_pred EEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCcc
Q 034276 5 LEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTL 84 (99)
Q Consensus 5 V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L 84 (99)
|+|+|.+++++| +. +++++ +++||++|++.|.++||... .++.+.|+|||+.++. ++.+|+|
T Consensus 1 V~~fg~~~~~~g-~~--~~~~~-----~~~tv~~ll~~l~~~~p~~~---------~~~~~~v~vN~~~v~~-~~~~~~l 62 (77)
T PF02597_consen 1 VKFFGELREIAG-EE--EIEVP-----EGSTVRDLLEALAERYPELA---------LRDRVAVAVNGEIVPD-DGLDTPL 62 (77)
T ss_dssp EEETTHHHHHHT-EE--EEEES-----STSBHHHHHHHHCHHTGGGH---------TTTTEEEEETTEEEGG-GTTTSBE
T ss_pred CEEChhHHHHhC-Ce--EEecC-----CCCcHHHHHHHHHhhccccc---------cCccEEEEECCEEcCC-ccCCcCc
Confidence 799999999999 43 56677 79999999999999999866 6779999999999999 9999999
Q ss_pred CCCCEEEEEecCCCC
Q 034276 85 EEKDVVVFISTLHGG 99 (99)
Q Consensus 85 ~dgD~V~i~p~v~GG 99 (99)
++||+|+||||++||
T Consensus 63 ~~gD~V~i~ppvsGG 77 (77)
T PF02597_consen 63 KDGDEVAILPPVSGG 77 (77)
T ss_dssp ETTEEEEEEESTSTS
T ss_pred CCCCEEEEECCCCCC
Confidence 999999999999998
No 11
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=99.79 E-value=2.5e-19 Score=113.87 Aligned_cols=84 Identities=17% Similarity=0.186 Sum_probs=63.6
Q ss_pred eEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCcc
Q 034276 2 QLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLD 81 (99)
Q Consensus 2 ~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~ 81 (99)
+|+|+|||.+|+.+|+.. .+++.+. .+.|+++|.+.+.++++.....+.. .+++|..+++.+.+++
T Consensus 1 ~v~V~~fA~lre~~g~~~-~~~~~~~----~~~tv~~L~~~l~~~~~~~~~~~~~---------~~~v~~~~~~~~~~~~ 66 (84)
T COG1977 1 MVKVKYFAALREAAGKDE-EELEGLT----VGATVGELEELLPKEGERWLLALED---------NIVVNAANNEFLVGLD 66 (84)
T ss_pred CeEEEEehhHHHHhCCCc-eeeeccc----HHHHHHHHHHHHHhhhhhHHhccCc---------cceEEeeeceeecccc
Confidence 589999999999999754 3444231 3667777777766655543323221 5778888899999999
Q ss_pred CccCCCCEEEEEecCCCC
Q 034276 82 TTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 82 t~L~dgD~V~i~p~v~GG 99 (99)
|+|++||+|+||||++||
T Consensus 67 t~L~dGDeVa~~PPVsGG 84 (84)
T COG1977 67 TPLKDGDEVAFFPPVSGG 84 (84)
T ss_pred ccCCCCCEEEEeCCCCCC
Confidence 999999999999999998
No 12
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=99.27 E-value=1.6e-11 Score=73.72 Aligned_cols=57 Identities=21% Similarity=0.272 Sum_probs=48.2
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
.++++ ++.|+.++++.+.- ++.+.+.+|++-|...+..+|.|++||+|.||||++||
T Consensus 9 ~~~~~-----~~~tl~~ll~~l~~----------------~~~~~v~vN~~~v~~~~~~~~~L~~gD~vei~~~v~GG 65 (65)
T PRK06944 9 TLSLP-----DGATVADALAAYGA----------------RPPFAVAVNGDFVARTQHAARALAAGDRLDLVQPVAGG 65 (65)
T ss_pred EEECC-----CCCcHHHHHHhhCC----------------CCCeEEEECCEEcCchhcccccCCCCCEEEEEeeccCC
Confidence 36777 68999999997731 12467999999998777889999999999999999998
No 13
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=99.24 E-value=1.6e-11 Score=74.12 Aligned_cols=58 Identities=26% Similarity=0.282 Sum_probs=49.9
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
.++++ ++.|+.+|++.|.- + ...+.|.+||+-+...++.+|+|++||+|.||||++||
T Consensus 8 ~~~~~-----~~~tv~~ll~~l~~--~-------------~~~i~V~vNg~~v~~~~~~~~~L~~gD~V~ii~~v~GG 65 (65)
T cd00565 8 PREVE-----EGATLAELLEELGL--D-------------PRGVAVALNGEIVPRSEWASTPLQDGDRIEIVTAVGGG 65 (65)
T ss_pred EEEcC-----CCCCHHHHHHHcCC--C-------------CCcEEEEECCEEcCHHHcCceecCCCCEEEEEEeccCC
Confidence 36777 68899999998851 1 24788999999999888889999999999999999998
No 14
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=99.19 E-value=1.3e-10 Score=71.34 Aligned_cols=66 Identities=20% Similarity=0.240 Sum_probs=52.8
Q ss_pred EEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccC
Q 034276 3 LTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT 82 (99)
Q Consensus 3 v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t 82 (99)
++|++.|.+. . .+++++ ++.|++|+++.|. + .. ..+.|.+|++-+. .+|
T Consensus 5 m~v~vng~~~-----~--~~~~~~-----~~~tv~~ll~~l~--~--------~~-----~~v~v~vNg~iv~----~~~ 53 (70)
T PRK08364 5 IRVKVIGRGI-----E--KEIEWR-----KGMKVADILRAVG--F--------NT-----ESAIAKVNGKVAL----EDD 53 (70)
T ss_pred EEEEEecccc-----c--eEEEcC-----CCCcHHHHHHHcC--C--------CC-----ccEEEEECCEECC----CCc
Confidence 7888888752 2 257777 6899999999882 1 11 3688999999873 489
Q ss_pred ccCCCCEEEEEecCCCC
Q 034276 83 TLEEKDVVVFISTLHGG 99 (99)
Q Consensus 83 ~L~dgD~V~i~p~v~GG 99 (99)
.|++||+|.|||+++||
T Consensus 54 ~l~~gD~Veii~~V~GG 70 (70)
T PRK08364 54 PVKDGDYVEVIPVVSGG 70 (70)
T ss_pred CcCCCCEEEEEccccCC
Confidence 99999999999999998
No 15
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=99.12 E-value=1.6e-10 Score=69.53 Aligned_cols=58 Identities=31% Similarity=0.286 Sum_probs=48.8
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
.++++ ++.|+.+||+.|.- . ...+.|.+|++-+...+..+|.|++||+|.||||++||
T Consensus 7 ~~~~~-----~~~tv~~ll~~l~~----------~-----~~~v~v~vN~~iv~~~~~~~~~L~~gD~veii~~V~GG 64 (64)
T TIGR01683 7 PVEVE-----DGLTLAALLESLGL----------D-----PRRVAVAVNGEIVPRSEWDDTILKEGDRIEIVTFVGGG 64 (64)
T ss_pred EEEcC-----CCCcHHHHHHHcCC----------C-----CCeEEEEECCEEcCHHHcCceecCCCCEEEEEEeccCC
Confidence 36677 68899999997741 1 14788999999998777888999999999999999998
No 16
>PRK06437 hypothetical protein; Provisional
Probab=98.94 E-value=3.1e-09 Score=64.85 Aligned_cols=55 Identities=20% Similarity=0.418 Sum_probs=45.4
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
.+++++ ++.|++|||+.|. +.. ..+.|.+||+-+. .+|.|++||+|.|||+++||
T Consensus 13 ~~~~i~-----~~~tv~dLL~~Lg----------i~~-----~~vaV~vNg~iv~----~~~~L~dgD~Veiv~~V~GG 67 (67)
T PRK06437 13 KTIEID-----HELTVNDIIKDLG----------LDE-----EEYVVIVNGSPVL----EDHNVKKEDDVLILEVFSGG 67 (67)
T ss_pred eEEEcC-----CCCcHHHHHHHcC----------CCC-----ccEEEEECCEECC----CceEcCCCCEEEEEecccCC
Confidence 467787 7899999998772 121 2667889999986 68999999999999999998
No 17
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=98.94 E-value=2.9e-09 Score=64.12 Aligned_cols=52 Identities=19% Similarity=0.189 Sum_probs=43.6
Q ss_pred cchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 33 KLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 33 ~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
..|+.+|++.+. +.. ..+.|.+|++=+......+|+|++||+|.||||++||
T Consensus 14 ~~tl~~Ll~~l~----------~~~-----~~vavavN~~iv~~~~~~~~~L~dgD~Ieiv~~V~GG 65 (65)
T PRK06488 14 ATTLALLLAELD----------YEG-----NWLATAVNGELVHKEARAQFVLHEGDRIEILSPMQGG 65 (65)
T ss_pred cCcHHHHHHHcC----------CCC-----CeEEEEECCEEcCHHHcCccccCCCCEEEEEEeccCC
Confidence 369999998771 111 2678999999998777889999999999999999998
No 18
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=98.88 E-value=4.7e-09 Score=63.56 Aligned_cols=57 Identities=14% Similarity=0.265 Sum_probs=47.2
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
++++ ++.|+.+||+.+.-.+ +++.|.+|++=+.--+..+|.|++||+|.|+|+++||
T Consensus 10 ~~~~-----~~~tl~~ll~~l~~~~---------------~~vaVavN~~iv~r~~w~~~~L~~gD~Ieii~~v~GG 66 (66)
T PRK08053 10 MQCA-----AGQTVHELLEQLNQLQ---------------PGAALAINQQIIPREQWAQHIVQDGDQILLFQVIAGG 66 (66)
T ss_pred EEcC-----CCCCHHHHHHHcCCCC---------------CcEEEEECCEEeChHHcCccccCCCCEEEEEEEccCC
Confidence 6677 6789999998653211 3588999999888777788999999999999999998
No 19
>KOG3474 consensus Molybdopterin converting factor, small subunit [Energy production and conversion]
Probab=98.88 E-value=1.7e-09 Score=67.45 Aligned_cols=82 Identities=12% Similarity=0.119 Sum_probs=66.1
Q ss_pred eEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCcc
Q 034276 2 QLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLD 81 (99)
Q Consensus 2 ~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~ 81 (99)
.|||-|||..++++|+ +...+++| ++++-.+.++.+.++||.+.+ ++.-+++.+|.+--. .|..
T Consensus 3 eIKVL~Fa~A~eLtG~-~d~ai~~P-----e~s~~ee~~deil~kfPaLee--------i~k~mmLAldeEYan--p~D~ 66 (84)
T KOG3474|consen 3 EIKVLFFAEACELTGK-PDEAIDFP-----EESDTEECLDEILEKFPALEE--------IEKCMMLALDEEYAN--PGDR 66 (84)
T ss_pred eEEEeeehhhHHhcCC-chhhccCC-----CCCCHHHHHHHHHHhCccHHH--------HHHHhheehhhhhcC--CCCc
Confidence 6999999999999997 45789999 899999999999999998643 344455566654432 2455
Q ss_pred CccCCCCEEEEEecCCCC
Q 034276 82 TTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 82 t~L~dgD~V~i~p~v~GG 99 (99)
..|..=|+|+|+||++||
T Consensus 67 ~~l~~~dEiAiIPPiSGG 84 (84)
T KOG3474|consen 67 AELQHFDEIAIIPPISGG 84 (84)
T ss_pred eeeEeeceeeEcCCCCCC
Confidence 688899999999999998
No 20
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=98.85 E-value=1.1e-08 Score=64.85 Aligned_cols=73 Identities=22% Similarity=0.291 Sum_probs=55.8
Q ss_pred CeEEEEEcchHhhhcCCeeE---EEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceec
Q 034276 1 MQLTLEFGGGLELLCDSVKV---HNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELS 77 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~---~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l 77 (99)
-.|+++|+|.|+.++..++. ..++++ +++||+++++.|-= | ..++ + .|+|||+.+.+
T Consensus 2 ~~i~~rf~~~L~~flp~~~r~~~~~~~~~-----~~~tvkd~IEsLGV--P--~tEV---------~-~i~vNG~~v~~- 61 (81)
T PF14451_consen 2 PTITFRFYAELNDFLPPERRGGPFTHPFD-----GGATVKDVIESLGV--P--HTEV---------G-LILVNGRPVDF- 61 (81)
T ss_pred CEEEEEEchHHhhhcChhhcCCceEEecC-----CCCcHHHHHHHcCC--C--hHHe---------E-EEEECCEECCC-
Confidence 06999999999999876553 344555 78999999998842 1 2222 1 38899999876
Q ss_pred CCccCccCCCCEEEEEecC
Q 034276 78 GQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 78 ~g~~t~L~dgD~V~i~p~v 96 (99)
++.+++||.|+++|.-
T Consensus 62 ---~~~~~~Gd~v~V~P~~ 77 (81)
T PF14451_consen 62 ---DYRLKDGDRVAVYPVF 77 (81)
T ss_pred ---cccCCCCCEEEEEecc
Confidence 7999999999999964
No 21
>PRK01777 hypothetical protein; Validated
Probab=98.75 E-value=3.7e-08 Score=64.10 Aligned_cols=75 Identities=13% Similarity=0.149 Sum_probs=52.1
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCc
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL 80 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~ 80 (99)
|+|+|-|...=+ .....+++| +|+||+|+|+.+. .+....++- +. .-.++|||+.+. +
T Consensus 4 i~v~V~ya~~~~-----~~~~~l~vp-----~GtTv~dal~~sg--i~~~~pei~-----~~-~~~vgI~Gk~v~----~ 61 (95)
T PRK01777 4 IRVEVVYALPER-----QYLQRLTLQ-----EGATVEEAIRASG--LLELRTDID-----LA-KNKVGIYSRPAK----L 61 (95)
T ss_pred eEEEEEEECCCc-----eEEEEEEcC-----CCCcHHHHHHHcC--CCccCcccc-----cc-cceEEEeCeECC----C
Confidence 567777764422 223568899 8999999999873 222222221 11 235899999985 4
Q ss_pred cCccCCCCEEEEEecCC
Q 034276 81 DTTLEEKDVVVFISTLH 97 (99)
Q Consensus 81 ~t~L~dgD~V~i~p~v~ 97 (99)
+++|++||.|.||||+.
T Consensus 62 d~~L~dGDRVeIyrPL~ 78 (95)
T PRK01777 62 TDVLRDGDRVEIYRPLL 78 (95)
T ss_pred CCcCCCCCEEEEecCCC
Confidence 89999999999999974
No 22
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=98.74 E-value=2.8e-08 Score=59.70 Aligned_cols=57 Identities=32% Similarity=0.299 Sum_probs=45.6
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
++++ ++.|+.++|+.+. + . ...+.|.+||+=+..-...+|+|++||+|.|||+++||
T Consensus 10 ~~~~-----~~~tl~~lL~~l~--~--------~-----~~~vav~vNg~iv~r~~~~~~~l~~gD~vei~~~vgGG 66 (66)
T PRK05659 10 RELP-----DGESVAALLAREG--L--------A-----GRRVAVEVNGEIVPRSQHASTALREGDVVEIVHALGGG 66 (66)
T ss_pred EEcC-----CCCCHHHHHHhcC--C--------C-----CCeEEEEECCeEeCHHHcCcccCCCCCEEEEEEEecCC
Confidence 5677 7899999998762 1 1 12555889997777667789999999999999999998
No 23
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=98.68 E-value=1.1e-07 Score=58.40 Aligned_cols=57 Identities=33% Similarity=0.397 Sum_probs=48.6
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
++++ ++.|+.|||+.|. |.. +.+.+.+||.=+.--+..++.|++||+|.|+.+++||
T Consensus 12 ~e~~-----~~~tv~dLL~~l~----------~~~-----~~vav~vNg~iVpr~~~~~~~l~~gD~ievv~~v~GG 68 (68)
T COG2104 12 VEIA-----EGTTVADLLAQLG----------LNP-----EGVAVAVNGEIVPRSQWADTILKEGDRIEVVRVVGGG 68 (68)
T ss_pred EEcC-----CCCcHHHHHHHhC----------CCC-----ceEEEEECCEEccchhhhhccccCCCEEEEEEeecCC
Confidence 6677 6799999999874 222 3788999999888777889999999999999999998
No 24
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=98.55 E-value=2e-07 Score=56.32 Aligned_cols=56 Identities=25% Similarity=0.327 Sum_probs=44.2
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
.+++ ++.|+.+||+.+. + . ...|.|.+|+.=+...+.. +.|++||+|.||++++||
T Consensus 10 ~~~~-----~~~tl~~ll~~l~--~--------~-----~~~vav~~N~~iv~r~~~~-~~L~~gD~ieIv~~VgGG 65 (65)
T PRK05863 10 VEVD-----EQTTVAALLDSLG--F--------P-----EKGIAVAVDWSVLPRSDWA-TKLRDGARLEVVTAVQGG 65 (65)
T ss_pred EEcC-----CCCcHHHHHHHcC--C--------C-----CCcEEEEECCcCcChhHhh-hhcCCCCEEEEEeeccCC
Confidence 5566 6789999999762 1 1 2378899999977666554 469999999999999998
No 25
>PRK07440 hypothetical protein; Provisional
Probab=98.52 E-value=2.6e-07 Score=56.82 Aligned_cols=57 Identities=21% Similarity=0.148 Sum_probs=48.3
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
++++ ++.|+.+||+.+. +.. .+|.|.+|++=+.-.+..+|.|++||.|.|++.++||
T Consensus 14 ~~~~-----~~~tl~~lL~~l~----------~~~-----~~vav~~N~~iv~r~~w~~~~L~~gD~IEIv~~v~GG 70 (70)
T PRK07440 14 RTCS-----SGTSLPDLLQQLG----------FNP-----RLVAVEYNGEILHRQFWEQTQVQPGDRLEIVTIVGGG 70 (70)
T ss_pred EEcC-----CCCCHHHHHHHcC----------CCC-----CeEEEEECCEEeCHHHcCceecCCCCEEEEEEEecCC
Confidence 5566 6899999998552 111 3889999999999888999999999999999999998
No 26
>PF06805 Lambda_tail_I: Bacteriophage lambda tail assembly protein I; InterPro: IPR010654 This family consists of several Bacteriophage lambda tail assembly protein I and related phage and bacterial sequences. Members of this family are typically around 200 residues in length. The function of this family is unknown.
Probab=98.51 E-value=5.8e-07 Score=56.95 Aligned_cols=81 Identities=11% Similarity=-0.057 Sum_probs=60.3
Q ss_pred CeEEEEEcchHh-hhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCC
Q 034276 1 MQLTLEFGGGLE-LLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQ 79 (99)
Q Consensus 1 M~v~V~f~a~l~-~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g 79 (99)
|-.+|+++|.|. ..||.. +.++ ..|..+++.+|+...|++++. ..-.+.-.||++...-+.
T Consensus 1 ~~~tI~L~G~L~~~~fGr~----~~l~------v~t~~Eai~AL~~~~pGf~~~--------~~v~~~~~ng~~~l~~~~ 62 (82)
T PF06805_consen 1 TMRTIRLYGPLGPRRFGRR----HRLA------VDTPAEAIRALCVQLPGFEQF--------FAVFIGKRNGEDELEARW 62 (82)
T ss_pred CcEEEEEeCcCcCccceEE----EEec------cCCHHHHHHHHHhcChhhhhh--------cceEEeeeCChhhhhhhh
Confidence 346899999998 888842 3343 579999999999999988665 223345667666542233
Q ss_pred ccCccCCCCEEEEEecCCCC
Q 034276 80 LDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 80 ~~t~L~dgD~V~i~p~v~GG 99 (99)
.+..+++|++|.|.|-+.|+
T Consensus 63 ~~~~~~~g~~I~IvPvi~Gs 82 (82)
T PF06805_consen 63 HDERPKGGSVIRIVPVIAGS 82 (82)
T ss_pred hcccCCCCCEEEEEEecCCC
Confidence 33689999999999999996
No 27
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=98.41 E-value=7.3e-07 Score=54.27 Aligned_cols=57 Identities=21% Similarity=0.272 Sum_probs=46.9
Q ss_pred EEeCCCCCCCc-chHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 23 VDVVPPKGSEK-LIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 23 vev~~~~~~~~-~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
.+++ ++ +||.|||+.|. +. ...+.|.+|++=+.-.+..+|.|++||.|.|++.++||
T Consensus 10 ~~~~-----~~~~tv~~lL~~l~----------~~-----~~~vav~vN~~iv~r~~w~~~~L~~gD~iEIv~~VgGG 67 (67)
T PRK07696 10 IEVP-----ESVKTVAELLTHLE----------LD-----NKIVVVERNKDILQKDDHTDTSVFDGDQIEIVTFVGGG 67 (67)
T ss_pred EEcC-----CCcccHHHHHHHcC----------CC-----CCeEEEEECCEEeCHHHcCceecCCCCEEEEEEEecCC
Confidence 5566 55 68999998652 11 12778999999998888889999999999999999998
No 28
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=98.36 E-value=9.8e-07 Score=56.21 Aligned_cols=53 Identities=15% Similarity=0.227 Sum_probs=45.1
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
++.|+.+||+.|. +. ...+.|.+||+=|.--+..+|.|++||.|.|+.+++||
T Consensus 32 ~~~tl~~LL~~l~----------~~-----~~~vAVevNg~iVpr~~w~~t~L~egD~IEIv~~VgGG 84 (84)
T PRK06083 32 ISSSLAQIIAQLS----------LP-----ELGCVFAINNQVVPRSEWQSTVLSSGDAISLFQAIAGG 84 (84)
T ss_pred CCCcHHHHHHHcC----------CC-----CceEEEEECCEEeCHHHcCcccCCCCCEEEEEEEecCC
Confidence 6789999999652 11 12778999999998888999999999999999999998
No 29
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=98.17 E-value=3.7e-06 Score=65.17 Aligned_cols=57 Identities=26% Similarity=0.179 Sum_probs=48.4
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
++++ ++.|+.|||+.+. +.. ..|.|.+||+-+...+..+|+|++||+|.||++|+||
T Consensus 10 ~el~-----e~~TL~dLL~~L~----------i~~-----~~VAVeVNgeIVpr~~w~~t~LkeGD~IEII~~VgGG 66 (326)
T PRK11840 10 RQVP-----AGLTIAALLAELG----------LAP-----KKVAVERNLEIVPRSEYGQVALEEGDELEIVHFVGGG 66 (326)
T ss_pred EecC-----CCCcHHHHHHHcC----------CCC-----CeEEEEECCEECCHHHcCccccCCCCEEEEEEEecCC
Confidence 6677 6889999998762 111 2788999999999888999999999999999999998
No 30
>PF03658 Ub-RnfH: RnfH family Ubiquitin; InterPro: IPR005346 This is a small family of proteins of unknown function.; PDB: 2HJ1_B.
Probab=97.47 E-value=0.00093 Score=42.65 Aligned_cols=72 Identities=15% Similarity=0.137 Sum_probs=40.1
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHH--HHHhcCcccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSW--VGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~--L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|+|-|..+ + .+....+++| +|+||.|+++. |.+.||+..- + ..+ +=|=|+-+
T Consensus 1 i~VeV~yA~p-~----~q~~~~l~vp-----~GtTv~~Ai~~Sgi~~~~p~idl----~--~~~----vGIfGk~~---- 56 (84)
T PF03658_consen 1 IRVEVAYALP-E----RQVILTLEVP-----EGTTVAQAIEASGILEQFPEIDL----E--KNK----VGIFGKLV---- 56 (84)
T ss_dssp EEEEEEEEET-T----CEEEEEEEEE-----TT-BHHHHHHHHTHHHH-TT--T----T--TSE----EEEEE-S-----
T ss_pred CEEEEEEECC-C----eEEEEEEECC-----CcCcHHHHHHHcCchhhCcccCc----c--cce----eeeeeeEc----
Confidence 7888887644 2 2344678999 89999999986 5666776421 1 111 22234444
Q ss_pred CccCccCCCCEEEEEecC
Q 034276 79 QLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p~v 96 (99)
.++++|++||.|-|+=|+
T Consensus 57 ~~d~~L~~GDRVEIYRPL 74 (84)
T PF03658_consen 57 KLDTVLRDGDRVEIYRPL 74 (84)
T ss_dssp -TT-B--TT-EEEEE-S-
T ss_pred CCCCcCCCCCEEEEeccC
Confidence 368999999999999775
No 31
>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=97.05 E-value=0.004 Score=38.47 Aligned_cols=73 Identities=18% Similarity=0.272 Sum_probs=49.4
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|+|+-.. |+ ..+++++ ..+||++|=+.++++. |..+-+|... |+ ++-++ .|
T Consensus 2 m~I~Vk~~~------G~--~~~l~v~-----~~~TV~~LK~~I~~~~~~~~~~qrL~~~-Gk------~L~d~----~L- 56 (78)
T cd01804 2 MNLNIHSTT------GT--RFDLSVP-----PDETVEGLKKRISQRLKVPKERLALLHR-ET------RLSSG----KL- 56 (78)
T ss_pred eEEEEEECC------CC--EEEEEEC-----CcCHHHHHHHHHHHHhCCChHHEEEEEC-Cc------CCCCC----cH-
Confidence 788887764 33 3568888 5789999999998774 3333344322 33 12222 13
Q ss_pred CccCccCCCCEEEEEecCCCC
Q 034276 79 QLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p~v~GG 99 (99)
.++-+++|+.|.+++++-||
T Consensus 57 -~~~gi~~~~~i~l~~~~~~~ 76 (78)
T cd01804 57 -QDLGLGDGSKLTLVPTVEAG 76 (78)
T ss_pred -HHcCCCCCCEEEEEeecccc
Confidence 35789999999999999887
No 32
>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=97.04 E-value=0.0046 Score=37.08 Aligned_cols=74 Identities=15% Similarity=0.200 Sum_probs=49.6
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|+|+... |+ .+.++++ ...||+++-+.++++. |...-+|+. +|+ ++-++.. +
T Consensus 1 m~i~v~~~~------g~--~~~~~v~-----~~~tv~~lK~~i~~~~g~~~~~qrL~~-~g~------~L~d~~t---l- 56 (76)
T cd01806 1 MLIKVKTLT------GK--EIEIDIE-----PTDKVERIKERVEEKEGIPPQQQRLIY-SGK------QMNDDKT---A- 56 (76)
T ss_pred CEEEEEeCC------CC--EEEEEEC-----CCCCHHHHHHHHhHhhCCChhhEEEEE-CCe------EccCCCC---H-
Confidence 889998874 32 3467787 5789999999998875 222223332 222 2222222 2
Q ss_pred CccCccCCCCEEEEEecCCCC
Q 034276 79 QLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p~v~GG 99 (99)
.++.+++|+.|.+++...||
T Consensus 57 -~~~~i~~g~~i~l~~~~~gg 76 (76)
T cd01806 57 -ADYKLEGGSVLHLVLALRGG 76 (76)
T ss_pred -HHcCCCCCCEEEEEEEccCC
Confidence 35789999999999999887
No 33
>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=96.83 E-value=0.0087 Score=32.26 Aligned_cols=59 Identities=22% Similarity=0.112 Sum_probs=41.2
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCc-cCccCCCCEEEEEec
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL-DTTLEEKDVVVFIST 95 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~-~t~L~dgD~V~i~p~ 95 (99)
..+.++ ...|++++++.++++++.. .....+++|+......... ++.+.+|++|.+.|+
T Consensus 10 ~~~~~~-----~~~tv~~l~~~i~~~~~~~-----------~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 69 (69)
T cd00196 10 VELLVP-----SGTTVADLKEKLAKKLGLP-----------PEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVPR 69 (69)
T ss_pred EEEEcC-----CCCcHHHHHHHHHHHHCcC-----------hHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 456666 5799999999999987511 1134456666655443322 679999999999874
No 34
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=96.83 E-value=0.0067 Score=36.32 Aligned_cols=74 Identities=11% Similarity=0.179 Sum_probs=50.0
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|.|+... |+ .+.++++ ...||.++-+.+.+.. |...-.|+. +|+ ++-++. .+
T Consensus 1 m~i~v~~~~------g~--~~~~~v~-----~~~tV~~lK~~i~~~~g~~~~~q~L~~-~g~------~L~d~~---~L- 56 (76)
T cd01803 1 MQIFVKTLT------GK--TITLEVE-----PSDTIENVKAKIQDKEGIPPDQQRLIF-AGK------QLEDGR---TL- 56 (76)
T ss_pred CEEEEEcCC------CC--EEEEEEC-----CcCcHHHHHHHHHHHhCCCHHHeEEEE-CCE------ECCCCC---cH-
Confidence 888888775 32 3467787 5689999999998865 333334432 233 122332 22
Q ss_pred CccCccCCCCEEEEEecCCCC
Q 034276 79 QLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p~v~GG 99 (99)
.++.+++|+.|.+.....||
T Consensus 57 -~~~~i~~~~~i~l~~~~~gg 76 (76)
T cd01803 57 -SDYNIQKESTLHLVLRLRGG 76 (76)
T ss_pred -HHcCCCCCCEEEEEEEccCC
Confidence 35789999999999999987
No 35
>COG4723 Phage-related protein, tail component [Function unknown]
Probab=96.67 E-value=0.0017 Score=47.02 Aligned_cols=82 Identities=13% Similarity=0.119 Sum_probs=56.7
Q ss_pred EEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEE-EcCccceecCCcc
Q 034276 3 LTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVL-VNDCDWELSGQLD 81 (99)
Q Consensus 3 v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~il-vNg~di~~l~g~~ 81 (99)
.+|.+||.| .-||. .+.+.|. |..|.|++|+-..|.++..+= ++. ..+.|. +....+..-..+.
T Consensus 6 ~~I~L~G~L-~rFGR--~~~l~V~--------t~aEAi~AL~~q~pgfr~~m~--~~~--y~~~i~~~~~~~~~v~~~~~ 70 (198)
T COG4723 6 ARICLYGDL-QRFGR--RLSLYVN--------TAAEAIRALSLQMPGFRRQMN--EGW--YQIRIAGVDTAPENVTASLH 70 (198)
T ss_pred eEEEecChH-HHhhh--HHhhhhC--------CHHHHHHHHHhcChhHHHHHh--cce--eeeEeeccccCcccccHhHh
Confidence 589999999 88994 3444443 799999999999999988773 222 233332 2222222233455
Q ss_pred CccCCCCEEEEEecCCCC
Q 034276 82 TTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 82 t~L~dgD~V~i~p~v~GG 99 (99)
..+.+|++|.|.|-++|.
T Consensus 71 e~~~~g~~I~iVPrlaGa 88 (198)
T COG4723 71 ESLGPGAVIHIVPRLAGA 88 (198)
T ss_pred ccCCCCcEEEecceeccC
Confidence 578899999999999984
No 36
>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=96.38 E-value=0.008 Score=35.52 Aligned_cols=49 Identities=27% Similarity=0.230 Sum_probs=36.6
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.++| +|+|+.|+...+... +.+ ..+...|||+.|. ++++|++||.|.|+
T Consensus 11 ~~~~-----~g~T~~d~A~~I~~~---l~~----------~~~~A~Vng~~vd----l~~~L~~~d~v~ii 59 (60)
T PF02824_consen 11 KELP-----EGSTVLDVAYSIHSS---LAK----------RAVAAKVNGQLVD----LDHPLEDGDVVEII 59 (60)
T ss_dssp EEEE-----TTBBHHHHHHHHSHH---HHH----------CEEEEEETTEEEE----TTSBB-SSEEEEEE
T ss_pred eeCC-----CCCCHHHHHHHHCHH---HHh----------heeEEEEcCEECC----CCCCcCCCCEEEEE
Confidence 4577 799999999988652 221 2455789998875 58999999999987
No 37
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=95.46 E-value=0.067 Score=30.34 Aligned_cols=49 Identities=22% Similarity=0.165 Sum_probs=35.0
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
++++ ++.|+.++++.+.. ... +..+.+.+||+.++ ++++|.+||+|.++
T Consensus 11 ~~~~-----~~~t~~~~~~~~~~---~~~----------~~~va~~vng~~vd----l~~~l~~~~~ve~v 59 (60)
T cd01668 11 IELP-----AGATVLDFAYAIHT---EIG----------NRCVGAKVNGKLVP----LSTVLKDGDIVEII 59 (60)
T ss_pred EEcC-----CCCCHHHHHHHHCh---Hhh----------hheEEEEECCEECC----CCCCCCCCCEEEEE
Confidence 5677 78999998875532 111 12456789998865 46999999999876
No 38
>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=95.32 E-value=0.077 Score=34.64 Aligned_cols=63 Identities=10% Similarity=0.086 Sum_probs=42.1
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCC
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLH 97 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~ 97 (99)
.+.++++ ...||.++=+.+.++. |....+|+. .|+ +|-+++.+ .++.+++|+.|.+..++-
T Consensus 39 ~~~leV~-----~~~TV~~lK~kI~~~~gip~~~QrLi~-~Gk------~L~D~~tL-----~dy~I~~~stL~l~~~l~ 101 (103)
T cd01802 39 CFELRVS-----PFETVISVKAKIQRLEGIPVAQQHLIW-NNM------ELEDEYCL-----NDYNISEGCTLKLVLAMR 101 (103)
T ss_pred EEEEEeC-----CCCcHHHHHHHHHHHhCCChHHEEEEE-CCE------ECCCCCcH-----HHcCCCCCCEEEEEEecC
Confidence 3567787 5789999999998875 333333332 222 23333322 357899999999999998
Q ss_pred CC
Q 034276 98 GG 99 (99)
Q Consensus 98 GG 99 (99)
||
T Consensus 102 GG 103 (103)
T cd01802 102 GG 103 (103)
T ss_pred CC
Confidence 87
No 39
>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=95.31 E-value=0.028 Score=34.91 Aligned_cols=56 Identities=23% Similarity=0.270 Sum_probs=34.4
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhcCcccc-cccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNLIKERP-EMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~~~~~~-~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
-+.+| .|+||.|+...+-........ .+.. +-.+=+||+.+ |++.+|+|||.|.|+
T Consensus 18 ~liL~-----~GaTV~D~a~~iH~di~~~f~~A~v~-------g~s~~~~gq~V----gl~~~L~d~DvVeI~ 74 (75)
T cd01666 18 PVILR-----RGSTVEDVCNKIHKDLVKQFKYALVW-------GSSVKHSPQRV----GLDHVLEDEDVVQIV 74 (75)
T ss_pred CEEEC-----CCCCHHHHHHHHHHHHHHhCCeeEEe-------ccCCcCCCeEC----CCCCEecCCCEEEEe
Confidence 36677 799999999987643211111 1100 00111355554 679999999999987
No 40
>PTZ00044 ubiquitin; Provisional
Probab=95.20 E-value=0.11 Score=31.29 Aligned_cols=74 Identities=9% Similarity=0.110 Sum_probs=49.1
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcC--cccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI--KERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~--~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|.|+-. -|+ .+.++++ ...||.++=+.++++.. ...-+|+. +|+. |-|+.. +
T Consensus 1 m~i~vk~~------~G~--~~~l~v~-----~~~tv~~lK~~i~~~~gi~~~~q~L~~-~g~~------L~d~~~---l- 56 (76)
T PTZ00044 1 MQILIKTL------TGK--KQSFNFE-----PDNTVQQVKMALQEKEGIDVKQIRLIY-SGKQ------MSDDLK---L- 56 (76)
T ss_pred CEEEEEeC------CCC--EEEEEEC-----CCCcHHHHHHHHHHHHCCCHHHeEEEE-CCEE------ccCCCc---H-
Confidence 77777765 332 3467777 57899999999988773 33334442 2332 333333 2
Q ss_pred CccCccCCCCEEEEEecCCCC
Q 034276 79 QLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p~v~GG 99 (99)
.++.+++|+.|.+..+.-||
T Consensus 57 -~~~~i~~~~~i~l~~~~~gg 76 (76)
T PTZ00044 57 -SDYKVVPGSTIHMVLQLRGG 76 (76)
T ss_pred -HHcCCCCCCEEEEEEEccCC
Confidence 35689999999999998887
No 41
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=95.07 E-value=0.13 Score=28.23 Aligned_cols=49 Identities=24% Similarity=0.215 Sum_probs=35.3
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
++++ +++|+.++++.+...++ +..+...+||+-+. ++++|.+||+|.|+
T Consensus 11 ~~~~-----~g~t~~~~~~~~~~~~~-------------~~~~~~~vn~~~~~----l~~~l~~~~~i~~i 59 (60)
T cd01616 11 VELP-----KGATAMDFALKIHTDLG-------------KGFIGALVNGQLVD----LSYTLQDGDTVSIV 59 (60)
T ss_pred EEcC-----CCCCHHHHHHHHHHHHH-------------hheEEEEECCEECC----CCcCcCCCCEEEEe
Confidence 5577 68999998887654221 12455778986643 57999999999987
No 42
>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=94.75 E-value=0.15 Score=30.68 Aligned_cols=68 Identities=18% Similarity=0.240 Sum_probs=41.5
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCc----ccccccccCCccccceEEEEcCcccee
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIK----ERPEMFMKGDSVRPGVLVLVNDCDWEL 76 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~----~~~~l~~~~g~l~~~v~ilvNg~di~~ 76 (99)
|+|+|+..++ +.+.++++ ...||.++-+.+.+...- .+-.++. +|+ +|-++..
T Consensus 1 m~i~vk~~~g--------~~~~l~v~-----~~~TV~~lK~~i~~~~~i~~~~~~q~L~~-~G~------~L~d~~~--- 57 (77)
T cd01805 1 MKITFKTLKQ--------QTFPIEVD-----PDDTVAELKEKIEEEKGCDYPPEQQKLIY-SGK------ILKDDTT--- 57 (77)
T ss_pred CEEEEEeCCC--------CEEEEEEC-----CCCcHHHHHHHHHHhhCCCCChhHeEEEE-CCE------EccCCCC---
Confidence 8899988643 23567887 568999999999886532 1212221 122 2222222
Q ss_pred cCCccCccCCCCEEEEE
Q 034276 77 SGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 77 l~g~~t~L~dgD~V~i~ 93 (99)
+ .++.+++||.|.++
T Consensus 58 L--~~~~i~~~~~i~~~ 72 (77)
T cd01805 58 L--EEYKIDEKDFVVVM 72 (77)
T ss_pred H--HHcCCCCCCEEEEE
Confidence 2 35688999988764
No 43
>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=94.61 E-value=0.19 Score=30.26 Aligned_cols=72 Identities=21% Similarity=0.226 Sum_probs=47.7
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|.||- ++ .+.++++ +..||.++=+.+++.. |...-.|.. .|+ +|-|++- +
T Consensus 1 mqi~vk~--------~~--~~~l~v~-----~~~tV~~lK~~i~~~~gip~~~q~Li~-~Gk------~L~D~~t---L- 54 (74)
T cd01793 1 MQLFVRA--------QN--THTLEVT-----GQETVSDIKAHVAGLEGIDVEDQVLLL-AGV------PLEDDAT---L- 54 (74)
T ss_pred CEEEEEC--------CC--EEEEEEC-----CcCcHHHHHHHHHhhhCCCHHHEEEEE-CCe------ECCCCCC---H-
Confidence 8888884 12 3567887 5789999999998765 332223322 222 2334433 2
Q ss_pred CccCccCCCCEEEEEecCCCC
Q 034276 79 QLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p~v~GG 99 (99)
.++-+++++.|.+..++-||
T Consensus 55 -~~~~i~~~~tl~l~~~l~GG 74 (74)
T cd01793 55 -GQCGVEELCTLEVAGRLLGG 74 (74)
T ss_pred -HHcCCCCCCEEEEEEecCCC
Confidence 35789999999999999887
No 44
>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=94.03 E-value=0.27 Score=29.12 Aligned_cols=59 Identities=10% Similarity=0.066 Sum_probs=37.1
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCC-ccCccCCCCEEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQ-LDTTLEEKDVVVFI 93 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g-~~t~L~dgD~V~i~ 93 (99)
.+.+.+. ...+++.|++..+++..-... ..+.++.+|+.++.-+- .+.-+++||.|.++
T Consensus 12 ~~~~~v~-----~~~~~~~l~~~~~~~~~i~~~----------~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~ 71 (72)
T PF11976_consen 12 EIKFKVK-----PTTTVSKLIEKYCEKKGIPPE----------ESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVI 71 (72)
T ss_dssp EEEEEEE-----TTSCCHHHHHHHHHHHTTTT-----------TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE
T ss_pred EEEEEEC-----CCCcHHHHHHHHHHhhCCCcc----------ceEEEEECCEEcCCCCCHHHCCCCCCCEEEEE
Confidence 4567777 678999999999986642221 24556667766543221 12368999998764
No 45
>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=93.97 E-value=0.71 Score=28.82 Aligned_cols=64 Identities=14% Similarity=0.055 Sum_probs=44.5
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCC-ccCccCCCCEEEEEecCCC
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQ-LDTTLEEKDVVVFISTLHG 98 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g-~~t~L~dgD~V~i~p~v~G 98 (99)
.+.+.+. ...|++.|.++++++..-.. ..+-.+-||+.++.-.- .+.-+++||.|.++-..-|
T Consensus 23 ~~~~~v~-----~~~~l~~l~~~y~~~~gi~~-----------~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~G 86 (87)
T cd01763 23 EVFFKIK-----RSTPLKKLMEAYCQRQGLSM-----------NSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTG 86 (87)
T ss_pred EEEEEEc-----CCCHHHHHHHHHHHHhCCCc-----------cceEEEECCeECCCCCCHHHcCCCCCCEEEEEEeccc
Confidence 3567777 57899999999998653211 13335557766654322 3447899999999988888
Q ss_pred C
Q 034276 99 G 99 (99)
Q Consensus 99 G 99 (99)
|
T Consensus 87 G 87 (87)
T cd01763 87 G 87 (87)
T ss_pred C
Confidence 7
No 46
>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=93.90 E-value=0.36 Score=28.34 Aligned_cols=68 Identities=12% Similarity=0.237 Sum_probs=40.6
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|+|++.| +.++++++ ...||.+|-+.+++.. |..+.+|+.. |.. +-+. ..+
T Consensus 1 i~i~vk~~g---------~~~~i~v~-----~~~tv~~lK~~i~~~~gi~~~~q~L~~~-g~~------l~d~---~~L- 55 (71)
T cd01812 1 IRVRVKHGG---------ESHDLSIS-----SQATFGDLKKMLAPVTGVEPRDQKLIFK-GKE------RDDA---ETL- 55 (71)
T ss_pred CEEEEEECC---------EEEEEEEC-----CCCcHHHHHHHHHHhhCCChHHeEEeeC-Ccc------cCcc---CcH-
Confidence 467777642 23467787 5789999999998875 3333334322 221 1111 122
Q ss_pred CccCccCCCCEEEEEe
Q 034276 79 QLDTTLEEKDVVVFIS 94 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p 94 (99)
.++.+++|+.|.++.
T Consensus 56 -~~~~i~~g~~l~v~~ 70 (71)
T cd01812 56 -DMSGVKDGSKVMLLE 70 (71)
T ss_pred -HHcCCCCCCEEEEec
Confidence 356789999998763
No 47
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=93.76 E-value=0.24 Score=30.74 Aligned_cols=51 Identities=16% Similarity=0.166 Sum_probs=33.5
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
+.+| .++|+.|+-..+-...... |.. - +...|++. -|++++|++||.|.|+
T Consensus 25 ~~l~-----~GaTv~D~A~~IHtdi~~~----f~~------A-i~~k~~~~----vg~~~~L~dgDvV~Ii 75 (76)
T cd01669 25 FLLP-----KGSTARDLAYAIHTDIGDG----FLH------A-IDARTGRR----VGEDYELKHRDVIKIV 75 (76)
T ss_pred EEEC-----CCCCHHHHHHHHHHHHHhc----cee------e-EEeeCCEE----eCCCcEecCCCEEEEe
Confidence 5677 6999999988775533221 110 0 11235543 4789999999999997
No 48
>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=93.22 E-value=0.41 Score=28.75 Aligned_cols=69 Identities=19% Similarity=0.231 Sum_probs=44.3
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|.|+... |+ ...++++ ...||+++-+.++++. |....+|+. .|+ .|-|++.+
T Consensus 1 m~i~vk~~~------G~--~~~l~v~-----~~~tV~~lK~~i~~~~gi~~~~q~L~~-~G~------~L~d~~~L---- 56 (74)
T cd01807 1 MFLTVKLLQ------GR--ECSLQVS-----EKESVSTLKKLVSEHLNVPEEQQRLLF-KGK------ALADDKRL---- 56 (74)
T ss_pred CEEEEEeCC------CC--EEEEEEC-----CCCcHHHHHHHHHHHHCCCHHHeEEEE-CCE------ECCCCCCH----
Confidence 888888763 32 3467787 5789999999998875 333334443 232 23344332
Q ss_pred CccCccCCCCEEEEEe
Q 034276 79 QLDTTLEEKDVVVFIS 94 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p 94 (99)
.++-+++|+.|.++.
T Consensus 57 -~~~~i~~~~~l~l~~ 71 (74)
T cd01807 57 -SDYSIGPNAKLNLVV 71 (74)
T ss_pred -HHCCCCCCCEEEEEE
Confidence 357899999987764
No 49
>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=92.35 E-value=0.41 Score=37.98 Aligned_cols=68 Identities=19% Similarity=0.260 Sum_probs=42.5
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc-----CcccccccccCCccccceEEEEcCccce
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL-----IKERPEMFMKGDSVRPGVLVLVNDCDWE 75 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~-----~~~~~~l~~~~g~l~~~v~ilvNg~di~ 75 (99)
|+|+||.+. |+ .+.+++. ...||.+|-+.|.+.. |..+-+|.. .|+ +|-+++.+
T Consensus 1 MkItVKtl~------g~--~~~IeV~-----~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy-~Gk------iL~Dd~tL- 59 (378)
T TIGR00601 1 MTLTFKTLQ------QQ--KFKIDME-----PDETVKELKEKIEAEQGKDAYPVAQQKLIY-SGK------ILSDDKTV- 59 (378)
T ss_pred CEEEEEeCC------CC--EEEEEeC-----CcChHHHHHHHHHHhhCCCCCChhHeEEEE-CCE------ECCCCCcH-
Confidence 899998753 32 3567787 5789999999998763 333323332 233 33344322
Q ss_pred ecCCccCccCCCCEEEEE
Q 034276 76 LSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 76 ~l~g~~t~L~dgD~V~i~ 93 (99)
.++.|++||.|.++
T Consensus 60 ----~dy~I~e~~~Ivvm 73 (378)
T TIGR00601 60 ----REYKIKEKDFVVVM 73 (378)
T ss_pred ----HHcCCCCCCEEEEE
Confidence 34678888888776
No 50
>PRK07570 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated
Probab=92.18 E-value=1.3 Score=33.24 Aligned_cols=85 Identities=14% Similarity=0.138 Sum_probs=46.8
Q ss_pred CeEEEEEcchHhhhcCC-eeEEEEEeC-CCCCCCcchHHHHHHHHHHhc-----CcccccccccC--CccccceEEEEcC
Q 034276 1 MQLTLEFGGGLELLCDS-VKVHNVDVV-PPKGSEKLIMKDLLSWVGTNL-----IKERPEMFMKG--DSVRPGVLVLVND 71 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~-~~~~~vev~-~~~~~~~~tv~dll~~L~~~~-----~~~~~~l~~~~--g~l~~~v~ilvNg 71 (99)
|+|+++.+-. .. .+. ..-.+++|+ .. ++.||-|+|.++.++. +.+ -|... ..+=-.=-++|||
T Consensus 1 ~~~~~~i~R~-~~-~~~~~~~q~y~v~~~~---~~~tvLd~L~~Ik~~~~~~~~~~l---~fr~sCr~~iCGsCam~ING 72 (250)
T PRK07570 1 MKLTLKIWRQ-KG-PDDKGKFETYEVDDIS---PDMSFLEMLDVLNEQLIEKGEEPV---AFDHDCREGICGMCGLVING 72 (250)
T ss_pred CeEEEEEEec-CC-CCCCceeEEEEecCCC---CCCcHHHHHHHHHHHhhccCCCCe---eEeccccCCcCCcceeEECC
Confidence 7777775532 11 121 122456666 22 6899999999997754 212 12211 1122244699999
Q ss_pred ccc-----eecCCccC---ccCCCCEEEEEec
Q 034276 72 CDW-----ELSGQLDT---TLEEKDVVVFIST 95 (99)
Q Consensus 72 ~di-----~~l~g~~t---~L~dgD~V~i~p~ 95 (99)
+.. ++- =.| .+.+|++|.|-|-
T Consensus 73 ~p~~~~~~~LA--C~t~~~~~~~~~~i~iePl 102 (250)
T PRK07570 73 RPHGPDRGTTT--CQLHMRSFKDGDTITIEPW 102 (250)
T ss_pred ccCCCCcccch--hhhhhhhcCCCCeEEEEEC
Confidence 983 111 012 2456788888774
No 51
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=91.93 E-value=0.21 Score=28.95 Aligned_cols=23 Identities=30% Similarity=0.203 Sum_probs=18.9
Q ss_pred EEEcCccceecCCccCccCCCCEEEE
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
|+|||+-+. ...+.|+.||+|.|
T Consensus 36 V~VNg~~~~---~~~~~l~~Gd~v~i 58 (59)
T TIGR02988 36 VLVNGELEN---RRGKKLYPGDVIEI 58 (59)
T ss_pred EEECCEEcc---CCCCCCCCCCEEEe
Confidence 889998764 34689999999985
No 52
>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=91.47 E-value=0.5 Score=28.43 Aligned_cols=63 Identities=13% Similarity=0.017 Sum_probs=41.4
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCC
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLH 97 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~ 97 (99)
.+.+++. ...||+++=+.+.+.. |.....|+. +|+ +|-+++ .+ .++-+++|+.+.+.++..
T Consensus 10 ~~~l~v~-----~~~tV~~lK~~I~~~~gi~~~~q~L~~-~G~------~L~D~~---tL--~~~~i~~~~tl~l~~~l~ 72 (74)
T cd01810 10 SSIYEVQ-----LTQTVATLKQQVSQRERVQADQFWLSF-EGR------PMEDEH---PL--GEYGLKPGCTVFMNLRLR 72 (74)
T ss_pred EEEEEEC-----CcChHHHHHHHHHHHhCCCHHHeEEEE-CCE------ECCCCC---CH--HHcCCCCCCEEEEEEEcc
Confidence 3567787 5689999999998765 322223332 232 222332 23 357899999999999999
Q ss_pred CC
Q 034276 98 GG 99 (99)
Q Consensus 98 GG 99 (99)
||
T Consensus 73 gg 74 (74)
T cd01810 73 GG 74 (74)
T ss_pred CC
Confidence 87
No 53
>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=91.46 E-value=1.1 Score=26.07 Aligned_cols=69 Identities=14% Similarity=0.256 Sum_probs=42.5
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcC--cccccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI--KERPEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~--~~~~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|.|+... | +.+.++++ ...||.++-+.+.+... ...-.|+. +|. ++-+++. |
T Consensus 1 i~i~vk~~~------g--~~~~~~v~-----~~~tv~~lK~~i~~~~gi~~~~q~L~~-~g~------~L~d~~~---L- 56 (72)
T cd01809 1 IEIKVKTLD------S--QTHTFTVE-----EEITVLDLKEKIAEEVGIPVEQQRLIY-SGR------VLKDDET---L- 56 (72)
T ss_pred CEEEEEeCC------C--CEEEEEEC-----CCCcHHHHHHHHHHHHCcCHHHeEEEE-CCE------ECCCcCc---H-
Confidence 778887753 3 23567787 56899999999988753 22223332 232 2223322 2
Q ss_pred CccCccCCCCEEEEEe
Q 034276 79 QLDTTLEEKDVVVFIS 94 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p 94 (99)
.++-+++|+.|.+..
T Consensus 57 -~~~~i~~~~~l~l~~ 71 (72)
T cd01809 57 -SEYKVEDGHTIHLVK 71 (72)
T ss_pred -HHCCCCCCCEEEEEe
Confidence 346789999988764
No 54
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=91.45 E-value=0.32 Score=28.88 Aligned_cols=25 Identities=32% Similarity=0.431 Sum_probs=20.4
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
++.+||-.+. .+++|++||+|.+++
T Consensus 31 I~I~NGF~~~----~d~~L~e~D~v~~Ik 55 (57)
T PF14453_consen 31 IVILNGFPTK----EDIELKEGDEVFLIK 55 (57)
T ss_pred EEEEcCcccC----CccccCCCCEEEEEe
Confidence 3678997663 589999999999986
No 55
>COG2501 S4-like RNA binding protein [Replication, recombination, and repair]
Probab=90.97 E-value=0.32 Score=30.25 Aligned_cols=52 Identities=23% Similarity=0.201 Sum_probs=36.7
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEE
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
+-.|+.++|+.+---..+.....|..+| .|+|||+.-. ....+|.+||.|.|
T Consensus 10 e~I~L~qlLK~~g~i~sGG~AK~~i~eg------~V~vNGe~Et---RRgkKlr~gd~V~i 61 (73)
T COG2501 10 EFITLGQLLKLAGLIESGGQAKAFIAEG------EVKVNGEVET---RRGKKLRDGDVVEI 61 (73)
T ss_pred ceEEHHHHHHHhCcccCcHHHHHHHHCC------eEEECCeeee---ccCCEeecCCEEEE
Confidence 5678999999875444444444555554 4999997643 34579999999987
No 56
>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=90.63 E-value=1.7 Score=26.42 Aligned_cols=69 Identities=14% Similarity=0.267 Sum_probs=43.7
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc--Cccccccccc--CCccccceEEEEcCcccee
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMK--GDSVRPGVLVLVNDCDWEL 76 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~--~g~l~~~v~ilvNg~di~~ 76 (99)
|+|+|++.| +.++++++ +..||.+|=+.|.+.. |..+..|+.. .|+ ++-|+..+.
T Consensus 1 ~~i~vk~~g---------~~~~v~v~-----~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk------~l~D~~~L~- 59 (74)
T cd01813 1 VPVIVKWGG---------QEYSVTTL-----SEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGK------PAEDDVKIS- 59 (74)
T ss_pred CEEEEEECC---------EEEEEEEC-----CCCCHHHHHHHHHHHHCCCHHHEEEEeecccCC------cCCCCcCHH-
Confidence 677787732 24578887 5688988888887754 4444455431 233 344555544
Q ss_pred cCCccCccCCCCEEEEEe
Q 034276 77 SGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 77 l~g~~t~L~dgD~V~i~p 94 (99)
+..+++|+.|.++-
T Consensus 60 ----~~~i~~g~~i~lmG 73 (74)
T cd01813 60 ----ALKLKPNTKIMMMG 73 (74)
T ss_pred ----HcCCCCCCEEEEEe
Confidence 34688999998763
No 57
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=89.49 E-value=3.1 Score=27.35 Aligned_cols=63 Identities=11% Similarity=0.081 Sum_probs=43.8
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccC-ccCCCCEEEEEecCCCC
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT-TLEEKDVVVFISTLHGG 99 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t-~L~dgD~V~i~p~v~GG 99 (99)
+.+.+. -.++++-|.++-|++-.-. ...+-++.||++|+..+-.+. ..++||+|..+-+--||
T Consensus 33 ~~Fkik-----r~t~LkKLM~aYc~r~Gl~-----------~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG 96 (99)
T KOG1769|consen 33 VVFKIK-----RHTPLKKLMKAYCERQGLS-----------MNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGG 96 (99)
T ss_pred EEEEee-----cCChHHHHHHHHHHHcCCc-----------cceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccC
Confidence 355565 4678999998888754321 224557889999876542222 57999999999888776
No 58
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=88.93 E-value=2.1 Score=26.21 Aligned_cols=40 Identities=8% Similarity=0.032 Sum_probs=30.4
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEE
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVL 68 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~il 68 (99)
-+-+| .|+.+|++.-++++......+|+++|.--..|.+.
T Consensus 21 vi~lP-------~SleeLl~ia~~kfg~~~~~v~~~dgaeIdDI~~I 60 (69)
T PF11834_consen 21 VIWLP-------DSLEELLKIASEKFGFSATKVLNEDGAEIDDIDVI 60 (69)
T ss_pred EEEcC-------ccHHHHHHHHHHHhCCCceEEEcCCCCEEeEEEEE
Confidence 46677 59999999999999876667888877655555443
No 59
>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=88.87 E-value=3 Score=27.65 Aligned_cols=67 Identities=9% Similarity=0.074 Sum_probs=39.7
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhc-CcccccccccCCccccceEEEEcCccceecCCccCccCCCC-----EEEEEe
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKD-----VVVFIS 94 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD-----~V~i~p 94 (99)
.++++|.. ++.||-|+|.++.++. |.+.-+ ..-...+=..=.+.|||+..-.- .|.+.+.. .|.|=|
T Consensus 19 ~~y~v~~~---~~~tVLd~L~~Ik~~~D~sLafr-~sCr~giCGsCam~ING~~~LAC---~t~v~~~~~~~~~~i~IeP 91 (110)
T PF13085_consen 19 QEYEVPVE---PGMTVLDALNYIKEEQDPSLAFR-YSCRSGICGSCAMRINGRPRLAC---KTQVDDLIEKFGNVITIEP 91 (110)
T ss_dssp EEEEEEGG---STSBHHHHHHHHHHHT-TT--B---SSSSSSSSTTEEEETTEEEEGG---GSBGGGCTTSETBEEEEEE
T ss_pred EEEEecCC---CCCcHHHHHHHHHhccCCCeEEE-ecCCCCCCCCCEEEECCceecce---eeEchhccCCCcceEEEEE
Confidence 44555531 6899999999999986 444322 11111223355699999996543 45666554 466655
No 60
>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=88.85 E-value=2 Score=25.90 Aligned_cols=63 Identities=8% Similarity=0.018 Sum_probs=40.8
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCC
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLH 97 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~ 97 (99)
.+.++++ ...||.++=+.|.+.. |.....|.. .|. ++-|++.+ .++.+++|+.|.++...-
T Consensus 9 ~~~l~v~-----~~~TV~~lK~~i~~~~gip~~~q~L~~-~G~------~L~d~~tL-----~~~~i~~g~~l~v~~~~~ 71 (76)
T cd01800 9 MLNFTLQ-----LSDPVSVLKVKIHEETGMPAGKQKLQY-EGI------FIKDSNSL-----AYYNLANGTIIHLQLKER 71 (76)
T ss_pred EEEEEEC-----CCCcHHHHHHHHHHHHCCCHHHEEEEE-CCE------EcCCCCcH-----HHcCCCCCCEEEEEEecC
Confidence 4678888 5789999988887755 232333332 222 33343332 256899999999998876
Q ss_pred CC
Q 034276 98 GG 99 (99)
Q Consensus 98 GG 99 (99)
||
T Consensus 72 gg 73 (76)
T cd01800 72 GG 73 (76)
T ss_pred CC
Confidence 65
No 61
>PRK12577 succinate dehydrogenase iron-sulfur subunit; Provisional
Probab=87.94 E-value=3.1 Score=32.18 Aligned_cols=85 Identities=7% Similarity=-0.041 Sum_probs=44.9
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcC-cccccccccCCccccceEEEEcCccceecCC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI-KERPEMFMKGDSVRPGVLVLVNDCDWELSGQ 79 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~-~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g 79 (99)
|+|+++.+-.=-.....-.+.+|+++ ++.||-|+|.++..+.+ .+..+-.-..| .=..-.+.|||+..- .
T Consensus 1 ~~i~~~i~R~~~~~~p~~~~~~v~~~-----~~~tvL~~l~~i~~~~d~tL~~~~~c~~~-~Cg~C~v~inG~~~l---a 71 (329)
T PRK12577 1 MEVLFKILRQKQNSAPYVQTYTLEVE-----PGNTILDCLNRIKWEQDGSLAFRKNCRNT-ICGSCAMRINGRSAL---A 71 (329)
T ss_pred CeEEEEEEeeCCCCCCeEEEEEEECC-----CCChHHHHHHHhCCcCCCCcEEcCCCCCC-CCCCCEEEECCeeec---C
Confidence 77777644210011111122456666 79999999999987763 43221100111 111345889998643 2
Q ss_pred ccCccCC------------CCEEEEEe
Q 034276 80 LDTTLEE------------KDVVVFIS 94 (99)
Q Consensus 80 ~~t~L~d------------gD~V~i~p 94 (99)
=.|++.+ +++|.|=|
T Consensus 72 C~t~v~~~~~~~~~~~~~~~~~i~ieP 98 (329)
T PRK12577 72 CKENVGSELARLSDSNSGAIPEITIAP 98 (329)
T ss_pred cccchhhhhccccccccCCCCeEEEEE
Confidence 2455554 36777655
No 62
>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=87.54 E-value=0.53 Score=29.38 Aligned_cols=68 Identities=9% Similarity=0.071 Sum_probs=30.5
Q ss_pred hhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcc--cccccccCCccccceEEEEcCccceecCCccCccCCCCE
Q 034276 12 ELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKE--RPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDV 89 (99)
Q Consensus 12 ~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~--~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~ 89 (99)
|..-|.+| |+++ +.+|+.+|.+.+.+.++-. .-.++.+... ..-+ .--+++.+ .+..|+.||-
T Consensus 10 rS~dG~~R---ie~~-----~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~-~~~l-~s~~~~tl-----~~lglkHGdm 74 (80)
T PF11543_consen 10 RSKDGMKR---IEVS-----PSSTLSDLKEKISEQLSIPDSSQSLSKDRNN-KEEL-KSSDSKTL-----SSLGLKHGDM 74 (80)
T ss_dssp E-SSEEEE---EEE------TTSBHHHHHHHHHHHS---TTT---BSSGGG-GGCS-SS-TT-CC-----CCT---TT-E
T ss_pred ECCCCCEE---EEcC-----CcccHHHHHHHHHHHcCCCCcceEEEecCCC-Cccc-ccCCcCCH-----HHcCCCCccE
Confidence 33456555 6777 5789999999999988543 2345543221 1010 00122222 2468999999
Q ss_pred EEEEe
Q 034276 90 VVFIS 94 (99)
Q Consensus 90 V~i~p 94 (99)
|-+.|
T Consensus 75 lyL~~ 79 (80)
T PF11543_consen 75 LYLKP 79 (80)
T ss_dssp EE---
T ss_pred EEEec
Confidence 98776
No 63
>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=87.26 E-value=1.3 Score=27.37 Aligned_cols=51 Identities=20% Similarity=0.134 Sum_probs=32.1
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
-+-++ .++|+.|+...+-....... .+... -+ ...-|.+..|+|||.|.|+
T Consensus 25 ~~~l~-----~g~tv~d~a~~IH~d~~~~F--~~A~v-----------~~---~~~vg~d~~l~d~DVv~i~ 75 (76)
T cd04938 25 CVLVK-----KGTTVGDVARKIHGDLEKGF--IEAVG-----------GR---RRLEGKDVILGKNDILKFK 75 (76)
T ss_pred eEEEc-----CCCCHHHHHHHHhHHHHhcc--EEEEE-----------cc---CEEECCCEEecCCCEEEEE
Confidence 35566 68999999887765332211 11111 11 2335789999999999985
No 64
>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=86.71 E-value=1.8 Score=28.35 Aligned_cols=56 Identities=20% Similarity=0.210 Sum_probs=32.8
Q ss_pred EEEeCCCCCCCcchHHHHHHH--HHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 22 NVDVVPPKGSEKLIMKDLLSW--VGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~--L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
.++++ +|+||.|++.. |.+.+|+.. | ..+.+ || =++.+ .++.+|+|||.|-|+-|+
T Consensus 20 ~v~v~-----egatV~dAi~~Sgll~~~~~id---l-~~n~~--GI----~~k~~----kl~~~l~dgDRVEIyRPL 77 (99)
T COG2914 20 RVQLQ-----EGATVEDAILASGLLELFPDID---L-HENKV--GI----YSKPV----KLDDELHDGDRVEIYRPL 77 (99)
T ss_pred EEEec-----cCcCHHHHHHhcchhhccccCC---c-cccce--eE----Ecccc----CccccccCCCEEEEeccc
Confidence 57787 89999999864 222222211 1 11111 21 23333 346789999999999775
No 65
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=86.40 E-value=0.41 Score=27.84 Aligned_cols=26 Identities=19% Similarity=0.188 Sum_probs=19.1
Q ss_pred eEEEEcCccceecCCccCccCCCCEEEE
Q 034276 65 VLVLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 65 v~ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
--++|||+.+.. +..++|++||.|.|
T Consensus 42 ngt~vng~~l~~--~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 42 NGTFVNGQRLGP--GEPVPLKDGDIIRF 67 (68)
T ss_dssp S-EEETTEEESS--TSEEEE-TTEEEEE
T ss_pred CcEEECCEEcCC--CCEEECCCCCEEEc
Confidence 346789977754 66789999999986
No 66
>PF13275 S4_2: S4 domain; PDB: 1P9K_A.
Probab=86.12 E-value=0.38 Score=29.18 Aligned_cols=52 Identities=21% Similarity=0.169 Sum_probs=25.1
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEE
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
+..++.++|++.---..+.....|..+| .|+|||+-.. ....+|.+||.|.|
T Consensus 6 e~I~L~qlLK~~glv~sGGeAK~~I~~g------~V~VNGe~e~---rrg~Kl~~GD~V~~ 57 (65)
T PF13275_consen 6 EYITLGQLLKLAGLVSSGGEAKALIQEG------EVKVNGEVET---RRGKKLRPGDVVEI 57 (65)
T ss_dssp S---HHHHHHHHTS-SSSSTTSHHHHHH------HHEETTB-------SS----SSEEEEE
T ss_pred CcEEHHHHHhHcCCcccHHHHHHHHHcC------ceEECCEEcc---ccCCcCCCCCEEEE
Confidence 4678889888764322222223333333 3899997643 34579999999987
No 67
>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=85.43 E-value=3.6 Score=25.01 Aligned_cols=57 Identities=9% Similarity=0.003 Sum_probs=34.9
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.+.++++ +..||++|=+.++++. |..+-+|.. .|. ++-++..+ .++-+++|+.|.++
T Consensus 13 ~~~~~v~-----~~~TV~~LK~~I~~~~~~~~~~qrLi~-~Gk------~L~D~~tL-----~~ygi~~~stv~l~ 71 (73)
T cd01791 13 KVRVKCN-----PDDTIGDLKKLIAAQTGTRPEKIVLKK-WYT------IFKDHISL-----GDYEIHDGMNLELY 71 (73)
T ss_pred EEEEEeC-----CCCcHHHHHHHHHHHhCCChHHEEEEe-CCc------CCCCCCCH-----HHcCCCCCCEEEEE
Confidence 3467787 5799999999998764 333333322 232 22233222 35678999998875
No 68
>PRK11507 ribosome-associated protein; Provisional
Probab=84.77 E-value=1.4 Score=27.12 Aligned_cols=52 Identities=17% Similarity=0.171 Sum_probs=32.7
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEE
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
+-.++.++|++..---.+.....|..+| .|.|||+- +. ....+|.+||.|.|
T Consensus 10 e~I~L~QlLK~~~~v~SGG~AK~~I~eg------~V~VNGev-e~--rRgkKl~~GD~V~~ 61 (70)
T PRK11507 10 PHVELCDLLKLEGWSESGAQAKIAIAEG------QVKVDGAV-ET--RKRCKIVAGQTVSF 61 (70)
T ss_pred CeEEHHHHHhhhCcccChHHHHHHHHcC------ceEECCEE-ec--ccCCCCCCCCEEEE
Confidence 4568889888764322222223333333 38999974 33 34579999999987
No 69
>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=84.52 E-value=4.5 Score=24.59 Aligned_cols=69 Identities=12% Similarity=0.209 Sum_probs=40.1
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc--Cccccccc-ccCCccccceEEEEcCccceec
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMF-MKGDSVRPGVLVLVNDCDWELS 77 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~-~~~g~l~~~v~ilvNg~di~~l 77 (99)
|+|+|+-.. |+ ...++++ ...||.+|=+.+++.. |..+.+|. ..+|+ +|-+++ .|
T Consensus 3 ~~i~Vk~~~------G~--~~~~~v~-----~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~------~L~D~~---tL 60 (80)
T cd01792 3 WDLKVKMLG------GN--EFLVSLR-----DSMTVSELKQQIAQKIGVPAFQQRLAHLDSRE------VLQDGV---PL 60 (80)
T ss_pred eEEEEEeCC------CC--EEEEEcC-----CCCcHHHHHHHHHHHhCCCHHHEEEEeccCCC------CCCCCC---CH
Confidence 566676544 43 3567777 5789999999998875 33233331 11332 122222 22
Q ss_pred CCccCccCCCCEEEEE
Q 034276 78 GQLDTTLEEKDVVVFI 93 (99)
Q Consensus 78 ~g~~t~L~dgD~V~i~ 93 (99)
.++-+++|+.|.+.
T Consensus 61 --~~~gi~~gs~l~l~ 74 (80)
T cd01792 61 --VSQGLGPGSTVLLV 74 (80)
T ss_pred --HHcCCCCCCEEEEE
Confidence 35678889888765
No 70
>PLN02560 enoyl-CoA reductase
Probab=82.57 E-value=6.1 Score=30.54 Aligned_cols=74 Identities=20% Similarity=0.193 Sum_probs=41.4
Q ss_pred CeEEEEEcchHhhhcCCeeE-EEEEeCCCCCCCcchHHHHHHHHHHhcCc---cccccc-cc-CCccccceEEEEcCccc
Q 034276 1 MQLTLEFGGGLELLCDSVKV-HNVDVVPPKGSEKLIMKDLLSWVGTNLIK---ERPEMF-MK-GDSVRPGVLVLVNDCDW 74 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~-~~vev~~~~~~~~~tv~dll~~L~~~~~~---~~~~l~-~~-~g~l~~~v~ilvNg~di 74 (99)
|+|+|+-.. |+... .+++++ ..+||.||-+.+.++.+. .+.++- .. +|+-+ ++ ++.+++..
T Consensus 1 M~I~Vk~~~------Gk~i~~~~lev~-----~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~-g~-~L~d~ktL 67 (308)
T PLN02560 1 MKVTVVSRS------GREIIKGGLEVP-----DSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTR-PT-VLDDSKSL 67 (308)
T ss_pred CEEEEEcCC------CCeecceeEEcC-----CCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcC-cc-ccCCCCCH
Confidence 888888544 32210 257888 578999999999987543 333443 21 22211 21 22233322
Q ss_pred eecCCccCccCCCCEEEE
Q 034276 75 ELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 75 ~~l~g~~t~L~dgD~V~i 92 (99)
.++-+++|+++.+
T Consensus 68 -----~d~gv~~gstLy~ 80 (308)
T PLN02560 68 -----KDYGLGDGGTVVF 80 (308)
T ss_pred -----HhcCCCCCceEEE
Confidence 2456678877654
No 71
>smart00363 S4 S4 RNA-binding domain.
Probab=80.35 E-value=1.9 Score=23.30 Aligned_cols=26 Identities=19% Similarity=0.063 Sum_probs=19.9
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.|+|||+.+.. .+++++.||.|.+..
T Consensus 27 ~i~vng~~~~~---~~~~l~~gd~i~~~~ 52 (60)
T smart00363 27 RVKVNGKKVTK---PSYIVKPGDVISVRG 52 (60)
T ss_pred CEEECCEEecC---CCeEeCCCCEEEEcc
Confidence 38899988732 367999999998743
No 72
>cd01667 TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and SpoT proteins where it occurs. The TGS domain is thought to interact with the tRNA acceptor arm along with an adjacent N-terminal domain. The specific function of TGS is not well understood.
Probab=80.19 E-value=7.3 Score=21.01 Aligned_cols=46 Identities=22% Similarity=0.180 Sum_probs=32.3
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
+++|..++++.+....+ ++-+...+||+-++ +.+++.++++|.++.
T Consensus 15 ~~~t~~~~~~~~~~~~~-------------~~~v~~~vng~~~d----L~~~l~~~~~ie~i~ 60 (61)
T cd01667 15 KGTTPLDIAKSISPGLA-------------KKAVAAKVNGELVD----LSRPLEEDCELEIIT 60 (61)
T ss_pred CCCCHHHHHHHHHHHHH-------------hheEEEEECCEEec----CCcCcCCCCEEEEEe
Confidence 68999998887654221 12455678987654 578999999998864
No 73
>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=79.05 E-value=7.7 Score=23.69 Aligned_cols=71 Identities=11% Similarity=0.176 Sum_probs=41.7
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEE-eCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceec
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVD-VVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELS 77 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~ve-v~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l 77 (99)
|+|+|+-.. |+. ...++ ++ ...||+++=+.+.+.. |....+|+.. |+ +|-+++-+
T Consensus 1 M~I~vk~~~------G~~-~~~l~~v~-----~~~TV~~lK~~i~~~~gi~~~~QrLi~~-Gk------~L~D~~tL--- 58 (78)
T cd01797 1 MWIQVRTMD------GKE-TRTVDSLS-----RLTKVEELREKIQELFNVEPECQRLFYR-GK------QMEDGHTL--- 58 (78)
T ss_pred CEEEEEcCC------CCE-EEEeeccC-----CcCcHHHHHHHHHHHhCCCHHHeEEEeC-CE------ECCCCCCH---
Confidence 788886543 322 12453 44 4689999988888765 3333344432 33 23333332
Q ss_pred CCccCccCCCCEEEEEec
Q 034276 78 GQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 78 ~g~~t~L~dgD~V~i~p~ 95 (99)
.++-+++|+.|.+...
T Consensus 59 --~~y~i~~~~~i~l~~~ 74 (78)
T cd01797 59 --FDYNVGLNDIIQLLVR 74 (78)
T ss_pred --HHcCCCCCCEEEEEEe
Confidence 3568899999887653
No 74
>PF01479 S4: S4 domain; InterPro: IPR002942 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 [, ]. The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterised, small proteins that may be involved in translation regulation []. The S4 domain probably mediates binding to RNA.; GO: 0003723 RNA binding; PDB: 3BBU_A 1DM9_B 2K6P_A 3U5G_E 3U5C_E 3IZB_D 2XZM_D 2XZN_D 3O30_E 3O2Z_E ....
Probab=79.03 E-value=1.4 Score=24.03 Aligned_cols=21 Identities=24% Similarity=0.094 Sum_probs=17.7
Q ss_pred EEEcCccceecCCccCccCCCCEE
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVV 90 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V 90 (99)
|.|||+-+.. .++++++||.|
T Consensus 28 V~VNg~~v~~---~~~~v~~~d~I 48 (48)
T PF01479_consen 28 VKVNGKVVKD---PSYIVKPGDVI 48 (48)
T ss_dssp EEETTEEESS---TTSBESTTEEE
T ss_pred EEECCEEEcC---CCCCCCCcCCC
Confidence 8899998864 57899999987
No 75
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=78.76 E-value=8.5 Score=21.38 Aligned_cols=33 Identities=12% Similarity=0.084 Sum_probs=25.2
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
|+|.|+..+ . ...++++ ...||.+|-+.+++..
T Consensus 1 ~~i~vk~~~--~-------~~~~~v~-----~~~tv~~lk~~i~~~~ 33 (64)
T smart00213 1 IELTVKTLD--G-------TITLEVK-----PSDTVSELKEKIAELT 33 (64)
T ss_pred CEEEEEECC--c-------eEEEEEC-----CCCcHHHHHHHHHHHH
Confidence 788888875 1 2357777 5689999999998866
No 76
>PRK12385 fumarate reductase iron-sulfur subunit; Provisional
Probab=78.64 E-value=5.9 Score=29.41 Aligned_cols=59 Identities=15% Similarity=0.050 Sum_probs=33.2
Q ss_pred CcchHHHHHHHHHHhc-CcccccccccCCccccceEEEEcCccceecCCccCccCC-CCEEEEEe
Q 034276 32 EKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE-KDVVVFIS 94 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~d-gD~V~i~p 94 (99)
++.||-++|.++.++. +.+..+-+ -...+=-.=.+.|||+.... -.|.+.+ ++.+.|-|
T Consensus 33 ~~~tvl~~L~~ik~~~d~~l~fr~~-C~~giCGsC~v~InG~~~la---C~t~~~~~~~~~~ieP 93 (244)
T PRK12385 33 ETTSLLDALGYIKDNLAPDLSYRWS-CRMAICGSCGMMVNNVPKLA---CKTFLRDYTGGMKVEA 93 (244)
T ss_pred CCCcHHHHHHHHHHhcCCCceeccC-CCCCcCCCCcceECccChhh---HhhHHHHcCCCeEEee
Confidence 7999999999998765 33322211 11111112458899987543 3455654 23455544
No 77
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=78.50 E-value=2.3 Score=25.32 Aligned_cols=31 Identities=16% Similarity=0.139 Sum_probs=20.5
Q ss_pred cccceEEEEcCccceecCCccCccCCCCEEEE
Q 034276 61 VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 61 l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
-+.+-..+|||+.... +--+.+|++||.|.+
T Consensus 37 ~~~~W~~~vNG~~~~~-ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 37 DGSYWMYYVNGESANV-GAGSYKLKDGDKITW 67 (68)
T ss_dssp CTEEEEEEETTEE-SS--CCC-B--TTEEEEE
T ss_pred CCceeEEEECCEEhhc-CcceeEeCCCCEEEe
Confidence 3458889999988765 444679999999986
No 78
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=78.47 E-value=6.7 Score=33.39 Aligned_cols=52 Identities=27% Similarity=0.100 Sum_probs=34.7
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
+.+| .|+|+-|+--.+-. + +.. ..+-..|||+.+. ++|+|++||.|.|+..-
T Consensus 372 ~~lp-----~gst~~DfAy~ih~---~----~g~------~~~~a~vng~~v~----l~~~l~~gd~vei~t~~ 423 (683)
T TIGR00691 372 VELP-----SGSTPVDFAYAVHT---D----VGN------KCTGAKVNGKIVP----LDKELENGDVVEIITGK 423 (683)
T ss_pred EEcC-----CCCCHHHHHHHHhH---H----hHh------ceeEEEECCEECC----CCccCCCCCEEEEEeCC
Confidence 5566 67888777654432 2 111 1344679998663 68999999999998643
No 79
>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=78.21 E-value=7.7 Score=23.56 Aligned_cols=65 Identities=12% Similarity=0.067 Sum_probs=31.2
Q ss_pred eEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecC-CccCccCCCCEEEE
Q 034276 19 KVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSG-QLDTTLEEKDVVVF 92 (99)
Q Consensus 19 ~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~-g~~t~L~dgD~V~i 92 (99)
+.+++.+| ...++++++..|.+.+...... ....+ ...+.-.+|.-...-. =.+..+.|||.+.+
T Consensus 13 ~~~Dl~lP-----~~vpv~~li~~l~~~~~~~~~~-~~~~~---~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 13 RQVDLALP-----ADVPVAELIPELVELLGLPGDD-PPGHG---QWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp -EEEEEEE-----TTSBTTHHHHHHHHHS---S----TT-E----EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred cEEEEEcC-----CCCcHHHHHHHHHHHhCCccCC-CCCcc---eEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 35789999 6899999999999876521111 00010 1111113333221111 12458899998876
No 80
>PRK08640 sdhB succinate dehydrogenase iron-sulfur subunit; Reviewed
Probab=78.07 E-value=9.8 Score=28.40 Aligned_cols=68 Identities=6% Similarity=0.099 Sum_probs=37.1
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcCcc----cc-cccccC--CccccceEEEEcCccceecCCccCccCC-CCEEEE
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLIKE----RP-EMFMKG--DSVRPGVLVLVNDCDWELSGQLDTTLEE-KDVVVF 92 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~~~----~~-~l~~~~--g~l~~~v~ilvNg~di~~l~g~~t~L~d-gD~V~i 92 (99)
.+++++.. ++.||-|+|.++.++.-.. .. --|... ..+=-.=-+.|||+..-.- .|.+.+ +++|.|
T Consensus 23 q~y~v~~~---~~~tvLdaL~~I~~~~~~~~g~~~~~l~fr~sCr~giCGsCam~ING~p~LAC---~t~v~~~~~~i~i 96 (249)
T PRK08640 23 EEFEIPYR---PNMNVISALMEIRRNPVNAKGEKTTPVVWDMNCLEEVCGACSMVINGKPRQAC---TALIDQLEQPIRL 96 (249)
T ss_pred EEEEecCC---CCCcHHHHHHHHHhcccccccccCCCeeEecccCCCCCCcCeeEECCccchhh---hChHHHcCCcEEE
Confidence 34556532 7899999999998751000 01 112111 1122234589999987433 244432 567777
Q ss_pred Ee
Q 034276 93 IS 94 (99)
Q Consensus 93 ~p 94 (99)
=|
T Consensus 97 eP 98 (249)
T PRK08640 97 EP 98 (249)
T ss_pred EE
Confidence 55
No 81
>PF14950 DUF4502: Domain of unknown function (DUF4502)
Probab=78.03 E-value=2.9 Score=33.07 Aligned_cols=32 Identities=9% Similarity=0.013 Sum_probs=27.3
Q ss_pred ccccceEEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 60 SVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 60 ~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
...+.+.|+-|.+-+.+|.+ .+||.|.|+||=
T Consensus 324 ~~g~~l~VLFTkETa~~L~~-----~P~DIIhIyPPW 355 (358)
T PF14950_consen 324 APGARLKVLFTKETAAHLRG-----RPGDIIHIYPPW 355 (358)
T ss_pred CCCCcEEEEEeHHHHHHhCC-----CCCCEEEeCCCc
Confidence 35567999999999999864 899999999993
No 82
>KOG1349 consensus Gpi-anchor transamidase [Posttranslational modification, protein turnover, chaperones]
Probab=77.80 E-value=3.4 Score=31.79 Aligned_cols=38 Identities=5% Similarity=0.174 Sum_probs=31.7
Q ss_pred CcchHHHHHHHHHHhcCcc---cccccccCCccccceEEEEcCc
Q 034276 32 EKLIMKDLLSWVGTNLIKE---RPEMFMKGDSVRPGVLVLVNDC 72 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~---~~~l~~~~g~l~~~v~ilvNg~ 72 (99)
...||..+|+.|..++|.. .++++.++ ++.|+|+.+|.
T Consensus 108 yevtvEnflr~LTgR~~~~tprSKrlltDe---~SNIlIYmtGH 148 (309)
T KOG1349|consen 108 YEVTVENFLRVLTGRHPNNTPRSKRLLTDE---GSNILIYLTGH 148 (309)
T ss_pred chhHHHHHHHHHcCCCCCCCchhhhhcccC---CCcEEEEEccC
Confidence 5789999999999999877 55677665 56999999995
No 83
>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=76.41 E-value=12 Score=21.48 Aligned_cols=57 Identities=11% Similarity=0.092 Sum_probs=35.1
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcCcc--cccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLIKE--RPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~~~--~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.+.++++ ...||.+|=+.+++...-. .-.|+. .|. +| .|-..| .++-+.+|+.|.+.
T Consensus 7 ~~~~~v~-----~~~tV~~lK~~i~~~~~~~~~~~~L~~-~G~------~L---~d~~tL--~~~~i~~~~~I~l~ 65 (69)
T PF00240_consen 7 TFTLEVD-----PDDTVADLKQKIAEETGIPPEQQRLIY-NGK------EL---DDDKTL--SDYGIKDGSTIHLV 65 (69)
T ss_dssp EEEEEEE-----TTSBHHHHHHHHHHHHTSTGGGEEEEE-TTE------EE---STTSBT--GGGTTSTTEEEEEE
T ss_pred EEEEEEC-----CCCCHHHhhhhcccccccccccceeee-eee------cc---cCcCcH--HHcCCCCCCEEEEE
Confidence 5678888 6799999999998876422 222322 121 22 122223 25689999988764
No 84
>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=75.80 E-value=5.1 Score=27.96 Aligned_cols=38 Identities=26% Similarity=0.363 Sum_probs=23.6
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCccc
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKER 51 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~ 51 (99)
|||||.| |..+ |-||- .....||++|++....+|....
T Consensus 1 mkvtV~f--------g~~~---vvVPC--~dg~~tV~~L~~~A~~RY~K~~ 38 (145)
T PF12053_consen 1 MKVTVCF--------GRTR---VVVPC--GDGQLTVRDLIQQALRRYRKAK 38 (145)
T ss_dssp -EEEEEE--------TTEE---EEEEE--SSS---HHHHHHHHHHHHHHHT
T ss_pred CeEEEEe--------CCeE---EEEEe--CCCCccHHHHHHHHhHhHHHhh
Confidence 8999986 4444 55661 0134899999999999996543
No 85
>TIGR00384 dhsB succinate dehydrogenase and fumarate reductase iron-sulfur protein. Succinate dehydrogenase and fumarate reductase are reverse directions of the same enzymatic interconversion, succinate + FAD+ = fumarate + FADH2 (EC 1.3.11.1). In E. coli, the forward and reverse reactions are catalyzed by distinct complexes: fumarate reductase operates under anaerobic conditions and succinate dehydrogenase operates under aerobic conditions. This model also describes a region of the B subunit of a cytosolic archaeal fumarate reductase.
Probab=74.71 E-value=10 Score=27.40 Aligned_cols=63 Identities=22% Similarity=0.185 Sum_probs=38.5
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhc-CcccccccccCCccccce----EEEEcCccceecCCccCccCC-CCEEEEEe
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGV----LVLVNDCDWELSGQLDTTLEE-KDVVVFIS 94 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v----~ilvNg~di~~l~g~~t~L~d-gD~V~i~p 94 (99)
.+++++ ++.||-++|..+.+.+ |.+..+- .-+.++ .+.|||+.+. .=.|++.+ |..+..+-
T Consensus 17 ~~v~~~-----~~~tvl~~l~~i~~~~~~~l~~~~-----~C~~g~Cg~C~v~vnG~~~l---aC~t~v~~~g~~~~~ie 83 (220)
T TIGR00384 17 YEVPAD-----EGMTVLDALNYIKDEQDPSLAFRR-----SCRNGICGSCAMNVNGKPVL---ACKTKVEDLGQPVMKIE 83 (220)
T ss_pred EEEeCC-----CCCcHHHHHHHHHHhcCCCceeec-----ccCCCCCCCCeeEECCEEhh---hhhChHHHcCCCcEEEe
Confidence 455665 7999999999998554 4332111 112233 5789998654 34688888 87633333
Q ss_pred cC
Q 034276 95 TL 96 (99)
Q Consensus 95 ~v 96 (99)
|+
T Consensus 84 pl 85 (220)
T TIGR00384 84 PL 85 (220)
T ss_pred eC
Confidence 33
No 86
>PRK12576 succinate dehydrogenase iron-sulfur subunit; Provisional
Probab=73.96 E-value=18 Score=27.37 Aligned_cols=49 Identities=8% Similarity=-0.132 Sum_probs=29.1
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhc-CcccccccccCCccccceEEEEcCccce
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWE 75 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v~ilvNg~di~ 75 (99)
.+++++ ++.||-|+|.++..++ |.+..+..-..|.=. .=.+.|||+...
T Consensus 27 ~~v~~~-----~~~tvLd~L~~i~~~~d~tl~~~~~C~~G~Cg-sC~v~ING~~~l 76 (279)
T PRK12576 27 YKVKVD-----RFTQVTEALRRIKEEQDPTLSYRASCHMAVCG-SCGMKINGEPRL 76 (279)
T ss_pred EEEecC-----CCCHHHHHHHHhCCccCCCceecCCCCCCCCC-CCEEEECCcEec
Confidence 456666 7999999999998764 443222111111111 234888998754
No 87
>COG0479 FrdB Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]
Probab=73.72 E-value=25 Score=26.35 Aligned_cols=69 Identities=10% Similarity=0.041 Sum_probs=40.0
Q ss_pred eEEEEEeCCCCCCCcchHHHHHHHHHHhc-CcccccccccCCccccceEEEEcCccceecCCccCccCCCC--EEEEEe
Q 034276 19 KVHNVDVVPPKGSEKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKD--VVVFIS 94 (99)
Q Consensus 19 ~~~~vev~~~~~~~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD--~V~i~p 94 (99)
.-.+++||.+ ++.||-|+|.++.++. |.+.-+. .--..+=..=-++|||+.--.- .|.+++-. .|.|-|
T Consensus 18 ~~~~yev~~~---~~~~vLdaL~~Ik~e~d~~Lsfr~-sCR~gICGSCam~ING~prLAC---~t~~~~~~~~~i~ieP 89 (234)
T COG0479 18 YWQTYEVPYD---EGMTVLDALLYIKEEQDPTLSFRR-SCREGICGSCAMNINGKPRLAC---KTLMKDLEEGVITIEP 89 (234)
T ss_pred ceEEEEecCC---CCCcHHHHHHHHHHhcCCccchhh-hccCCcCCcceeEECCccccch---hchhhhccCCceEEEE
Confidence 3456777743 7999999999999644 4442221 1112233345689999986433 34443321 466554
No 88
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=72.99 E-value=27 Score=24.83 Aligned_cols=43 Identities=12% Similarity=0.096 Sum_probs=29.5
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccc
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERP 52 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~ 52 (99)
|+|=|..+.++- -.....+.+| ..+||.+|.+.|.+.+|....
T Consensus 1 i~Vlvss~~g~~----lp~tl~~~lp-----~~ttv~dL~~~l~~~~~~~~~ 43 (162)
T PF13019_consen 1 INVLVSSFDGLT----LPPTLSLSLP-----STTTVSDLKDRLSERLPIPSS 43 (162)
T ss_pred CeEEEecCCCCC----CCCeEEeeCC-----CCCcHHHHHHHHHhhcCCCcc
Confidence 566677776641 1123456677 579999999999998876543
No 89
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=72.57 E-value=11 Score=27.83 Aligned_cols=66 Identities=8% Similarity=0.056 Sum_probs=37.5
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhc-CcccccccccCCccccceEEEEcCccceecCCccCccCC-CC-EEEEEe
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE-KD-VVVFIS 94 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~d-gD-~V~i~p 94 (99)
+++|+.+ ++.||-|+|.++.++. |.+.-+. .--..+=-.=-+.|||+..-.- .|.+.+ ++ +|.|=|
T Consensus 25 ~y~v~~~---~~~tvLdaL~~Ik~~~D~sL~fr~-sCr~giCGsCam~ING~~~LAC---~t~v~~~~~~~i~ieP 93 (239)
T PRK13552 25 TYQLEET---PGMTLFIALNRIREEQDPSLQFDF-VCRAGICGSCAMVINGRPTLAC---RTLTSDYPDGVITLMP 93 (239)
T ss_pred EEEecCC---CCCCHHHHHHHHHhcCCCCeeEec-cCCCCCCCCceeEECCeEhhhh---hccHhhcCCCcEEEEE
Confidence 4555532 7899999999999764 3332211 1111122245689999986443 345544 22 566544
No 90
>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=71.79 E-value=10 Score=22.53 Aligned_cols=31 Identities=29% Similarity=0.264 Sum_probs=22.9
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcCccccccc
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMF 55 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~ 55 (99)
..+++++ ..+|++++++.++++..=...+.|
T Consensus 8 ~~~~~v~-----~~~t~~~l~~~v~~~l~l~e~~~F 38 (80)
T PF09379_consen 8 TKTFEVD-----PKTTGQDLLEQVCDKLGLKEKEYF 38 (80)
T ss_dssp EEEEEEE-----TTSBHHHHHHHHHHHHTTSSGGGE
T ss_pred cEEEEEc-----CCCcHHHHHHHHHHHcCCCCccEE
Confidence 4577887 689999999999997743333444
No 91
>PLN00129 succinate dehydrogenase [ubiquinone] iron-sulfur subunit
Probab=70.52 E-value=35 Score=26.07 Aligned_cols=68 Identities=6% Similarity=-0.064 Sum_probs=38.2
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhc-CcccccccccCCccccceEEEEcCccceecCCccCccCCC--CEEEEEe
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEK--DVVVFIS 94 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dg--D~V~i~p 94 (99)
.++++|.+ .++.||-|+|.++.++. |.+.-+ +.--..+=-.=-++|||+..-.- .|.|.+. ++|.|=|
T Consensus 62 ~~y~v~~~--~~~~tVLd~L~~Ik~~~D~sLsfr-~sCr~giCGsCam~ING~p~LAC---~t~v~~~~~~~i~ieP 132 (276)
T PLN00129 62 QSYKVDLN--DCGPMVLDVLIKIKNEQDPSLTFR-RSCREGICGSCAMNIDGKNTLAC---LTKIDRDESGPTTITP 132 (276)
T ss_pred EEEEeCCC--CCCchHHHHHHHHHHcCCCCeEEe-ccCCCCCCCCCeeEECCcccccc---cccHhhcCCCcEEEEE
Confidence 45677631 03689999999998765 333222 11111222245699999986443 3566543 3555433
No 92
>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=70.21 E-value=19 Score=21.05 Aligned_cols=68 Identities=12% Similarity=0.220 Sum_probs=39.9
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCccc--ccccccCCccccceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKER--PEMFMKGDSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~--~~l~~~~g~l~~~v~ilvNg~di~~l~ 78 (99)
|+|+|+-. -|. . .++++ ...||++|-+.+++...-.. -++.. .|+ +|-+++. |
T Consensus 1 ~~i~vk~~------~g~-~--~l~v~-----~~~TV~~lK~~I~~~~~i~~~~~~Li~-~Gk------~L~d~~t---L- 55 (71)
T cd01808 1 IKVTVKTP------KDK-E--EIEIA-----EDASVKDFKEAVSKKFKANQEQLVLIF-AGK------ILKDTDT---L- 55 (71)
T ss_pred CEEEEEcC------CCC-E--EEEEC-----CCChHHHHHHHHHHHhCCCHHHEEEEE-CCe------EcCCCCc---H-
Confidence 46666644 332 2 47777 56899999999988763221 12221 222 2223322 2
Q ss_pred CccCccCCCCEEEEEe
Q 034276 79 QLDTTLEEKDVVVFIS 94 (99)
Q Consensus 79 g~~t~L~dgD~V~i~p 94 (99)
.++-+++|+.|.+..
T Consensus 56 -~~~~i~~~stl~l~~ 70 (71)
T cd01808 56 -TQHNIKDGLTVHLVI 70 (71)
T ss_pred -HHcCCCCCCEEEEEE
Confidence 356789999988765
No 93
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=68.42 E-value=4.7 Score=29.67 Aligned_cols=21 Identities=29% Similarity=0.346 Sum_probs=17.6
Q ss_pred eecCCccCccCCCCEEEEEec
Q 034276 75 ELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 75 ~~l~g~~t~L~dgD~V~i~p~ 95 (99)
-+++|+.+.|.+||.|++|+-
T Consensus 38 Iyiggl~~~LtEgDil~VFSq 58 (219)
T KOG0126|consen 38 IYIGGLPYELTEGDILCVFSQ 58 (219)
T ss_pred EEECCCcccccCCcEEEEeec
Confidence 345778899999999999985
No 94
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=67.50 E-value=7.2 Score=31.00 Aligned_cols=50 Identities=20% Similarity=0.214 Sum_probs=33.1
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecC---CccCccCCCCEEEEEe
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSG---QLDTTLEEKDVVVFIS 94 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~---g~~t~L~dgD~V~i~p 94 (99)
.|+||.|+-+.+-+.+-..++. -.|=|.++.+-+ |++.+|+|+|.|.|+.
T Consensus 312 ~GsTV~Dvc~~IH~~l~~~Fry-------------A~VWGkSvk~~~QrVG~dHvLeD~DIV~I~~ 364 (365)
T COG1163 312 RGSTVGDVCRKIHRDLVENFRY-------------ARVWGKSVKHPGQRVGLDHVLEDEDIVEIHA 364 (365)
T ss_pred CCCcHHHHHHHHHHHHHHhcce-------------EEEeccCCCCCccccCcCcCccCCCeEEEee
Confidence 5899999999887654322221 223333333331 8899999999999973
No 95
>PF01802 Herpes_V23: Herpesvirus VP23 like capsid protein; InterPro: IPR002690 This family consist of various capsid proteins from members of the Herpesviridae. The capsid protein VP23 in Human herpesvirus 1 (HHV-1) (Human herpes simplex virus 1) forms a triplex together with VP19C these fit between and link together adjacent capsomers as formed by VP5 and VP26 []. VP3 along with the scaffolding proteins helps to form normal capsids by defining the curvature of the shell and size of the particle [].; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=66.91 E-value=8.3 Score=29.83 Aligned_cols=60 Identities=13% Similarity=0.079 Sum_probs=35.8
Q ss_pred hHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecC-CccCccCCCCEEEEEecCCCC
Q 034276 35 IMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSG-QLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 35 tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~-g~~t~L~dgD~V~i~p~v~GG 99 (99)
.--.++.++.++++....++- .+++.- ..+-.|+.....+ |- -.+..||.++++||+-|+
T Consensus 54 Dy~~l~~~lr~~t~aIl~~V~--p~~l~l--~~l~~g~~y~ikNTgP-f~w~ngd~l~liPPvf~~ 114 (296)
T PF01802_consen 54 DYLSLLSALRRRTLAILRRVE--PNQLIL--TVLDHGQGYQIKNTGP-FDWCNGDQLCLIPPVFGR 114 (296)
T ss_pred cHHHHHHHHHhhhHHHHhhhc--CCeEEE--EecCCCCceEEeecCC-eeccCCCEEEEeCCCCCC
Confidence 345678888888887655542 222211 1222333333322 33 578999999999999885
No 96
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=66.77 E-value=7.5 Score=21.43 Aligned_cols=25 Identities=24% Similarity=0.109 Sum_probs=19.1
Q ss_pred EEEcCccceecCCccCccCCCCEEEEEe
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
|++||+.+.. .++++..||.|.+..
T Consensus 28 V~vn~~~~~~---~~~~v~~~d~i~i~~ 52 (70)
T cd00165 28 VLVNGKVVTK---PSYKVKPGDVIEVDG 52 (70)
T ss_pred EEECCEEccC---CccCcCCCCEEEEcC
Confidence 7889987632 367999999988754
No 97
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=66.58 E-value=5.4 Score=26.06 Aligned_cols=50 Identities=16% Similarity=0.163 Sum_probs=33.9
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCC-ccCccCCCCEEEE
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQ-LDTTLEEKDVVVF 92 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g-~~t~L~dgD~V~i 92 (99)
...|.+-|+++.+.+-.+.. +..-+|+||.+|+.-+- .+--.++||+|..
T Consensus 43 ktT~f~klm~af~~rqGK~m-----------~slRfL~dG~rI~~dqTP~dldmEdnd~iEa 93 (103)
T COG5227 43 KTTTFKKLMDAFSRRQGKNM-----------SSLRFLFDGKRIDLDQTPGDLDMEDNDEIEA 93 (103)
T ss_pred ccchHHHHHHHHHHHhCcCc-----------ceeEEEEcceecCCCCChhhcCCccchHHHH
Confidence 45789999999988654422 24458899999987532 1224678887643
No 98
>PHA03259 Capsid triplex subunit 2; Provisional
Probab=66.01 E-value=7.6 Score=30.18 Aligned_cols=60 Identities=10% Similarity=0.123 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 36 MKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 36 v~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
--.++.++.++++....++- .+++. .-+..-|.-....+-.-=.+..||.++++||+-|+
T Consensus 55 yl~l~~~lr~~tlaIl~~V~--p~~L~--L~~~~~~~~y~IkNTgPF~w~nGD~L~liPPvf~~ 114 (302)
T PHA03259 55 YARIRTLLRNMTLTILRRVE--GNQLL--LGVPTHGHLYTIKNTGPVLWEKGDTLTLLPPLFTG 114 (302)
T ss_pred HHHHHHHHHHHhHHHHhhhc--CCeEE--EeecCCCceEEEEeccceeecCCCEEEEeCCcCCC
Confidence 44677788888776655542 22332 11111111111111112367899999999999875
No 99
>PRK12386 fumarate reductase iron-sulfur subunit; Provisional
Probab=65.95 E-value=28 Score=26.14 Aligned_cols=45 Identities=7% Similarity=-0.045 Sum_probs=26.2
Q ss_pred CcchHHHHHHHHHHhc-CcccccccccCCccccceEEEEcCccceec
Q 034276 32 EKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGVLVLVNDCDWELS 77 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v~ilvNg~di~~l 77 (99)
++.||-++|.++..+. |.+.-+ +.-...+=-.=.++|||+....-
T Consensus 28 ~~~tvLd~L~~i~~~~d~~l~~r-~~C~~g~CGsCa~~InG~p~laC 73 (251)
T PRK12386 28 EGEVVLDVIHRLQATQAPDLAVR-WNCKAGKCGSCSAEINGRPRLMC 73 (251)
T ss_pred CCCCHHHHHHHhccccCCCCccc-CCCCCCcCCCCEEEECccEeccH
Confidence 6899999999976532 322212 11111122244589999987554
No 100
>COG0522 RpsD Ribosomal protein S4 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=64.76 E-value=5.5 Score=29.17 Aligned_cols=26 Identities=15% Similarity=0.082 Sum_probs=21.7
Q ss_pred ceEEEEcCccceecCCccCccCCCCEEEE
Q 034276 64 GVLVLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
+=.|+|||+.|.. ..+.++.||+|.|
T Consensus 118 HGHI~VnGk~V~i---PSy~V~~gdei~V 143 (205)
T COG0522 118 HGHILVNGKRVNI---PSYLVSPGDEISV 143 (205)
T ss_pred cceEEECCEEecc---CcEEecCCCEEEe
Confidence 4459999999876 5689999999987
No 101
>PF01561 Hanta_G2: Hantavirus glycoprotein G2; InterPro: IPR002532 The medium (M) genome segment of Hantaviruses (family Bunyaviridae) encodes the two virion glycoproteins [], G1 and G2, as a polyprotein precursor. This entry represents the polyprotein region which forms the G2 glycoprotein.; GO: 0030683 evasion by virus of host immune response, 0044423 virion part
Probab=63.97 E-value=5.8 Score=32.40 Aligned_cols=48 Identities=19% Similarity=0.094 Sum_probs=32.4
Q ss_pred cchHHHHHHHHHHhcC------------cccccccccCCccccceEEEEcCccceecCCcc
Q 034276 33 KLIMKDLLSWVGTNLI------------KERPEMFMKGDSVRPGVLVLVNDCDWELSGQLD 81 (99)
Q Consensus 33 ~~tv~dll~~L~~~~~------------~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~ 81 (99)
|.|+..--+.|+.+-. .-+-++.+.++.+|.+|+|+|| +|+++-+-.+
T Consensus 258 GntvsGykrl~aT~DsfqSFN~t~~hiT~~~LEw~Dpds~~rdhINv~v~-rDi~f~dl~e 317 (485)
T PF01561_consen 258 GNTVSGYKRLMATKDSFQSFNVTEPHITANQLEWKDPDSSLRDHINVLVN-RDISFQDLSE 317 (485)
T ss_pred CeehhhhhhhhhccccceeeeccCceeecccceEeCCCCcccccEEEEEc-ccccchhccc
Confidence 5667666655543211 1122467789999999999999 9999865433
No 102
>smart00455 RBD Raf-like Ras-binding domain.
Probab=63.33 E-value=9.3 Score=23.07 Aligned_cols=25 Identities=16% Similarity=-0.033 Sum_probs=20.1
Q ss_pred eEEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 19 KVHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 19 ~~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
+...|.+- ++.|++|+|+.+++++.
T Consensus 10 ~~~~V~vr-----pg~tl~e~L~~~~~kr~ 34 (70)
T smart00455 10 QRTVVKVR-----PGKTVRDALAKALKKRG 34 (70)
T ss_pred CEEEEEEC-----CCCCHHHHHHHHHHHcC
Confidence 34566666 69999999999999874
No 103
>PRK11025 23S rRNA pseudouridylate synthase C; Provisional
Probab=62.51 E-value=8.8 Score=29.30 Aligned_cols=25 Identities=28% Similarity=0.142 Sum_probs=20.1
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.|.|||+.+. .++.|+.||+|.+.+
T Consensus 46 ~V~VNg~~v~----~~~~v~~GD~I~i~~ 70 (317)
T PRK11025 46 EVRVNKKRIK----PEYKLEAGDEVRIPP 70 (317)
T ss_pred CEEECCEEcC----cccccCCCCEEEeCC
Confidence 3779999863 478999999999854
No 104
>TIGR02958 sec_mycoba_snm4 secretion protein snm4. Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.
Probab=62.33 E-value=30 Score=28.05 Aligned_cols=68 Identities=9% Similarity=0.080 Sum_probs=50.4
Q ss_pred eEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccC-ccCCCCEEEEEec
Q 034276 19 KVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDT-TLEEKDVVVFIST 95 (99)
Q Consensus 19 ~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t-~L~dgD~V~i~p~ 95 (99)
+..++-+| ....+.|++..+.+...+. +. +.+.-.+..+.-.+|..++...-++. .+.|||.+.+-|.
T Consensus 12 ~~~DlaLP-----a~~PvaellP~ll~~~~~~---~~-~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p~ 80 (452)
T TIGR02958 12 RAVDVALP-----ADVPVAELIPDLVDLLDDR---GA-AELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVPA 80 (452)
T ss_pred eeeeeecC-----CCCcHHHHHHHHHHHhCcc---cc-cCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEeeC
Confidence 44678888 6889999999998855322 22 33445668888889988877655544 8999999999884
No 105
>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=62.09 E-value=24 Score=20.97 Aligned_cols=57 Identities=16% Similarity=0.122 Sum_probs=33.5
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
...++++ +..||.++=+.+.+.. |....+|+.. |+ +|=+++.+ .++-+++|..|.++
T Consensus 10 ~~~l~v~-----~~~TV~~lK~~I~~~~gi~~~~q~Li~~-G~------~L~D~~~l-----~~~~i~~~~tv~~~ 68 (70)
T cd01794 10 DVKLSVS-----SKDTVGQLKKQLQAAEGVDPCCQRWFFS-GK------LLTDKTRL-----QETKIQKDYVVQVI 68 (70)
T ss_pred EEEEEEC-----CcChHHHHHHHHHHHhCCCHHHeEEEEC-Ce------ECCCCCCH-----HHcCCCCCCEEEEE
Confidence 3568887 5789999999887764 3333344432 22 23333332 23567777777654
No 106
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=61.74 E-value=25 Score=30.52 Aligned_cols=26 Identities=12% Similarity=0.024 Sum_probs=21.4
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEec
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p~ 95 (99)
-..|||+.+. ++|+|++||.|.|+..
T Consensus 441 gAkvng~~v~----l~~~L~~GD~VeIits 466 (743)
T PRK10872 441 GAKIGGRIVP----FTYQLQMGDQIEIITQ 466 (743)
T ss_pred EEEECCEECC----CCcCCCCCCEEEEEeC
Confidence 3579997764 5899999999999864
No 107
>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=60.14 E-value=33 Score=20.21 Aligned_cols=55 Identities=13% Similarity=0.146 Sum_probs=33.4
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcC--cccccccccCCccccceEEEEcCccceecC--CccCccCCCCEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLI--KERPEMFMKGDSVRPGVLVLVNDCDWELSG--QLDTTLEEKDVVVF 92 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~--~~~~~l~~~~g~l~~~v~ilvNg~di~~l~--g~~t~L~dgD~V~i 92 (99)
.+.++++ +..||+++-+.+.+... ..... +.-+|+..+.-. -.++-+++||.|.+
T Consensus 11 ~~~l~v~-----~~~TV~~lK~~I~~~~gip~~~q~-------------Li~~Gk~L~D~~~~L~~~gi~~~~~l~l 69 (71)
T cd01796 11 TFSLDVD-----PDLELENFKALCEAESGIPASQQQ-------------LIYNGRELVDNKRLLALYGVKDGDLVVL 69 (71)
T ss_pred EEEEEEC-----CcCCHHHHHHHHHHHhCCCHHHeE-------------EEECCeEccCCcccHHHcCCCCCCEEEE
Confidence 3578888 57999999999988653 22112 223443332110 12567889988875
No 108
>PF02080 TrkA_C: TrkA-C domain; InterPro: IPR006037 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the C-terminal subdomain of RCK.; GO: 0008324 cation transmembrane transporter activity, 0006813 potassium ion transport; PDB: 2BKP_A 1VCT_A 2BKO_A 2BKN_A 3L4B_C 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A ....
Probab=58.33 E-value=10 Score=21.78 Aligned_cols=21 Identities=19% Similarity=0.340 Sum_probs=13.0
Q ss_pred eecCCccCccCCCCEEEEEec
Q 034276 75 ELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 75 ~~l~g~~t~L~dgD~V~i~p~ 95 (99)
......+|.|++||.|.++-+
T Consensus 39 ~~~p~~~~~l~~gD~l~v~g~ 59 (71)
T PF02080_consen 39 IIIPDGDTVLQAGDILIVVGD 59 (71)
T ss_dssp EES--TT-BE-TTEEEEEEEE
T ss_pred EECCCCCCEECCCCEEEEEEC
Confidence 344455999999999998743
No 109
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=55.99 E-value=21 Score=21.75 Aligned_cols=23 Identities=17% Similarity=0.085 Sum_probs=19.1
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
..|.+- +|.|++|+|+.++++..
T Consensus 12 t~V~vr-----pg~ti~d~L~~~c~kr~ 34 (72)
T cd01760 12 TVVPVR-----PGMSVRDVLAKACKKRG 34 (72)
T ss_pred EEEEEC-----CCCCHHHHHHHHHHHcC
Confidence 457776 69999999999998774
No 110
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=55.85 E-value=13 Score=22.38 Aligned_cols=27 Identities=19% Similarity=0.081 Sum_probs=20.5
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
-++||++.+.. ...++|++||.|.|-+
T Consensus 67 g~~vn~~~~~~--~~~~~l~~gd~i~ig~ 93 (102)
T cd00060 67 GTFVNGQRVSP--GEPVRLRDGDVIRLGN 93 (102)
T ss_pred CeEECCEECCC--CCcEECCCCCEEEECC
Confidence 46789987764 3468999999998853
No 111
>PF01957 NfeD: NfeD-like C-terminal, partner-binding; InterPro: IPR002810 The nfe genes (nfeA, nfeB, and nfeD) are involved in the nodulation efficiency and competitiveness of Rhizobium meliloti (Sinorhizobium meliloti) (Rhizobium meliloti) on alfalfa roots []. The specific function of this family is unknown although it is unlikely that NfeD is specifically involved in nodulation as the family contains several different archaeal and bacterial species most of which are not symbionts. This entry describes archaeal and bacterial proteins which are variously described, examples are: nodulation protein, nodulation efficiency protein D (nfeD), hypothetical protein and membrane-bound serine protease (ClpP class). A number of these proteins are classified in MEROPS peptidase family S49 as non-peptidase homologues or as unassigned peptidases. ; PDB: 2K5H_A 3CP0_A 2EXD_A.
Probab=55.34 E-value=17 Score=23.73 Aligned_cols=32 Identities=16% Similarity=0.243 Sum_probs=22.4
Q ss_pred cccceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 61 VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 61 l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.++.=.|.++|..|+.....+ ++.||+|.+.-
T Consensus 101 ~~~~G~V~~~G~~w~A~s~~~--i~~G~~V~Vv~ 132 (144)
T PF01957_consen 101 LNGSGRVKVDGERWRARSEDE--IPKGDRVRVVG 132 (144)
T ss_dssp SSS-EEEEETTEEEEEEESST--B-TT-EEEEEE
T ss_pred cCCcEEEEECCeEEEEEeCCC--CCCCCEEEEEE
Confidence 455666889999999875443 99999998864
No 112
>TIGR01017 rpsD_bact ribosomal protein S4, bacterial/organelle type. This model finds organelle (chloroplast and mitochondrial) ribosomal protein S4 as well as bacterial ribosomal protein S4.
Probab=53.69 E-value=14 Score=26.65 Aligned_cols=25 Identities=16% Similarity=0.280 Sum_probs=20.1
Q ss_pred EEEcCccceecCCccCccCCCCEEEEEe
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
|.|||+-+.. ..+.|++||.|.+-.
T Consensus 117 V~VNgk~v~~---ps~~V~~GD~I~V~~ 141 (200)
T TIGR01017 117 ILVNGKKVDI---PSYQVRPGDIISIKE 141 (200)
T ss_pred EEECCEEeCC---CCCCCCCCCEEEEee
Confidence 8899987753 468999999998753
No 113
>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=53.10 E-value=53 Score=20.37 Aligned_cols=35 Identities=3% Similarity=0.020 Sum_probs=25.9
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCc
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIK 49 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~ 49 (99)
|+||+-| |.. .+.+.+| ...+..+|.+.++++++-
T Consensus 1 ~~vK~~~--------~~d-~~r~~l~-----~~~~~~~L~~~i~~r~~~ 35 (82)
T cd06407 1 VRVKATY--------GEE-KIRFRLP-----PSWGFTELKQEIAKRFKL 35 (82)
T ss_pred CEEEEEe--------CCe-EEEEEcC-----CCCCHHHHHHHHHHHhCC
Confidence 5666666 332 3567888 567999999999998863
No 114
>PRK09602 translation-associated GTPase; Reviewed
Probab=53.10 E-value=36 Score=27.07 Aligned_cols=54 Identities=19% Similarity=0.187 Sum_probs=34.4
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEec
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~ 95 (99)
-+.++ .|+|+.|+-..+-....... +.... .+ ++ + .-|.+++|+|||.|.|+..
T Consensus 342 ~~~l~-----~g~t~~d~A~~IH~d~~~~f--i~A~~--~~-------~~---~-~~g~~~~l~dgDiv~i~~~ 395 (396)
T PRK09602 342 AFLLP-----KGSTARDLAYKIHTDIGEGF--LYAID--AR-------TK---R-RIGEDYELKDGDVIKIVST 395 (396)
T ss_pred eEEEC-----CCCCHHHHHHHHHHHHHhhc--eehhc--cc-------CC---c-ccCCCcEecCCCEEEEEeC
Confidence 46677 79999999887755332211 11111 00 22 2 4588999999999999863
No 115
>COG1188 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]
Probab=53.09 E-value=17 Score=23.89 Aligned_cols=23 Identities=17% Similarity=0.150 Sum_probs=19.6
Q ss_pred EEEcCccceecCCccCccCCCCEEEEE
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
|-+||... ...+.++.||.|.|.
T Consensus 36 V~vNG~~a----KpS~~VK~GD~l~i~ 58 (100)
T COG1188 36 VKVNGQRA----KPSKEVKVGDILTIR 58 (100)
T ss_pred EEECCEEc----ccccccCCCCEEEEE
Confidence 78999988 357899999999884
No 116
>CHL00113 rps4 ribosomal protein S4; Reviewed
Probab=52.94 E-value=14 Score=26.86 Aligned_cols=60 Identities=13% Similarity=0.001 Sum_probs=34.9
Q ss_pred CcchHHHHHHHHHHhcCccc-ccccccC-C---ccccceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 32 EKLIMKDLLSWVGTNLIKER-PEMFMKG-D---SVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~-~~l~~~~-g---~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.|.|-..||..|..+..... ...|... . .+-.+=.|.|||+-+.. .++.+++||+|.+-.
T Consensus 76 ~g~tg~~ll~~LE~RLD~~L~r~g~~~SR~~ArqlI~~G~V~VNGk~v~~---ps~~Vk~GD~I~V~~ 140 (201)
T CHL00113 76 KGSTGQVLLQLLEMRLDNILFRLGMAPTIPAARQLVNHGHILVNGRIVDI---PSYRCKPKDIITVKD 140 (201)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHCCcEEECCEEecC---ccccCCCCCEEEEcc
Confidence 36677777777765543222 1112111 0 11122348899998754 468999999998753
No 117
>PRK05327 rpsD 30S ribosomal protein S4; Validated
Probab=52.50 E-value=15 Score=26.58 Aligned_cols=26 Identities=19% Similarity=0.207 Sum_probs=20.7
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.|+|||+-+.. ..++|++||.|.+-.
T Consensus 119 ~V~VNgk~v~~---ps~~v~~GD~I~v~~ 144 (203)
T PRK05327 119 HILVNGKKVNI---PSYRVKPGDVIEVRE 144 (203)
T ss_pred cEEECCEEECC---CCcCCCCCCEEEECC
Confidence 48999987643 468999999999864
No 118
>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=52.04 E-value=48 Score=19.59 Aligned_cols=24 Identities=21% Similarity=0.202 Sum_probs=20.5
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcCc
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLIK 49 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~~ 49 (99)
+.+.+| .+.|..+|.+.+.++++.
T Consensus 13 ~~~~~~-----~~~s~~dL~~~i~~~~~~ 36 (81)
T smart00666 13 RRLSVP-----RDISFEDLRSKVAKRFGL 36 (81)
T ss_pred EEEEEC-----CCCCHHHHHHHHHHHhCC
Confidence 467788 689999999999999974
No 119
>PF06241 DUF1012: Protein of unknown function (DUF1012); InterPro: IPR010420 This entry represents the CASTOR/POLLUX/SYM8 family of ion channels, which are found in plants. They have been implicated in modulating the nuclear membrane envelope potential [].
Probab=51.73 E-value=19 Score=26.36 Aligned_cols=30 Identities=20% Similarity=0.261 Sum_probs=22.3
Q ss_pred EEcCccceecCCccCccCCCCEEEEEecCCC
Q 034276 68 LVNDCDWELSGQLDTTLEEKDVVVFISTLHG 98 (99)
Q Consensus 68 lvNg~di~~l~g~~t~L~dgD~V~i~p~v~G 98 (99)
+-|| -|.+-...++.|++||++.++.|++|
T Consensus 123 ~r~G-kI~fhP~Dd~vL~e~DklLvIa~~~~ 152 (206)
T PF06241_consen 123 KRDG-KIVFHPDDDYVLREGDKLLVIAPVNG 152 (206)
T ss_pred eeCC-eeEECCCCCceeecCCEEEEEeecCC
Confidence 3455 34444556789999999999999986
No 120
>PF09014 Sushi_2: Beta-2-glycoprotein-1 fifth domain; InterPro: IPR015104 The fifth domain of beta-2-glycoprotein-1 (b2GP-1) is composed of four well-defined anti-parallel beta-strands and two short alpha-helices, as well as a long highly flexible loop. It plays an important role in the binding of b2GP-1 to negatively charged compounds and subsequent capture for binding of anti-b2GP-1 antibodies []. ; PDB: 1C1Z_A 3OP8_B 2KRI_A 1QUB_A 1G4G_A 1G4F_A.
Probab=50.90 E-value=8.3 Score=24.64 Aligned_cols=27 Identities=19% Similarity=0.233 Sum_probs=20.8
Q ss_pred EEEcCccceecCCccCccCCCCEEEEE
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
|+.||+.+..-+-.+-.+..||.|+||
T Consensus 13 Vly~g~k~~i~d~~~~~v~Hge~Vsff 39 (85)
T PF09014_consen 13 VLYNGEKVWIQDLFKNGVLHGEIVSFF 39 (85)
T ss_dssp EEETTEEEEHHHHTTT-BETT-EEEEE
T ss_pred EEECCEEechhhcccCceeeCCEEEEE
Confidence 778998887766667789999999997
No 121
>PF06071 YchF-GTPase_C: Protein of unknown function (DUF933); InterPro: IPR013029 This domain is found at the C terminus of family of conserved hypothetical proteins found in both prokaryotes and eukaryotes. While the function of these proteins is not known, the crystal structure of P44681 from SWISSPROT from Haemophilus influenzae has been determined []. This protein consists of three domains: an N-terminal domain which has a mononucleotide binding fold typical for the P-loop NTPases, a central domain which forms an alpha-helical coiled coil, and this C-terminal domain which is composed of a six-stranded half-barrel curved around an alpha helix. The central domain and this domain are topologically similar to RNA-binding proteins, while the N-terminal region contains the features typical of GTP-dependent molecular switches. The purified protein was capable of binding both double-stranded nucleic acid and GTP. It was suggested, therefore, that this protein might be part of a nucleoprotein complex and could function as a GTP-dependent translation factor.; PDB: 1NI3_A 1JAL_A 2DWQ_B 2DBY_A 2OHF_A.
Probab=50.79 E-value=6.5 Score=25.04 Aligned_cols=16 Identities=19% Similarity=0.360 Sum_probs=10.7
Q ss_pred cCCccCccCCCCEEEE
Q 034276 77 SGQLDTTLEEKDVVVF 92 (99)
Q Consensus 77 l~g~~t~L~dgD~V~i 92 (99)
+.|.++.++|||.|.|
T Consensus 66 ~eGK~YivqDGDIi~f 81 (84)
T PF06071_consen 66 LEGKDYIVQDGDIIHF 81 (84)
T ss_dssp EEETT-B--TTEEEEE
T ss_pred ccCCceeEeCCCEEEE
Confidence 4678899999999876
No 122
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=50.72 E-value=74 Score=26.88 Aligned_cols=56 Identities=23% Similarity=0.255 Sum_probs=39.8
Q ss_pred CcchHHHHHHHHHHhcCcccc--------cccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEec
Q 034276 32 EKLIMKDLLSWVGTNLIKERP--------EMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~--------~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~ 95 (99)
.|..|.|+|+++.++.|.... -+|++-=.-..+|+++| +..+| .++.||.|.++++
T Consensus 170 tG~gI~~iLe~Iv~~iP~P~g~~~~pLkALifDS~yD~Y~GVv~~v-----Ri~dG---~ik~gdki~~m~t 233 (603)
T COG0481 170 TGIGIEDVLEAIVEKIPPPKGDPDAPLKALIFDSWYDNYLGVVVLV-----RIFDG---TLKKGDKIRMMST 233 (603)
T ss_pred cCCCHHHHHHHHHhhCCCCCCCCCCcceEEEEeccccccceEEEEE-----EEeec---eecCCCEEEEEec
Confidence 588899999999999975422 25654333455777765 44444 7899999998876
No 123
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=50.38 E-value=33 Score=20.59 Aligned_cols=23 Identities=22% Similarity=0.111 Sum_probs=18.2
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
..+.+- +|.|++|+|..+++++.
T Consensus 13 t~V~vr-----pg~ti~d~L~~~~~kr~ 35 (71)
T PF02196_consen 13 TVVQVR-----PGMTIRDALSKACKKRG 35 (71)
T ss_dssp EEEEE------TTSBHHHHHHHHHHTTT
T ss_pred EEEEEc-----CCCCHHHHHHHHHHHcC
Confidence 456666 69999999999999774
No 124
>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=50.29 E-value=53 Score=19.93 Aligned_cols=24 Identities=8% Similarity=0.163 Sum_probs=19.7
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
...+.++ ..+|.+|+++.+.+++.
T Consensus 17 ~kti~v~-----~~tTa~~Vi~~~l~k~~ 40 (90)
T smart00314 17 YKTLRVS-----SRTTARDVIQQLLEKFH 40 (90)
T ss_pred EEEEEEC-----CCCCHHHHHHHHHHHhC
Confidence 3467777 68999999999999774
No 125
>PHA03258 Capsid triplex subunit 2; Provisional
Probab=48.26 E-value=14 Score=28.75 Aligned_cols=61 Identities=8% Similarity=0.081 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCc--cCccCCCCEEEEEecCCCC
Q 034276 35 IMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQL--DTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 35 tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~--~t~L~dgD~V~i~p~v~GG 99 (99)
.--.++.++.++++....++- .+++.-..+- -|.-....+-. -=.+..||.++++||+-|+
T Consensus 58 Dyl~l~~~lr~~tlaIl~~V~--p~~lil~~l~--~~~~y~IkNTg~P~F~w~nGD~L~liPPvf~~ 120 (304)
T PHA03258 58 DYVAMYNYLSKCTLAILEEVN--PDSLVLTRID--PGQTYQIKNKYQPFFQWDSHTQLSVIPPVFGR 120 (304)
T ss_pred cHHHHHHHHHHHHHHHHhhhc--CCeEEEEecC--CCceEEEEecCCCceeccCCCEEEEeCCcCCC
Confidence 345677788888776655542 2232211111 11111111111 1347899999999999775
No 126
>COG1465 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]
Probab=47.97 E-value=37 Score=26.83 Aligned_cols=75 Identities=12% Similarity=0.082 Sum_probs=43.9
Q ss_pred hHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccce------------------------
Q 034276 10 GLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGV------------------------ 65 (99)
Q Consensus 10 ~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v------------------------ 65 (99)
+||-.+|... --+-+| .+.| +||++--++..=.+.+.+|+-|..|
T Consensus 256 PFRVNAG~Vh-aYi~vP-----g~kT-----kYLaEL~aGDeV~iVD~dGr~R~aiVGRvKIErRPl~lIeAey~g~~i~ 324 (376)
T COG1465 256 PFRVNAGAVH-AYIRVP-----GGKT-----KYLAELKAGDEVLIVDFDGRTRSAIVGRVKIERRPLMLIEAEYEGVEIS 324 (376)
T ss_pred ceeeccccee-EEEEcC-----CCce-----EEhhhhcCCCeEEEEecCCceeEEEEEEEEeecCceEEEEEEecCcEEE
Confidence 4565666432 245566 3444 4565544444444555555554433
Q ss_pred EEEEcCccceecCCccC-----ccCCCCEEEEEec
Q 034276 66 LVLVNDCDWELSGQLDT-----TLEEKDVVVFIST 95 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t-----~L~dgD~V~i~p~ 95 (99)
.|+.|-+-|++..-..+ .|++||+|.+++-
T Consensus 325 tiLQNAETIkLv~~dG~pvSV~eLk~GD~vlv~~e 359 (376)
T COG1465 325 TILQNAETIKLVNPDGEPVSVAELKPGDEVLVYLE 359 (376)
T ss_pred EEeccceeEEEEcCCCcEeeeEecCCCCEEEEEeh
Confidence 26778888877643333 6899999998864
No 127
>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=47.94 E-value=11 Score=24.05 Aligned_cols=16 Identities=19% Similarity=0.463 Sum_probs=13.6
Q ss_pred cCCccCccCCCCEEEE
Q 034276 77 SGQLDTTLEEKDVVVF 92 (99)
Q Consensus 77 l~g~~t~L~dgD~V~i 92 (99)
+.|.++.++|||.+.|
T Consensus 66 ~eGK~Yiv~DGDi~~f 81 (83)
T cd04867 66 QEGKDYVVQDGDIIFF 81 (83)
T ss_pred hhCCceEeeCCeEEEE
Confidence 4678899999999876
No 128
>TIGR00005 rluA_subfam pseudouridine synthase, RluA family. modifies uracil-65 in transfer RNAs to pseudouridine.
Probab=47.41 E-value=27 Score=26.06 Aligned_cols=25 Identities=16% Similarity=0.051 Sum_probs=18.9
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEE
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.|.|||+.+. ..++.|++||+|.+.
T Consensus 32 ~V~VNg~~~~---~~~~~v~~gd~I~i~ 56 (299)
T TIGR00005 32 QVKVNGKVTA---NPKLKVKDGDRITVR 56 (299)
T ss_pred cEEECCEecc---CcccCCCCCCEEEEe
Confidence 3889995432 347899999999984
No 129
>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=46.21 E-value=52 Score=18.24 Aligned_cols=58 Identities=5% Similarity=-0.009 Sum_probs=33.5
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecC-CccCccCCCCEEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSG-QLDTTLEEKDVVVFI 93 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~-g~~t~L~dgD~V~i~ 93 (99)
...++++ ...|+++|=+.+.+...-... ...++.||+...... -.++.+.+|+.|.++
T Consensus 9 ~~~~~~~-----~~~ti~~lK~~i~~~~~~~~~-----------~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~ 67 (69)
T cd01769 9 TFELEVS-----PDDTVAELKAKIAAKEGVPPE-----------QQRLIYAGKILKDDKTLSDYGIQDGSTLHLV 67 (69)
T ss_pred EEEEEEC-----CCChHHHHHHHHHHHHCcChH-----------HEEEEECCcCCCCcCCHHHCCCCCCCEEEEE
Confidence 4567787 578999999999886642111 112233443322111 124577888888775
No 130
>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=45.75 E-value=59 Score=18.78 Aligned_cols=57 Identities=14% Similarity=0.144 Sum_probs=33.6
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcC--cccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLI--KERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~--~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.+.++++ +..||+++-+.+++... ...-.|.. .|+ .|-|++.+ .++-+++|+.|.+.
T Consensus 10 ~~~~~v~-----~~~tV~~lK~~i~~~~gi~~~~q~Li~-~G~------~L~d~~~l-----~~~~i~~~stl~l~ 68 (70)
T cd01798 10 TFPVEVD-----PDTDIKQLKEVVAKRQGVPPDQLRVIF-AGK------ELRNTTTI-----QECDLGQQSILHAV 68 (70)
T ss_pred EEEEEEC-----CCChHHHHHHHHHHHHCCCHHHeEEEE-CCe------ECCCCCcH-----HHcCCCCCCEEEEE
Confidence 4567887 67899999999988752 22223322 222 12232222 24678888887654
No 131
>PRK05950 sdhB succinate dehydrogenase iron-sulfur subunit; Reviewed
Probab=45.59 E-value=78 Score=23.02 Aligned_cols=55 Identities=18% Similarity=0.097 Sum_probs=32.7
Q ss_pred CcchHHHHHHHHHHhc-CcccccccccCCccccce----EEEEcCccceecCCccCccCC--CCEEEEEe
Q 034276 32 EKLIMKDLLSWVGTNL-IKERPEMFMKGDSVRPGV----LVLVNDCDWELSGQLDTTLEE--KDVVVFIS 94 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~-~~~~~~l~~~~g~l~~~v----~ilvNg~di~~l~g~~t~L~d--gD~V~i~p 94 (99)
++.||-++|..+.+.. |.+..+. ..+.++ .|.|||+.+.. =.|++.+ +++++|=|
T Consensus 27 ~~~tvl~~L~~~~~~~~~~l~~~~-----~c~~g~Cg~C~v~vnG~~~la---C~t~~~~~~~~~~tiep 88 (232)
T PRK05950 27 CGPMVLDALIKIKNEIDPTLTFRR-----SCREGVCGSDAMNINGKNGLA---CITPISDLKKGKIVIRP 88 (232)
T ss_pred CCCHHHHHHHHhCCccCCcceeeC-----CCCCCCCCCCEEEECCcCccc---hhChHhHcCCCeEEEEE
Confidence 4799999999986433 4332211 113333 68999988642 3455555 56665544
No 132
>PHA03257 Capsid triplex subunit 2; Provisional
Probab=45.26 E-value=17 Score=28.52 Aligned_cols=61 Identities=15% Similarity=0.066 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHhcCcccccccccCCccccceEEEEcC---ccceecCCccCccCCCCEEEEEecCCCC
Q 034276 35 IMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVND---CDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 35 tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg---~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
.--.++.++.++++....++- .+++.-.. +--+ +-....+-.-=.+..||.++++||+-|+
T Consensus 59 Dyl~l~~~lr~rtlAVl~rV~--p~~Lia~~--L~~g~~~~~y~IkNTgPF~w~nGD~LcllPPvF~~ 122 (316)
T PHA03257 59 DTLSLLAAYRRRFPAVITRVL--PGRMSAVA--LGVGPLPPGLFLQNTGPFDLCNGDAVCLLPPIFGG 122 (316)
T ss_pred cHHHHHHHHHHHhHHHHhhhc--CCeEEEEe--ccCCCCCCceEEEecCCeeecCCCEEEEeCCcCCC
Confidence 345677788888876655542 22221000 1111 2222111112467899999999999875
No 133
>TIGR01266 fum_ac_acetase fumarylacetoacetase. This enzyme catalyzes the final step in the breakdown of tyrosine or phenylalanine to fumarate and acetoacetate.
Probab=44.98 E-value=75 Score=25.78 Aligned_cols=58 Identities=16% Similarity=0.120 Sum_probs=36.1
Q ss_pred chHHHHHHHHHHhcCccc-ccccccCCcc--------ccceEEEEcCcc-ceecCCc-cCccCCCCEEEE
Q 034276 34 LIMKDLLSWVGTNLIKER-PEMFMKGDSV--------RPGVLVLVNDCD-WELSGQL-DTTLEEKDVVVF 92 (99)
Q Consensus 34 ~tv~dll~~L~~~~~~~~-~~l~~~~g~l--------~~~v~ilvNg~d-i~~l~g~-~t~L~dgD~V~i 92 (99)
.|+.++|.+++.++-.++ .+|+.. |.+ -.-+-.-.+|+. +.+-+|. -+-|+|||+|.+
T Consensus 323 ws~~qlIah~S~~g~tL~pGDLi~T-GTpsG~~~~~~G~~lE~t~~g~~~v~l~~g~~r~fL~dGD~V~~ 391 (415)
T TIGR01266 323 WTMLQQLAHHSVNGCNLRPGDLLGS-GTISGSEPGSFGSMLELSWKGKKPIDVGQGETRTFLEDGDEVIL 391 (415)
T ss_pred cCHHHHHHHHhcCCcccCCCCEEEe-CCCCCCcccCCCcEEEEEeCCeeeeecCCCCCCCCCCCCCEEEE
Confidence 489999999997655554 366532 222 223444467753 3333343 358999999998
No 134
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=44.87 E-value=65 Score=20.48 Aligned_cols=38 Identities=11% Similarity=0.217 Sum_probs=23.2
Q ss_pred eEEEEEcchHh-hhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 2 QLTLEFGGGLE-LLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 2 ~v~V~f~a~l~-~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
||+|+|-+.=. .... ++ .+.+. ...|+..+++.|+++.
T Consensus 1 KV~v~fk~iG~aPilk-~~--k~kI~-----~~~~f~~vi~fLrk~L 39 (87)
T PF04110_consen 1 KVTVRFKAIGSAPILK-QK--KFKIS-----ASQTFATVIAFLRKKL 39 (87)
T ss_dssp EEEEEEEEETT----S-----EEEEE-----TTSBTHHHHHHHHHHC
T ss_pred CEEEEEEecCCCcccc-Cc--EEEEC-----CCCchHHHHHHHHHHh
Confidence 56777765322 2233 23 35566 5789999999999855
No 135
>PRK11180 rluD 23S rRNA pseudouridine synthase D; Provisional
Probab=44.80 E-value=29 Score=26.56 Aligned_cols=26 Identities=19% Similarity=0.075 Sum_probs=20.5
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.|.|||+.+. ..++.|++||.|.+..
T Consensus 44 ~V~VNg~~v~---~~~~~v~~gD~I~v~~ 69 (325)
T PRK11180 44 RVLVNGKVIN---KPKEKVLGGEQVAIDA 69 (325)
T ss_pred CEEECCEEcc---CCCcCcCCCCEEEEee
Confidence 4889998764 2468899999999874
No 136
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=43.99 E-value=22 Score=22.79 Aligned_cols=16 Identities=25% Similarity=0.366 Sum_probs=13.4
Q ss_pred ccCCCCEEEEEecCCC
Q 034276 83 TLEEKDVVVFISTLHG 98 (99)
Q Consensus 83 ~L~dgD~V~i~p~v~G 98 (99)
.|+.||.|.++|.-.|
T Consensus 76 ~Lk~GD~V~ll~~~~g 91 (100)
T PF10844_consen 76 GLKVGDKVLLLRVQGG 91 (100)
T ss_pred CCcCCCEEEEEEecCC
Confidence 7999999999995443
No 137
>COG0146 HyuB N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=43.96 E-value=32 Score=29.03 Aligned_cols=40 Identities=25% Similarity=0.199 Sum_probs=26.3
Q ss_pred ccccceEEEEcCccceecCCccCccCCCCEEEEEecCCCC
Q 034276 60 SVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 60 ~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
..-..+++--+|.-++.-.--.++|+.||.+.|-.|=+||
T Consensus 479 ~~g~~~v~~~~g~~~~l~~~~t~~l~~GD~~~i~tpGGGG 518 (563)
T COG0146 479 EPGENVVARKDGDVERLGSKDTTELEPGDVVIIETPGGGG 518 (563)
T ss_pred CCcceEEEeCCCCeEecCceeeeEcCCCCEEEEECCCCCc
Confidence 3434444444555444433444599999999999998887
No 138
>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=43.87 E-value=40 Score=19.96 Aligned_cols=23 Identities=13% Similarity=0.104 Sum_probs=19.6
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcc
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKE 50 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~ 50 (99)
+.++ .+.|..+|.+.++++++..
T Consensus 16 ~~~~-----~~~s~~~L~~~i~~~~~~~ 38 (84)
T PF00564_consen 16 ISLP-----SDVSFDDLRSKIREKFGLL 38 (84)
T ss_dssp EEEC-----STSHHHHHHHHHHHHHTTS
T ss_pred EEcC-----CCCCHHHHHHHHHHHhCCC
Confidence 6677 5679999999999999874
No 139
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=43.84 E-value=69 Score=19.55 Aligned_cols=61 Identities=21% Similarity=0.061 Sum_probs=32.6
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccc-----cccccCCccccceEEEEcCccceecCCccCccCCCCEEE
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERP-----EMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVV 91 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~-----~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~ 91 (99)
++++ +|.||.+++.+.--..|.+-. ..|...|.=+ --+|-|||+..- ..=.|++++|-+|.
T Consensus 13 v~~~-----~G~til~al~~~gi~ip~~c~~~~~r~~~~~~g~C~-~C~Vev~g~~~v--~AC~t~v~~GM~V~ 78 (82)
T PF13510_consen 13 VEVP-----PGETILEALLAAGIDIPRLCYHGRPRGGLCPIGSCR-LCLVEVDGEPNV--RACSTPVEDGMVVE 78 (82)
T ss_dssp EEEE-----ET-BHHHHHHHTT--B-EETTTS-EEBSSSSSTT-S-S-EEEESSEEEE--ETTT-B--TTEEEE
T ss_pred EEEc-----CCCHHHHHHHHCCCeEEEeeeccCcccccCCccccc-eEEEEECCCcce--EcccCCCcCCcEEE
Confidence 6666 799999999988766664321 2232222211 346899998731 23468999998875
No 140
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=43.50 E-value=25 Score=28.05 Aligned_cols=28 Identities=21% Similarity=0.177 Sum_probs=19.5
Q ss_pred EEEcCccceecCCccCccCCCCEEEEEe
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
++|||...+...+..++|++||+|.|=+
T Consensus 69 T~VN~sg~~l~~~~~~~L~~GD~I~iG~ 96 (396)
T TIGR03354 69 VFLNGSGSPLGRGNPVRLEQGDRLRLGD 96 (396)
T ss_pred eEECCCCCCCCCCCceEcCCCCEEEECC
Confidence 6788433333456678999999998744
No 141
>COG0564 RluA Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]
Probab=43.19 E-value=26 Score=26.64 Aligned_cols=27 Identities=26% Similarity=0.073 Sum_probs=23.2
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
-|.|||+-+. .++.|+.||.|.+-++.
T Consensus 38 ~v~vNg~~v~----~~~~l~~gd~i~~~~~~ 64 (289)
T COG0564 38 RVRVNGKKVK----PSYKLKPGDVVRIPLPE 64 (289)
T ss_pred CEEECCEEcc----CCeeeCCCCEEEEeccc
Confidence 5999999886 46899999999998764
No 142
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=42.90 E-value=67 Score=26.65 Aligned_cols=50 Identities=20% Similarity=0.228 Sum_probs=36.2
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.++| .++|+.|++..+...++ .+-+...|||+=++ +++++..+++|.|+.
T Consensus 12 ~~~~-----~gtt~~dia~~~~~~~~-------------~~~v~a~vng~l~d----L~~~l~~d~~Vefi~ 61 (638)
T PRK00413 12 REFE-----AGVTVADVAASISPGLA-------------KAAVAGKVNGELVD----LSTPIEEDASLEIIT 61 (638)
T ss_pred EEeC-----CCCCHHHHHHHhhhhch-------------hheEEEEECCEEee----CCccccCCCceeeee
Confidence 5577 68999998887754221 23577888987543 578999999998875
No 143
>PLN02856 fumarylacetoacetase
Probab=42.85 E-value=82 Score=25.65 Aligned_cols=61 Identities=16% Similarity=0.102 Sum_probs=36.5
Q ss_pred chHHHHHHHHHHhcCccc-ccccccCCcc------c--cceEEEEcCcc-ceecCCc-cCccCCCCEEEEEec
Q 034276 34 LIMKDLLSWVGTNLIKER-PEMFMKGDSV------R--PGVLVLVNDCD-WELSGQL-DTTLEEKDVVVFIST 95 (99)
Q Consensus 34 ~tv~dll~~L~~~~~~~~-~~l~~~~g~l------~--~~v~ilvNg~d-i~~l~g~-~t~L~dgD~V~i~p~ 95 (99)
.|+.++|.+...+.-.++ .+++.. |.. . ..+-+-.+|+. +.+-+|. -+-|+|||+|.+--.
T Consensus 331 ws~~qlIah~~s~g~tL~pGDLi~T-GTpsG~~~~~~G~llElt~~G~~p~~l~~g~~r~fL~dGD~V~l~g~ 402 (424)
T PLN02856 331 WTLAQQLAHHTVNGCNLRPGDLLGS-GTISGPEPGSLGCLLELTWAGSREVSLEGGTRRKFLEDGDEVVLSGW 402 (424)
T ss_pred CCHHHHHHHHHhCCeecCCCCEEEe-CCCCCCccCCCCCEEEEEeCCccceEeccCCccccCCCCCEEEEEEE
Confidence 478999997765555554 355532 232 2 23334456764 4433443 468999999988543
No 144
>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=42.15 E-value=46 Score=21.39 Aligned_cols=37 Identities=19% Similarity=0.249 Sum_probs=26.9
Q ss_pred eEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 2 QLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 2 ~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
.++|+|..++.+ +.++++.. ...|+..|-+.+.+..|
T Consensus 2 ~l~IRFs~sipD-------l~L~I~~~---~~~Tv~~LK~lIR~~~p 38 (97)
T PF10302_consen 2 YLTIRFSDSIPD-------LPLDIPSP---NTTTVAWLKQLIRERLP 38 (97)
T ss_pred eEEEEECCCCCC-------ceeecCCC---CcccHHHHHHHHHhhcC
Confidence 378999996554 24555521 45899999999999884
No 145
>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=41.67 E-value=37 Score=20.97 Aligned_cols=49 Identities=10% Similarity=0.037 Sum_probs=31.3
Q ss_pred CcchHHHHHHHHHHhcC-----ccc-ccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 32 EKLIMKDLLSWVGTNLI-----KER-PEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~-----~~~-~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
...||.+|-+.+.++.+ ... +-+| .|+ +|-|++.+ .++.+++|+.|.++
T Consensus 19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy--~GK------iL~D~~TL-----~dygI~~gstlhLv 73 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIH--CGR------KLKDDQTL-----DFYGIQSGSTIHIL 73 (75)
T ss_pred ccCcHHHHHHHHHHhhccCCCChHHeEEEe--CCc------CCCCCCcH-----HHcCCCCCCEEEEE
Confidence 46799999999999842 222 2333 233 24444433 35679999998875
No 146
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=41.39 E-value=53 Score=20.63 Aligned_cols=39 Identities=10% Similarity=0.167 Sum_probs=25.2
Q ss_pred eEEEEEcchHh-hhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 2 QLTLEFGGGLE-LLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 2 ~v~V~f~a~l~-~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
||+|+|-+.=. ....+ + .+-+| +..|+.+++..|+++..
T Consensus 1 kv~i~~~~~g~~p~l~k-~--kflv~-----~~~tv~~~~~~lrk~L~ 40 (87)
T cd01612 1 KVTIRFKPIGSAPILKQ-K--VFKIS-----ATQSFQAVIDFLRKRLK 40 (87)
T ss_pred CeEEEEEECCCCccccc-c--EEEeC-----CCCCHHHHHHHHHHHhC
Confidence 46677654322 12222 2 36688 67999999999988653
No 147
>PF05402 PqqD: Coenzyme PQQ synthesis protein D (PqqD); InterPro: IPR008792 This family contains several bacterial coenzyme PQQ synthesis protein D (PqqD) sequences. This protein is required for coenzyme pyrrolo-quinoline-quinone (PQQ) biosynthesis.; PDB: 3G2B_A.
Probab=41.23 E-value=20 Score=20.64 Aligned_cols=21 Identities=0% Similarity=0.030 Sum_probs=15.2
Q ss_pred CcchHHHHHHHHHHhcCcccc
Q 034276 32 EKLIMKDLLSWVGTNLIKERP 52 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~ 52 (99)
.+.|+.++++.|+++|+....
T Consensus 28 g~~t~~ei~~~l~~~y~~~~~ 48 (68)
T PF05402_consen 28 GPRTVEEIVDALAEEYDVDPE 48 (68)
T ss_dssp SSS-HHHHHHHHHHHTT--HH
T ss_pred CCCCHHHHHHHHHHHcCCCHH
Confidence 468999999999999965544
No 148
>COG0024 Map Methionine aminopeptidase [Translation, ribosomal structure and biogenesis]
Probab=41.13 E-value=79 Score=23.94 Aligned_cols=60 Identities=13% Similarity=0.011 Sum_probs=39.2
Q ss_pred CcchHHHHHHHHHHhcCc--ccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEE
Q 034276 32 EKLIMKDLLSWVGTNLIK--ERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~--~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
.|.|..||=++..+..-+ ..+.-+...| +--.+.+-||..=.....+.+++|++||.|.|
T Consensus 34 pGvtt~Eld~~~~~~i~~~ga~pa~~gy~g-~~~~~ciSvNe~v~HgiP~d~~vlk~GDiv~I 95 (255)
T COG0024 34 PGVTTLELDEIAEEFIREKGAYPAFLGYKG-FPFPTCISVNEVVAHGIPGDKKVLKEGDIVKI 95 (255)
T ss_pred CCCCHHHHHHHHHHHHHHcCceehhccCcC-CCcceEeehhheeeecCCCCCcccCCCCEEEE
Confidence 477888776655443321 1111111122 55578899999988888777789999999976
No 149
>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=40.87 E-value=57 Score=19.43 Aligned_cols=23 Identities=4% Similarity=0.117 Sum_probs=19.2
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
..+.++ ..+|.+++++.+.+++.
T Consensus 19 k~i~v~-----~~tTa~evi~~~l~k~~ 41 (93)
T PF00788_consen 19 KTIKVS-----SSTTAREVIEMALEKFG 41 (93)
T ss_dssp EEEEEE-----TTSBHHHHHHHHHHHTT
T ss_pred EEEEEC-----CCCCHHHHHHHHHHHhC
Confidence 357777 68999999999999875
No 150
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=40.15 E-value=25 Score=22.11 Aligned_cols=16 Identities=13% Similarity=0.200 Sum_probs=14.1
Q ss_pred CcchHHHHHHHHHHhc
Q 034276 32 EKLIMKDLLSWVGTNL 47 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~ 47 (99)
+..|++++++.|+++.
T Consensus 5 ~~~TL~~lid~L~~~~ 20 (84)
T PF08825_consen 5 PSWTLQDLIDSLCEKP 20 (84)
T ss_dssp TTSBSHHHHHHHHHST
T ss_pred ccchHHHHHHHHHhCh
Confidence 6799999999999963
No 151
>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=39.78 E-value=64 Score=20.01 Aligned_cols=26 Identities=8% Similarity=0.036 Sum_probs=19.4
Q ss_pred eeEEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 18 VKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 18 ~~~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
+...+++++ ...||++|=+.+++..|
T Consensus 13 ~~~~~ve~~-----~~~TV~~lK~~i~~~~~ 38 (79)
T cd01790 13 YEDQTVSCF-----LNWTVGELKTHLSRVYP 38 (79)
T ss_pred eEEEEEecC-----CcChHHHHHHHHHHhcC
Confidence 333556656 57899999999998764
No 152
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=39.19 E-value=48 Score=20.49 Aligned_cols=28 Identities=18% Similarity=0.068 Sum_probs=22.3
Q ss_pred EEEcCccceecCCccCccCCCCEEEEEe
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.--.+..+.+...+...++.||.|.+.|
T Consensus 24 ~~h~~~~l~L~~p~~~~~~~G~~v~l~~ 51 (80)
T PF09356_consen 24 KSHEGGTLTLWRPLPAGLAVGDTVTLYP 51 (80)
T ss_pred EEccCCEEEEeccCcccCCCCCEEEEEe
Confidence 4445567777778888899999999987
No 153
>PRK06789 flagellar motor switch protein; Validated
Probab=38.84 E-value=67 Score=19.84 Aligned_cols=45 Identities=13% Similarity=0.204 Sum_probs=29.0
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCcccee
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWEL 76 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~ 76 (99)
+++++-. ...+++|+++.= ...++.-+......+.|++||+-+..
T Consensus 11 v~velGr----~~~~i~dll~L~-------~Gsvi~Ldk~~~epvdI~vNg~lia~ 55 (74)
T PRK06789 11 IYFEIGN----TKKKIEDLLHIT-------KGTLYRLENSTKNTVRLMLENEEIGT 55 (74)
T ss_pred EEEEEee----eEeEHHHHhcCC-------CCCEEEeCCcCCCCEEEEECCEEEeE
Confidence 4455542 456788887631 22444445567779999999987753
No 154
>PRK10839 16S rRNA pseudouridylate synthase A; Provisional
Probab=37.86 E-value=35 Score=24.62 Aligned_cols=25 Identities=16% Similarity=-0.057 Sum_probs=19.3
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEE
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.|+|||+.+. ..++.|++||.|.+.
T Consensus 26 ~V~VNg~~~~---~~~~~l~~gd~I~l~ 50 (232)
T PRK10839 26 RVTVDGEIVK---NGAFKLLPEHDVAYD 50 (232)
T ss_pred eEEECCEEec---cCCcCcCCCCEEEEC
Confidence 4889998764 246799999999874
No 155
>PRK12575 succinate dehydrogenase iron-sulfur subunit; Provisional
Probab=37.65 E-value=1e+02 Score=22.85 Aligned_cols=68 Identities=12% Similarity=0.083 Sum_probs=37.3
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCC-CCEEEEEe
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEE-KDVVVFIS 94 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~d-gD~V~i~p 94 (99)
.+++|+.. ....||-|+|.++.+.-|.+.-+. .--..+=-.=-++|||+..-.- .|.+.+ +++|.|=|
T Consensus 23 ~~y~v~~~--~~~~tvld~L~~ik~~d~~l~fr~-sCr~giCGsCa~~iNG~~~LaC---~t~~~~~~~~i~ieP 91 (235)
T PRK12575 23 QRYEIAPR--AEDRMLLDVLGRVKAQDETLSYRR-SCREGICGSDAMNINGRNGLAC---LTNMQALPREIVLRP 91 (235)
T ss_pred EEEEecCC--CCCCcHHHHHHHHHhcCCCeeeec-cCCCCCCCCCeeEECCeEcchh---hCcHhHcCCCEEEeE
Confidence 45666621 025799999999985445443221 1111223345699999976443 344442 24566544
No 156
>PLN00051 RNA-binding S4 domain-containing protein; Provisional
Probab=37.07 E-value=36 Score=25.78 Aligned_cols=23 Identities=39% Similarity=0.280 Sum_probs=18.8
Q ss_pred EEEcCccceecCCccCccCCCCEEEE
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
|.||++.+. ..++.+++||.|++
T Consensus 218 V~vN~~~v~---~~s~~v~~gD~isi 240 (267)
T PLN00051 218 VRVNWREVT---KNGTTLKTGDVVSV 240 (267)
T ss_pred EEECCEEcC---CCCCCCCCCCEEEE
Confidence 799988764 35789999999986
No 157
>PRK11092 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional
Probab=37.05 E-value=28 Score=29.90 Aligned_cols=27 Identities=22% Similarity=0.246 Sum_probs=22.5
Q ss_pred eEEEEcCccceecCCccCccCCCCEEEEEec
Q 034276 65 VLVLVNDCDWELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 65 v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~ 95 (99)
+-.-|||+-+.+ +|+|+.||.|.|+..
T Consensus 422 ~gAkVNg~~vpL----~~~L~~Gd~VeIiT~ 448 (702)
T PRK11092 422 VGARVDRQPYPL----SQPLTSGQTVEIITA 448 (702)
T ss_pred EEEEECCEECCC----CccCCCCCEEEEEeC
Confidence 557899988764 799999999999854
No 158
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=36.54 E-value=1.3e+02 Score=21.99 Aligned_cols=52 Identities=21% Similarity=0.312 Sum_probs=27.0
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEE---cCccceecCCccCccCCCCEEEEE
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLV---NDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilv---Ng~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.+.|+.++|..... +.. .+. ...+.|+- ||+-....-.....|++||.|.+-
T Consensus 181 ~~~tl~~al~~aGG----~~~-----~a~-~~~v~i~R~~~~g~~~~~~~~~~~~l~~gDii~V~ 235 (239)
T TIGR03028 181 RNMTVMQALAQGGG----LTP-----RGT-ERGIRVMRRDDKGAVEEVSGELGDLVQPDDVIYVR 235 (239)
T ss_pred CCCCHHHHHHhcCC----CCc-----ccC-cceEEEEEECCCCcEEEEecCCCcccCCCCEEEEe
Confidence 57899888876543 111 111 12233321 232222223344579999998763
No 159
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=36.39 E-value=45 Score=21.63 Aligned_cols=32 Identities=9% Similarity=0.064 Sum_probs=24.8
Q ss_pred cceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 63 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 63 ~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
+.+++.+-|+=.-.++|....+++||.|.+-|
T Consensus 65 ~~~~~Vl~G~~~~~~~g~~~~l~~Gd~i~ip~ 96 (131)
T COG1917 65 EQTIYVLEGEGTVQLEGEKKELKAGDVIIIPP 96 (131)
T ss_pred ceEEEEEecEEEEEecCCceEecCCCEEEECC
Confidence 34556667776667778889999999998877
No 160
>TIGR03069 PS_II_S4 photosystem II S4 domain protein. Members of this protein family are about 265 residues long and each contains an S4 RNA-binding domain of about 48 residues. The member from the Cyanobacterium, Synechocystis sp. PCC 6803, was detected as a novel polypeptide in a highly purified preparation of active photosystem II (Kashino, et al., 2002). The phylogenetic distribution, including Cyanobacteria and Arabidopsis, supports a role in photosystem II, although the high bit score cutoffs for this model reflect similar sequences in non-photosynthetic organisms such as Carboxydothermus hydrogenoformans, a Gram-positive bacterium.
Probab=36.29 E-value=38 Score=25.42 Aligned_cols=23 Identities=17% Similarity=0.036 Sum_probs=18.6
Q ss_pred EEEcCccceecCCccCccCCCCEEEE
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
|.|||+-+. ..++.+++||.|++
T Consensus 210 V~VNg~~v~---~~s~~v~~gD~Isv 232 (257)
T TIGR03069 210 LRLNWKTVT---QPSRELKVGDRLQL 232 (257)
T ss_pred EEECCEEcC---CCCCcCCCCCEEEE
Confidence 889997764 34689999999986
No 161
>COG0490 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]
Probab=36.08 E-value=49 Score=23.54 Aligned_cols=29 Identities=31% Similarity=0.334 Sum_probs=22.0
Q ss_pred eEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 65 VLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 65 v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
|.|.-|++=| .-.|..++|+.||.+.++-
T Consensus 117 IAI~r~~e~I-~SPgPy~vle~gDtlvviG 145 (162)
T COG0490 117 IAIVRNEEKI-LSPGPYTVLEAGDTLVVIG 145 (162)
T ss_pred EEEEecCcEe-cCCCchhhhcCCCEEEEEe
Confidence 4466666655 4478999999999999874
No 162
>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=35.48 E-value=92 Score=18.65 Aligned_cols=24 Identities=8% Similarity=0.101 Sum_probs=19.9
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
...+.++ ..+|.+++++.+.+++.
T Consensus 14 ~kti~V~-----~~~t~~~Vi~~~l~k~~ 37 (87)
T cd01768 14 YKTLRVS-----KDTTAQDVIQQLLKKFG 37 (87)
T ss_pred EEEEEEC-----CCCCHHHHHHHHHHHhC
Confidence 3467787 78999999999999874
No 163
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=35.43 E-value=26 Score=21.63 Aligned_cols=31 Identities=6% Similarity=0.055 Sum_probs=20.4
Q ss_pred ceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 64 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.+.+.+.|.-.-..++....+++||.+.|-|
T Consensus 25 ~i~~v~~G~~~~~~~~~~~~l~~g~~~li~p 55 (136)
T PF02311_consen 25 EIIYVLSGEGTLHIDGQEYPLKPGDLFLIPP 55 (136)
T ss_dssp EEEEEEEE-EEEEETTEEEEE-TT-EEEE-T
T ss_pred EEEEEeCCEEEEEECCEEEEEECCEEEEecC
Confidence 4556667777777788888999999886655
No 164
>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=35.07 E-value=1.1e+02 Score=18.71 Aligned_cols=61 Identities=15% Similarity=0.078 Sum_probs=36.5
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcCcc--cccc--cccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLIKE--RPEM--FMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~~~--~~~l--~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.+..+| ...||.+|=+.|.....-. ..+| ++.+ .+.+..+-|+. ..|+ .+.++||.+|.+.
T Consensus 15 ~ekr~~-----~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~---~~~~~~l~~d~--~~L~--~y~~~dg~~IhVv 79 (84)
T cd01789 15 FEKKYS-----RGLTIAELKKKLELVVGTPASSMRLQLFDGD---DKLVSKLDDDD--ALLG--SYPVDDGCRIHVI 79 (84)
T ss_pred eeEecC-----CCCcHHHHHHHHHHHHCCCccceEEEEEcCC---CCeEeecCCCc--cEee--eccCCCCCEEEEE
Confidence 345577 6899999999997776322 2233 4333 22333333333 2343 5689999999875
No 165
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=34.91 E-value=45 Score=24.10 Aligned_cols=24 Identities=17% Similarity=0.028 Sum_probs=16.5
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
++++-+| ...||+||++.+.++..
T Consensus 35 ~~~~~vp-----k~~tV~Dll~~l~~k~~ 58 (213)
T PF14533_consen 35 EYELLVP-----KTGTVSDLLEELQKKVG 58 (213)
T ss_dssp EEEE--B-----TT-BHHHHHHHHHTT--
T ss_pred EEEEEEC-----CCCCHHHHHHHHHHHcC
Confidence 4677788 67999999999999864
No 166
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=34.91 E-value=1.2e+02 Score=25.47 Aligned_cols=46 Identities=24% Similarity=0.354 Sum_probs=34.2
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.+.|+.++++.+...+ .++-|...|||+-++ +.+++.++.+|.|+.
T Consensus 20 ~g~t~~~ia~~~~~~~-------------~~~iv~a~vn~~l~d----L~~~i~~d~~i~fv~ 65 (639)
T PRK12444 20 KGITLEEIAGSISSSL-------------KKKAVAGKVNDKLYD----LRRNLEEDAEVEIIT 65 (639)
T ss_pred CCCCHHHHHHHhhhhc-------------chheEEEEECCEEEE----cCcccCCCCeEEEec
Confidence 6889999888775422 233677899997654 578999999999875
No 167
>PF00842 Ala_racemase_C: Alanine racemase, C-terminal domain; InterPro: IPR011079 Alanine racemase (5.1.1.1 from EC) plays a role in providing the D-alanine required for cell wall biosynthesis by isomerising L-alanine to D-alanine. Proteins contains this domain are found in both prokaryotic and eukaryotic proteins [,]. The molecular structure of alanine racemase from Bacillus stearothermophilus (Geobacillus stearothermophilus) was determined by X-ray crystallography to a resolution of 1.9 A []. The alanine racemase monomer is composed of two domains, an eight-stranded alpha/beta barrel at the N terminus, and a C-terminal domain essentially composed of beta-strand. The pyridoxal 5'-phosphate (PLP) cofactor lies in and above the mouth of the alpha/beta barrel and is covalently linked via an aldimine linkage to a lysine residue, which is at the C terminus of the first beta-strand of the alpha/beta barrel.; GO: 0008784 alanine racemase activity, 0006522 alanine metabolic process; PDB: 3HUR_A 4A3Q_B 3S46_A 1RCQ_A 3CO8_A 1VFT_B 1VFH_A 1VFS_B 2DY3_B 4ECL_C ....
Probab=34.78 E-value=70 Score=21.38 Aligned_cols=32 Identities=22% Similarity=0.387 Sum_probs=20.7
Q ss_pred ceEEEEcCccceecCCc------------cCccCCCCEEEEEec
Q 034276 64 GVLVLVNDCDWELSGQL------------DTTLEEKDVVVFIST 95 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~------------~t~L~dgD~V~i~p~ 95 (99)
...+++||+....++.. +..++.||+|.||-+
T Consensus 52 ~~~v~i~G~~~pivG~v~MD~~~vdvt~~~~~v~~GD~V~l~G~ 95 (129)
T PF00842_consen 52 GGYVLINGKRCPIVGRVCMDMTMVDVTDIEPDVKVGDEVTLFGR 95 (129)
T ss_dssp TEEEEETTEEEEEES---SS-EEEEESTSTST--TT-EEEEEEC
T ss_pred CcEEEECCEEEEEEEEEEeeEEEEEcCCCCCCCCCCCEEEEECC
Confidence 34689999998877532 247788999999853
No 168
>PF07385 DUF1498: Protein of unknown function (DUF1498); InterPro: IPR010864 This family consists of several hypothetical bacterial proteins of around 225 residues in length. The function of this family is unknown.; PDB: 3MPB_B 3KMH_A.
Probab=34.54 E-value=44 Score=24.98 Aligned_cols=35 Identities=11% Similarity=0.146 Sum_probs=25.5
Q ss_pred ccceEEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 62 RPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 62 ~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
...|.|.++|..-.+--|..-.|++|.-|+|.|-+
T Consensus 136 ~~~v~V~~DG~~~t~~aG~~l~L~PGESiTL~Pg~ 170 (225)
T PF07385_consen 136 DTDVTVPVDGIRRTVPAGTQLRLNPGESITLPPGI 170 (225)
T ss_dssp SS-EEEEETTEEEEE-TT-EEEE-TT-EEEE-TTE
T ss_pred CCCeEEecCCcEEEecCCceEEeCCCCeEeeCCCC
Confidence 56899999999988888888899999999998854
No 169
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=34.29 E-value=74 Score=22.09 Aligned_cols=46 Identities=15% Similarity=0.316 Sum_probs=39.8
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceec
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELS 77 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l 77 (99)
.-+.+-..++.++++..-...+++-..-.+..|.+|-++++..+..
T Consensus 77 q~~~~~~fi~~vA~~~~V~~~~v~VNst~l~dG~iVki~~~yYrV~ 122 (149)
T PF11694_consen 77 QSSQMVHFIESVAKDLGVSKEEVYVNSTALTDGMIVKIGDKYYRVI 122 (149)
T ss_pred HHHHHHHHHHHHHHHhCCChheEEEecccccCCeEEEECCccEEEE
Confidence 3567888999999998888888888888899999999999988765
No 170
>cd01784 rasfadin_RA Ubiquitin-like domain of Rasfadin. rasfadin_RA Rasfadin (RASSF2) belongs to a family of Ras effectors/tumor suppressors that includes RASSF1 and NORE1. RASSF2 binds directly to K-Ras in a GTP-dependent manner via its RA (RAS-associated) domain. RASSF2 promotes apoptosis and cell cycle arrest and is frequently down-regulated in lung tumor cell lines
Probab=33.73 E-value=1.3e+02 Score=19.25 Aligned_cols=27 Identities=19% Similarity=0.238 Sum_probs=20.1
Q ss_pred cCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 15 CDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 15 ~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
+|+.+ .|-+. +..|..|+|+.|.+++-
T Consensus 11 ~gs~~--~v~Vs-----S~~tt~eVI~~LL~KFk 37 (87)
T cd01784 11 YGSVT--NVRIN-----STMTTPQVLKLLLNKFK 37 (87)
T ss_pred CCcee--EEEEe-----cCCCHHHHHHHHHHhcc
Confidence 46544 34455 67899999999999883
No 171
>KOG0257 consensus Kynurenine aminotransferase, glutamine transaminase K [Amino acid transport and metabolism]
Probab=33.43 E-value=27 Score=28.41 Aligned_cols=57 Identities=18% Similarity=0.138 Sum_probs=32.6
Q ss_pred hHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 35 IMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 35 tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
=.-+|.+.|++.|.++...+.+.+. .|.| =+|..=.+..-.-.-+.+||+|.||-|-
T Consensus 70 G~p~L~~aL~k~~se~~~~~~~~~~----eVlV-T~GA~~ai~~~~~~l~~~GDeVii~eP~ 126 (420)
T KOG0257|consen 70 GLPQLRKALAKAYSEFYGGLLDPDD----EVLV-TAGANEAISSALLGLLNPGDEVIVFEPF 126 (420)
T ss_pred CchHHHHHHHHHHHHHhccccCCcc----cEEE-ecCchHHHHHHHHHHcCCCCEEEEecCc
Confidence 3556677777666553333322221 2333 2455544444555678999999999773
No 172
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=33.26 E-value=1.2e+02 Score=20.48 Aligned_cols=37 Identities=11% Similarity=0.179 Sum_probs=24.6
Q ss_pred EEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccc
Q 034276 23 VDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDW 74 (99)
Q Consensus 23 vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di 74 (99)
+-|| ...||++++..+..+..=.... -+.++||+.-.
T Consensus 49 yLVP-----~dltvgqfi~iIRkRiqL~~~k----------A~flfVn~~~p 85 (116)
T KOG1654|consen 49 YLVP-----DDLTVGQFIKIIRKRIQLSPEK----------AFFLFVNNTSP 85 (116)
T ss_pred eecc-----ccccHHHHHHHHHHHhccChhH----------eEEEEEcCcCC
Confidence 5577 6899999999998865211111 34478887653
No 173
>PHA03399 pif3 per os infectivity factor 3; Provisional
Probab=32.88 E-value=66 Score=23.60 Aligned_cols=46 Identities=17% Similarity=0.201 Sum_probs=31.1
Q ss_pred CcccccccccCCccccceEEEEcCc-cceecCC----ccCccCCCCEEEEEec
Q 034276 48 IKERPEMFMKGDSVRPGVLVLVNDC-DWELSGQ----LDTTLEEKDVVVFIST 95 (99)
Q Consensus 48 ~~~~~~l~~~~g~l~~~v~ilvNg~-di~~l~g----~~t~L~dgD~V~i~p~ 95 (99)
-...+.+++++|++||+|- =||. +|.+.+. .+.+=.+|-.-.+|++
T Consensus 124 iStYRDivdD~g~lRPYvC--~nG~l~IdL~~~~Fsv~dC~C~~gytk~~y~q 174 (200)
T PHA03399 124 ISTYRDIVDDDGELRPYVC--ENGTLDIDLENRPFSVDDCVCASGYTKMIFNQ 174 (200)
T ss_pred eecccccCCCCCCcCceEe--cCCeEEeecccCCCchhhcCcCCCCEEEEecC
Confidence 3456789999999999986 5777 6665533 2445566666666554
No 174
>PHA02582 10 baseplate wedge subunit and tail pin; Provisional
Probab=32.44 E-value=59 Score=27.54 Aligned_cols=33 Identities=24% Similarity=0.409 Sum_probs=28.1
Q ss_pred ccceEEEEcCccceecCCccCccCCCCEEEEEecCCC
Q 034276 62 RPGVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHG 98 (99)
Q Consensus 62 ~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~G 98 (99)
.|+=++-++|++||+. .|.+.||.|.|..-..|
T Consensus 216 ~~g~l~~LdG~~Irlr----~pc~~gDtv~i~ty~dg 248 (604)
T PHA02582 216 NPGELVPLDGKSIRLR----QPCNAGDTVQIVTYMDG 248 (604)
T ss_pred CCCceeccCCceeEee----cccCCCCeEEEEEeecc
Confidence 6788999999999974 69999999999876544
No 175
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=32.02 E-value=45 Score=22.73 Aligned_cols=31 Identities=19% Similarity=0.108 Sum_probs=23.4
Q ss_pred cccceEEEEcCccceecCCccCccCCCCEEEEEec
Q 034276 61 VRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 61 l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~ 95 (99)
+++.--.+|||+.+.. ...+++||.|.|-..
T Consensus 127 ~~S~nGt~vn~~~v~~----~~~l~~gd~i~i~~~ 157 (191)
T COG1716 127 LGSTNGTYVNGEKVRQ----RVLLQDGDVIRLGGT 157 (191)
T ss_pred CCCCcceEECCeEccC----cEEcCCCCEEEECcc
Confidence 4455578899998875 568999999987543
No 176
>KOG1748 consensus Acyl carrier protein/NADH-ubiquinone oxidoreductase, NDUFAB1/SDAP subunit [Energy production and conversion; Lipid transport and metabolism; Secondary metabolites biosynthesis, transport and catabolism]
Probab=32.02 E-value=29 Score=23.84 Aligned_cols=37 Identities=11% Similarity=0.169 Sum_probs=24.8
Q ss_pred EEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 5 LEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 5 V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
|+.-=.+++-|| +|+|..+...-.|++|+++|++++-
T Consensus 91 VEiVMAlEEEFg------iEIpd~dAdki~t~~da~~yI~~~~ 127 (131)
T KOG1748|consen 91 VEIVMALEEEFG------IEIPDEDADKIKTVRDAADYIADKP 127 (131)
T ss_pred chhhhhhHHHhC------CccCcchhhhhCCHHHHHHHHHhcc
Confidence 333445566666 5677544445779999999999854
No 177
>PRK10475 23S rRNA pseudouridine synthase F; Provisional
Probab=31.72 E-value=47 Score=25.35 Aligned_cols=24 Identities=21% Similarity=0.203 Sum_probs=18.1
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEE
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.|.|||+-+. ..+.|.+||.|.+-
T Consensus 32 ~V~VNGk~v~----~~~~V~~gD~V~v~ 55 (290)
T PRK10475 32 NVFINGKRAT----IGDQVKAGDVVKVN 55 (290)
T ss_pred cEEECCEEcc----CCCCcCCCCEEEEC
Confidence 3889998653 36788999988873
No 178
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=31.43 E-value=53 Score=21.94 Aligned_cols=17 Identities=6% Similarity=0.305 Sum_probs=13.5
Q ss_pred CcchHHHHHHHHHHhcC
Q 034276 32 EKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~ 48 (99)
...|++++++++.++|.
T Consensus 41 ~~~Tl~~li~~~~~~~~ 57 (125)
T PF09358_consen 41 GDMTLQELIDYFKEKYG 57 (125)
T ss_dssp S--BHHHHHHHHHHTTS
T ss_pred CCCCHHHHHHHHHHHhC
Confidence 35899999999999985
No 179
>PTZ00258 GTP-binding protein; Provisional
Probab=30.43 E-value=30 Score=27.66 Aligned_cols=17 Identities=18% Similarity=0.395 Sum_probs=14.9
Q ss_pred cCCccCccCCCCEEEEE
Q 034276 77 SGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 77 l~g~~t~L~dgD~V~i~ 93 (99)
+.|.++.|+|||.|.|-
T Consensus 369 ~eGkdYiv~DGDIi~f~ 385 (390)
T PTZ00258 369 QEGKDYVVQDGDIIFFK 385 (390)
T ss_pred eeCCceEecCCCEEEEE
Confidence 56899999999999885
No 180
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=30.33 E-value=68 Score=19.83 Aligned_cols=21 Identities=24% Similarity=0.109 Sum_probs=17.2
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
.|.+- +|.|++|+|..++++.
T Consensus 13 ~V~vr-----pG~ti~d~L~kllekR 33 (73)
T cd01817 13 VVPTR-----PGESIRDLLSGLCEKR 33 (73)
T ss_pred EEEec-----CCCCHHHHHHHHHHHc
Confidence 45555 6999999999999865
No 181
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=30.32 E-value=30 Score=27.41 Aligned_cols=16 Identities=25% Similarity=0.335 Sum_probs=14.4
Q ss_pred cCCccCccCCCCEEEE
Q 034276 77 SGQLDTTLEEKDVVVF 92 (99)
Q Consensus 77 l~g~~t~L~dgD~V~i 92 (99)
+.|.++.++|||.|.|
T Consensus 345 leGkdY~v~DGDIi~f 360 (364)
T PRK09601 345 LEGKDYIVQDGDVMHF 360 (364)
T ss_pred ccCCceEecCCCEEEE
Confidence 5789999999999987
No 182
>TIGR03859 PQQ_PqqD coenzyme PQQ biosynthesis protein PqqD. This model identifies PqqD, a protein involved in the final steps of the biosynthesis of pyrroloquinoline quinone, coenzyme PQQ.
Probab=30.30 E-value=48 Score=20.28 Aligned_cols=21 Identities=10% Similarity=0.147 Sum_probs=17.5
Q ss_pred CcchHHHHHHHHHHhcCccccc
Q 034276 32 EKLIMKDLLSWVGTNLIKERPE 53 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~ 53 (99)
...|+.++++.|+++|+. .+.
T Consensus 42 g~~tv~eI~~~L~~~Y~~-~e~ 62 (81)
T TIGR03859 42 GKRSLAEIIQELAQRFPA-AEE 62 (81)
T ss_pred CCCcHHHHHHHHHHHcCC-hhh
Confidence 467999999999999987 543
No 183
>cd01783 DAGK_delta_RA Ubiquitin-like domain of Diacylgylcerol kinase (DAGK). DAGK_delta_RA Diacylgylcerol kinase (DAGK) phosphorylates the second messenger diacylglycerol to phosphatidic acid as part of a protein kinase C pathway. Nine mammalian DAGK isotypes have been identified, which are classified into five subgroups according to their domain architecture and the DAGK-delta and -theta isozymes, which fall into one such group, contain an RA (Ras-associated) domain. DAGKs also contain a conserved catalytic domain (DAGKc), an assesory domain (DAGKa), and an array of conserved motifs that are likely to play a role in lipid-protein and protein-protein interactions in various DAG/PA-dependent signalling pathways.
Probab=29.89 E-value=1e+02 Score=20.05 Aligned_cols=52 Identities=13% Similarity=0.014 Sum_probs=30.5
Q ss_pred EEEEcch-HhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEc
Q 034276 4 TLEFGGG-LELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVN 70 (99)
Q Consensus 4 ~V~f~a~-l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvN 70 (99)
+||.|++ |+... ....+.+. ..+|+.+++....++|.-... ....+-++.||
T Consensus 4 ~iKVY~G~L~~~~---~y~sv~V~-----~~tt~~dvv~eaL~kfGl~~~-------~~~~y~LvEV~ 56 (97)
T cd01783 4 VVKVYPGWLRVGV---AYVSIRVN-----KDTTVQDVILEVLPLFGLQAE-------CPESFRLIEVL 56 (97)
T ss_pred eEEEecCccccCc---ceEEEEec-----ccchHHHHHHHHHHHhCcccC-------CccccEEEEEE
Confidence 3455554 76422 23345555 678999999988887753221 12336666665
No 184
>PF01561 Hanta_G2: Hantavirus glycoprotein G2; InterPro: IPR002532 The medium (M) genome segment of Hantaviruses (family Bunyaviridae) encodes the two virion glycoproteins [], G1 and G2, as a polyprotein precursor. This entry represents the polyprotein region which forms the G2 glycoprotein.; GO: 0030683 evasion by virus of host immune response, 0044423 virion part
Probab=29.73 E-value=38 Score=27.83 Aligned_cols=19 Identities=26% Similarity=0.649 Sum_probs=17.2
Q ss_pred cCccCCCCEEEEEecCCCC
Q 034276 81 DTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 81 ~t~L~dgD~V~i~p~v~GG 99 (99)
-.++.+||++.|+.|++||
T Consensus 187 vsk~~~~dtllflgple~g 205 (485)
T PF01561_consen 187 VSKFQPGDTLLFLGPLEGG 205 (485)
T ss_pred ceeeCCCcEEEEecccccC
Confidence 4588999999999999987
No 185
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=29.71 E-value=32 Score=21.40 Aligned_cols=27 Identities=22% Similarity=0.092 Sum_probs=19.8
Q ss_pred eEEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 65 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 65 v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
-.|++|-+|..-+ -|++||.|.|.++-
T Consensus 30 ~~v~inp~dA~~~-----Gi~~Gd~V~v~s~~ 56 (110)
T PF01568_consen 30 PFVEINPEDAAKL-----GIKDGDWVRVSSPR 56 (110)
T ss_dssp EEEEEEHHHHHHC-----T--TTCEEEEEETT
T ss_pred CEEEEcHHHHHHh-----cCcCCCEEEEEecc
Confidence 4688899887665 49999999998764
No 186
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=29.68 E-value=12 Score=26.23 Aligned_cols=33 Identities=9% Similarity=0.044 Sum_probs=25.0
Q ss_pred EEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 4 TLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 4 ~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
+-+.|++||..=+ +.+| .-..+.|+|++||...
T Consensus 26 aakIfaGLR~~Gn------y~Lp-----~~aD~NeVLkALc~eA 58 (150)
T PF05687_consen 26 AAKIFAGLRAHGN------YKLP-----KHADNNEVLKALCREA 58 (150)
T ss_pred HHHHHHHHHHhcC------CCCC-----CcCCHHHHHHHHHHhC
Confidence 4467899997644 4477 5788999999999854
No 187
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=29.29 E-value=1.2e+02 Score=17.65 Aligned_cols=29 Identities=17% Similarity=0.211 Sum_probs=18.5
Q ss_pred eEEEEEcchHh--hhcCCeeEEEEEeCCCCCCCcchHHHH
Q 034276 2 QLTLEFGGGLE--LLCDSVKVHNVDVVPPKGSEKLIMKDL 39 (99)
Q Consensus 2 ~v~V~f~a~l~--~~~g~~~~~~vev~~~~~~~~~tv~dl 39 (99)
+|.|+|+.... +..+. .+.|| ...|..+|
T Consensus 1 qv~v~F~t~~~~~~~~~~----~~~VP-----~~~t~~~L 31 (65)
T PF08154_consen 1 QVQVQFVTEDGEYEVPGT----PISVP-----SNITRKEL 31 (65)
T ss_pred CEEEEEEcCCCCccCCCC----CEEEe-----CCCCHHHH
Confidence 57889998877 44442 47788 34555444
No 188
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=29.03 E-value=65 Score=21.50 Aligned_cols=18 Identities=22% Similarity=0.265 Sum_probs=13.4
Q ss_pred cCCccCccCCCCEEEEEe
Q 034276 77 SGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 77 l~g~~t~L~dgD~V~i~p 94 (99)
.+--.+.|++||.|+++-
T Consensus 44 kDsnG~~L~dGDsV~liK 61 (109)
T TIGR00686 44 KDCNGNLLANGDSVILIK 61 (109)
T ss_pred EcCCCCCccCCCEEEEEe
Confidence 344457899999998874
No 189
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=29.03 E-value=1.4e+02 Score=18.09 Aligned_cols=34 Identities=9% Similarity=0.035 Sum_probs=22.9
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
|.|+|++. .|+ ++++++. ...+|..+=+.+.++-
T Consensus 1 m~iKvktL------t~K--eIeidIe-----p~DkverIKErvEEke 34 (70)
T KOG0005|consen 1 MLIKVKTL------TGK--EIEIDIE-----PTDKVERIKERVEEKE 34 (70)
T ss_pred CeeeEeee------ccc--eEEEeeC-----cchHHHHHHHHhhhhc
Confidence 77888764 454 4567776 3567777777777665
No 190
>COG1886 FliN Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=28.83 E-value=1.3e+02 Score=20.29 Aligned_cols=38 Identities=18% Similarity=0.120 Sum_probs=26.0
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCcccee
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWEL 76 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~ 76 (99)
...++++|++. ....++.-+......|-|++||+-|-.
T Consensus 82 ~~~~l~ell~l-------~~Gsvi~Ld~~~~~~VdI~vNg~~Ig~ 119 (136)
T COG1886 82 TKMPLGELLAL-------GKGSVIELDKLAGEPVDILVNGRLIGR 119 (136)
T ss_pred eeeeHHHHHhc-------CCCCEEEcCCcCCCceEEEECCEEEEE
Confidence 35667777762 133566656667779999999988754
No 191
>COG3263 NhaP-type Na+/H+ and K+/H+ antiporters with a unique C-terminal domain [Inorganic ion transport and metabolism]
Probab=28.63 E-value=60 Score=27.16 Aligned_cols=29 Identities=28% Similarity=0.311 Sum_probs=23.4
Q ss_pred eEEEEcCccceecCCccCccCCCCEEEEEec
Q 034276 65 VLVLVNDCDWELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 65 v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~ 95 (99)
..|+-||+.++.-+ +|.+++||.+.++-+
T Consensus 442 ~~v~Rd~q~i~p~g--~t~l~~gD~l~v~~~ 470 (574)
T COG3263 442 AAVFRDGQLIHPQG--STRLREGDVLCVIGS 470 (574)
T ss_pred eeEEecCceeccCC--CceeecCCEEEEEec
Confidence 34788999997743 799999999998743
No 192
>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=28.57 E-value=78 Score=19.88 Aligned_cols=23 Identities=22% Similarity=0.261 Sum_probs=19.7
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
+.+.+| .+.+..+|.+.++++..
T Consensus 13 IaIrvp-----~~~~y~~L~~ki~~kLk 35 (80)
T cd06406 13 VAIQVA-----RGLSYATLLQKISSKLE 35 (80)
T ss_pred EEEEcC-----CCCCHHHHHHHHHHHhC
Confidence 457788 78999999999999874
No 193
>PF14483 Cut8_M: Cut8 dimerisation domain; PDB: 3Q5W_A 3Q5X_A.
Probab=28.50 E-value=28 Score=18.70 Aligned_cols=23 Identities=17% Similarity=0.078 Sum_probs=19.1
Q ss_pred cchHHHHHHHHHHhcCccccccc
Q 034276 33 KLIMKDLLSWVGTNLIKERPEMF 55 (99)
Q Consensus 33 ~~tv~dll~~L~~~~~~~~~~l~ 55 (99)
...++.+|..++++||+....+.
T Consensus 12 ~~qL~~lL~~l~~~HPei~~~i~ 34 (38)
T PF14483_consen 12 KDQLQSLLQSLCERHPEIQQEIR 34 (38)
T ss_dssp HHHHHHHHHHHHHHSTHHHHHHH
T ss_pred HHHHHHHHHHHHHhChhHHHHHH
Confidence 46789999999999998876653
No 194
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=28.40 E-value=91 Score=18.58 Aligned_cols=23 Identities=13% Similarity=0.134 Sum_probs=16.8
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
..|.+. .++|+.|+|+.-++++.
T Consensus 9 ~~vkvt-----p~~~l~~VL~eac~k~~ 31 (65)
T PF11470_consen 9 FKVKVT-----PNTTLNQVLEEACKKFG 31 (65)
T ss_dssp EEE--------TTSBHHHHHHHHHHHTT
T ss_pred EEEEEC-----CCCCHHHHHHHHHHHcC
Confidence 456666 68999999999999874
No 195
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=28.31 E-value=1e+02 Score=19.62 Aligned_cols=21 Identities=14% Similarity=0.275 Sum_probs=17.9
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
.+.++ +..|++|+.+.|+++.
T Consensus 16 ~l~V~-----~~~Ta~dV~~~L~~K~ 36 (85)
T cd01787 16 SLEVD-----ERMTARDVCQLLVDKN 36 (85)
T ss_pred EEEEc-----CCCcHHHHHHHHHHHh
Confidence 57787 7899999999998765
No 196
>TIGR00495 crvDNA_42K 42K curved DNA binding protein. Proteins identified by this model have been identified in a number of species as a nuclear (but not nucleolar) protein with a cell cycle dependence. Various names given to members of this family have included cell cycle protein p38-2G4, DNA-binding protein GBP16, and proliferation-associated protein 1. This protein is closely related to methionine aminopeptidase, a cobolt-binding protein.
Probab=28.26 E-value=1.4e+02 Score=23.77 Aligned_cols=61 Identities=23% Similarity=0.262 Sum_probs=31.6
Q ss_pred CcchHHHHHHHHHHhcCccccccccc----CCccccceEEEEcCccceecC--C-ccCccCCCCEEEE
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMK----GDSVRPGVLVLVNDCDWELSG--Q-LDTTLEEKDVVVF 92 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~----~g~l~~~v~ilvNg~di~~l~--g-~~t~L~dgD~V~i 92 (99)
.|.|..|+-+...+..-......|.. ...+.-...|-+|..-..+.. + .++.|++||.|.|
T Consensus 42 pG~t~~el~~~~~~~i~~~~a~~~~~~~~~~~g~afpt~vSvN~~v~H~~P~~~d~~~~Lk~GDvVkI 109 (389)
T TIGR00495 42 PGAKVVDICEKGDAFIMEETAKIFKKEKEMEKGIAFPTCISVNNCVGHFSPLKSDQDYILKEGDVVKI 109 (389)
T ss_pred CCCCHHHHHHHHHHHHHHhhhhhhcccccccCCCCCCeEEecCCeeeCCCCCCCCCCcCcCCCCEEEE
Confidence 47788877654322221111112221 011222356678866554443 2 2478999999876
No 197
>COG3273 Uncharacterized conserved protein [Function unknown]
Probab=28.16 E-value=80 Score=23.23 Aligned_cols=30 Identities=23% Similarity=0.367 Sum_probs=26.1
Q ss_pred ceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 64 GVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
.|+..--|.+|-+....+|.+.+||.+..-
T Consensus 148 rVIAIRRG~~wi~~Pd~~~~Ir~gDvLIar 177 (204)
T COG3273 148 RVIAIRRGERWIYGPDEDTKIREGDVLIAR 177 (204)
T ss_pred EEEEEecCCccccCCCccceeccCCEEEEe
Confidence 577788899999999999999999987643
No 198
>PF04126 Cyclophil_like: Cyclophilin-like; InterPro: IPR007256 Proteins of this family have no known function.; PDB: 2KA0_A 1ZX8_C 2NNZ_A.
Probab=28.06 E-value=68 Score=21.15 Aligned_cols=29 Identities=7% Similarity=0.263 Sum_probs=19.3
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHH
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWV 43 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L 43 (99)
|+|++.+- . +++..++. ...|.+++++.|
T Consensus 1 mkI~i~i~--------~-~~~~a~L~-----d~~ta~~~~~~L 29 (120)
T PF04126_consen 1 MKIKITIG--------G-QEIEAELN-----DSPTARAFAAQL 29 (120)
T ss_dssp EEEEEEET--------T-EEEEEEEE-----TTHHHHHHHHC-
T ss_pred CeEEEEEC--------C-EEEEEEEC-----CCHHHHHHHHhC
Confidence 77777764 2 35667777 457888887766
No 199
>PRK04950 ProP expression regulator; Provisional
Probab=27.68 E-value=56 Score=24.22 Aligned_cols=28 Identities=11% Similarity=0.224 Sum_probs=21.0
Q ss_pred cchHHHHHHHHHHhcCcccccccccCCccccc
Q 034276 33 KLIMKDLLSWVGTNLIKERPEMFMKGDSVRPG 64 (99)
Q Consensus 33 ~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~ 64 (99)
-.+..++|.+|.+.||. +|...|+.+|-
T Consensus 7 l~~~keiia~L~e~fP~----~F~~eg~~kPL 34 (213)
T PRK04950 7 LTSSKEVIAYLAERFPL----CFSAEGEAKPL 34 (213)
T ss_pred cCCHHHHHHHHHHhChh----hcCcCCCCcCc
Confidence 34689999999999986 56656666663
No 200
>KOG1758 consensus Mitochondrial F1F0-ATP synthase, subunit delta/ATP16 [Energy production and conversion]
Probab=27.56 E-value=90 Score=22.12 Aligned_cols=77 Identities=16% Similarity=0.230 Sum_probs=48.3
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccce---ec
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWE---LS 77 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~---~l 77 (99)
|++++-|..+-+..+.+.....|++|. ...-+-.|..+.|.. ..|+|||+-..-+.+|. ++
T Consensus 27 ~~L~l~fa~P~~t~~~~a~V~qVdvPt--------~sG~~GVLanHVPti--------~~LkPGvvsV~~~~~~~~k~Fv 90 (159)
T KOG1758|consen 27 EKLKLTFALPNTTVYDGAEVTQVDVPT--------LSGQIGVLANHVPTI--------QVLKPGVVSVHEGSGTKSKYFV 90 (159)
T ss_pred ceeEEEEecCceEEecCceeEEEeccc--------cCcceeeecccCcch--------heeccceEEEEeCCCcEEEEEE
Confidence 567788888888887765556788883 223344455544532 35788888777777776 34
Q ss_pred CCccCccCCCCEEEEE
Q 034276 78 GQLDTTLEEKDVVVFI 93 (99)
Q Consensus 78 ~g~~t~L~dgD~V~i~ 93 (99)
.+--..++++.++.|+
T Consensus 91 SsGfa~v~~ds~~~il 106 (159)
T KOG1758|consen 91 SSGFATVNADSSLQIL 106 (159)
T ss_pred ecceEEEcCCCeEEEE
Confidence 4444566666666654
No 201
>PF03831 PhnA: PhnA protein; InterPro: IPR013988 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the C-terminal domain of PhnA.; PDB: 2AKK_A 2AKL_A.
Probab=27.23 E-value=37 Score=20.04 Aligned_cols=13 Identities=31% Similarity=0.537 Sum_probs=8.2
Q ss_pred cCccCCCCEEEEE
Q 034276 81 DTTLEEKDVVVFI 93 (99)
Q Consensus 81 ~t~L~dgD~V~i~ 93 (99)
.+.|++||.|+++
T Consensus 7 Gn~L~dGDsV~~i 19 (56)
T PF03831_consen 7 GNELQDGDSVTLI 19 (56)
T ss_dssp S-B--TTEEEEES
T ss_pred CCCccCCCEEEEE
Confidence 4789999999886
No 202
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=26.85 E-value=1.7e+02 Score=18.29 Aligned_cols=50 Identities=8% Similarity=0.113 Sum_probs=32.4
Q ss_pred eEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcC--cccccccccCC
Q 034276 2 QLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI--KERPEMFMKGD 59 (99)
Q Consensus 2 ~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~--~~~~~l~~~~g 59 (99)
||++|..=+.+...- ...+.+| +.+...-+|++-++.+. .....+...+|
T Consensus 2 kvtfKI~ltsDp~~p---~kv~sVP-----E~apftaVlkfaAeeF~vp~~tsaiItndG 53 (76)
T PF03671_consen 2 KVTFKITLTSDPKLP---YKVISVP-----EEAPFTAVLKFAAEEFKVPPATSAIITNDG 53 (76)
T ss_dssp EEEEEEEESTSSTS----EEEEEEE-----TTSBHHHHHHHHHHHTTS-SSSEEEEESSS
T ss_pred cEEEEEEEccCCCCc---ceEEecC-----CCCchHHHHHHHHHHcCCCCceEEEEecCC
Confidence 566666666665543 2358899 77889999999999873 32333444443
No 203
>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=26.73 E-value=23 Score=21.12 Aligned_cols=29 Identities=17% Similarity=0.181 Sum_probs=20.7
Q ss_pred ceEEEEcCccceecCCccC---ccCCCCEEEE
Q 034276 64 GVLVLVNDCDWELSGQLDT---TLEEKDVVVF 92 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~~t---~L~dgD~V~i 92 (99)
.+++-|||+.+.....+.. ..+.|+.|.|
T Consensus 36 D~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l 67 (82)
T PF13180_consen 36 DIILAINGKPVNSSEDLVNILSKGKPGDTVTL 67 (82)
T ss_dssp EEEEEETTEESSSHHHHHHHHHCSSTTSEEEE
T ss_pred cEEEEECCEEcCCHHHHHHHHHhCCCCCEEEE
Confidence 7899999999966544433 3467777765
No 204
>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=26.69 E-value=1.5e+02 Score=17.77 Aligned_cols=57 Identities=12% Similarity=0.043 Sum_probs=33.1
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcC--cccccccccCCccccceEEEEcCccceecCCccCccC-CCCEEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLI--KERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLE-EKDVVVFI 93 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~--~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~-dgD~V~i~ 93 (99)
...++++ ...||+++=+.+.++.. ....+||. |+- +-++. +.| .++.++ +||.+.++
T Consensus 14 t~~l~v~-----~~~TV~~lK~kI~~~~gip~~~QrL~~--G~~------L~dD~--~tL--~~ygi~~~g~~~~l~ 73 (75)
T cd01799 14 TIWLTVR-----PDMTVAQLKDKVFLDYGFPPAVQRWVI--GQR------LARDQ--ETL--YSHGIRTNGDSAFLY 73 (75)
T ss_pred eEEEEEC-----CCCcHHHHHHHHHHHHCcCHHHEEEEc--CCe------eCCCc--CCH--HHcCCCCCCCEEEEE
Confidence 3568888 57899999998887653 22334442 211 21111 122 245676 88888775
No 205
>PRK10348 ribosome-associated heat shock protein Hsp15; Provisional
Probab=26.09 E-value=86 Score=21.46 Aligned_cols=22 Identities=14% Similarity=0.069 Sum_probs=17.5
Q ss_pred EEEcCccceecCCccCccCCCCEEEE
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
|.|||+.. .....+++||+|.|
T Consensus 36 V~vnG~~~----Kps~~V~~gd~l~v 57 (133)
T PRK10348 36 VHYNGQRS----KPSKIVELNATLTL 57 (133)
T ss_pred EEECCEEC----CCCCccCCCCEEEE
Confidence 67899872 45678999999987
No 206
>COG4110 Uncharacterized protein involved in stress response [General function prediction only]
Probab=26.06 E-value=1.1e+02 Score=22.15 Aligned_cols=41 Identities=17% Similarity=0.318 Sum_probs=31.0
Q ss_pred HHHHHHHHHhcCcccc--cccc----cCCccccceEEEEcCccceec
Q 034276 37 KDLLSWVGTNLIKERP--EMFM----KGDSVRPGVLVLVNDCDWELS 77 (99)
Q Consensus 37 ~dll~~L~~~~~~~~~--~l~~----~~g~l~~~v~ilvNg~di~~l 77 (99)
+.++++|-.++...+. .++. .+|..+.+=..-|||++|.+.
T Consensus 65 kGviQALGN~FGSy~~~Pyi~LdgDDRtG~~~dGE~l~Ing~~~khi 111 (200)
T COG4110 65 KGVIQALGNAFGSYRDEPYVQLDGDDRTGDVSDGEWLHINGREWKHI 111 (200)
T ss_pred hHHHHHHhhhhcccccCceEEecCCcCCCcccCCceEEEcchhhhhh
Confidence 5688999888876643 3432 357788899999999999875
No 207
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=25.98 E-value=79 Score=19.12 Aligned_cols=14 Identities=29% Similarity=0.318 Sum_probs=11.5
Q ss_pred ceEEEEcCccceec
Q 034276 64 GVLVLVNDCDWELS 77 (99)
Q Consensus 64 ~v~ilvNg~di~~l 77 (99)
++.+.|||+.++++
T Consensus 2 ~~~~~Ing~~i~~l 15 (91)
T cd05484 2 TVTLLVNGKPLKFQ 15 (91)
T ss_pred EEEEEECCEEEEEE
Confidence 56789999998876
No 208
>COG5206 GPI8 Glycosylphosphatidylinositol transamidase (GPIT), subunit GPI8 [Posttranslational modification, protein turnover, chaperones]
Probab=25.43 E-value=1e+02 Score=24.19 Aligned_cols=37 Identities=0% Similarity=0.151 Sum_probs=29.1
Q ss_pred cchHHHHHHHHHHhcCcc---cccccccCCccccceEEEEcCc
Q 034276 33 KLIMKDLLSWVGTNLIKE---RPEMFMKGDSVRPGVLVLVNDC 72 (99)
Q Consensus 33 ~~tv~dll~~L~~~~~~~---~~~l~~~~g~l~~~v~ilvNg~ 72 (99)
..|+.-+++.|.++.++. .++++.++ ++.|.|+.+|.
T Consensus 109 evTve~firLLt~r~~en~p~sKrlltdE---~SNIfIYmtGH 148 (382)
T COG5206 109 EVTVEVFIRLLTARSGENHPKSKRLLTDE---SSNIFIYMTGH 148 (382)
T ss_pred cchHHHHHHHHHhhccCCChhhhhhcccc---cCcEEEEEccC
Confidence 569999999999988776 44565543 77999999985
No 209
>COG1030 NfeD Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]
Probab=25.01 E-value=1e+02 Score=25.24 Aligned_cols=34 Identities=24% Similarity=0.476 Sum_probs=29.3
Q ss_pred ccccceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 60 SVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 60 ~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.++|.=.|++.|+.|+-..+ +++++.||+|-++.
T Consensus 387 ~~~p~G~V~v~GE~W~AvS~-~~~I~kG~~VkVV~ 420 (436)
T COG1030 387 PLRPEGFVLVEGERWRAVSE-GEPIEKGEKVKVVD 420 (436)
T ss_pred cCCCCeEEEECCEEEEEeeC-CCcccCCCEEEEEe
Confidence 36676779999999999886 89999999998875
No 210
>PF11760 CbiG_N: Cobalamin synthesis G N-terminal; InterPro: IPR021744 Members of this family are involved in cobalamin synthesis. The gene encoded by P72862 from SWISSPROT has been designated cbiH but in fact represents a fusion between cbiH and cbiG. As other multi-functional proteins involved in cobalamin biosynthesis catalyse adjacent steps in the pathway, including CysG, CobL (CbiET), CobIJ and CobA-HemD, it is therefore possible that CbiG catalyses a reaction step adjacent to CbiH. In the anaerobic pathway such a step could be the formation of a gamma lactone, which is thought to help to mediate the anaerobic ring contraction process []. Within the cobalamin synthesis pathway CbiG catalyses the both the opening of the lactone ring and the extrusion of the two-carbon fragment of cobalt-precorrin-5A from C-20 and its associated methyl group (deacylation) to give cobalt-precorrin-5B. The N-terminal of the enzyme is conserved in this family, and the C-terminal and the mid-sections are conserved independently in other families, CbiG_C and CbiG_mid, although the distinct function of each region is unclear. ; PDB: 3EEQ_B.
Probab=24.96 E-value=1.9e+02 Score=18.24 Aligned_cols=59 Identities=8% Similarity=0.030 Sum_probs=27.8
Q ss_pred EcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCcc
Q 034276 7 FGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCD 73 (99)
Q Consensus 7 f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~d 73 (99)
|-..|+++++....+-+-.. .|..||-+--.|..+.-+..=-..+++|+ +++-++.|+.
T Consensus 1 ~~~~~~~~~~~~d~~I~i~A-----~GivvR~iap~l~dK~~DPaVvvvde~g~---~vIplL~GH~ 59 (84)
T PF11760_consen 1 FKDLLRELFRRYDAIIFIMA-----AGIVVRAIAPLLKDKDTDPAVVVVDEDGR---FVIPLLGGHR 59 (84)
T ss_dssp ----HHHHCCC-SEEEEES------HHHHHHHHHHH---TTT--EEEEE-TT-----EEEEEE-TTT
T ss_pred ChhHHHHHHcCCCeEEEEeC-----cHHHHHHhChhhcccCCCCCEEEEeCCCC---EEEEeccCCc
Confidence 44567888887654433333 57777777777776553322234566665 7777777743
No 211
>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=24.84 E-value=2.1e+02 Score=18.69 Aligned_cols=22 Identities=5% Similarity=0.167 Sum_probs=17.8
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
.++..| -.+||.|++..|.+++
T Consensus 15 ~Tls~~-----l~tTv~eli~~L~rK~ 36 (97)
T cd01775 15 TTLSCP-----LNTTVSELIPQLAKKF 36 (97)
T ss_pred EEEEcC-----CcCcHHHHHHHHHHhh
Confidence 467777 4799999999998754
No 212
>PF00077 RVP: Retroviral aspartyl protease The Prosite entry also includes Pfam:PF00026; InterPro: IPR018061 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This group of aspartic peptidases belong to the MEROPS peptidase family A2 (retropepsin family, clan AA), subfamily A2A. The family includes the single domain aspartic proteases from retroviruses, retrotransposons, and badnaviruses (plant dsDNA viruses). Retroviral aspartyl protease is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins.; PDB: 3D3T_B 3SQF_A 1NSO_A 2HB3_A 2HS2_A 2HS1_B 3K4V_A 3GGV_C 1HTG_B 2FDE_A ....
Probab=24.73 E-value=53 Score=20.02 Aligned_cols=16 Identities=25% Similarity=0.256 Sum_probs=14.6
Q ss_pred ccceEEEEcCccceec
Q 034276 62 RPGVLVLVNDCDWELS 77 (99)
Q Consensus 62 ~~~v~ilvNg~di~~l 77 (99)
||.+.|.+||+.++.|
T Consensus 5 rp~i~v~i~g~~i~~L 20 (100)
T PF00077_consen 5 RPYITVKINGKKIKAL 20 (100)
T ss_dssp SSEEEEEETTEEEEEE
T ss_pred CceEEEeECCEEEEEE
Confidence 7899999999999886
No 213
>PRK10220 hypothetical protein; Provisional
Probab=24.66 E-value=87 Score=20.95 Aligned_cols=17 Identities=18% Similarity=0.259 Sum_probs=12.3
Q ss_pred CCccCccCCCCEEEEEe
Q 034276 78 GQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 78 ~g~~t~L~dgD~V~i~p 94 (99)
+--.+.|++||.|+++-
T Consensus 46 DsnG~~L~dGDsV~viK 62 (111)
T PRK10220 46 DANGNLLADGDSVTIVK 62 (111)
T ss_pred cCCCCCccCCCEEEEEe
Confidence 33457888888888863
No 214
>PTZ00062 glutaredoxin; Provisional
Probab=24.63 E-value=1.2e+02 Score=22.03 Aligned_cols=51 Identities=10% Similarity=-0.149 Sum_probs=37.3
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCC--ccccceEEEEcCccceecCCccC
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGD--SVRPGVLVLVNDCDWELSGQLDT 82 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g--~l~~~v~ilvNg~di~~l~g~~t 82 (99)
+...+.+++..|++.||...-.-.+.+- .=-|.++++-||+-+.-+.|.+.
T Consensus 31 ~C~~m~~vl~~l~~~~~~~~F~~V~~d~~V~~vPtfv~~~~g~~i~r~~G~~~ 83 (204)
T PTZ00062 31 EYEQLMDVCNALVEDFPSLEFYVVNLADANNEYGVFEFYQNSQLINSLEGCNT 83 (204)
T ss_pred chHHHHHHHHHHHHHCCCcEEEEEccccCcccceEEEEEECCEEEeeeeCCCH
Confidence 4679999999999999976433233222 24578889999999988877553
No 215
>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=24.28 E-value=1.6e+02 Score=17.13 Aligned_cols=25 Identities=20% Similarity=0.223 Sum_probs=19.4
Q ss_pred EEEeCCCCCCCcchHHHHHHHHHHhcCcc
Q 034276 22 NVDVVPPKGSEKLIMKDLLSWVGTNLIKE 50 (99)
Q Consensus 22 ~vev~~~~~~~~~tv~dll~~L~~~~~~~ 50 (99)
.+.++. ...|..+|.+.++++++..
T Consensus 13 ~~~~~~----~~~s~~~L~~~i~~~~~~~ 37 (81)
T cd05992 13 RFVVVS----RSISFEDLRSKIAEKFGLD 37 (81)
T ss_pred EEEEec----CCCCHHHHHHHHHHHhCCC
Confidence 355652 4689999999999999764
No 216
>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=24.27 E-value=2.2e+02 Score=19.28 Aligned_cols=23 Identities=22% Similarity=0.149 Sum_probs=18.7
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
.++.+. ..+|++++++.++++..
T Consensus 16 ~~~~~~-----~~~t~~ev~~~v~~~~~ 38 (207)
T smart00295 16 LEFEVD-----SSTTAEELLETVCRKLG 38 (207)
T ss_pred EEEEEC-----CCCCHHHHHHHHHHHhC
Confidence 356676 67899999999999774
No 217
>PF02626 AHS2: Allophanate hydrolase subunit 2; InterPro: IPR003778 Allophanate hydrolase catalyses the second reaction in an ATP-dependent, two-step degradation of urea to ammonia and C02. This follows the action of the biotin-containing urea carboxylase. Saccharomyces cerevisiae can use urea as a sole nitrogen source via this degradation pathway []. In yeast, the fusion of allophanate hydrolase to urea carboxylase is called urea amidolyase. In bacteria, the second step in the urea degradation pathway is also the ATP-dependent allophanate hydrolase. The gene encoding this enzyme is found adjacent to the urea carboxylase gene []. Allophanate hydrolase has strict substrate specificity, as analogues of allophanate are not hydrolysed by it []. This domain represents subunit 2 of allophanate hydrolase (AHS2) which is found in urea carboxylase.; PDB: 3MML_G 3VA7_A 3OEP_A 3OPF_C 3ORE_B.
Probab=24.15 E-value=57 Score=24.71 Aligned_cols=33 Identities=15% Similarity=0.072 Sum_probs=22.7
Q ss_pred ceEEEEcCccceecCCccCccCCCCEEEEEecCCC
Q 034276 64 GVLVLVNDCDWELSGQLDTTLEEKDVVVFISTLHG 98 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~G 98 (99)
..-+.+||+.+.. +.-..++.||++.|=++-.|
T Consensus 54 ~~~~~lng~~~~~--~~~~~v~~Gd~L~~~~~~~G 86 (271)
T PF02626_consen 54 DFEATLNGKPVPM--WQPFLVKAGDVLKFGPPRSG 86 (271)
T ss_dssp CEEEEETTEEE-T--TSEEEE-TT-EEEEEEESSE
T ss_pred CCceEECCEEccC--CEEEEECCCCEEEecCCCCc
Confidence 4457789988765 34568999999999888654
No 218
>COG3837 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=24.14 E-value=70 Score=22.74 Aligned_cols=28 Identities=14% Similarity=0.064 Sum_probs=22.3
Q ss_pred eEEEEcCccceecCCccCccCCCCEEEE
Q 034276 65 VLVLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 65 v~ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
....+-|+-.-..++.+|.|++||.+.|
T Consensus 67 fv~ILeGE~~l~~d~~e~~lrpGD~~gF 94 (161)
T COG3837 67 FVYILEGEGTLREDGGETRLRPGDSAGF 94 (161)
T ss_pred EEEEEcCceEEEECCeeEEecCCceeec
Confidence 3345677777778899999999998876
No 219
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=24.12 E-value=78 Score=23.93 Aligned_cols=26 Identities=27% Similarity=0.368 Sum_probs=22.3
Q ss_pred ceecCCccCccCCCCEEEEEecCCCC
Q 034276 74 WELSGQLDTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 74 i~~l~g~~t~L~dgD~V~i~p~v~GG 99 (99)
.+.|.|.+..++.|+.|+|+-|-+.|
T Consensus 15 ~~VLkgi~l~v~~Gevv~iiGpSGSG 40 (240)
T COG1126 15 KEVLKGISLSVEKGEVVVIIGPSGSG 40 (240)
T ss_pred eEEecCcceeEcCCCEEEEECCCCCC
Confidence 45578889999999999999988766
No 220
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=24.09 E-value=64 Score=20.50 Aligned_cols=27 Identities=22% Similarity=0.177 Sum_probs=18.7
Q ss_pred eEEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 65 VLVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 65 v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
-.|.+|-.|-+- .-|++||.|.+..+.
T Consensus 33 ~~v~in~~dA~~-----lgi~~Gd~V~v~s~~ 59 (115)
T cd02779 33 PYIEVNPEDAKR-----EGLKNGDLVEVYNDY 59 (115)
T ss_pred CEEEECHHHHHH-----cCCCCCCEEEEEeCC
Confidence 347777776544 458888888887764
No 221
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=24.00 E-value=2.7e+02 Score=22.19 Aligned_cols=33 Identities=15% Similarity=0.190 Sum_probs=22.5
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHh
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTN 46 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~ 46 (99)
|+||||-+- + +..++++. +..||.++-+.|...
T Consensus 1 m~lt~KtL~------q--~~F~iev~-----Pe~tV~evK~kIet~ 33 (340)
T KOG0011|consen 1 MKLTVKTLK------Q--QTFTIEVK-----PEDTVVEVKKKIETE 33 (340)
T ss_pred CeeEeeecc------C--ceeEeecC-----cchhHHHHHHHHHhc
Confidence 778876432 2 23467776 578999998888754
No 222
>COG1637 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]
Probab=23.56 E-value=73 Score=24.24 Aligned_cols=34 Identities=26% Similarity=0.502 Sum_probs=27.7
Q ss_pred ccceEEEEcCccceecCCccCccCCCCEEEEEec
Q 034276 62 RPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 62 ~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~ 95 (99)
+..+.+++--+++.+.+-....|.+||.+.|+-|
T Consensus 25 ~~~~vv~~a~C~v~Y~GRa~s~l~e~dRlli~Kp 58 (253)
T COG1637 25 QGQVVVVIAVCEVEYEGRAQSVLGEGDRLLIIKP 58 (253)
T ss_pred cCceEEEEEEEEEEECcchhcccCCcceEEEEcc
Confidence 3456777788888888888889999999999865
No 223
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=23.40 E-value=1.8e+02 Score=17.54 Aligned_cols=65 Identities=9% Similarity=-0.007 Sum_probs=35.9
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcCcc--cccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEE
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLIKE--RPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFI 93 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~~~--~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~ 93 (99)
..+..+| ...||.+|=..|...+.-. .-+|+..+.. . +-.+.....|-..|+ .+.+++|++|.+.
T Consensus 15 ~~ekr~~-----~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~-~-~~~~~~~~dd~~~L~--~y~~~dg~~i~V~ 81 (87)
T PF14560_consen 15 SVEKRFP-----KSITVSELKQKLEKLTGIPPSDMRLQLKSDK-D-DSKIEELDDDDATLG--SYGIKDGMRIHVV 81 (87)
T ss_dssp EEEEEEE-----TTSBHHHHHHHHHHHHTS-TTTEEEEEE-TS-S-SSEEEESSGSSSBCC--HHT-STTEEEEEE
T ss_pred eEEEEcC-----CCCCHHHHHHHHHHHhCCCcccEEEEEEecC-C-CccccccCCCccEee--cCCCCCCCEEEEE
Confidence 3456677 6799999988888877433 2233221001 1 111222233444554 5689999999875
No 224
>PRK08172 putative acyl carrier protein IacP; Validated
Probab=23.32 E-value=11 Score=23.40 Aligned_cols=16 Identities=19% Similarity=0.233 Sum_probs=12.0
Q ss_pred CcchHHHHHHHHHHhc
Q 034276 32 EKLIMKDLLSWVGTNL 47 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~ 47 (99)
.-.||+|+++++.++.
T Consensus 63 ~i~Tv~di~~~v~~~~ 78 (82)
T PRK08172 63 DMTTFADICRVVKKSL 78 (82)
T ss_pred HCCCHHHHHHHHHHHH
Confidence 4578899888887743
No 225
>TIGR00492 alr alanine racemase. This enzyme interconverts L-alanine and D-alanine. Its primary function is to generate D-alanine for cell wall formation. With D-alanine-D-alanine ligase, it makes up the D-alanine branch of the peptidoglycan biosynthetic route. It is a monomer with one pyridoxal phosphate per subunit. In E. coli, the ortholog is duplicated so that a second isozyme, DadX, is present. DadX, a paralog of the biosynthetic Alr, is induced by D- or L-alanine and is involved in catabolism.
Probab=23.22 E-value=92 Score=23.92 Aligned_cols=29 Identities=24% Similarity=0.279 Sum_probs=21.8
Q ss_pred EEEEcCccceecCC--c--------cC-ccCCCCEEEEEe
Q 034276 66 LVLVNDCDWELSGQ--L--------DT-TLEEKDVVVFIS 94 (99)
Q Consensus 66 ~ilvNg~di~~l~g--~--------~t-~L~dgD~V~i~p 94 (99)
.|+|||+.+..++. + +. .++.||+|.||-
T Consensus 296 ~v~i~g~~~~i~G~i~MD~~~vdv~~~~~~~~Gd~v~l~g 335 (367)
T TIGR00492 296 PVLVNGKRVPIVGRVCMDMIMVDLGPDLQDKTGDEVILWG 335 (367)
T ss_pred EEEECCEEeeeeeEEecceEEEECCCCCCCCCCCEEEEEC
Confidence 58999999988763 1 11 366799999984
No 226
>TIGR00517 acyl_carrier acyl carrier protein. S (Ser) at position 37 in the seed alignment, in the motif DSLD, is the phosphopantetheine attachment site.
Probab=23.01 E-value=12 Score=22.32 Aligned_cols=13 Identities=8% Similarity=0.225 Sum_probs=7.4
Q ss_pred cchHHHHHHHHHH
Q 034276 33 KLIMKDLLSWVGT 45 (99)
Q Consensus 33 ~~tv~dll~~L~~ 45 (99)
-.||+++++++.+
T Consensus 63 ~~tv~~l~~~i~~ 75 (77)
T TIGR00517 63 IATVGDAVDYIEE 75 (77)
T ss_pred CCcHHHHHHHHHh
Confidence 3466666666654
No 227
>PRK02079 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional
Probab=22.90 E-value=82 Score=19.84 Aligned_cols=19 Identities=5% Similarity=0.045 Sum_probs=16.1
Q ss_pred CcchHHHHHHHHHHhcCcc
Q 034276 32 EKLIMKDLLSWVGTNLIKE 50 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~ 50 (99)
...|+.++++.|.++|++.
T Consensus 47 G~~tv~eIi~~L~~~y~~~ 65 (88)
T PRK02079 47 GKRTVAAIIAELQQQFPDV 65 (88)
T ss_pred CCCCHHHHHHHHHHHccch
Confidence 3579999999999999654
No 228
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=22.73 E-value=46 Score=21.30 Aligned_cols=30 Identities=7% Similarity=-0.004 Sum_probs=23.4
Q ss_pred cchHHHHHHHHHHhcCcccccccccCCccc
Q 034276 33 KLIMKDLLSWVGTNLIKERPEMFMKGDSVR 62 (99)
Q Consensus 33 ~~tv~dll~~L~~~~~~~~~~l~~~~g~l~ 62 (99)
-..++++|+.|.+++|+.+..+|..-.+++
T Consensus 39 R~~~k~~L~~LE~~~P~~k~~i~~s~~~~~ 68 (104)
T TIGR00269 39 RARIRDFLYDLENKKPGVKFSVLRGFEKLI 68 (104)
T ss_pred hHHHHHHHHHHHHHCcChHHHHHHHHHHHH
Confidence 468999999999999999888875433343
No 229
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=22.50 E-value=84 Score=25.70 Aligned_cols=25 Identities=28% Similarity=0.470 Sum_probs=20.4
Q ss_pred EEEcCccceecCCccCccCCCCEEEE
Q 034276 67 VLVNDCDWELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 67 ilvNg~di~~l~g~~t~L~dgD~V~i 92 (99)
.+|||.+...-.+ ..+|.+||+|.|
T Consensus 71 l~VNgs~~~~g~~-~~RLqqGd~i~i 95 (430)
T COG3456 71 LLVNGSDLPLGEG-SARLQQGDEILI 95 (430)
T ss_pred eeecccccCCCCC-ccccccCCEEee
Confidence 7899999766444 489999999986
No 230
>COG0787 Alr Alanine racemase [Cell envelope biogenesis, outer membrane]
Probab=22.43 E-value=1.3e+02 Score=23.88 Aligned_cols=32 Identities=25% Similarity=0.336 Sum_probs=23.9
Q ss_pred ceEEEEcCccceecCC----------ccC-ccCCCCEEEEEec
Q 034276 64 GVLVLVNDCDWELSGQ----------LDT-TLEEKDVVVFIST 95 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g----------~~t-~L~dgD~V~i~p~ 95 (99)
+.-|+|||+.....+. .+. .++.||+|.+|-+
T Consensus 286 ~~~Vli~G~r~pivGrVsMD~~~Vdl~~~~~~~~Gd~V~L~G~ 328 (360)
T COG0787 286 GTPVLINGKRVPIVGRVSMDMIMVDLTDLPQVKVGDEVELFGE 328 (360)
T ss_pred CCEEEECCEEeeEeeEEeeeeEEEECCCCCCCCCCCEEEEECC
Confidence 6789999999887751 122 3789999999854
No 231
>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=22.32 E-value=1.8e+02 Score=17.11 Aligned_cols=34 Identities=12% Similarity=0.208 Sum_probs=23.2
Q ss_pred eEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcC
Q 034276 2 QLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 2 ~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~ 48 (99)
+|.|||..| + + ++..++ ...|++++-+++.....
T Consensus 4 ~i~iRlpdG------~-~-~~~~F~-----~~~tl~~l~~fv~~~~~ 37 (77)
T cd01767 4 KIQIRLPDG------K-R-LEQRFN-----STHKLSDVRDFVESNGP 37 (77)
T ss_pred EEEEEcCCC------C-E-EEEEeC-----CCCCHHHHHHHHHHcCC
Confidence 467777764 2 2 344566 56899999999987543
No 232
>cd08010 yceG_like proteins similar to Escherichia coli yceG. The gene product of Escherichia coli yceG has been erroneously annotated as an aminodeoxychorismate lyase. Its overexpression has been reported to cause abnormal biofilm architecture, and it has been reported to be part of a putative five-gene operon. It might function as a periplasmic solute-binding protein. The family also includes Streptomyces caeruleus NovB, an uncharacterized member of the novobiocin biosynthetic gene cluster.
Probab=22.31 E-value=1.3e+02 Score=22.35 Aligned_cols=24 Identities=13% Similarity=0.087 Sum_probs=20.1
Q ss_pred eEEEEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 19 KVHNVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 19 ~~~~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
....|.+| +|.|+.++.+.|++.-
T Consensus 27 ~~~~vti~-----eG~t~~~i~~~l~~~~ 50 (245)
T cd08010 27 AQVKVTIP-----EGYTLKQIAKALSKAG 50 (245)
T ss_pred eeEEEEEc-----CCccHHHHHHHHHhcc
Confidence 34678899 8999999999998754
No 233
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=22.13 E-value=82 Score=19.80 Aligned_cols=27 Identities=26% Similarity=0.202 Sum_probs=21.1
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEecCC
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFISTLH 97 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v~ 97 (99)
.+.+|=+|-.-+ -|++||.|.+..+.+
T Consensus 32 ~v~i~p~dA~~l-----gI~dGd~V~v~s~~G 58 (112)
T cd02787 32 VVFMNPDDIARL-----GLKAGDRVDLESAFG 58 (112)
T ss_pred EEEECHHHHHHh-----CCCCCCEEEEEecCC
Confidence 478888876544 589999999998763
No 234
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=22.01 E-value=88 Score=24.68 Aligned_cols=34 Identities=12% Similarity=0.099 Sum_probs=22.6
Q ss_pred EEcchHhhhc------CCeeEEEEEeCCCCCCCcchHHHHHHHHHHhc
Q 034276 6 EFGGGLELLC------DSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNL 47 (99)
Q Consensus 6 ~f~a~l~~~~------g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~ 47 (99)
-|||+||+.+ |.++ +.+++ +.+.++.++.+....
T Consensus 204 afYGPFRdAa~Sap~~gdrk--tYQmD------paN~~EAlrE~~lD~ 243 (330)
T COG0113 204 AFYGPFRDAAGSAPKFGDRK--TYQMD------PANRREALREIELDI 243 (330)
T ss_pred hccccHHHHhhcccccCCcc--eeccC------CcCHHHHHHHHHhhH
Confidence 3899999886 4433 57776 356677777665544
No 235
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=21.89 E-value=81 Score=23.33 Aligned_cols=57 Identities=11% Similarity=0.351 Sum_probs=30.8
Q ss_pred CcchHHHHHHHHHHhc--CcccccccccCCccccceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 32 EKLIMKDLLSWVGTNL--IKERPEMFMKGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~--~~~~~~l~~~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
..+++.+++..+.+.. |...+-.|.+ +++|+-+--++- +-.+ ....|.+||.|+|=.
T Consensus 93 ~~~~v~~l~~~i~~~~g~p~~t~l~lyE--Ei~~~~ie~i~~-~~t~---~~~el~~GdIi~fQ~ 151 (249)
T PF12436_consen 93 KNDKVSELVPLINERAGLPPDTPLLLYE--EIKPNMIEPIDP-NQTF---EKAELQDGDIICFQR 151 (249)
T ss_dssp TT-BGGGTHHHHHHHHT--TT--EEEEE--EEETTEEEE--S-SSBH---HHTT--TTEEEEEEE
T ss_pred CCCCHHHHHHHHHHHcCCCCCCceEEEE--EeccceeeEcCC-CCch---hhcccCCCCEEEEEe
Confidence 4678998888888864 4444433433 577765554422 2122 236899999988743
No 236
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.88 E-value=69 Score=20.42 Aligned_cols=14 Identities=14% Similarity=0.361 Sum_probs=11.6
Q ss_pred CccCCCCEEEEEec
Q 034276 82 TTLEEKDVVVFIST 95 (99)
Q Consensus 82 t~L~dgD~V~i~p~ 95 (99)
-.|++.|+|+||.-
T Consensus 32 ~~L~dDde~aIfnI 45 (88)
T COG4009 32 VDLNDDDELAIFNI 45 (88)
T ss_pred cccCCCCcEEEEEe
Confidence 47899999999964
No 237
>PF12860 PAS_7: PAS fold
Probab=21.85 E-value=1.8e+02 Score=17.83 Aligned_cols=60 Identities=15% Similarity=0.042 Sum_probs=37.4
Q ss_pred CcchHHHHHHHHHHhcCcccc---cccc------cCCccccceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 32 EKLIMKDLLSWVGTNLIKERP---EMFM------KGDSVRPGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~---~l~~------~~g~l~~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.|.++.++++.+.+...-... ..+. ....-.....-+-||+-++. ..+++.+|..|.+|-
T Consensus 37 ~G~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dgr~l~~---~~~~~~~Gg~v~~~~ 105 (115)
T PF12860_consen 37 PGASFRDLLRRLAERGEFPPGDPEAWVRQRLARLRRRQPRSFELRLPDGRWLEV---RAQPLPDGGFVLTFT 105 (115)
T ss_pred CCCCHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhcCCCceeEEECCCCEEEEE---EeEECCCCCEEEEEE
Confidence 478999999999655422211 1111 12223334445678877765 468999999999875
No 238
>COG5417 Uncharacterized small protein [Function unknown]
Probab=21.67 E-value=2.2e+02 Score=17.90 Aligned_cols=75 Identities=15% Similarity=0.287 Sum_probs=42.8
Q ss_pred CeEEEEEcchHhhhcCCeeEEEEEeCCCCCCCcchHHHHHHHHHHhcCcccccccccCCc-ccc-ceEEEEcCccceecC
Q 034276 1 MQLTLEFGGGLELLCDSVKVHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPEMFMKGDS-VRP-GVLVLVNDCDWELSG 78 (99)
Q Consensus 1 M~v~V~f~a~l~~~~g~~~~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~l~~~~g~-l~~-~v~ilvNg~di~~l~ 78 (99)
|+|||.|-- .-|+ +..+-+| .-.+++.+|..+.+. +.-++|+.+|. +|- .--.+.-|.+.-
T Consensus 5 ikVTvD~t~----y~g~--~yDLrl~-----d~~pikklIdivwe~---~kis~~~reg~~Ikv~nKa~llsgd~kL--- 67 (81)
T COG5417 5 IKVTVDFTN----YNGG--TYDLRLP-----DYLPIKKLIDIVWES---LKISIFDREGTQIKVMNKAQLLSGDDKL--- 67 (81)
T ss_pred EEEEEEeEe----cCCc--eEEEecc-----ccchHHHHHHHHHHH---hhccccccCCCEEEEeccceEecCCceE---
Confidence 467777643 3343 3567788 678999999998873 33345554433 111 001222233321
Q ss_pred CccCccCCCCEEEEE
Q 034276 79 QLDTTLEEKDVVVFI 93 (99)
Q Consensus 79 g~~t~L~dgD~V~i~ 93 (99)
.++.+.+||.+.|+
T Consensus 68 -~d~~IadGD~LeiL 81 (81)
T COG5417 68 -IDYQIADGDILEIL 81 (81)
T ss_pred -EeccccCCCEEEeC
Confidence 36788999988763
No 239
>PRK13503 transcriptional activator RhaS; Provisional
Probab=21.57 E-value=1.2e+02 Score=21.76 Aligned_cols=31 Identities=10% Similarity=0.081 Sum_probs=20.9
Q ss_pred ceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 64 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
.+++...|.-.-..++..+++++||.+.|-|
T Consensus 37 ei~~v~~G~~~~~i~~~~~~l~~g~~~~i~~ 67 (278)
T PRK13503 37 EIVIVEHGTGIHVFNGQPYTLSGGTVCFVRD 67 (278)
T ss_pred eEEEEecCceeeEecCCcccccCCcEEEECC
Confidence 3555666666656677777888888776655
No 240
>TIGR00247 conserved hypothetical protein, YceG family. This uncharacterized protein family, found in three of four microbial genomes, virtually always once per genome, includes YceG from Escherichia coli. This protein is encoded next to PabC, 4-amino-4-deoxychorismate lyase, in E. coli and numerous other proteobacteria, but that proximity is not conserved in other lineages. Numerous members of this family have been misannotated as aminodeoxychorismate lyase, apparently because of promiximty to PabC.
Probab=21.55 E-value=1.9e+02 Score=22.35 Aligned_cols=51 Identities=8% Similarity=0.014 Sum_probs=34.8
Q ss_pred EEEEEeCCCCCCCcchHHHHHHHHHHhcCccccc---c----cccCCccccceEEEEcCccce
Q 034276 20 VHNVDVVPPKGSEKLIMKDLLSWVGTNLIKERPE---M----FMKGDSVRPGVLVLVNDCDWE 75 (99)
Q Consensus 20 ~~~vev~~~~~~~~~tv~dll~~L~~~~~~~~~~---l----~~~~g~l~~~v~ilvNg~di~ 75 (99)
.+.|+|| +|+|.+++.+.|.++---.... + ...++.+++|...+-.+.++.
T Consensus 39 ~v~v~Ip-----~G~s~~~Ia~~L~~~GvI~s~~~F~~~ak~~~~~~~lkaG~Y~l~~~ms~~ 96 (342)
T TIGR00247 39 VYEFNIE-----KGTGVSKIAKELKKQKLIKSEKLLQYLLKIKGSLKQFKAGTYLLNGDMTVF 96 (342)
T ss_pred cEEEEEC-----CCCCHHHHHHHHHHCCCCCCHHHHHHHHHhcCCcCcccceEEEECCCCCHH
Confidence 4678899 8999999999998754211111 1 223456999998877766643
No 241
>PRK14132 riboflavin kinase; Provisional
Probab=21.45 E-value=65 Score=21.93 Aligned_cols=11 Identities=36% Similarity=0.510 Sum_probs=9.3
Q ss_pred CccCCCCEEEE
Q 034276 82 TTLEEKDVVVF 92 (99)
Q Consensus 82 t~L~dgD~V~i 92 (99)
-.|+|||+|.|
T Consensus 114 L~LkDGD~V~I 124 (126)
T PRK14132 114 LNLKDGDVVKI 124 (126)
T ss_pred cCCCCCCEEEE
Confidence 37899999987
No 242
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=21.20 E-value=79 Score=19.67 Aligned_cols=26 Identities=23% Similarity=0.130 Sum_probs=18.5
Q ss_pred EEEEcCccceecCCccCccCCCCEEEEEecC
Q 034276 66 LVLVNDCDWELSGQLDTTLEEKDVVVFISTL 96 (99)
Q Consensus 66 ~ilvNg~di~~l~g~~t~L~dgD~V~i~p~v 96 (99)
.+++|-.|-.- --|++||.|.+..+.
T Consensus 36 ~v~in~~dA~~-----lgi~~Gd~V~v~~~~ 61 (116)
T cd02790 36 YVEINPEDAKR-----LGIEDGEKVRVSSRR 61 (116)
T ss_pred EEEECHHHHHH-----cCCCCCCEEEEEcCC
Confidence 46777766543 468899999888764
No 243
>cd06826 PLPDE_III_AR2 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme, Alanine Racemase 2. This subfamily is composed of bacterial alanine racemases (EC 5.1.1.1) with similarity to Yersinia pestis and Vibrio cholerae alanine racemase (AR) 2. ARs catalyze the interconversion between L- and D-alanine, an essential component of the peptidoglycan layer of bacterial cell walls. These proteins are similar to other bacterial ARs and are fold type III PLP-dependent enzymes containing contains an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. Homodimer formation and the presence of the PLP cofactor are required for catalytic activity.
Probab=21.19 E-value=1.5e+02 Score=22.98 Aligned_cols=32 Identities=25% Similarity=0.370 Sum_probs=23.5
Q ss_pred ceEEEEcCccceecCC--c--------cC-ccCCCCEEEEEec
Q 034276 64 GVLVLVNDCDWELSGQ--L--------DT-TLEEKDVVVFIST 95 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g--~--------~t-~L~dgD~V~i~p~ 95 (99)
.-.|++||+.+..++. + +. .++.||+|.+|-+
T Consensus 288 ~~~v~i~g~~~pivGrv~MD~~~vdvt~~~~~~~Gd~v~l~g~ 330 (365)
T cd06826 288 KAHVLINGQRVPVVGKVSMNTVMVDVTDIPGVKAGDEVVLFGK 330 (365)
T ss_pred CcEEEECCEEeeeeceeeeceEEEeCCCCCCCCCCCEEEEECC
Confidence 3468999999988764 1 11 3678999999865
No 244
>PF12646 DUF3783: Domain of unknown function (DUF3783); InterPro: IPR016621 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.11 E-value=82 Score=18.08 Aligned_cols=18 Identities=22% Similarity=0.173 Sum_probs=15.2
Q ss_pred CCcchHHHHHHHHHHhcC
Q 034276 31 SEKLIMKDLLSWVGTNLI 48 (99)
Q Consensus 31 ~~~~tv~dll~~L~~~~~ 48 (99)
+...|+++|++.|.+.|.
T Consensus 38 N~~Wt~~~L~~El~~Eh~ 55 (58)
T PF12646_consen 38 NINWTLKDLLEELKEEHE 55 (58)
T ss_pred cccCcHHHHHHHHHHHHH
Confidence 368999999999998764
No 245
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=21.05 E-value=59 Score=21.52 Aligned_cols=19 Identities=32% Similarity=0.552 Sum_probs=16.7
Q ss_pred cCccCCCCEEEEEecCCCC
Q 034276 81 DTTLEEKDVVVFISTLHGG 99 (99)
Q Consensus 81 ~t~L~dgD~V~i~p~v~GG 99 (99)
...+.+-|.|.|-.|+++|
T Consensus 38 ~~~~~~yD~vi~gspiy~g 56 (143)
T PF12724_consen 38 EPDLSDYDAVIFGSPIYAG 56 (143)
T ss_pred ccccccCCEEEEEEEEECC
Confidence 4588999999999999987
No 246
>COG1585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=20.75 E-value=1.8e+02 Score=19.81 Aligned_cols=30 Identities=20% Similarity=0.191 Sum_probs=23.2
Q ss_pred cceEEEEcCccceecCCccCccCCCCEEEEEe
Q 034276 63 PGVLVLVNDCDWELSGQLDTTLEEKDVVVFIS 94 (99)
Q Consensus 63 ~~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p 94 (99)
..-.|-+.|..|+..... .+..||+|.+.-
T Consensus 100 g~g~Vkv~g~~Wra~~~~--~l~~G~~V~Vv~ 129 (140)
T COG1585 100 GRGRVKVEGESWRARSDE--DLPAGDRVEVVG 129 (140)
T ss_pred CeEEEEECCeEeEEecCC--CCCCCCEEEEEE
Confidence 466699999999997644 444999998864
No 247
>PF01959 DHQS: 3-dehydroquinate synthase (EC 4.6.1.3); InterPro: IPR002812 3-Dehydroquinate synthase (4.2.3.4 from EC) is an enzyme in the common pathway of aromatic amino acid biosynthesis that catalyses the conversion of 3-deoxy-D-arabino-heptulosonic acid 7-phosphate (DAHP) into 3-dehydroquinic acid []. This synthesis of aromatic amino acids is an essential metabolic function for most prokaryotic as well as lower eukaryotic cells, including plants. The pathway is absent in humans; therefore, DHQS represents a potential target for the development of novel and selective antimicrobial agents. Owing to the threat posed by the spread of pathogenic bacteria resistant to many currently used antimicrobial drugs, there is clearly a need to develop new anti-infective drugs acting at novel targets. A further potential use for DHQS inhibitors is as herbicides [].; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process
Probab=20.72 E-value=1.6e+02 Score=23.45 Aligned_cols=35 Identities=26% Similarity=0.199 Sum_probs=26.0
Q ss_pred ceEEEEcCccceecCCcc-----CccCCCCEEEEEecCCC
Q 034276 64 GVLVLVNDCDWELSGQLD-----TTLEEKDVVVFISTLHG 98 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~~-----t~L~dgD~V~i~p~v~G 98 (99)
.-.++.|...|++..-.. |.|++||+|...-.-+|
T Consensus 301 ~svilQnaetIRlv~p~G~~vsVt~Lk~GD~vL~~~~~~~ 340 (354)
T PF01959_consen 301 ISVILQNAETIRLVGPDGEPVSVTELKPGDEVLVYLEEAG 340 (354)
T ss_pred EEEEEecCcEEEEECCCCCEeeeeecCCCCEEEEEecCCC
Confidence 445889999999985322 47899999998765543
No 248
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors. ; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
Probab=20.71 E-value=54 Score=18.84 Aligned_cols=20 Identities=10% Similarity=0.350 Sum_probs=15.2
Q ss_pred CccccceEEEEcCccceecC
Q 034276 59 DSVRPGVLVLVNDCDWELSG 78 (99)
Q Consensus 59 g~l~~~v~ilvNg~di~~l~ 78 (99)
.+||++..|.+||+-|..++
T Consensus 3 ~dlr~G~~i~~~g~~~~V~~ 22 (58)
T PF08207_consen 3 SDLRKGMVIEIDGEPYVVLD 22 (58)
T ss_dssp GG--TTSEEEETTEEEEEEE
T ss_pred HHccCCCEEEECCEEEEEEE
Confidence 46899999999999988764
No 249
>PRK08671 methionine aminopeptidase; Provisional
Probab=20.70 E-value=3e+02 Score=20.65 Aligned_cols=55 Identities=13% Similarity=0.073 Sum_probs=30.9
Q ss_pred CcchHHHHHHHHHHhcCcccccccccCCccccceEEEEcCccceec--CCccCccCCCCEEEEE
Q 034276 32 EKLIMKDLLSWVGTNLIKERPEMFMKGDSVRPGVLVLVNDCDWELS--GQLDTTLEEKDVVVFI 93 (99)
Q Consensus 32 ~~~tv~dll~~L~~~~~~~~~~l~~~~g~l~~~v~ilvNg~di~~l--~g~~t~L~dgD~V~i~ 93 (99)
+|.|..|+-+.+.+..-..- ....-..+|-+|..-..+. .+.+.+|++||.|.|=
T Consensus 25 pG~se~ei~~~~~~~i~~~g-------~~~afp~~vs~n~~~~H~~p~~~d~~~l~~GDvV~iD 81 (291)
T PRK08671 25 PGAKLLDVAEFVENRIRELG-------AKPAFPCNISINEVAAHYTPSPGDERVFPEGDVVKLD 81 (291)
T ss_pred CCCcHHHHHHHHHHHHHHcC-------CccCCCCEEeeCCCccCCCCCCCCCcccCCCCEEEEE
Confidence 47888888887765332211 1111123456776533222 2335789999998763
No 250
>PRK05350 acyl carrier protein; Provisional
Probab=20.39 E-value=15 Score=22.36 Aligned_cols=14 Identities=14% Similarity=0.078 Sum_probs=9.3
Q ss_pred cchHHHHHHHHHHh
Q 034276 33 KLIMKDLLSWVGTN 46 (99)
Q Consensus 33 ~~tv~dll~~L~~~ 46 (99)
-.||+++++++.++
T Consensus 66 ~~Tv~dlv~~v~~~ 79 (82)
T PRK05350 66 VRTVQDVVDAVERL 79 (82)
T ss_pred cCcHHHHHHHHHHH
Confidence 45777777777654
No 251
>COG3106 Predicted ATPase [General function prediction only]
Probab=20.31 E-value=84 Score=25.68 Aligned_cols=30 Identities=10% Similarity=-0.091 Sum_probs=26.0
Q ss_pred ceEEEEcCccceecCCccCccCCCCEEEEEec
Q 034276 64 GVLVLVNDCDWELSGQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 64 ~v~ilvNg~di~~l~g~~t~L~dgD~V~i~p~ 95 (99)
...|..+|+.+..+.| |++++|..++|||-
T Consensus 387 ~~~V~q~g~~ipai~G--~~l~~~~~~tifPG 416 (467)
T COG3106 387 SGTVDQGGEKIPAIRG--TRLADGAPTTIFPG 416 (467)
T ss_pred eeEEccCCeEeeeEec--cccCCCceeeecCC
Confidence 5668889999998876 89999999999983
No 252
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=20.23 E-value=91 Score=26.74 Aligned_cols=32 Identities=16% Similarity=0.350 Sum_probs=22.1
Q ss_pred cccceEEEEcCcc---ceecCCccCccCCCCEEEE
Q 034276 61 VRPGVLVLVNDCD---WELSGQLDTTLEEKDVVVF 92 (99)
Q Consensus 61 l~~~v~ilvNg~d---i~~l~g~~t~L~dgD~V~i 92 (99)
|++-==-+|||.+ ++.-.+..+.|++||.|.|
T Consensus 600 l~S~nGT~v~~~~~~r~~~~p~~~~~l~~~d~I~~ 634 (668)
T PLN02927 600 LRSEHGTYVTDNEGRRYRATPNFPARFRSSDIIEF 634 (668)
T ss_pred CCCCCccEEeCCCCceEecCCCCceEeCCCCEEEe
Confidence 4443336676666 6655566799999999987
No 253
>PRK13754 conjugal transfer fertility inhibition protein FinO; Provisional
Probab=20.22 E-value=76 Score=23.08 Aligned_cols=25 Identities=12% Similarity=0.061 Sum_probs=18.8
Q ss_pred chHHHHHHHHHHhcCcccccccccCCcccc
Q 034276 34 LIMKDLLSWVGTNLIKERPEMFMKGDSVRP 63 (99)
Q Consensus 34 ~tv~dll~~L~~~~~~~~~~l~~~~g~l~~ 63 (99)
....++|.+|++.||. +|+. |..+|
T Consensus 71 ~~~keaI~~Lae~wP~----lF~~-g~~kP 95 (186)
T PRK13754 71 PPLDEAVNTLKPWWPG----LFDG-DTPRL 95 (186)
T ss_pred CCHHHHHHHHHHhhHH----hcCC-CCCCc
Confidence 3578999999999986 5654 55555
No 254
>PF05006 DUF666: Protein of unknown function (DUF666); InterPro: IPR007703 This family contains several uncharacterised viral proteins of unknown function.
Probab=20.11 E-value=52 Score=23.23 Aligned_cols=45 Identities=16% Similarity=0.172 Sum_probs=26.1
Q ss_pred cccccccccCCccccceEEEEcCc-cceec----CCccCccCCCCEEEEEec
Q 034276 49 KERPEMFMKGDSVRPGVLVLVNDC-DWELS----GQLDTTLEEKDVVVFIST 95 (99)
Q Consensus 49 ~~~~~l~~~~g~l~~~v~ilvNg~-di~~l----~g~~t~L~dgD~V~i~p~ 95 (99)
..-+.+++++|++||+|= =||. +|.+. .-.+.+=.+|-.-.+|++
T Consensus 83 StYRDivdD~g~lRPyvC--~~G~l~Idl~~~~Fs~~dC~C~~gytk~~~~q 132 (155)
T PF05006_consen 83 STYRDIVDDDGKLRPYVC--DNGTLDIDLENRPFSVDDCVCADGYTKMLFNQ 132 (155)
T ss_pred ecccccCCCCCCcCceEe--cCCeEEEEcccCCCchhhcCcCCCCEEEEecc
Confidence 345678889999999874 2332 22222 223445566666666654
No 255
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=20.09 E-value=1.3e+02 Score=18.76 Aligned_cols=20 Identities=20% Similarity=0.194 Sum_probs=16.1
Q ss_pred EEEEeCCCCCCCcchHHHHHHHHHH
Q 034276 21 HNVDVVPPKGSEKLIMKDLLSWVGT 45 (99)
Q Consensus 21 ~~vev~~~~~~~~~tv~dll~~L~~ 45 (99)
..|++- +|.|++|.|.+..+
T Consensus 12 T~V~vr-----pG~tl~daL~KaLk 31 (74)
T cd01816 12 TVVNVR-----PGMTLRDALAKALK 31 (74)
T ss_pred EEEEec-----CCcCHHHHHHHHHH
Confidence 457776 69999999988765
Done!