Query 033386
Match_columns 120
No_of_seqs 117 out of 384
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 13:16:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033386.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033386hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1654 Microtubule-associated 100.0 2.9E-54 6.3E-59 299.6 12.5 116 2-117 1-116 (116)
2 cd01611 GABARAP Ubiquitin doma 100.0 1.2E-52 2.5E-57 294.7 14.2 112 6-117 1-112 (112)
3 PTZ00380 microtubule-associate 100.0 4.4E-50 9.5E-55 284.3 12.6 110 4-118 2-112 (121)
4 PF02991 Atg8: Autophagy prote 100.0 3E-49 6.6E-54 274.3 12.7 104 14-117 1-104 (104)
5 cd01612 APG12_C Ubiquitin-like 100.0 2E-34 4.4E-39 194.3 10.5 85 32-117 2-87 (87)
6 PF04110 APG12: Ubiquitin-like 99.9 1.4E-26 3.1E-31 156.0 6.9 84 33-117 3-87 (87)
7 KOG3439 Protein conjugation fa 99.9 1.1E-24 2.5E-29 151.6 10.0 85 32-117 31-116 (116)
8 PF04106 APG5: Autophagy prote 96.8 0.0027 5.9E-08 48.3 5.4 100 10-111 88-195 (197)
9 PF11816 DUF3337: Domain of un 95.9 0.097 2.1E-06 42.6 9.7 87 26-112 211-328 (331)
10 PF11976 Rad60-SLD: Ubiquitin- 92.7 0.31 6.7E-06 30.4 4.6 49 47-95 12-60 (72)
11 cd06406 PB1_P67 A PB1 domain i 91.1 1.6 3.5E-05 29.0 6.8 56 51-109 16-76 (80)
12 PF13019 Telomere_Sde2: Telome 89.4 3.8 8.2E-05 30.6 8.2 78 30-110 1-81 (162)
13 smart00213 UBQ Ubiquitin homol 87.3 1.9 4.2E-05 25.4 4.7 46 48-94 12-57 (64)
14 KOG2660 Locus-specific chromos 87.0 1.5 3.3E-05 36.2 5.2 73 41-114 159-235 (331)
15 PF10302 DUF2407: DUF2407 ubiq 86.9 7.6 0.00017 26.4 8.6 69 41-112 10-94 (97)
16 PF00240 ubiquitin: Ubiquitin 86.5 1.1 2.3E-05 27.5 3.3 46 49-95 9-54 (69)
17 KOG2976 Protein involved in au 86.5 11 0.00024 30.4 9.6 91 12-110 162-273 (278)
18 cd00196 UBQ Ubiquitin-like pro 86.0 4 8.6E-05 22.2 5.7 42 45-87 7-48 (69)
19 cd01813 UBP_N UBP ubiquitin pr 79.9 3.9 8.4E-05 26.1 4.0 45 51-95 15-61 (74)
20 cd06398 PB1_Joka2 The PB1 doma 79.7 5.6 0.00012 26.7 4.9 52 47-98 11-72 (91)
21 cd01763 Sumo Small ubiquitin-r 77.3 9 0.0002 25.0 5.2 62 27-95 9-70 (87)
22 cd01769 UBL Ubiquitin-like dom 77.0 11 0.00025 22.2 5.3 57 49-110 11-68 (69)
23 cd01798 parkin_N amino-termina 76.0 6.3 0.00014 24.3 4.0 44 50-94 13-56 (70)
24 cd01807 GDX_N ubiquitin-like d 75.6 6 0.00013 24.7 3.9 44 50-94 15-58 (74)
25 PF08154 NLE: NLE (NUC135) dom 75.5 17 0.00036 22.6 6.2 42 44-85 14-56 (65)
26 cd01806 Nedd8 Nebb8-like ubiq 75.0 11 0.00024 23.1 5.0 57 50-111 15-72 (76)
27 PF03671 Ufm1: Ubiquitin fold 72.9 17 0.00038 23.8 5.5 58 43-101 13-71 (76)
28 cd01790 Herp_N Homocysteine-re 71.8 25 0.00055 23.0 7.2 62 49-111 15-79 (79)
29 cd05992 PB1 The PB1 domain is 71.3 22 0.00048 22.1 7.1 63 47-109 11-79 (81)
30 cd01805 RAD23_N Ubiquitin-like 70.6 11 0.00023 23.5 4.1 56 49-109 14-72 (77)
31 cd01810 ISG15_repeat2 ISG15 ub 69.2 22 0.00049 22.1 5.5 58 50-111 13-70 (74)
32 cd01809 Scythe_N Ubiquitin-lik 66.2 17 0.00037 21.9 4.4 45 49-94 14-58 (72)
33 cd01776 Rin1_RA Ubiquitin doma 66.1 15 0.00032 24.8 4.2 37 48-84 16-54 (87)
34 cd01803 Ubiquitin Ubiquitin. U 65.1 19 0.00041 22.0 4.5 59 49-111 14-72 (76)
35 PF12752 SUZ: SUZ domain; Int 64.9 7.7 0.00017 23.8 2.6 19 7-25 35-53 (59)
36 smart00666 PB1 PB1 domain. Pho 64.1 33 0.00071 21.4 6.6 62 47-108 12-78 (81)
37 cd01812 BAG1_N Ubiquitin-like 63.3 17 0.00037 22.0 4.0 44 50-94 14-57 (71)
38 cd01796 DDI1_N DNA damage indu 63.1 14 0.0003 23.1 3.6 55 50-108 14-69 (71)
39 COG3343 RpoE DNA-directed RNA 63.1 9.9 0.00021 28.8 3.3 47 55-117 30-77 (175)
40 cd01793 Fubi Fubi ubiquitin-li 62.1 27 0.00058 21.7 4.8 59 47-109 10-68 (74)
41 PF12436 USP7_ICP0_bdg: ICP0-b 62.0 11 0.00024 29.4 3.5 59 49-111 88-152 (249)
42 cd01794 DC_UbP_C dendritic cel 60.9 24 0.00053 22.1 4.4 45 49-94 12-56 (70)
43 PF14836 Ubiquitin_3: Ubiquiti 60.8 12 0.00026 25.3 3.0 44 51-94 19-66 (88)
44 cd06396 PB1_NBR1 The PB1 domai 60.5 47 0.001 22.0 6.0 62 46-110 10-78 (81)
45 cd01799 Hoil1_N Ubiquitin-like 59.9 36 0.00079 21.7 5.2 45 49-94 16-60 (75)
46 cd01791 Ubl5 UBL5 ubiquitin-li 59.7 25 0.00054 22.3 4.4 43 51-94 17-59 (73)
47 cd01808 hPLIC_N Ubiquitin-like 58.9 21 0.00045 22.0 3.9 58 49-110 13-70 (71)
48 cd06407 PB1_NLP A PB1 domain i 57.7 24 0.00053 23.1 4.1 54 46-99 10-68 (82)
49 PF00788 RA: Ras association ( 56.9 47 0.001 20.9 8.3 64 46-109 17-89 (93)
50 PF00837 T4_deiodinase: Iodoth 56.1 15 0.00033 29.0 3.4 34 4-38 158-191 (237)
51 PTZ00044 ubiquitin; Provisiona 55.5 36 0.00078 21.0 4.5 45 49-94 14-58 (76)
52 cd01795 USP48_C USP ubiquitin- 53.7 32 0.00069 24.0 4.3 26 50-75 19-44 (107)
53 cd01792 ISG15_repeat1 ISG15 ub 52.8 27 0.00058 22.2 3.7 59 51-112 18-77 (80)
54 cd01800 SF3a120_C Ubiquitin-li 51.6 33 0.00071 21.5 3.9 58 50-111 12-69 (76)
55 PF00564 PB1: PB1 domain; Int 50.9 51 0.0011 20.5 4.8 52 50-101 16-71 (84)
56 cd01815 BMSC_UbP_N Ubiquitin-l 48.7 47 0.001 21.6 4.3 44 51-94 16-61 (75)
57 KOG1209 1-Acyl dihydroxyaceton 47.8 40 0.00086 27.1 4.5 52 45-100 54-110 (289)
58 PF14533 USP7_C2: Ubiquitin-sp 47.8 15 0.00032 28.0 2.1 50 46-95 34-90 (213)
59 PF05717 TnpB_IS66: IS66 Orf2 44.9 33 0.00072 23.6 3.3 27 57-83 16-43 (107)
60 cd01804 midnolin_N Ubiquitin-l 44.9 54 0.0012 20.7 4.2 58 50-112 16-73 (78)
61 PF14560 Ubiquitin_2: Ubiquiti 43.6 49 0.0011 21.2 3.9 32 49-80 17-49 (87)
62 TIGR01682 moaD molybdopterin c 42.8 29 0.00062 21.9 2.6 41 49-89 19-62 (80)
63 PRK04115 hypothetical protein; 42.7 1.1E+02 0.0024 22.3 5.9 55 18-81 51-114 (137)
64 PF09358 UBA_e1_C: Ubiquitin-a 42.1 24 0.00052 24.9 2.3 52 48-99 35-94 (125)
65 TIGR00601 rad23 UV excision re 42.0 86 0.0019 26.3 5.9 59 51-113 16-77 (378)
66 PF01886 DUF61: Protein of unk 41.9 66 0.0014 23.0 4.6 56 16-80 46-111 (132)
67 PF00255 GSHPx: Glutathione pe 40.9 32 0.0007 23.7 2.8 39 77-118 23-66 (108)
68 PF11543 UN_NPL4: Nuclear pore 40.7 21 0.00045 23.3 1.7 57 48-108 16-77 (80)
69 cd06411 PB1_p51 The PB1 domain 39.2 1.1E+02 0.0024 20.1 6.0 58 51-108 12-75 (78)
70 PF12436 USP7_ICP0_bdg: ICP0-b 38.5 1E+02 0.0022 24.0 5.6 53 28-83 175-227 (249)
71 PRK06437 hypothetical protein; 37.2 50 0.0011 20.5 3.0 38 50-92 15-52 (67)
72 cd01802 AN1_N ubiquitin-like d 37.1 73 0.0016 21.5 4.1 76 26-111 24-99 (103)
73 PRK13125 trpA tryptophan synth 36.6 44 0.00095 25.7 3.2 18 100-119 150-167 (244)
74 PRK08364 sulfur carrier protei 36.2 41 0.00088 21.0 2.5 38 49-91 17-54 (70)
75 PF09379 FERM_N: FERM N-termin 35.6 92 0.002 19.1 4.1 34 48-81 9-42 (80)
76 cd01789 Alp11_N Ubiquitin-like 35.1 79 0.0017 20.4 3.8 33 51-83 18-51 (84)
77 cd06408 PB1_NoxR The PB1 domai 35.0 52 0.0011 22.0 3.0 50 49-100 15-68 (86)
78 cd00754 MoaD Ubiquitin domain 34.6 40 0.00087 20.8 2.3 41 49-89 19-62 (80)
79 PF08825 E2_bind: E2 binding d 34.0 50 0.0011 21.8 2.7 45 51-95 2-59 (84)
80 cd01766 Ufm1 Urm1-like ubiquit 32.9 76 0.0017 21.0 3.4 53 48-101 18-71 (82)
81 cd01797 NIRF_N amino-terminal 32.8 86 0.0019 19.9 3.7 57 52-112 19-75 (78)
82 PF06970 RepA_N: Replication i 32.5 22 0.00047 23.1 0.8 17 99-115 42-58 (76)
83 COG0386 BtuE Glutathione perox 32.4 66 0.0014 24.1 3.4 38 76-114 26-67 (162)
84 cd06401 PB1_TFG The PB1 domain 32.1 1.2E+02 0.0027 20.1 4.4 23 48-70 12-35 (81)
85 KOG0010 Ubiquitin-like protein 31.4 1.4E+02 0.003 26.2 5.7 53 47-104 26-78 (493)
86 cd01775 CYR1_RA Ubiquitin doma 31.2 1.1E+02 0.0024 21.0 4.2 36 49-84 16-53 (97)
87 PF01704 UDPGP: UTP--glucose-1 30.9 91 0.002 26.4 4.5 56 12-86 88-143 (420)
88 PRK02363 DNA-directed RNA poly 29.8 61 0.0013 23.2 2.8 50 53-117 17-66 (129)
89 TIGR01683 thiS thiamine biosyn 29.6 1E+02 0.0022 18.6 3.5 35 46-85 4-38 (64)
90 PF05990 DUF900: Alpha/beta hy 29.4 1E+02 0.0022 23.6 4.2 51 59-111 2-55 (233)
91 PF11470 TUG-UBL1: GLUT4 regul 29.2 1.3E+02 0.0027 18.9 3.9 40 44-84 5-44 (65)
92 COG2002 AbrB Regulators of sta 29.1 66 0.0014 21.1 2.7 21 63-83 20-40 (89)
93 PF02597 ThiS: ThiS family; I 29.1 24 0.00051 21.7 0.5 40 47-86 13-53 (77)
94 cd00952 CHBPH_aldolase Trans-o 29.0 64 0.0014 25.8 3.1 29 10-38 58-86 (309)
95 COG1019 Predicted nucleotidylt 27.7 2.6E+02 0.0057 20.9 7.4 66 10-75 54-122 (158)
96 PRK10953 cysJ sulfite reductas 26.8 4.5E+02 0.0098 23.3 9.4 88 26-114 432-523 (600)
97 cd00408 DHDPS-like Dihydrodipi 26.2 84 0.0018 24.2 3.3 99 9-112 46-160 (281)
98 TIGR02313 HpaI-NOT-DapA 2,4-di 26.0 81 0.0018 25.0 3.2 102 9-113 49-166 (294)
99 KOG1651 Glutathione peroxidase 26.0 1.4E+02 0.003 22.6 4.2 41 76-118 35-80 (171)
100 PF03568 Peptidase_C50: Peptid 25.2 3.9E+02 0.0084 22.1 7.2 71 28-100 204-287 (383)
101 PF04014 Antitoxin-MazE: Antid 25.2 1E+02 0.0022 17.5 2.8 21 63-83 13-33 (47)
102 cd00951 KDGDH 5-dehydro-4-deox 24.6 84 0.0018 24.7 3.0 101 9-113 49-161 (289)
103 PRK11130 moaD molybdopterin sy 24.5 85 0.0018 19.9 2.6 36 54-90 24-64 (81)
104 cd01938 ADPGK_ADPPFK ADP-depen 24.4 1E+02 0.0023 26.4 3.7 39 1-39 216-254 (445)
105 PF14060 DUF4252: Domain of un 23.9 95 0.0021 21.7 3.0 25 88-112 20-44 (155)
106 smart00537 DCX Domain in the D 23.9 2.2E+02 0.0047 18.6 5.5 72 36-117 10-84 (89)
107 TIGR00683 nanA N-acetylneurami 23.9 91 0.002 24.6 3.1 99 10-112 51-165 (290)
108 smart00295 B41 Band 4.1 homolo 23.7 2.2E+02 0.0048 20.2 5.0 51 47-97 15-71 (207)
109 PRK08577 hypothetical protein; 23.4 87 0.0019 21.8 2.6 21 63-83 19-39 (136)
110 PF07929 PRiA4_ORF3: Plasmid p 23.4 1.7E+02 0.0036 21.3 4.3 28 48-75 20-47 (179)
111 TIGR01051 topA_bact DNA topois 22.7 3.1E+02 0.0067 24.3 6.4 50 53-114 250-300 (610)
112 cd01787 GRB7_RA RA (RAS-associ 22.5 2E+02 0.0042 19.3 4.0 61 48-108 15-82 (85)
113 smart00148 PLCXc Phospholipase 22.5 94 0.002 21.8 2.7 32 54-85 67-98 (135)
114 PRK03620 5-dehydro-4-deoxygluc 22.4 1E+02 0.0022 24.5 3.1 29 9-37 56-84 (303)
115 PRK13669 hypothetical protein; 22.4 59 0.0013 21.4 1.5 27 75-101 45-74 (78)
116 PRK03170 dihydrodipicolinate s 22.3 1E+02 0.0022 24.1 3.1 100 9-113 50-165 (292)
117 PRK04147 N-acetylneuraminate l 22.3 98 0.0021 24.3 3.0 29 10-38 54-82 (293)
118 PF00701 DHDPS: Dihydrodipicol 22.2 92 0.002 24.3 2.8 100 9-113 50-165 (289)
119 COG0669 CoaD Phosphopantethein 22.1 2.8E+02 0.0061 20.7 5.2 95 7-105 43-145 (159)
120 PF10336 DUF2420: Protein of u 21.7 2.8E+02 0.006 19.1 5.4 63 55-117 10-98 (113)
121 PF01650 Peptidase_C13: Peptid 21.6 1.1E+02 0.0023 24.1 3.1 31 53-83 77-115 (256)
122 PF08216 CTNNBL: Catenin-beta- 21.3 92 0.002 21.7 2.3 20 10-29 33-52 (108)
123 PF05768 DUF836: Glutaredoxin- 21.0 71 0.0015 20.1 1.6 18 20-37 40-57 (81)
124 cd00565 ThiS ThiaminS ubiquiti 20.8 78 0.0017 19.1 1.7 37 46-87 5-41 (65)
125 TIGR01091 upp uracil phosphori 20.3 1.2E+02 0.0027 22.8 3.1 33 17-54 163-195 (207)
126 KOG0765 Predicted mitochondria 20.3 43 0.00094 27.6 0.6 35 44-78 30-70 (333)
127 PLN02417 dihydrodipicolinate s 20.3 1.2E+02 0.0026 23.8 3.1 97 10-113 51-163 (280)
128 PF02938 GAD: GAD domain; Int 20.2 1.6E+02 0.0034 19.3 3.3 25 59-83 63-87 (95)
129 PF13905 Thioredoxin_8: Thiore 20.1 1.7E+02 0.0037 18.1 3.3 23 90-112 21-43 (95)
No 1
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=100.00 E-value=2.9e-54 Score=299.64 Aligned_cols=116 Identities=75% Similarity=1.177 Sum_probs=114.1
Q ss_pred CCCcccccCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEE
Q 033386 2 AKSSFKLEHPLERRLAESARIREKYPDRIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFV 81 (120)
Q Consensus 2 ~~~~fk~~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~V 81 (120)
|+++||++||||+|++|+.+||+|||+|||||||+.+++++|.|||+|||||+++|||||+.+|||||+|++++|+||||
T Consensus 1 ~~~~FK~~~~fe~R~~E~~~Ir~kyP~riPVIvEk~~~~~lp~lDK~KyLVP~dltvgqfi~iIRkRiqL~~~kA~flfV 80 (116)
T KOG1654|consen 1 MKSSFKERHPFEKRKAEVRRIREKYPDRIPVIVEKAGKSQLPDLDKKKYLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFV 80 (116)
T ss_pred CcchhhccCCHHHHHHHHHHHHHHCCCCCcEEEEecccccCcccccceeeccccccHHHHHHHHHHHhccChhHeEEEEE
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCchHHHHHhHccCCCCeEEEEecCccccC
Q 033386 82 KNTLPPTGALMSAIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 82 n~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~~afG 117 (120)
||.+|+.+++|++||+++||+||||||+||+|+|||
T Consensus 81 n~~~p~ts~~ms~~Ye~~kdeDgFLYm~Ys~e~tfG 116 (116)
T KOG1654|consen 81 NNTSPPTSATMSALYEEEKDEDGFLYMTYSGENTFG 116 (116)
T ss_pred cCcCCcchhhHHHHHHhhcccCcEEEEEeccccccC
Confidence 999999999999999999999999999999999999
No 2
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=100.00 E-value=1.2e-52 Score=294.70 Aligned_cols=112 Identities=71% Similarity=1.200 Sum_probs=111.0
Q ss_pred ccccCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC
Q 033386 6 FKLEHPLERRLAESARIREKYPDRIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTL 85 (120)
Q Consensus 6 fk~~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~ 85 (120)
||++||||+|++|+++||+|||++||||||+++++++|+|+++||+||+++||+||+.+||++|+|++++||||||||++
T Consensus 1 fk~~~s~e~R~~e~~~ir~kyp~~iPVIvE~~~~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~ 80 (112)
T cd01611 1 FKERHPFEKRKAEVERIRAKYPDRIPVIVERYPKSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSL 80 (112)
T ss_pred CccccCHHHHHHHHHHHHHHCCCceEEEEEEcCCCCcccccCceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCchHHHHHhHccCCCCeEEEEecCccccC
Q 033386 86 PPTGALMSAIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 86 p~~~~~~~~lY~~~kd~DGfLyi~Ys~~~afG 117 (120)
|++|++||+||++|||+||||||+||+++|||
T Consensus 81 p~~~~~~~~lY~~~kd~DGfLyl~Ys~~~tfG 112 (112)
T cd01611 81 PPTSATMSQLYEEHKDEDGFLYMTYSSEETFG 112 (112)
T ss_pred CCchhHHHHHHHHhCCCCCEEEEEEeccccCC
Confidence 99999999999999999999999999999999
No 3
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=100.00 E-value=4.4e-50 Score=284.29 Aligned_cols=110 Identities=34% Similarity=0.583 Sum_probs=106.9
Q ss_pred CcccccCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceE-EecCCCchHhHHHHHHHHhCCCCCceEEEEEc
Q 033386 4 SSFKLEHPLERRLAESARIREKYPDRIPVIVEKAEKTDVPDIDKKKY-LVPADLSVGQFVYVVRKRIKLSAEKAIFVFVK 82 (120)
Q Consensus 4 ~~fk~~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~~p~L~k~Kf-lvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn 82 (120)
++||++||||+|++|+++||+|||++||||||++++++ +|+|| |||+|+||+||+.+||+||+|++++ +|||||
T Consensus 2 ~~fK~~~s~e~R~~e~~~Ir~kyPdrIPVIvEk~~~s~----dK~KfllVP~d~tV~qF~~iIRkrl~l~~~k-~flfVn 76 (121)
T PTZ00380 2 SAYHSSNPVEARRAECARLQAKYPGHVAVVVEAAEKAG----SKVHFLALPRDATVAELEAAVRQALGTSAKK-VTLAIE 76 (121)
T ss_pred cchhhcCCHHHHHHHHHHHHHHCCCccEEEEeecCCCC----CceEEEEcCCCCcHHHHHHHHHHHcCCChhH-EEEEEC
Confidence 68999999999999999999999999999999998887 89999 6999999999999999999999999 999999
Q ss_pred CCCCCCCchHHHHHhHccCCCCeEEEEecCccccCC
Q 033386 83 NTLPPTGALMSAIYEENKDEDGFLYMTYSGENTFGW 118 (120)
Q Consensus 83 ~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~~afG~ 118 (120)
|++|+++++||+||++|||+||||||+||+|+|||.
T Consensus 77 n~lp~~s~~mg~lYe~~KDeDGFLYi~Ys~e~tFG~ 112 (121)
T PTZ00380 77 GSTPAVTATVGDIADACKRDDGFLYVSVRTEQAMGA 112 (121)
T ss_pred CccCCccchHHHHHHHhcCCCCeEEEEEcccccccc
Confidence 999999999999999999999999999999999995
No 4
>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....
Probab=100.00 E-value=3e-49 Score=274.25 Aligned_cols=104 Identities=66% Similarity=1.133 Sum_probs=95.0
Q ss_pred HHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHH
Q 033386 14 RRLAESARIREKYPDRIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMS 93 (120)
Q Consensus 14 ~R~~e~~~i~~kyp~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~ 93 (120)
+|++|+++||+|||++||||||+++++++|.|||+|||||.++||+||+.+||+||++++++||||||||++|+++++||
T Consensus 1 ~R~~e~~~ir~kyP~~IPVIvEr~~~s~lp~ldk~KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~ 80 (104)
T PF02991_consen 1 ERKEESERIREKYPDKIPVIVERYPKSKLPDLDKKKFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMG 80 (104)
T ss_dssp HHHHHHHHHHHHSTTEEEEEEEE-TTSSS---SSSEEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHH
T ss_pred CcHHHHHHHHHHCCCccEEEEEEccCCChhhcCccEEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhHccCCCCeEEEEecCccccC
Q 033386 94 AIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 94 ~lY~~~kd~DGfLyi~Ys~~~afG 117 (120)
+||++|||+||||||+||++++||
T Consensus 81 elY~~~kdeDGFLY~~Ys~e~tFG 104 (104)
T PF02991_consen 81 ELYEKYKDEDGFLYMTYSSEETFG 104 (104)
T ss_dssp HHHHHHB-TTSSEEEEEESSSSBC
T ss_pred HHHHHhCCCCCeEEEEeccccccC
Confidence 999999999999999999999999
No 5
>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=100.00 E-value=2e-34 Score=194.31 Aligned_cols=85 Identities=24% Similarity=0.459 Sum_probs=79.9
Q ss_pred EEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC-CCCCchHHHHHhHccCCCCeEEEEe
Q 033386 32 VIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTL-PPTGALMSAIYEENKDEDGFLYMTY 110 (120)
Q Consensus 32 VIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~-p~~~~~~~~lY~~~kd~DGfLyi~Y 110 (120)
|+|.-.+.+++|.|+++||+||+++||++|+.+||+||++++++||||||||++ |++|++||+||++| |+||||||+|
T Consensus 2 v~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~~dGfLyi~Y 80 (87)
T cd01612 2 VTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-GTNGELIVSY 80 (87)
T ss_pred eEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-CCCCEEEEEE
Confidence 455555678999999999999999999999999999999999999999999984 89999999999999 8999999999
Q ss_pred cCccccC
Q 033386 111 SGENTFG 117 (120)
Q Consensus 111 s~~~afG 117 (120)
|.++|||
T Consensus 81 s~~~afG 87 (87)
T cd01612 81 CKTVAFG 87 (87)
T ss_pred eCccccC
Confidence 9999999
No 6
>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=99.93 E-value=1.4e-26 Score=156.02 Aligned_cols=84 Identities=21% Similarity=0.468 Sum_probs=61.7
Q ss_pred EEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC-CCCCchHHHHHhHccCCCCeEEEEec
Q 033386 33 IVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTL-PPTGALMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 33 IvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~-p~~~~~~~~lY~~~kd~DGfLyi~Ys 111 (120)
.|.-.+-+++|.|+++||.|.++.|++.++.+|||+|+++++++||+|||+++ |++|+++|+||+||+ .||.|.|+||
T Consensus 3 ~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~-~~~~Liv~Ys 81 (87)
T PF04110_consen 3 TVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFG-TNGELIVSYS 81 (87)
T ss_dssp EEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH--BTTBEEEEEE
T ss_pred EEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhC-CCCEEEEEEe
Confidence 33333446899999999999999999999999999999999999999999987 999999999999997 8999999999
Q ss_pred CccccC
Q 033386 112 GENTFG 117 (120)
Q Consensus 112 ~~~afG 117 (120)
.++|||
T Consensus 82 ~t~A~G 87 (87)
T PF04110_consen 82 KTPAWG 87 (87)
T ss_dssp SSS---
T ss_pred cccccC
Confidence 999999
No 7
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=1.1e-24 Score=151.64 Aligned_cols=85 Identities=24% Similarity=0.476 Sum_probs=79.1
Q ss_pred EEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC-CCCCchHHHHHhHccCCCCeEEEEe
Q 033386 32 VIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTL-PPTGALMSAIYEENKDEDGFLYMTY 110 (120)
Q Consensus 32 VIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~-p~~~~~~~~lY~~~kd~DGfLyi~Y 110 (120)
|.|.-.+-+++|.|+++||.|+.+.||+.++.+|||+|+|+.+++|||||||++ |++|+.+|+||+||+ .||.|.++|
T Consensus 31 V~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~cf~-~d~~Lvl~Y 109 (116)
T KOG3439|consen 31 VQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYECFG-TDGKLVLNY 109 (116)
T ss_pred EEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHhcC-CCCEEEEEE
Confidence 444344557999999999999999999999999999999999999999999998 999999999999995 899999999
Q ss_pred cCccccC
Q 033386 111 SGENTFG 117 (120)
Q Consensus 111 s~~~afG 117 (120)
|...|||
T Consensus 110 c~s~A~G 116 (116)
T KOG3439|consen 110 CISVAWG 116 (116)
T ss_pred eeecccC
Confidence 9999999
No 8
>PF04106 APG5: Autophagy protein Apg5 ; InterPro: IPR007239 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 autophagy protein 5 (Apg5).; GO: 0006914 autophagy, 0005737 cytoplasm; PDB: 2DYM_G 2DYO_A.
Probab=96.84 E-value=0.0027 Score=48.28 Aligned_cols=100 Identities=15% Similarity=0.201 Sum_probs=49.2
Q ss_pred CCHHHHHHHHHHHH---HhCCCeeeEEEEecCCCCCCCCccceEEec---CCCchHhHHHHHHHHh--CCCCCceEEEEE
Q 033386 10 HPLERRLAESARIR---EKYPDRIPVIVEKAEKTDVPDIDKKKYLVP---ADLSVGQFVYVVRKRI--KLSAEKAIFVFV 81 (120)
Q Consensus 10 ~s~e~R~~e~~~i~---~kyp~~ipVIvE~~~~~~~p~L~k~Kflvp---~~~tv~~~~~~lRk~l--~l~~~~slfl~V 81 (120)
+.|++=..-..++. ..-..+|||.|-.... .|.+...--... ...|++++...+=--+ .-.......+++
T Consensus 88 ~~~~~f~~i~~kl~~~~~~~~r~IPiRiy~~~~--~~~iQ~~i~~~~~~g~~~TL~d~L~~~lp~~f~s~~~~~~~~~ii 165 (197)
T PF04106_consen 88 HDFDQFWSINSKLMPPDPSKFRHIPIRIYLPGS--VPVIQPPIPPIKEDGQPQTLGDALSELLPELFPSSDEPELARVII 165 (197)
T ss_dssp T-HHHHHHHHHHHS----SS-SB--EEEEE-SS----EE----B----TT---BTGGGHHHHHTTT--T------EEEEE
T ss_pred hCHHHHHHHHHHHHhhcCCCcceeEEEEEeCCC--cceEecccccccCCCCcCcHHHHHHHhChhhcccccCccccEEEE
Confidence 33444344445555 5667899999987653 233322211111 2347777654442221 012344567888
Q ss_pred cCCCCCCCchHHHHHhHccCCCCeEEEEec
Q 033386 82 KNTLPPTGALMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 82 n~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys 111 (120)
++.-++.|+.|..||+.+.-.||||||.-.
T Consensus 166 hGI~ipldtpl~~l~~~l~~~D~FLhivv~ 195 (197)
T PF04106_consen 166 HGIEIPLDTPLQWLYENLSYPDGFLHIVVR 195 (197)
T ss_dssp TTEEE-TTSBHHHHHHHH--TTS-EEEEEE
T ss_pred eCeeCCCCCcHHHHHHHccCCCCeEEEEEE
Confidence 898888899999999999999999999753
No 9
>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.
Probab=95.89 E-value=0.097 Score=42.61 Aligned_cols=87 Identities=15% Similarity=0.276 Sum_probs=72.1
Q ss_pred CCCeeeEEEEecCCCCCCCCccc-----------------eEEecCCCchHhHHHHHHHHh--------------CCCCC
Q 033386 26 YPDRIPVIVEKAEKTDVPDIDKK-----------------KYLVPADLSVGQFVYVVRKRI--------------KLSAE 74 (120)
Q Consensus 26 yp~~ipVIvE~~~~~~~p~L~k~-----------------Kflvp~~~tv~~~~~~lRk~l--------------~l~~~ 74 (120)
-+.||+-++.+...+..|.+.+. |.-.|.-+.|..+..+|-.|+ .+.++
T Consensus 211 e~~Ki~F~L~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~ 290 (331)
T PF11816_consen 211 EPPKISFVLQPWDGSLPPNLKPDGKSQKKIKLPPLSEGNSRLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPE 290 (331)
T ss_pred CCCeeEEEEeecCCCCccccCCCccccccccccccccccceecccchhhhHHHHHHHHHHhccCccccCccccccCCCCC
Confidence 34788888988875555555555 888999999999999999999 45778
Q ss_pred ceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEecC
Q 033386 75 KAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 75 ~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
+.|=|+||+.+..+++||+.|=..+=-..|-|.+.|..
T Consensus 291 e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 291 EWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred ceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEe
Confidence 99999999999889999999988854468899999964
No 10
>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=92.75 E-value=0.31 Score=30.35 Aligned_cols=49 Identities=10% Similarity=0.139 Sum_probs=38.9
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHH
Q 033386 47 KKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAI 95 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~l 95 (120)
...|.|..+.+++.++..++++.++++.+++-|+.++.-..++.|++++
T Consensus 12 ~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~ 60 (72)
T PF11976_consen 12 EIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDL 60 (72)
T ss_dssp EEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHH
T ss_pred EEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHC
Confidence 4678999999999999999999999985667777777655666677765
No 11
>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=91.14 E-value=1.6 Score=29.00 Aligned_cols=56 Identities=21% Similarity=0.310 Sum_probs=43.1
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEEEc----CC-CCCCCchHHHHHhHccCCCCeEEEE
Q 033386 51 LVPADLSVGQFVYVVRKRIKLSAEKAIFVFVK----NT-LPPTGALMSAIYEENKDEDGFLYMT 109 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn----~~-~p~~~~~~~~lY~~~kd~DGfLyi~ 109 (120)
-||.+.+++++...|++||++++ +.+-|.-. +. .|-.|+.|.....+=+ ||-|-+-
T Consensus 16 rvp~~~~y~~L~~ki~~kLkl~~-e~i~LsYkde~s~~~v~l~d~dle~aws~~~--~~~lTLw 76 (80)
T cd06406 16 QVARGLSYATLLQKISSKLELPA-EHITLSYKSEASGEDVILSDTNMEDVWSQAK--DGCLTLW 76 (80)
T ss_pred EcCCCCCHHHHHHHHHHHhCCCc-hhcEEEeccCCCCCccCcChHHHHHHHHhhc--CCeEEEE
Confidence 58999999999999999999984 45666553 22 3667889999998876 6666543
No 12
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=89.39 E-value=3.8 Score=30.64 Aligned_cols=78 Identities=17% Similarity=0.388 Sum_probs=55.6
Q ss_pred eeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEc-C-CC-CCCCchHHHHHhHccCCCCeE
Q 033386 30 IPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVK-N-TL-PPTGALMSAIYEENKDEDGFL 106 (120)
Q Consensus 30 ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn-~-~~-p~~~~~~~~lY~~~kd~DGfL 106 (120)
|-|+|...+.-.+| ....+-+|.+.|++++...|..++.......++|+++ | .+ +..+..++.+...-.+. +|+
T Consensus 1 i~Vlvss~~g~~lp--~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~-~~~ 77 (162)
T PF13019_consen 1 INVLVSSFDGLTLP--PTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDS-DFI 77 (162)
T ss_pred CeEEEecCCCCCCC--CeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCC-Cce
Confidence 34666554422222 3345679999999999999999999988877888886 4 45 56777889888777543 676
Q ss_pred EEEe
Q 033386 107 YMTY 110 (120)
Q Consensus 107 yi~Y 110 (120)
.+..
T Consensus 78 ~l~l 81 (162)
T PF13019_consen 78 TLRL 81 (162)
T ss_pred EEEE
Confidence 6654
No 13
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=87.34 E-value=1.9 Score=25.39 Aligned_cols=46 Identities=9% Similarity=0.053 Sum_probs=34.9
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 48 KKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
..+-|+.+.|++++...|.++.+++++. +=|+.++.....+.+|++
T Consensus 12 ~~~~v~~~~tv~~lk~~i~~~~~~~~~~-~~L~~~g~~L~d~~tL~~ 57 (64)
T smart00213 12 ITLEVKPSDTVSELKEKIAELTGIPVEQ-QRLIYKGKVLEDDRTLAD 57 (64)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHH-EEEEECCEECCCCCCHHH
Confidence 4467999999999999999999997663 445566665555666654
No 14
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=86.95 E-value=1.5 Score=36.16 Aligned_cols=73 Identities=19% Similarity=0.247 Sum_probs=59.4
Q ss_pred CCCCCccceEE-ecCCCchHhHHHHHHHHhC-CCCCceEEEEEcCCCCCCCchHHHHHhHccC--CCCeEEEEecCcc
Q 033386 41 DVPDIDKKKYL-VPADLSVGQFVYVVRKRIK-LSAEKAIFVFVKNTLPPTGALMSAIYEENKD--EDGFLYMTYSGEN 114 (120)
Q Consensus 41 ~~p~L~k~Kfl-vp~~~tv~~~~~~lRk~l~-l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd--~DGfLyi~Ys~~~ 114 (120)
.++.|. ++|+ ++...|+.++..++++++. ++..-.+=+++|+-+..-+.||.++.-.+.. .||-|-+.|...+
T Consensus 159 ~~k~l~-~~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~i~~~~~~~~r~~pL~l~y~v~p 235 (331)
T KOG2660|consen 159 TLKDLV-RRFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKDIAYAYRWRSRDPPLPLRYRVKP 235 (331)
T ss_pred cccccc-cceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhhhhhhhcccccCCcceeEecccc
Confidence 455555 5675 8999999999999999998 6666667788888888899999988877766 4999999998543
No 15
>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=86.91 E-value=7.6 Score=26.38 Aligned_cols=69 Identities=16% Similarity=0.234 Sum_probs=46.8
Q ss_pred CCCCCccceEE--ecCCCchHhHHHHHHHHh-CCCCCceEEEEEcCCCCCCCchHHHHHhHc---------cCCCC----
Q 033386 41 DVPDIDKKKYL--VPADLSVGQFVYVVRKRI-KLSAEKAIFVFVKNTLPPTGALMSAIYEEN---------KDEDG---- 104 (120)
Q Consensus 41 ~~p~L~k~Kfl--vp~~~tv~~~~~~lRk~l-~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~---------kd~DG---- 104 (120)
.+|+|. .- -|.+.|+.++...||.++ .-..+..|=|.-++.+.+.++.++..-... |..++
T Consensus 10 sipDl~---L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l~~~~~~~~~~~gk~~~~~~~~ 86 (97)
T PF10302_consen 10 SIPDLP---LDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSELKLPTARSSKGKGKAPERQEAP 86 (97)
T ss_pred CCCCce---eecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhhccccccCccccCcCccCCCCC
Confidence 677743 22 448899999999999999 555667786666777665666565554444 23333
Q ss_pred eEEEEecC
Q 033386 105 FLYMTYSG 112 (120)
Q Consensus 105 fLyi~Ys~ 112 (120)
-.||+.+.
T Consensus 87 ~~yIhCsI 94 (97)
T PF10302_consen 87 RIYIHCSI 94 (97)
T ss_pred eEEEEEec
Confidence 78888764
No 16
>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=86.48 E-value=1.1 Score=27.46 Aligned_cols=46 Identities=11% Similarity=0.073 Sum_probs=37.5
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHH
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAI 95 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~l 95 (120)
.+-|+.+.||+++...|-.+.++++++ +-|+.++.....+.+|+++
T Consensus 9 ~~~v~~~~tV~~lK~~i~~~~~~~~~~-~~L~~~G~~L~d~~tL~~~ 54 (69)
T PF00240_consen 9 TLEVDPDDTVADLKQKIAEETGIPPEQ-QRLIYNGKELDDDKTLSDY 54 (69)
T ss_dssp EEEEETTSBHHHHHHHHHHHHTSTGGG-EEEEETTEEESTTSBTGGG
T ss_pred EEEECCCCCHHHhhhhccccccccccc-ceeeeeeecccCcCcHHHc
Confidence 457999999999999999999988775 5566677766788888765
No 17
>KOG2976 consensus Protein involved in autophagy and nutrient starvation [Posttranslational modification, protein turnover, chaperones]
Probab=86.47 E-value=11 Score=30.37 Aligned_cols=91 Identities=18% Similarity=0.278 Sum_probs=54.8
Q ss_pred HHHHHHHHHHHHHh----CCCeeeEEEEec--C-------CCCCCCCccceEEecCCCchHhHHHHHHHHhC--CC----
Q 033386 12 LERRLAESARIREK----YPDRIPVIVEKA--E-------KTDVPDIDKKKYLVPADLSVGQFVYVVRKRIK--LS---- 72 (120)
Q Consensus 12 ~e~R~~e~~~i~~k----yp~~ipVIvE~~--~-------~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~--l~---- 72 (120)
|.+=..-+.++..- .+-+||+.+.-. + +...|. .-..+-...-+-.+|.++++ ++
T Consensus 162 fd~F~~Is~Kl~~s~e~n~~r~IPL~iy~sq~~t~r~f~~~~~~P~------~~~~d~~~stlge~l~d~~~~s~~s~d~ 235 (278)
T KOG2976|consen 162 FDDFWEISNKLMESVEDNRSRHIPLRIYTSQVKTARDFRTSLTFPC------ISQPDGSLSTLGEFLKDRLPDSLDSKDD 235 (278)
T ss_pred HHHHHHHHHHHHhhccccccccceeEeeccccccccchhhccccce------eecCchhhhhhhHHHHhhcccccCcccc
Confidence 34433444444444 889999999743 1 123331 11223333344445667764 12
Q ss_pred --CCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEe
Q 033386 73 --AEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTY 110 (120)
Q Consensus 73 --~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Y 110 (120)
.++. +.+.+--++..+.+..||......||||||+-
T Consensus 236 ~~~~~~--viihGIei~l~tpL~~l~~~L~ypD~FLHI~l 273 (278)
T KOG2976|consen 236 INGNDP--VIIHGIEIPLHTPLYWLYSNLSYPDGFLHIVL 273 (278)
T ss_pred ccccCc--eEEecccccccchHHHHHhhccCCCcceEEEE
Confidence 2233 45555557888999999999999999999975
No 18
>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=86.03 E-value=4 Score=22.25 Aligned_cols=42 Identities=19% Similarity=0.302 Sum_probs=31.8
Q ss_pred CccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCC
Q 033386 45 IDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPP 87 (120)
Q Consensus 45 L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~ 87 (120)
.....+.++.+.|++++...|..+.+.. .+...|++|+....
T Consensus 7 ~~~~~~~~~~~~tv~~l~~~i~~~~~~~-~~~~~l~~~~~~~~ 48 (69)
T cd00196 7 GKTVELLVPSGTTVADLKEKLAKKLGLP-PEQQRLLVNGKILP 48 (69)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHHCcC-hHHeEEEECCeECC
Confidence 3446678889999999999999999854 44567777765433
No 19
>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=79.92 E-value=3.9 Score=26.09 Aligned_cols=45 Identities=13% Similarity=0.102 Sum_probs=37.2
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEE--EcCCCCCCCchHHHH
Q 033386 51 LVPADLSVGQFVYVVRKRIKLSAEKAIFVF--VKNTLPPTGALMSAI 95 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~l~~~~slfl~--Vn~~~p~~~~~~~~l 95 (120)
-|+.+.|+++|...|-.+.+++++.-=.+| +.+..+..+.+++++
T Consensus 15 ~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~ 61 (74)
T cd01813 15 TTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISAL 61 (74)
T ss_pred EECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHc
Confidence 588999999999999999999987666666 456677788888876
No 20
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=79.72 E-value=5.6 Score=26.73 Aligned_cols=52 Identities=12% Similarity=0.236 Sum_probs=35.8
Q ss_pred cceEEecC-----CCchHhHHHHHHHHhCCCCCceEEE-EEcC--C-C-CCCCchHHHHHhH
Q 033386 47 KKKYLVPA-----DLSVGQFVYVVRKRIKLSAEKAIFV-FVKN--T-L-PPTGALMSAIYEE 98 (120)
Q Consensus 47 k~Kflvp~-----~~tv~~~~~~lRk~l~l~~~~slfl-~Vn~--~-~-p~~~~~~~~lY~~ 98 (120)
...|.+|. +.++.++..-|++++++.+...+-| |-+. . + ...|.-+.+.-+.
T Consensus 11 ~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~ 72 (91)
T cd06398 11 LRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQY 72 (91)
T ss_pred EEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHH
Confidence 35677885 7999999999999999987544444 4442 2 2 4556556555555
No 21
>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=77.33 E-value=9 Score=24.96 Aligned_cols=62 Identities=13% Similarity=0.159 Sum_probs=44.4
Q ss_pred CCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHH
Q 033386 27 PDRIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAI 95 (120)
Q Consensus 27 p~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~l 95 (120)
+.+|.|-|.- . .-+...|.|..+.|++.++..+..+.++++++--|+|- +.-...+.|+.++
T Consensus 9 ~~~i~I~v~~-~-----~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~-G~~L~~~~T~~~l 70 (87)
T cd01763 9 SEHINLKVKG-Q-----DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFD-GQRIRDNQTPDDL 70 (87)
T ss_pred CCeEEEEEEC-C-----CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEEC-CeECCCCCCHHHc
Confidence 4566666632 1 22345689999999999999999999999876666664 4444456677766
No 22
>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=76.96 E-value=11 Score=22.20 Aligned_cols=57 Identities=11% Similarity=0.086 Sum_probs=39.5
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccC-CCCeEEEEe
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKD-EDGFLYMTY 110 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd-~DGfLyi~Y 110 (120)
.+-++.+.|++++...|.++.+++++. +=|..++.....+.++++ +.- ++..+|+..
T Consensus 11 ~~~~~~~~ti~~lK~~i~~~~~~~~~~-~~l~~~g~~l~d~~~l~~----~~v~~~~~i~v~~ 68 (69)
T cd01769 11 ELEVSPDDTVAELKAKIAAKEGVPPEQ-QRLIYAGKILKDDKTLSD----YGIQDGSTLHLVL 68 (69)
T ss_pred EEEECCCChHHHHHHHHHHHHCcChHH-EEEEECCcCCCCcCCHHH----CCCCCCCEEEEEE
Confidence 467888999999999999999987764 334557666566677755 222 334566643
No 23
>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=76.02 E-value=6.3 Score=24.33 Aligned_cols=44 Identities=18% Similarity=0.174 Sum_probs=35.8
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
+-|+++.|++++...|-.+.++++++ .-|+.++.....+.++++
T Consensus 13 ~~v~~~~tV~~lK~~i~~~~gi~~~~-q~Li~~G~~L~d~~~l~~ 56 (70)
T cd01798 13 VEVDPDTDIKQLKEVVAKRQGVPPDQ-LRVIFAGKELRNTTTIQE 56 (70)
T ss_pred EEECCCChHHHHHHHHHHHHCCCHHH-eEEEECCeECCCCCcHHH
Confidence 45889999999999999999997654 566677776677788887
No 24
>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=75.62 E-value=6 Score=24.75 Aligned_cols=44 Identities=16% Similarity=0.178 Sum_probs=34.4
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
+-|+.+.||+++...|..+.++++++ .-|+.++.....+.++++
T Consensus 15 l~v~~~~tV~~lK~~i~~~~gi~~~~-q~L~~~G~~L~d~~~L~~ 58 (74)
T cd01807 15 LQVSEKESVSTLKKLVSEHLNVPEEQ-QRLLFKGKALADDKRLSD 58 (74)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHH-eEEEECCEECCCCCCHHH
Confidence 45889999999999999999998754 555667766666677755
No 25
>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=75.47 E-value=17 Score=22.63 Aligned_cols=42 Identities=7% Similarity=0.159 Sum_probs=34.5
Q ss_pred CCccceEEecCCCchHhHHHHHHHHh-CCCCCceEEEEEcCCC
Q 033386 44 DIDKKKYLVPADLSVGQFVYVVRKRI-KLSAEKAIFVFVKNTL 85 (120)
Q Consensus 44 ~L~k~Kflvp~~~tv~~~~~~lRk~l-~l~~~~slfl~Vn~~~ 85 (120)
.+...-+.||.+.|..++...+.+-| .....-..=++||+..
T Consensus 14 ~~~~~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~~ 56 (65)
T PF08154_consen 14 EVPGTPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGEE 56 (65)
T ss_pred cCCCCCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCEE
Confidence 45567899999999999999999998 6666667777888764
No 26
>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=75.04 E-value=11 Score=23.08 Aligned_cols=57 Identities=11% Similarity=0.083 Sum_probs=40.8
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCC-eEEEEec
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDG-FLYMTYS 111 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DG-fLyi~Ys 111 (120)
+-|+.+.|++++...|..+.+++++.--.+ .++.....+.++++. .-.|| .|++...
T Consensus 15 ~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~-~~g~~L~d~~tl~~~----~i~~g~~i~l~~~ 72 (76)
T cd01806 15 IDIEPTDKVERIKERVEEKEGIPPQQQRLI-YSGKQMNDDKTAADY----KLEGGSVLHLVLA 72 (76)
T ss_pred EEECCCCCHHHHHHHHhHhhCCChhhEEEE-ECCeEccCCCCHHHc----CCCCCCEEEEEEE
Confidence 569999999999999999999988753333 566655667777663 33344 6776654
No 27
>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=72.92 E-value=17 Score=23.83 Aligned_cols=58 Identities=9% Similarity=0.192 Sum_probs=42.8
Q ss_pred CCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC-CCCCchHHHHHhHccC
Q 033386 43 PDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTL-PPTGALMSAIYEENKD 101 (120)
Q Consensus 43 p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~-p~~~~~~~~lY~~~kd 101 (120)
|.+-=+.+-||++..+..++.+--...++++..+.- .-|+-. ..+.++-|+++-+|..
T Consensus 13 p~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsai-ItndG~GInP~QTag~vflKhGs 71 (76)
T PF03671_consen 13 PKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAI-ITNDGVGINPQQTAGNVFLKHGS 71 (76)
T ss_dssp STS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEE-EESSS-EE-TTSBHHHHHHHT-S
T ss_pred CCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEE-EecCCcccccchhhhhhHhhcCc
Confidence 444447788999999999999999999999988833 334344 7788999999999964
No 28
>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=71.76 E-value=25 Score=23.02 Aligned_cols=62 Identities=11% Similarity=0.131 Sum_probs=42.2
Q ss_pred eEEe--cCCCchHhHHHHHHHHhC-CCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEec
Q 033386 49 KYLV--PADLSVGQFVYVVRKRIK-LSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 49 Kflv--p~~~tv~~~~~~lRk~l~-l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys 111 (120)
-|-| +.+.||+++...|....+ ..+.+..=|.-.+++...+.+|++..+.-+ +.--+++.|+
T Consensus 15 ~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~-~~~tiHLV~~ 79 (79)
T cd01790 15 DQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQD-EYHMVHLVCA 79 (79)
T ss_pred EEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhccc-CCceEEEEeC
Confidence 3666 789999999999998774 332334444445666688899999987753 3335565553
No 29
>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=71.26 E-value=22 Score=22.09 Aligned_cols=63 Identities=11% Similarity=0.168 Sum_probs=47.0
Q ss_pred cceEEec-CCCchHhHHHHHHHHhCCCCCceEEEEEcC--C-C-CCCCchHHHHHhHccC-CCCeEEEE
Q 033386 47 KKKYLVP-ADLSVGQFVYVVRKRIKLSAEKAIFVFVKN--T-L-PPTGALMSAIYEENKD-EDGFLYMT 109 (120)
Q Consensus 47 k~Kflvp-~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~--~-~-p~~~~~~~~lY~~~kd-~DGfLyi~ 109 (120)
...|.+| .+.++.+|...|++++++....-.+=|.++ - + ...|+.+....+.++. .++.|.|.
T Consensus 11 ~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~~~~~~l~l~ 79 (81)
T cd05992 11 IRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSDEDLEEAIEEARRSGSKKLRLF 79 (81)
T ss_pred CEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhhcCCccEEEE
Confidence 3567888 999999999999999998764444556653 2 2 4677888888888864 46666654
No 30
>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=70.58 E-value=11 Score=23.47 Aligned_cols=56 Identities=13% Similarity=0.171 Sum_probs=38.8
Q ss_pred eEEecCCCchHhHHHHHHHHhCC--CCCceEEEEEcCCCCCCCchHHHHHhHccCCCC-eEEEE
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKL--SAEKAIFVFVKNTLPPTGALMSAIYEENKDEDG-FLYMT 109 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l--~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DG-fLyi~ 109 (120)
.+=|+.+.||+++...|..+.++ ++++ .-|..++.....+.++++ | +-.|| .|++.
T Consensus 14 ~l~v~~~~TV~~lK~~i~~~~~i~~~~~~-q~L~~~G~~L~d~~~L~~-~---~i~~~~~i~~~ 72 (77)
T cd01805 14 PIEVDPDDTVAELKEKIEEEKGCDYPPEQ-QKLIYSGKILKDDTTLEE-Y---KIDEKDFVVVM 72 (77)
T ss_pred EEEECCCCcHHHHHHHHHHhhCCCCChhH-eEEEECCEEccCCCCHHH-c---CCCCCCEEEEE
Confidence 35688999999999999999988 5554 445557766566677776 3 33333 56654
No 31
>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=69.24 E-value=22 Score=22.08 Aligned_cols=58 Identities=14% Similarity=0.214 Sum_probs=42.1
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEec
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys 111 (120)
+-|..+.||+++...|..+-++++++ .-|+.++.....+.++++ |.-. ++-.|++.-.
T Consensus 13 l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~~G~~L~D~~tL~~-~~i~--~~~tl~l~~~ 70 (74)
T cd01810 13 YEVQLTQTVATLKQQVSQRERVQADQ-FWLSFEGRPMEDEHPLGE-YGLK--PGCTVFMNLR 70 (74)
T ss_pred EEECCcChHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCCHHH-cCCC--CCCEEEEEEE
Confidence 56889999999999999998887654 455567776677788887 4332 2447777643
No 32
>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=66.22 E-value=17 Score=21.94 Aligned_cols=45 Identities=9% Similarity=0.177 Sum_probs=33.9
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
.+-++.+.|++++...|.++.+++++. .=|..++.....+.++++
T Consensus 14 ~~~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~~g~~L~d~~~L~~ 58 (72)
T cd01809 14 TFTVEEEITVLDLKEKIAEEVGIPVEQ-QRLIYSGRVLKDDETLSE 58 (72)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHH-eEEEECCEECCCcCcHHH
Confidence 467889999999999999999987654 333447766666677765
No 33
>cd01776 Rin1_RA Ubiquitin domain of RIN1 RAS effector. Rin1_RA RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form, that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles. In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=66.14 E-value=15 Score=24.80 Aligned_cols=37 Identities=24% Similarity=0.468 Sum_probs=31.7
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCC--CCceEEEEEcCC
Q 033386 48 KKYLVPADLSVGQFVYVVRKRIKLS--AEKAIFVFVKNT 84 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~l~l~--~~~slfl~Vn~~ 84 (120)
+-..|+.+.|..++....-.+..+. .+-+||+||++.
T Consensus 16 KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~ 54 (87)
T cd01776 16 KTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEET 54 (87)
T ss_pred eeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCc
Confidence 3467999999999999999999875 467899999974
No 34
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=65.06 E-value=19 Score=21.99 Aligned_cols=59 Identities=8% Similarity=0.137 Sum_probs=40.2
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEec
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys 111 (120)
.+-|+.+.||+++...|.++.++++++ .=|+.++.....+.++++ |.-. ++.-+++...
T Consensus 14 ~~~v~~~~tV~~lK~~i~~~~g~~~~~-q~L~~~g~~L~d~~~L~~-~~i~--~~~~i~l~~~ 72 (76)
T cd01803 14 TLEVEPSDTIENVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLSD-YNIQ--KESTLHLVLR 72 (76)
T ss_pred EEEECCcCcHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCcHHH-cCCC--CCCEEEEEEE
Confidence 367999999999999999999987654 334456665566667766 3221 2336666554
No 35
>PF12752 SUZ: SUZ domain; InterPro: IPR024771 The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched in positively charged amino acids. It was first characterised in the Caenorhabditis elegans protein SZY-20 where it has been shown to bind RNA and allow their localization to the centrosome [].
Probab=64.87 E-value=7.7 Score=23.85 Aligned_cols=19 Identities=37% Similarity=0.440 Sum_probs=16.4
Q ss_pred cccCCHHHHHHHHHHHHHh
Q 033386 7 KLEHPLERRLAESARIREK 25 (120)
Q Consensus 7 k~~~s~e~R~~e~~~i~~k 25 (120)
....|||+|..+++..|++
T Consensus 35 ~~~kSlEERE~eY~~AR~R 53 (59)
T PF12752_consen 35 RPSKSLEEREAEYAEARAR 53 (59)
T ss_pred cccCCHHHHHHHHHHHHHH
Confidence 4578999999999999874
No 36
>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=64.06 E-value=33 Score=21.41 Aligned_cols=62 Identities=18% Similarity=0.225 Sum_probs=45.7
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcC---CC-CCCCchHHHHHhHccCC-CCeEEE
Q 033386 47 KKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKN---TL-PPTGALMSAIYEENKDE-DGFLYM 108 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~---~~-p~~~~~~~~lY~~~kd~-DGfLyi 108 (120)
...+.+|.+.|+.+|...|.+++++..+.-..-|.++ -+ .+.|+.|....+.++.. .+.|-|
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~~~~~~l~l 78 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDSLGSKKLRL 78 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHHHHHHHHHHcCCceEEE
Confidence 4568899999999999999999998765555567763 13 57788888888887643 344443
No 37
>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=63.34 E-value=17 Score=21.98 Aligned_cols=44 Identities=5% Similarity=0.078 Sum_probs=31.5
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
+-|+.+.|++++...|.+.-+++++. .=|+.++.....+.++++
T Consensus 14 i~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~~g~~l~d~~~L~~ 57 (71)
T cd01812 14 LSISSQATFGDLKKMLAPVTGVEPRD-QKLIFKGKERDDAETLDM 57 (71)
T ss_pred EEECCCCcHHHHHHHHHHhhCCChHH-eEEeeCCcccCccCcHHH
Confidence 55889999999999999998988753 334455554444556644
No 38
>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=63.13 E-value=14 Score=23.07 Aligned_cols=55 Identities=15% Similarity=0.205 Sum_probs=35.2
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCC-chHHHHHhHccCCCCeEEE
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTG-ALMSAIYEENKDEDGFLYM 108 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~-~~~~~lY~~~kd~DGfLyi 108 (120)
.-|+++.||+++...|..+-++++++ .-|+.++.....+ .++.+ |. -+ ++.+|++
T Consensus 14 l~v~~~~TV~~lK~~I~~~~gip~~~-q~Li~~Gk~L~D~~~~L~~-~g-i~-~~~~l~l 69 (71)
T cd01796 14 LDVDPDLELENFKALCEAESGIPASQ-QQLIYNGRELVDNKRLLAL-YG-VK-DGDLVVL 69 (71)
T ss_pred EEECCcCCHHHHHHHHHHHhCCCHHH-eEEEECCeEccCCcccHHH-cC-CC-CCCEEEE
Confidence 56889999999999999999998765 3444455533434 33433 32 21 3446665
No 39
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=63.06 E-value=9.9 Score=28.79 Aligned_cols=47 Identities=21% Similarity=0.521 Sum_probs=37.1
Q ss_pred CCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCC-eEEEEecCccccC
Q 033386 55 DLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDG-FLYMTYSGENTFG 117 (120)
Q Consensus 55 ~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DG-fLyi~Ys~~~afG 117 (120)
.+++..++.-|++.++++..+ .-..++.+|... ..|| |+++ +.+.||
T Consensus 30 ~~~F~dii~EI~~~~~~s~~e------------i~~~i~~FYTdl-n~DgrFi~L---Gdn~Wg 77 (175)
T COG3343 30 PFNFSDIINEIQKLLGVSKEE------------IRSRIGQFYTDL-NIDGRFISL---GDNKWG 77 (175)
T ss_pred CccHHHHHHHHHHHhCcCHHH------------HHHHHHHHHHHh-ccCCceeec---cccccc
Confidence 688999999999999887543 135799999999 5676 6665 678888
No 40
>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=62.15 E-value=27 Score=21.75 Aligned_cols=59 Identities=12% Similarity=0.026 Sum_probs=41.8
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEE
Q 033386 47 KKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMT 109 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~ 109 (120)
...+-|..+.||+++...|..+-++++++ .-|+.++.....+.++++ |.-- ++--|++.
T Consensus 10 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~-q~Li~~Gk~L~D~~tL~~-~~i~--~~~tl~l~ 68 (74)
T cd01793 10 THTLEVTGQETVSDIKAHVAGLEGIDVED-QVLLLAGVPLEDDATLGQ-CGVE--ELCTLEVA 68 (74)
T ss_pred EEEEEECCcCcHHHHHHHHHhhhCCCHHH-EEEEECCeECCCCCCHHH-cCCC--CCCEEEEE
Confidence 34567899999999999999998887665 455566766677788877 4432 23355554
No 41
>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=62.00 E-value=11 Score=29.42 Aligned_cols=59 Identities=17% Similarity=0.369 Sum_probs=36.4
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEc---CCC--CCCCchHHHHHhHccCCCC-eEEEEec
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVK---NTL--PPTGALMSAIYEENKDEDG-FLYMTYS 111 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn---~~~--p~~~~~~~~lY~~~kd~DG-fLyi~Ys 111 (120)
.+.|+.+.+++++...|+++++++++..|-||-- +.+ ..++.++.+ .+- .|| .|+.+-.
T Consensus 88 h~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~--~el--~~GdIi~fQ~~ 152 (249)
T PF12436_consen 88 HVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEK--AEL--QDGDIICFQRA 152 (249)
T ss_dssp EEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHH--TT----TTEEEEEEE-
T ss_pred EEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhh--ccc--CCCCEEEEEec
Confidence 5789999999999999999999999999988864 222 356667766 222 344 5555543
No 42
>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=60.90 E-value=24 Score=22.07 Aligned_cols=45 Identities=16% Similarity=0.095 Sum_probs=34.4
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
.+-|+.+.||+++...|..+-++++++- =|+.++.....+.++++
T Consensus 12 ~l~v~~~~TV~~lK~~I~~~~gi~~~~q-~Li~~G~~L~D~~~l~~ 56 (70)
T cd01794 12 KLSVSSKDTVGQLKKQLQAAEGVDPCCQ-RWFFSGKLLTDKTRLQE 56 (70)
T ss_pred EEEECCcChHHHHHHHHHHHhCCCHHHe-EEEECCeECCCCCCHHH
Confidence 3568889999999999999988887643 33445666677788877
No 43
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=60.75 E-value=12 Score=25.27 Aligned_cols=44 Identities=14% Similarity=0.143 Sum_probs=30.6
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEEEc-CC---CCCCCchHHH
Q 033386 51 LVPADLSVGQFVYVVRKRIKLSAEKAIFVFVK-NT---LPPTGALMSA 94 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn-~~---~p~~~~~~~~ 94 (120)
..++..||+.+...+|+.+.++.+-.|+-+-+ ++ +-.++.|+.+
T Consensus 19 ~FSk~DTI~~v~~~~rklf~i~~E~RLW~~~~~~~~e~L~~~~~Tv~d 66 (88)
T PF14836_consen 19 QFSKTDTIGFVEKEMRKLFNIQEETRLWNKYSENSYELLNNPEITVED 66 (88)
T ss_dssp EE-TTSBHHHHHHHHHHHCT-TS-EEEEEECTTTCEEEE--TTSBTTT
T ss_pred hccccChHHHHHHHHHHHhCCCccceehhccCCcchhhhCCCCccHHH
Confidence 57889999999999999999977778887665 33 3455666654
No 44
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=60.52 E-value=47 Score=22.01 Aligned_cols=62 Identities=13% Similarity=0.217 Sum_probs=46.7
Q ss_pred ccceEEecC--CCchHhHHHHHHHHhCCCCCceEEE-EEcC----CCCCCCchHHHHHhHccCCCCeEEEEe
Q 033386 46 DKKKYLVPA--DLSVGQFVYVVRKRIKLSAEKAIFV-FVKN----TLPPTGALMSAIYEENKDEDGFLYMTY 110 (120)
Q Consensus 46 ~k~Kflvp~--~~tv~~~~~~lRk~l~l~~~~slfl-~Vn~----~~p~~~~~~~~lY~~~kd~DGfLyi~Y 110 (120)
+...|.++. +.++.++..-|+++.+++ ++-| |+++ .+.+.+..+.+.++.+....+.|-|+-
T Consensus 10 d~~rf~~~~~~~~~~~~L~~ev~~rf~l~---~f~lKYlDde~e~v~lssd~eLeE~~rl~~~~~~~l~~~v 78 (81)
T cd06396 10 ESQSFLVSDSENTTWASVEAMVKVSFGLN---DIQIKYVDEENEEVSVNSQGEYEEALKSAVRQGNLLQMNV 78 (81)
T ss_pred eEEEEEecCCCCCCHHHHHHHHHHHhCCC---cceeEEEcCCCCEEEEEchhhHHHHHHHHHhCCCEEEEEE
Confidence 346789988 779999999999999999 4433 6653 246778888888888766666666654
No 45
>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=59.95 E-value=36 Score=21.67 Aligned_cols=45 Identities=13% Similarity=0.035 Sum_probs=32.3
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
.+-|+.+.||+++...|-.+-+++++. .-||-+..+-..+.+|++
T Consensus 16 ~l~v~~~~TV~~lK~kI~~~~gip~~~-QrL~~G~~L~dD~~tL~~ 60 (75)
T cd01799 16 WLTVRPDMTVAQLKDKVFLDYGFPPAV-QRWVIGQRLARDQETLYS 60 (75)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHH-EEEEcCCeeCCCcCCHHH
Confidence 366899999999999999999998753 233444444445567765
No 46
>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=59.73 E-value=25 Score=22.30 Aligned_cols=43 Identities=12% Similarity=0.098 Sum_probs=32.2
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 51 LVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
-|+++.||+++...|-.+-+++++.-=.+|. +.....+.++++
T Consensus 17 ~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~-Gk~L~D~~tL~~ 59 (73)
T cd01791 17 KCNPDDTIGDLKKLIAAQTGTRPEKIVLKKW-YTIFKDHISLGD 59 (73)
T ss_pred EeCCCCcHHHHHHHHHHHhCCChHHEEEEeC-CcCCCCCCCHHH
Confidence 5889999999999998888888765444554 555555667776
No 47
>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=58.93 E-value=21 Score=21.99 Aligned_cols=58 Identities=16% Similarity=0.192 Sum_probs=39.2
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEe
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTY 110 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Y 110 (120)
.+-|..+.||+++...|.++.++++. .+-|.-++.....+.++++. . -+ ++..|+|.-
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~~-~~~Li~~Gk~L~d~~tL~~~-~-i~-~~stl~l~~ 70 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQE-QLVLIFAGKILKDTDTLTQH-N-IK-DGLTVHLVI 70 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHH-HEEEEECCeEcCCCCcHHHc-C-CC-CCCEEEEEE
Confidence 46688999999999999988887654 44454466655566677553 1 21 355777753
No 48
>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=57.70 E-value=24 Score=23.09 Aligned_cols=54 Identities=17% Similarity=0.275 Sum_probs=38.6
Q ss_pred ccceEEecCCCchHhHHHHHHHHhCCCCCceEEE-EEcCC----CCCCCchHHHHHhHc
Q 033386 46 DKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFV-FVKNT----LPPTGALMSAIYEEN 99 (120)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl-~Vn~~----~p~~~~~~~~lY~~~ 99 (120)
+.-.|-+|.+.++.++...|++++++.....+-| |.++- ..+.|+-+.+..+-+
T Consensus 10 d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~ 68 (82)
T cd06407 10 EKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVY 68 (82)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHH
Confidence 3456889999999999999999999976455555 66542 356676666644433
No 49
>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=56.95 E-value=47 Score=20.86 Aligned_cols=64 Identities=6% Similarity=0.041 Sum_probs=44.0
Q ss_pred ccceEEecCCCchHhHHHHHHHHhCCCCC-ceEEEE--EcC-C---CCCCCchHHHHHhHccCC--CCeEEEE
Q 033386 46 DKKKYLVPADLSVGQFVYVVRKRIKLSAE-KAIFVF--VKN-T---LPPTGALMSAIYEENKDE--DGFLYMT 109 (120)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~l~l~~~-~slfl~--Vn~-~---~p~~~~~~~~lY~~~kd~--DGfLyi~ 109 (120)
.-+.+.|+.+.|+++++..+-+++++..+ +...|+ ... . ....++..-.+....... ++.+++.
T Consensus 17 ~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~~~~~~~~~f~lr 89 (93)
T PF00788_consen 17 TYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQWPKDSQNSRFVLR 89 (93)
T ss_dssp SEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTTSSGTTTEEEEEE
T ss_pred cEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhCccccCceEEEEE
Confidence 45778999999999999999999999333 334442 322 1 346667777777766543 6677664
No 50
>PF00837 T4_deiodinase: Iodothyronine deiodinase; InterPro: IPR000643 Iodothyronine deiodinase (1.97.1.10 from EC) (DI) [] is the vertebrate enzyme responsible for the deiodination of the prohormone thyroxine (T4 or 3,5,3',5'-tetraiodothyronine) into the biologically active hormone T3 (3,5,3'-triiodothyronine) and of T3 into the inactive metabolite T2 (3,3'-diiodothyronine). All known DI are proteins of about 250 residues that contain a selenocysteine at their active site. Three types of DI are known, type II is essential for providing the brain with the appropriate levels of T3 during the critical period of development, and type III is essential for the regulation of thyroid hormone inactivation during embryological development.; GO: 0004800 thyroxine 5'-deiodinase activity, 0055114 oxidation-reduction process
Probab=56.05 E-value=15 Score=29.03 Aligned_cols=34 Identities=24% Similarity=0.567 Sum_probs=29.5
Q ss_pred CcccccCCHHHHHHHHHHHHHhCCCeeeEEEEecC
Q 033386 4 SSFKLEHPLERRLAESARIREKYPDRIPVIVEKAE 38 (120)
Q Consensus 4 ~~fk~~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~ 38 (120)
..+++..|+|+|..-++.+++++| ..||+|-.-.
T Consensus 158 ~~i~qh~sledR~~aA~~l~~~~~-~~pi~vD~md 191 (237)
T PF00837_consen 158 YEIPQHRSLEDRLRAAKLLKEEFP-QCPIVVDTMD 191 (237)
T ss_pred eeecCCCCHHHHHHHHHHHHhhCC-CCCEEEEccC
Confidence 467889999999999999999997 5899997654
No 51
>PTZ00044 ubiquitin; Provisional
Probab=55.50 E-value=36 Score=20.95 Aligned_cols=45 Identities=9% Similarity=0.132 Sum_probs=32.8
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHH
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
.+-|+.+.|++++...|..+.++++++--.+ .++.....+.++++
T Consensus 14 ~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~-~~g~~L~d~~~l~~ 58 (76)
T PTZ00044 14 SFNFEPDNTVQQVKMALQEKEGIDVKQIRLI-YSGKQMSDDLKLSD 58 (76)
T ss_pred EEEECCCCcHHHHHHHHHHHHCCCHHHeEEE-ECCEEccCCCcHHH
Confidence 4678999999999999999999987643333 45555556666643
No 52
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=53.70 E-value=32 Score=24.04 Aligned_cols=26 Identities=12% Similarity=0.195 Sum_probs=22.4
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCc
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~ 75 (120)
-.|+.+.||+++...|..++++.|.+
T Consensus 19 L~V~~~~TVg~LK~lImQ~f~V~P~d 44 (107)
T cd01795 19 LLVSANQTLKELKIQIMHAFSVAPFD 44 (107)
T ss_pred EEeCccccHHHHHHHHHHHhcCCccc
Confidence 46899999999999999999988753
No 53
>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=52.82 E-value=27 Score=22.17 Aligned_cols=59 Identities=7% Similarity=0.098 Sum_probs=38.4
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCc-eEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEecC
Q 033386 51 LVPADLSVGQFVYVVRKRIKLSAEK-AIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~l~~~~-slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
-|+.+.||+++...|-++.+++++. .|.+..++.....+.++++ |. -+ ++..|++.-+.
T Consensus 18 ~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~-~g-i~-~gs~l~l~~~~ 77 (80)
T cd01792 18 SLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVS-QG-LG-PGSTVLLVVQN 77 (80)
T ss_pred EcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHH-cC-CC-CCCEEEEEEEc
Confidence 4688999999999999988887643 3322225555556667765 22 21 45578876553
No 54
>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=51.59 E-value=33 Score=21.52 Aligned_cols=58 Identities=5% Similarity=0.039 Sum_probs=39.4
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEec
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys 111 (120)
+-|+.+.||++|...|....+++++. .=|..++.....+.++++. ... ++..|+|.-.
T Consensus 12 l~v~~~~TV~~lK~~i~~~~gip~~~-q~L~~~G~~L~d~~tL~~~-~i~--~g~~l~v~~~ 69 (76)
T cd01800 12 FTLQLSDPVSVLKVKIHEETGMPAGK-QKLQYEGIFIKDSNSLAYY-NLA--NGTIIHLQLK 69 (76)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHH-EEEEECCEEcCCCCcHHHc-CCC--CCCEEEEEEe
Confidence 45889999999999999999987754 3444566666666777642 222 3346666544
No 55
>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=50.87 E-value=51 Score=20.51 Aligned_cols=52 Identities=15% Similarity=0.269 Sum_probs=42.6
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcC--C-C-CCCCchHHHHHhHccC
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKN--T-L-PPTGALMSAIYEENKD 101 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~--~-~-p~~~~~~~~lY~~~kd 101 (120)
+-++.+.++.+|...|++++++.+..-..-|.+. - + .+.|+.+.+..+.++.
T Consensus 16 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~~ 71 (84)
T PF00564_consen 16 ISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDEDLQEAIEQAKE 71 (84)
T ss_dssp EEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHHHHHHHHHHHH
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHHHHHHHHHHHh
Confidence 6789999999999999999999867767778863 2 3 5778888888888764
No 56
>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=48.67 E-value=47 Score=21.63 Aligned_cols=44 Identities=9% Similarity=0.116 Sum_probs=29.3
Q ss_pred EecCCCchHhHHHHHHHHhC--CCCCceEEEEEcCCCCCCCchHHH
Q 033386 51 LVPADLSVGQFVYVVRKRIK--LSAEKAIFVFVKNTLPPTGALMSA 94 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~--l~~~~slfl~Vn~~~p~~~~~~~~ 94 (120)
.-|.+.||+++...|..+.+ ..+.+..=|.-+++....+.+|++
T Consensus 16 ~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~d 61 (75)
T cd01815 16 VSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDF 61 (75)
T ss_pred cCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHH
Confidence 35889999999999999964 542333333344555566677765
No 57
>KOG1209 consensus 1-Acyl dihydroxyacetone phosphate reductase and related dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=47.85 E-value=40 Score=27.09 Aligned_cols=52 Identities=19% Similarity=0.155 Sum_probs=42.1
Q ss_pred CccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCC-----CCCCCchHHHHHhHcc
Q 033386 45 IDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNT-----LPPTGALMSAIYEENK 100 (120)
Q Consensus 45 L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~-----~p~~~~~~~~lY~~~k 100 (120)
|.-.|.=|.++..|.+|...+|+. +...|=+++||. .|..|.+++++=+||+
T Consensus 54 l~~~kLDV~~~~~V~~v~~evr~~----~~Gkld~L~NNAG~~C~~Pa~d~~i~ave~~f~ 110 (289)
T KOG1209|consen 54 LKPYKLDVSKPEEVVTVSGEVRAN----PDGKLDLLYNNAGQSCTFPALDATIAAVEQCFK 110 (289)
T ss_pred CeeEEeccCChHHHHHHHHHHhhC----CCCceEEEEcCCCCCcccccccCCHHHHHhhhc
Confidence 344566688999999999999875 456788888874 5999999999999995
No 58
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=47.77 E-value=15 Score=28.05 Aligned_cols=50 Identities=18% Similarity=0.348 Sum_probs=29.0
Q ss_pred ccceEEecCCCchHhHHHHHHHHhCCCCC--ceEEEE-E-cCC---CCCCCchHHHH
Q 033386 46 DKKKYLVPADLSVGQFVYVVRKRIKLSAE--KAIFVF-V-KNT---LPPTGALMSAI 95 (120)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~l~l~~~--~slfl~-V-n~~---~p~~~~~~~~l 95 (120)
+.-.++||.+-||++++.-++++++++.+ ..|-|+ | |++ ..+.+..+++|
T Consensus 34 ~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 34 QEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp -EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred eEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 45678999999999999999999998754 334332 3 333 35688888877
No 59
>PF05717 TnpB_IS66: IS66 Orf2 like protein; InterPro: IPR008878 Thess proteins are found in insertion sequences related to IS66. The function of these proteins is uncertain, but they are probably essential for transposition []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=44.94 E-value=33 Score=23.59 Aligned_cols=27 Identities=22% Similarity=0.502 Sum_probs=22.7
Q ss_pred chHhHHHHHHHHhCCCC-CceEEEEEcC
Q 033386 57 SVGQFVYVVRKRIKLSA-EKAIFVFVKN 83 (120)
Q Consensus 57 tv~~~~~~lRk~l~l~~-~~slfl~Vn~ 83 (120)
.+.-+..+++..++.+| +.++|+|+|.
T Consensus 16 g~dgL~~lV~~~~~~dp~~g~~fvF~nr 43 (107)
T PF05717_consen 16 GIDGLAALVREELGLDPFSGDLFVFCNR 43 (107)
T ss_pred ChhHHHHHHHHhhcCCCCcceEEEEEec
Confidence 45778899999999874 6789999995
No 60
>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=44.88 E-value=54 Score=20.74 Aligned_cols=58 Identities=17% Similarity=0.241 Sum_probs=39.1
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEecC
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
.-|+.+.||+++...|.++.+++++. .-|..++.....+ ++++ | .-+ ++..||+.-+-
T Consensus 16 l~v~~~~TV~~LK~~I~~~~~~~~~~-qrL~~~Gk~L~d~-~L~~-~-gi~-~~~~i~l~~~~ 73 (78)
T cd01804 16 LSVPPDETVEGLKKRISQRLKVPKER-LALLHRETRLSSG-KLQD-L-GLG-DGSKLTLVPTV 73 (78)
T ss_pred EEECCcCHHHHHHHHHHHHhCCChHH-EEEEECCcCCCCC-cHHH-c-CCC-CCCEEEEEeec
Confidence 56899999999999999888887754 4444445443334 6554 2 222 45688887655
No 61
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=43.58 E-value=49 Score=21.23 Aligned_cols=32 Identities=9% Similarity=0.141 Sum_probs=26.2
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCC-ceEEEE
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAE-KAIFVF 80 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~-~slfl~ 80 (120)
.-.+|.++||+++...|-+..+++++ ..|+++
T Consensus 17 ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 17 EKRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 35799999999999999999999865 566665
No 62
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=42.76 E-value=29 Score=21.93 Aligned_cols=41 Identities=17% Similarity=0.252 Sum_probs=28.7
Q ss_pred eEEecCC-CchHhHHHHHHHHhC-C-CCCceEEEEEcCCCCCCC
Q 033386 49 KYLVPAD-LSVGQFVYVVRKRIK-L-SAEKAIFVFVKNTLPPTG 89 (120)
Q Consensus 49 Kflvp~~-~tv~~~~~~lRk~l~-l-~~~~slfl~Vn~~~p~~~ 89 (120)
.+-++.+ .|++++...|..+.. + .....+.+.||+.....+
T Consensus 19 ~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~~ 62 (80)
T TIGR01682 19 TLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTDD 62 (80)
T ss_pred EEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCCC
Confidence 4457766 899999999988864 2 223567899998754434
No 63
>PRK04115 hypothetical protein; Provisional
Probab=42.73 E-value=1.1e+02 Score=22.27 Aligned_cols=55 Identities=22% Similarity=0.387 Sum_probs=33.2
Q ss_pred HHHHHHHhCCC-----eeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCC----CCCceEEEEE
Q 033386 18 ESARIREKYPD-----RIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKL----SAEKAIFVFV 81 (120)
Q Consensus 18 e~~~i~~kyp~-----~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l----~~~~slfl~V 81 (120)
|.+.+.+--|. ++|+|+|..+. ...-.|.|....-+ .+|.+=|+. ..++.+++|=
T Consensus 51 ELe~L~~~l~~~~~~lrLPIile~~~~-----~~~g~~~VrG~~ev----k~IskiLg~~~~~~e~~~l~lyr 114 (137)
T PRK04115 51 ELEFLKELLDEDACRLRLPIILEIDSS-----LGEGAIVVRGKEEV----KVISKILGKEDIFSEEDILYLYR 114 (137)
T ss_pred HHHHHHHhccchhhheeeeEEEEEecC-----CCceEEEEcCHHHH----HHHHHHhCccccccCCCEEEEec
Confidence 55556555553 69999999762 22245777777643 344555543 3566666653
No 64
>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=42.09 E-value=24 Score=24.87 Aligned_cols=52 Identities=13% Similarity=0.240 Sum_probs=33.4
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCC----ceEEEEEcCCCC----CCCchHHHHHhHc
Q 033386 48 KKYLVPADLSVGQFVYVVRKRIKLSAE----KAIFVFVKNTLP----PTGALMSAIYEEN 99 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~l~l~~~----~slfl~Vn~~~p----~~~~~~~~lY~~~ 99 (120)
.+|.|+.++|+++|+..++++.++..+ ..-.||..-..+ ..+++|.+|++.-
T Consensus 35 Dr~~v~~~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~f~~~~~~~rl~~~i~elv~~v 94 (125)
T PF09358_consen 35 DRIEVNGDMTLQELIDYFKEKYGLEVTMLSQGVSLLYSSFPPPKHKERLKMPISELVEEV 94 (125)
T ss_dssp -EEEEES--BHHHHHHHHHHTTS-EEEEEEETTEEEEETT-HHHHHHHTTSBHHHHHHHH
T ss_pred eEEEEcCCCCHHHHHHHHHHHhCceEEEEEeCCEEEEecCChhhhHHHhCCcHHHHHHHh
Confidence 378899999999999999999988743 122333322001 2577999999964
No 65
>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=42.00 E-value=86 Score=26.30 Aligned_cols=59 Identities=12% Similarity=0.131 Sum_probs=42.5
Q ss_pred EecCCCchHhHHHHHHHHhC---CCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEecCc
Q 033386 51 LVPADLSVGQFVYVVRKRIK---LSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~---l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
-|..+.||++|...|...-+ +..++ +=|+.++++...+.+|++ |. -+ ++.+|++--+..
T Consensus 16 eV~~~~TV~dLK~kI~~~~g~~~ip~~~-QkLIy~GkiL~Dd~tL~d-y~-I~-e~~~Ivvmv~k~ 77 (378)
T TIGR00601 16 DMEPDETVKELKEKIEAEQGKDAYPVAQ-QKLIYSGKILSDDKTVRE-YK-IK-EKDFVVVMVSKP 77 (378)
T ss_pred EeCCcChHHHHHHHHHHhhCCCCCChhH-eEEEECCEECCCCCcHHH-cC-CC-CCCEEEEEeccC
Confidence 47899999999999988876 65443 455667777777888877 32 22 566888876653
No 66
>PF01886 DUF61: Protein of unknown function DUF61; InterPro: IPR002746 The proteins in this entry are functionally uncharacterised.
Probab=41.91 E-value=66 Score=23.04 Aligned_cols=56 Identities=23% Similarity=0.465 Sum_probs=36.2
Q ss_pred HHHHHHHHHhCCC------eeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCC----CceEEEE
Q 033386 16 LAESARIREKYPD------RIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSA----EKAIFVF 80 (120)
Q Consensus 16 ~~e~~~i~~kyp~------~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~----~~slfl~ 80 (120)
+.|.+.+.+.-|. ++|+|+|..+ .+....|.|....-+- +|++=|++.. ++.+++|
T Consensus 46 k~ELe~L~~~lp~~~~~~lrLPIile~~~-----~~~~g~~~V~g~~e~k----~i~~ilg~~~~~~~~~~l~i~ 111 (132)
T PF01886_consen 46 KEELERLAEILPEYEWSKLRLPIILEIDP-----TLGEGSYRVRGKEEVK----AISKILGKEREFEEEDELYIY 111 (132)
T ss_pred HHHHHHHHHhCCHHHHhceeccEEEEEec-----cCCCceEEEeCHHHHH----HHHHHhCCCcccccCCeEEEc
Confidence 4577888887774 5999999865 3444567888777433 3444455443 5666665
No 67
>PF00255 GSHPx: Glutathione peroxidase; InterPro: IPR000889 Glutathione peroxidase (GSHPx) (1.11.1.9 from EC) is an enzyme that catalyses the reduction of hydroxyperoxides by glutathione [, ]. Its main function is to protect against the damaging effect of endogenously formed hydroxyperoxides. In higher vertebrates, several forms of GSHPx are known, including a ubiquitous cytosolic form (GSHPx-1), a gastrointestinal cytosolic form (GSHPx-GI), a plasma secreted form (GSHPx-P), and an epididymal secretory form (GSHPx-EP). In addition to these characterised forms, the sequence of a protein of unknown function [] has been shown to be evolutionary related to those of GSHPx's. In filarial nematode parasites, the major soluble cuticular protein (gp29) is a secreted GSHPx, which may provide a mechanism of resistance to the immune reaction of the mammalian host by neutralising the products of the oxidative burst of leukocytes []. The Escherichia coli protein btuE, a periplasmic protein involved in vitamin B12 transport, is evolutionarily related to GSHPxs, although the significance of this relationship is unclear. The structure of bovine seleno-glutathione peroxidase has been determined []. The protein belongs to the alpha-beta class, with a 3 layer(aba) sandwich architecture. The catalyic site of GSHPx contains a conserved residue which is either a cysteine or, in many eukaryotic GSHPx, a selenocysteine []. ; GO: 0004602 glutathione peroxidase activity, 0006979 response to oxidative stress, 0055114 oxidation-reduction process; PDB: 3E0U_A 2VUP_A 2RM5_A 2RM6_A 3DWV_B 2P31_B 2R37_B 1GP1_B 2F8A_B 3KIJ_C ....
Probab=40.87 E-value=32 Score=23.72 Aligned_cols=39 Identities=18% Similarity=0.442 Sum_probs=27.2
Q ss_pred EEEEEcCC----C-CCCCchHHHHHhHccCCCCeEEEEecCccccCC
Q 033386 77 IFVFVKNT----L-PPTGALMSAIYEENKDEDGFLYMTYSGENTFGW 118 (120)
Q Consensus 77 lfl~Vn~~----~-p~~~~~~~~lY~~~kd~DGfLyi~Ys~~~afG~ 118 (120)
+-|.||=+ + + .=..|.+||++|+ ++|+.+|.+-..+ ||.
T Consensus 23 v~LIVNvAs~Cg~t~-qy~~L~~L~~ky~-~~gl~ILaFPcnq-Fg~ 66 (108)
T PF00255_consen 23 VLLIVNVASKCGYTK-QYKQLNELYEKYK-DKGLEILAFPCNQ-FGN 66 (108)
T ss_dssp EEEEEEEESSSTTHH-HHHHHHHHHHHHG-GGTEEEEEEEBST-TTT
T ss_pred EEEEEecccccCCcc-ccHHHHHHHHHHh-cCCeEEEeeehHH-hcc
Confidence 45666622 1 2 3348999999997 5899999998655 553
No 68
>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=40.75 E-value=21 Score=23.27 Aligned_cols=57 Identities=12% Similarity=0.229 Sum_probs=30.3
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCC----CC-CCCchHHHHHhHccCCCCeEEE
Q 033386 48 KKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNT----LP-PTGALMSAIYEENKDEDGFLYM 108 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~----~p-~~~~~~~~lY~~~kd~DGfLyi 108 (120)
...-++.+.|++++..-|...++++.. +..||.+.. +. +.+.+|+++==+|+| .||+
T Consensus 16 ~Rie~~~~~t~~~L~~kI~~~l~~~~~-~~~L~~~~~~~~~l~s~~~~tl~~lglkHGd---mlyL 77 (80)
T PF11543_consen 16 KRIEVSPSSTLSDLKEKISEQLSIPDS-SQSLSKDRNNKEELKSSDSKTLSSLGLKHGD---MLYL 77 (80)
T ss_dssp EEEEE-TTSBHHHHHHHHHHHS---TT-T---BSSGGGGGCSSS-TT-CCCCT---TT----EEE-
T ss_pred EEEEcCCcccHHHHHHHHHHHcCCCCc-ceEEEecCCCCcccccCCcCCHHHcCCCCcc---EEEE
Confidence 345688999999999999999998865 566666632 32 445666666555542 5554
No 69
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=39.15 E-value=1.1e+02 Score=20.12 Aligned_cols=58 Identities=10% Similarity=0.216 Sum_probs=42.7
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEEEc---C-C-CCCC-CchHHHHHhHccCCCCeEEE
Q 033386 51 LVPADLSVGQFVYVVRKRIKLSAEKAIFVFVK---N-T-LPPT-GALMSAIYEENKDEDGFLYM 108 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn---~-~-~p~~-~~~~~~lY~~~kd~DGfLyi 108 (120)
.+|....++++...|+++|.+.++..-.=|-. + . +|-. ++.|.+.+.+=++.=.-|.+
T Consensus 12 ~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~~~~ltLwc 75 (78)
T cd06411 12 RAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAWQDVADGPRGLQL 75 (78)
T ss_pred EccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHHHhccCCceEEEE
Confidence 47888999999999999999998764444443 2 3 3655 88999999988754444443
No 70
>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=38.48 E-value=1e+02 Score=24.01 Aligned_cols=53 Identities=15% Similarity=0.278 Sum_probs=35.3
Q ss_pred CeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcC
Q 033386 28 DRIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKN 83 (120)
Q Consensus 28 ~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~ 83 (120)
+||-|.+.+....+-| ....-++..+|..++...|-++|+++|..=-|.-+|+
T Consensus 175 nrv~V~f~~~~~~~~~---~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~~~~~ 227 (249)
T PF12436_consen 175 NRVEVEFKPKDNPNDP---EFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFFTVNP 227 (249)
T ss_dssp HEEEEEEEETTSTT------EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE---T
T ss_pred CeEEEEEEECCCCCCC---CEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEEecc
Confidence 6788888775433323 5667899999999999999999999988766666654
No 71
>PRK06437 hypothetical protein; Provisional
Probab=37.23 E-value=50 Score=20.51 Aligned_cols=38 Identities=13% Similarity=0.190 Sum_probs=26.7
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchH
Q 033386 50 YLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALM 92 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~ 92 (120)
+-+++..|+++++. .|++++ +.+.+.+|+...+.+..|
T Consensus 15 ~~i~~~~tv~dLL~----~Lgi~~-~~vaV~vNg~iv~~~~~L 52 (67)
T PRK06437 15 IEIDHELTVNDIIK----DLGLDE-EEYVVIVNGSPVLEDHNV 52 (67)
T ss_pred EEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCceEc
Confidence 45788899999764 568865 567888999864455443
No 72
>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=37.06 E-value=73 Score=21.54 Aligned_cols=76 Identities=12% Similarity=0.079 Sum_probs=46.8
Q ss_pred CCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCe
Q 033386 26 YPDRIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGF 105 (120)
Q Consensus 26 yp~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGf 105 (120)
.++.+-|.|.-.... ...+-|..+.||+++...|..+-++++++- =|+.++.....+.++++ |. -+ ++.-
T Consensus 24 ~~~~M~I~Vk~l~G~------~~~leV~~~~TV~~lK~kI~~~~gip~~~Q-rLi~~Gk~L~D~~tL~d-y~-I~-~~st 93 (103)
T cd01802 24 FYDTMELFIETLTGT------CFELRVSPFETVISVKAKIQRLEGIPVAQQ-HLIWNNMELEDEYCLND-YN-IS-EGCT 93 (103)
T ss_pred cCCCEEEEEEcCCCC------EEEEEeCCCCcHHHHHHHHHHHhCCChHHE-EEEECCEECCCCCcHHH-cC-CC-CCCE
Confidence 345555666432211 133568999999999999999989887642 23445665666677755 32 11 3446
Q ss_pred EEEEec
Q 033386 106 LYMTYS 111 (120)
Q Consensus 106 Lyi~Ys 111 (120)
|++.-.
T Consensus 94 L~l~~~ 99 (103)
T cd01802 94 LKLVLA 99 (103)
T ss_pred EEEEEe
Confidence 776543
No 73
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=36.62 E-value=44 Score=25.72 Aligned_cols=18 Identities=22% Similarity=0.187 Sum_probs=13.9
Q ss_pred cCCCCeEEEEecCccccCCC
Q 033386 100 KDEDGFLYMTYSGENTFGWS 119 (120)
Q Consensus 100 kd~DGfLyi~Ys~~~afG~~ 119 (120)
+..|||||| +.++.+|..
T Consensus 150 ~~~~~~l~m--sv~~~~g~~ 167 (244)
T PRK13125 150 KLSPLFIYY--GLRPATGVP 167 (244)
T ss_pred HhCCCEEEE--EeCCCCCCC
Confidence 347999999 678888853
No 74
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=36.17 E-value=41 Score=20.98 Aligned_cols=38 Identities=5% Similarity=0.118 Sum_probs=26.4
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCch
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGAL 91 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~ 91 (120)
.+-+++..|++++. +.|++++ +.+.+.+|+.+.+.+..
T Consensus 17 ~~~~~~~~tv~~ll----~~l~~~~-~~v~v~vNg~iv~~~~~ 54 (70)
T PRK08364 17 EIEWRKGMKVADIL----RAVGFNT-ESAIAKVNGKVALEDDP 54 (70)
T ss_pred EEEcCCCCcHHHHH----HHcCCCC-ccEEEEECCEECCCCcC
Confidence 44568888999876 4557765 56888999986544443
No 75
>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=35.63 E-value=92 Score=19.15 Aligned_cols=34 Identities=12% Similarity=0.098 Sum_probs=29.5
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCCceEEEEE
Q 033386 48 KKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFV 81 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~V 81 (120)
..|.|+.+.|+.++...|-++|+|...+-+=|.+
T Consensus 9 ~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 9 KTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred EEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 4688999999999999999999999877665666
No 76
>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=35.10 E-value=79 Score=20.37 Aligned_cols=33 Identities=9% Similarity=0.113 Sum_probs=26.8
Q ss_pred EecCCCchHhHHHHHHHHhCCCCC-ceEEEEEcC
Q 033386 51 LVPADLSVGQFVYVVRKRIKLSAE-KAIFVFVKN 83 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~l~l~~~-~slfl~Vn~ 83 (120)
.+|.++|++++..-|-+..+++++ +.|.+|-+.
T Consensus 18 r~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 18 KYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred ecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 589999999999999999999764 566566654
No 77
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=34.98 E-value=52 Score=22.03 Aligned_cols=50 Identities=6% Similarity=0.186 Sum_probs=33.4
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEE-EEcC-CC--CCCCchHHHHHhHcc
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAEKAIFV-FVKN-TL--PPTGALMSAIYEENK 100 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl-~Vn~-~~--p~~~~~~~~lY~~~k 100 (120)
-..||.+.++.+|..-||.+++++ +.+-+ |.+. -. .+.+.-|....+..+
T Consensus 15 ~i~v~~~i~f~dL~~kIrdkf~~~--~~~~iKykDEGD~iti~sq~DLd~Ai~~a~ 68 (86)
T cd06408 15 YIMIGPDTGFADFEDKIRDKFGFK--RRLKIKMKDDGDMITMGDQDDLDMAIDTAR 68 (86)
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCC--CceEEEEEcCCCCccccCHHHHHHHHHHHH
Confidence 357999999999999999999996 45555 3332 22 344445554444433
No 78
>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=34.60 E-value=40 Score=20.78 Aligned_cols=41 Identities=12% Similarity=0.151 Sum_probs=28.2
Q ss_pred eEEecCCCchHhHHHHHHHHhCC---CCCceEEEEEcCCCCCCC
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKL---SAEKAIFVFVKNTLPPTG 89 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l---~~~~slfl~Vn~~~p~~~ 89 (120)
.+-+|+..|+++++..|..+..- .....+-++||+...+.+
T Consensus 19 ~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~ 62 (80)
T cd00754 19 ELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLD 62 (80)
T ss_pred EEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCC
Confidence 45567789999999988876431 123567789998764444
No 79
>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=34.04 E-value=50 Score=21.81 Aligned_cols=45 Identities=11% Similarity=0.269 Sum_probs=30.2
Q ss_pred EecCCCchHhHHHHHHHH--hCCCC------CceEEEEE-----cCCCCCCCchHHHH
Q 033386 51 LVPADLSVGQFVYVVRKR--IKLSA------EKAIFVFV-----KNTLPPTGALMSAI 95 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~--l~l~~------~~slfl~V-----n~~~p~~~~~~~~l 95 (120)
-|+++.|+++|+..|..+ +++.. +++||+=. ..+-|..+.+|.+|
T Consensus 2 ~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL 59 (84)
T PF08825_consen 2 EVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL 59 (84)
T ss_dssp EESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT
T ss_pred CcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH
Confidence 378999999999999988 66542 45555511 11236778888888
No 80
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=32.93 E-value=76 Score=21.00 Aligned_cols=53 Identities=9% Similarity=0.181 Sum_probs=43.7
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC-CCCCchHHHHHhHccC
Q 033386 48 KKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTL-PPTGALMSAIYEENKD 101 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~-p~~~~~~~~lY~~~kd 101 (120)
+..-||++..+.-++.+--...++++..| -+.-|+-+ ..+.++-|+++=+|..
T Consensus 18 kvlsVpE~aPftAvlkfaAEeFkv~~~Ts-AiiTndGvGINP~qtAGnvflkhgs 71 (82)
T cd01766 18 KVLSVPESTPFTAVLKFAAEEFKVPAATS-AIITNDGIGINPAQTAGNVFLKHGS 71 (82)
T ss_pred eEEeccccCchHHHHHHHHHhcCCCccce-eEEecCccccChhhcccceeeecCC
Confidence 56679999999999999999999998877 45556655 7888899999999853
No 81
>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=32.81 E-value=86 Score=19.92 Aligned_cols=57 Identities=9% Similarity=0.119 Sum_probs=39.5
Q ss_pred ecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEecC
Q 033386 52 VPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 52 vp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
+..+.||+++...|..+.++++++- =|+.++.....+.++++ |.-. ++.++++.-..
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~Q-rLi~~Gk~L~D~~tL~~-y~i~--~~~~i~l~~~~ 75 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQ-RLFYRGKQMEDGHTLFD-YNVG--LNDIIQLLVRQ 75 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHe-EEEeCCEECCCCCCHHH-cCCC--CCCEEEEEEec
Confidence 5788999999999999988876532 23346666677788866 3322 35577776543
No 82
>PF06970 RepA_N: Replication initiator protein A (RepA) N-terminus; InterPro: IPR010724 This entry represents the N terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids []. Most proteins in this entry are bacterial, but archaeal and eukaryotic members are also included.
Probab=32.51 E-value=22 Score=23.07 Aligned_cols=17 Identities=35% Similarity=0.507 Sum_probs=14.3
Q ss_pred ccCCCCeEEEEecCccc
Q 033386 99 NKDEDGFLYMTYSGENT 115 (120)
Q Consensus 99 ~kd~DGfLyi~Ys~~~a 115 (120)
+-|+||-+|+.|+.++.
T Consensus 42 wiDe~G~vYi~~s~eel 58 (76)
T PF06970_consen 42 WIDENGNVYIIFSIEEL 58 (76)
T ss_pred cCCCCCCEEEEeeHHHH
Confidence 56899999999998763
No 83
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=32.44 E-value=66 Score=24.11 Aligned_cols=38 Identities=18% Similarity=0.475 Sum_probs=28.7
Q ss_pred eEEEEEcCC----CCCCCchHHHHHhHccCCCCeEEEEecCcc
Q 033386 76 AIFVFVKNT----LPPTGALMSAIYEENKDEDGFLYMTYSGEN 114 (120)
Q Consensus 76 slfl~Vn~~----~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~~ 114 (120)
-+-|.||-+ +-+.=+-|..||++|+ +.||-++.+-..+
T Consensus 26 kVlLIVNtASkCGfTpQYegLe~Ly~ky~-~~Gf~VLgFPcNQ 67 (162)
T COG0386 26 KVLLIVNTASKCGFTPQYEGLEALYKKYK-DKGFEVLGFPCNQ 67 (162)
T ss_pred cEEEEEEcccccCCcHhHHHHHHHHHHHh-hCCcEEEeccccc
Confidence 467888832 4234568999999997 5899999987765
No 84
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=32.15 E-value=1.2e+02 Score=20.06 Aligned_cols=23 Identities=0% Similarity=0.359 Sum_probs=17.0
Q ss_pred ceEEecCC-CchHhHHHHHHHHhC
Q 033386 48 KKYLVPAD-LSVGQFVYVVRKRIK 70 (120)
Q Consensus 48 ~Kflvp~~-~tv~~~~~~lRk~l~ 70 (120)
..+-+|.+ .|+.++...+.+..+
T Consensus 12 R~~~~~~~~~t~~~L~~~v~~~F~ 35 (81)
T cd06401 12 RRIPIHNEDITYDELLLMMQRVFR 35 (81)
T ss_pred EEEeccCccccHHHHHHHHHHHhc
Confidence 34667754 699999999976655
No 85
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=31.37 E-value=1.4e+02 Score=26.16 Aligned_cols=53 Identities=17% Similarity=0.224 Sum_probs=40.5
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCC
Q 033386 47 KKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDG 104 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DG 104 (120)
|.-|-|+.+.||.+|...|-++-+.++++ +-|.-.+++.+.+.++. .|+-.||
T Consensus 26 k~~~~V~~~ssV~qlKE~I~~~f~a~~dq-lvLIfaGrILKD~dTL~----~~gI~Dg 78 (493)
T KOG0010|consen 26 KYEVNVASDSSVLQLKELIAQRFGAPPDQ-LVLIYAGRILKDDDTLK----QYGIQDG 78 (493)
T ss_pred ceeEecccchHHHHHHHHHHHhcCCChhH-eeeeecCccccChhhHH----HcCCCCC
Confidence 67789999999999999999999888776 44444566666777764 3555677
No 86
>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=31.15 E-value=1.1e+02 Score=20.97 Aligned_cols=36 Identities=11% Similarity=0.182 Sum_probs=29.1
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCC--ceEEEEEcCC
Q 033386 49 KYLVPADLSVGQFVYVVRKRIKLSAE--KAIFVFVKNT 84 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~l~l~~~--~slfl~Vn~~ 84 (120)
-+..|-+.||+|++..|.++..++++ -.|++.+++.
T Consensus 16 Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~l 53 (97)
T cd01775 16 TLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHDL 53 (97)
T ss_pred EEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECCe
Confidence 45688899999999999999988864 4567777764
No 87
>PF01704 UDPGP: UTP--glucose-1-phosphate uridylyltransferase; InterPro: IPR002618 This family consists of UTP--glucose-1-phosphate uridylyltransferases (2.7.7.9 from EC). Also known as UDP-glucose pyrophosphorylase (UDPGP) and Glucose-1-phosphate uridylyltransferase. UTP--glucose-1-phosphate uridylyltransferase catalyses the interconversion of MgUTP + glucose-1-phosphate and UDP-glucose + MgPPi []. UDP-glucose is an important intermediate in mammalian carbohydrate interconversion involved in various metabolic roles depending on tissue type []. In Dictyostelium discoideum (Slime mold), mutants in this enzyme abort the development cycle []. Also within this family is UDP-N-acetylglucosamine pyrophosphorylase (Q16222 from SWISSPROT) [] and two hypothetical proteins from Borrelia burgdorferi, the Lyme disease spirochaete (O51893 from SWISSPROT and O51036 from SWISSPROT).; GO: 0016779 nucleotidyltransferase activity, 0008152 metabolic process; PDB: 2OEG_A 2OEF_A 2YQS_A 2YQJ_A 2YQH_B 2YQC_A 3OH4_A 3OGZ_A 3OH3_A 3OH1_A ....
Probab=30.94 E-value=91 Score=26.45 Aligned_cols=56 Identities=20% Similarity=0.350 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCC
Q 033386 12 LERRLAESARIREKYPDRIPVIVEKAEKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLP 86 (120)
Q Consensus 12 ~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p 86 (120)
|+-..+..+.++++|.-.||+++ +.+..|-++...++++.-+++.+ +++|..+.+|
T Consensus 88 ldl~~~qi~~l~~~~~~~iPl~i-----------------MtS~~T~~~T~~~l~kyfg~~~~--v~~F~Q~~~P 143 (420)
T PF01704_consen 88 LDLIVEQIEALNKKYGVDIPLYI-----------------MTSFNTHEDTRKFLEKYFGLDVD--VFFFKQSKLP 143 (420)
T ss_dssp HHHHHHHHHHHHHHHTTT-EEEE-----------------EEETTTHHHHHHHHHHGCGSSCC--EEEEEE-EEE
T ss_pred HHHHHHHHHHHhccccccceEEE-----------------ecCcccHHHHHHHHHHhcCCCcc--eEEEeecCcc
Confidence 35556667778888877777665 45566778889999997677655 7776655554
No 88
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=29.76 E-value=61 Score=23.15 Aligned_cols=50 Identities=22% Similarity=0.341 Sum_probs=36.9
Q ss_pred cCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEecCccccC
Q 033386 53 PADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 53 p~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~~afG 117 (120)
...+++.+++.-+.+.++++..+ ....++++|-.- ..||- ..+.+++.||
T Consensus 17 ~~~m~f~dL~~ev~~~~~~s~e~------------~~~~iaq~YtdL-n~DGR--Fi~lG~n~Wg 66 (129)
T PRK02363 17 KEPMSFYDLVNEIQKYLGKSDEE------------IRERIAQFYTDL-NLDGR--FISLGDNKWG 66 (129)
T ss_pred CCcccHHHHHHHHHHHhCCCHHH------------HHHHHHHHHHHH-hccCC--eeEcCCCcee
Confidence 35678888888888888765433 136889999988 67883 3467888888
No 89
>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=29.58 E-value=1e+02 Score=18.61 Aligned_cols=35 Identities=14% Similarity=0.257 Sum_probs=25.6
Q ss_pred ccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC
Q 033386 46 DKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTL 85 (120)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~ 85 (120)
..+.+-+++..|+.++.. .|++++ +.+-+-+|+.+
T Consensus 4 Ng~~~~~~~~~tv~~ll~----~l~~~~-~~v~v~vN~~i 38 (64)
T TIGR01683 4 NGEPVEVEDGLTLAALLE----SLGLDP-RRVAVAVNGEI 38 (64)
T ss_pred CCeEEEcCCCCcHHHHHH----HcCCCC-CeEEEEECCEE
Confidence 345667888899888765 456665 56788899876
No 90
>PF05990 DUF900: Alpha/beta hydrolase of unknown function (DUF900); InterPro: IPR010297 This domain is associated with proteins of unknown function, which are hydrolase-like.
Probab=29.37 E-value=1e+02 Score=23.57 Aligned_cols=51 Identities=18% Similarity=0.278 Sum_probs=35.1
Q ss_pred HhHHHHHHHHhCCCCCceEEEEEcCC---CCCCCchHHHHHhHccCCCCeEEEEec
Q 033386 59 GQFVYVVRKRIKLSAEKAIFVFVKNT---LPPTGALMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 59 ~~~~~~lRk~l~l~~~~slfl~Vn~~---~p~~~~~~~~lY~~~kd~DGfLyi~Ys 111 (120)
+.|...+++.|.-.+.+.+.+||.+- +...-...++|....+ -+| ..|.|+
T Consensus 2 ~~~~~~~~~~l~~~~~~~vlvfVHGyn~~f~~a~~r~aql~~~~~-~~~-~~i~Fs 55 (233)
T PF05990_consen 2 AAFQAQLNQRLAKSPDKEVLVFVHGYNNSFEDALRRAAQLAHDLG-FPG-VVILFS 55 (233)
T ss_pred hHHHHHHHHHHhhCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCc-eEEEEE
Confidence 35677888999888889999999753 3333346777877774 444 555554
No 91
>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=29.15 E-value=1.3e+02 Score=18.94 Aligned_cols=40 Identities=15% Similarity=0.131 Sum_probs=26.2
Q ss_pred CCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCC
Q 033386 44 DIDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNT 84 (120)
Q Consensus 44 ~L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~ 84 (120)
...+.++.|.++.++.++..---++.++++++ --|.-|++
T Consensus 5 ~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~-~~L~h~~k 44 (65)
T PF11470_consen 5 NFRRFKVKVTPNTTLNQVLEEACKKFGLDPSS-YDLKHNNK 44 (65)
T ss_dssp TS-EEEE---TTSBHHHHHHHHHHHTT--GGG--EEEETTE
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHcCCCccc-eEEEECCE
Confidence 44678899999999999999999999999883 44444554
No 92
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=29.14 E-value=66 Score=21.07 Aligned_cols=21 Identities=10% Similarity=0.257 Sum_probs=18.6
Q ss_pred HHHHHHhCCCCCceEEEEEcC
Q 033386 63 YVVRKRIKLSAEKAIFVFVKN 83 (120)
Q Consensus 63 ~~lRk~l~l~~~~slfl~Vn~ 83 (120)
.-+|++|++++++.|-+++..
T Consensus 20 keiR~~lgi~~Gd~lei~~~~ 40 (89)
T COG2002 20 KEIREALGIKEGDVLEIIVDG 40 (89)
T ss_pred HHHHHHhCCCCCCEEEEEEeC
Confidence 457999999999999999974
No 93
>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=29.06 E-value=24 Score=21.66 Aligned_cols=40 Identities=18% Similarity=0.272 Sum_probs=30.2
Q ss_pred cceEEecCCCchHhHHHHHHHHhC-CCCCceEEEEEcCCCC
Q 033386 47 KKKYLVPADLSVGQFVYVVRKRIK-LSAEKAIFVFVKNTLP 86 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~l~-l~~~~slfl~Vn~~~p 86 (120)
.....++...|++++...|..+.. +...+.+-+.||+...
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v 53 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIV 53 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEc
Confidence 355688999999999999887752 2233678899998763
No 94
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=29.04 E-value=64 Score=25.79 Aligned_cols=29 Identities=28% Similarity=0.334 Sum_probs=25.3
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecC
Q 033386 10 HPLERRLAESARIREKYPDRIPVIVEKAE 38 (120)
Q Consensus 10 ~s~e~R~~e~~~i~~kyp~~ipVIvE~~~ 38 (120)
-|.|||..-.+...+.-.+++|||+--..
T Consensus 58 Lt~eEr~~v~~~~~~~~~grvpvi~Gv~~ 86 (309)
T cd00952 58 LTWEEKQAFVATVVETVAGRVPVFVGATT 86 (309)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEEEecc
Confidence 46799999999999999999999997764
No 95
>COG1019 Predicted nucleotidyltransferase [General function prediction only]
Probab=27.70 E-value=2.6e+02 Score=20.86 Aligned_cols=66 Identities=17% Similarity=0.123 Sum_probs=45.9
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEec-CCCCCCCCccceEEe--cCCCchHhHHHHHHHHhCCCCCc
Q 033386 10 HPLERRLAESARIREKYPDRIPVIVEKA-EKTDVPDIDKKKYLV--PADLSVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 10 ~s~e~R~~e~~~i~~kyp~~ipVIvE~~-~~~~~p~L~k~Kflv--p~~~tv~~~~~~lRk~l~l~~~~ 75 (120)
.+|+.|.+...+....--....+|+... +.+.++.-..--.+| |++.+.+.-++-+|.+.+++|=+
T Consensus 54 ~p~~~R~~~l~~fl~~~~~~~~~iv~i~Dp~G~t~~~~~~e~iVVS~ET~~~Al~IN~~R~~~Gl~pL~ 122 (158)
T COG1019 54 EPYEVRLRNLRNFLESIKADYEEIVPIDDPYGPTVEDPDFEAIVVSPETYPGALKINEIREKRGLPPLE 122 (158)
T ss_pred CcHHHHHHHHHHHHHHhcCCcceEEEecCCCCCCCCcCceeEEEEccccchhHHHHHHHHHHCCCCCeE
Confidence 4789999999888776665566677664 334444433333454 56667888899999999999754
No 96
>PRK10953 cysJ sulfite reductase subunit alpha; Provisional
Probab=26.83 E-value=4.5e+02 Score=23.30 Aligned_cols=88 Identities=13% Similarity=0.255 Sum_probs=58.0
Q ss_pred CCCeeeEEEEecCCCCCCC-CccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCC
Q 033386 26 YPDRIPVIVEKAEKTDVPD-IDKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDG 104 (120)
Q Consensus 26 yp~~ipVIvE~~~~~~~p~-L~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DG 104 (120)
-.+.|+|-+.+.+.=.+|. -++.-.+|-.-.=++-|..+|+.+........+.||.+..-...|-.-.+=.+.+. .+|
T Consensus 432 ~Gd~v~v~~~~~~~F~lp~~~~~piImIg~GTGIAPfrsflq~r~~~~~~~~~~LffG~R~~~~D~lY~~El~~~~-~~g 510 (600)
T PRK10953 432 EEGEVRVFIEHNDNFRLPANPETPVIMIGPGTGIAPFRAFMQQRAADGAPGKNWLFFGNPHFTEDFLYQVEWQRYV-KEG 510 (600)
T ss_pred CCCEEEEEeccCCcccCCCCCCCCEEEEecCcCcHHHHHHHHHHHHcCCCCCeEEEeeccCCccchhHHHHHHHHH-HcC
Confidence 4578888876544335663 34556778888889999999999887655556777777766666655555555553 344
Q ss_pred e---EEEEecCcc
Q 033386 105 F---LYMTYSGEN 114 (120)
Q Consensus 105 f---Lyi~Ys~~~ 114 (120)
. |.+.||.++
T Consensus 511 ~l~~l~~afSRd~ 523 (600)
T PRK10953 511 LLTRIDLAWSRDQ 523 (600)
T ss_pred CcceEEEEECCCC
Confidence 3 567777544
No 97
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=26.20 E-value=84 Score=24.23 Aligned_cols=99 Identities=14% Similarity=0.163 Sum_probs=54.0
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCc--c--------ceEEecCCC---chHhHHHHHHHHhCCCCCc
Q 033386 9 EHPLERRLAESARIREKYPDRIPVIVEKAEKTDVPDID--K--------KKYLVPADL---SVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 9 ~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~~p~L~--k--------~Kflvp~~~---tv~~~~~~lRk~l~l~~~~ 75 (120)
.-|.+||+.-.+..++.-.+++|||+--...+..-.++ + --.++|... +-.++..+.+.=..- ..-
T Consensus 46 ~ls~~Er~~l~~~~~~~~~~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~-~~~ 124 (281)
T cd00408 46 TLTDEERKEVIEAVVEAVAGRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADA-SDL 124 (281)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhc-CCC
Confidence 34679999999999998889999999765432100000 0 012222211 224444444433322 345
Q ss_pred eEEEEEcCC---CCCCCchHHHHHhHccCCCCeEEEEecC
Q 033386 76 AIFVFVKNT---LPPTGALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 76 slfl~Vn~~---~p~~~~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
.+++|=+-. .+-+.+.+.+|-+ .+.+..+.+++
T Consensus 125 pi~iYn~P~~tg~~l~~~~~~~L~~----~~~v~giK~s~ 160 (281)
T cd00408 125 PVILYNIPGRTGVDLSPETIARLAE----HPNIVGIKDSS 160 (281)
T ss_pred CEEEEECccccCCCCCHHHHHHHhc----CCCEEEEEeCC
Confidence 688884432 2222335566653 35677777766
No 98
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=26.04 E-value=81 Score=24.98 Aligned_cols=102 Identities=9% Similarity=0.062 Sum_probs=53.8
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC--C-------CCCcc-ceEEecCCC---chHhHHHHHHHHhCCCCCc
Q 033386 9 EHPLERRLAESARIREKYPDRIPVIVEKAEKTD--V-------PDIDK-KKYLVPADL---SVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 9 ~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~--~-------p~L~k-~Kflvp~~~---tv~~~~~~lRk~l~l~~~~ 75 (120)
.-|.+||+.-.+...+...+++|||+--...+. + -.+.= --.++|.-. +-.++..+.+.=..-.++-
T Consensus 49 ~Ls~~Er~~l~~~~~~~~~g~~pvi~gv~~~~t~~ai~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~l 128 (294)
T TIGR02313 49 SLTLEERKQAIENAIDQIAGRIPFAPGTGALNHDETLELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVPDF 128 (294)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCcEEEECCcchHHHHHHHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhccCC
Confidence 347799999999999989999999986554321 0 00000 111222211 1134444443332222245
Q ss_pred eEEEEEcCC---CCCCCchHHHHHhHccCCCCeEEEEecCc
Q 033386 76 AIFVFVKNT---LPPTGALMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 76 slfl~Vn~~---~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
.+++|=+-. ..-+.+.+.+|-+++ ..+..|..++.
T Consensus 129 pv~iYn~P~~tg~~l~~~~l~~L~~~~---pnv~giK~ss~ 166 (294)
T TIGR02313 129 PIIIYNIPGRAAQEIAPKTMARLRKDC---PNIVGAKESNK 166 (294)
T ss_pred CEEEEeCchhcCcCCCHHHHHHHHhhC---CCEEEEEeCCC
Confidence 688884322 222234666666544 35777776653
No 99
>KOG1651 consensus Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=26.03 E-value=1.4e+02 Score=22.59 Aligned_cols=41 Identities=17% Similarity=0.397 Sum_probs=30.4
Q ss_pred eEEEEEcCC-----CCCCCchHHHHHhHccCCCCeEEEEecCccccCC
Q 033386 76 AIFVFVKNT-----LPPTGALMSAIYEENKDEDGFLYMTYSGENTFGW 118 (120)
Q Consensus 76 slfl~Vn~~-----~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~~afG~ 118 (120)
.+-|+||=+ .++.=..|.+||++|+ +.||..+.+--.+ ||.
T Consensus 35 kV~LiVNVAS~Cg~T~~~Y~~l~~L~~ky~-~~Gl~ILaFPCNQ-Fg~ 80 (171)
T KOG1651|consen 35 KVVLIVNVASQCGLTESQYTELNELYEKYK-DQGLEILAFPCNQ-FGN 80 (171)
T ss_pred eEEEEEEcccccccchhcchhHHHHHHHHh-hCCeEEEEecccc-ccC
Confidence 456777732 3656669999999997 6899999987655 553
No 100
>PF03568 Peptidase_C50: Peptidase family C50; InterPro: IPR005314 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C50 (separase family, clan CD). The active site residues for members of this family and family C14 occur in the same order in the sequence: H,C. The separases are caspase-like proteases, which plays a central role in the chromosome segregation. In yeast they cleave the rad21 subunit of the cohesin complex at the onset of anaphase. During most of the cell cycle, separase is inactivated by the securin/cut2 protein, which probably covers its active site. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0005634 nucleus
Probab=25.17 E-value=3.9e+02 Score=22.07 Aligned_cols=71 Identities=14% Similarity=0.186 Sum_probs=44.2
Q ss_pred CeeeEEEEec----CCCCCCCCccceEEecCCCchHhHHHHHHHHhC-CC------CCceEEEEEc--CCCCCCCchHHH
Q 033386 28 DRIPVIVEKA----EKTDVPDIDKKKYLVPADLSVGQFVYVVRKRIK-LS------AEKAIFVFVK--NTLPPTGALMSA 94 (120)
Q Consensus 28 ~~ipVIvE~~----~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~l~-l~------~~~slfl~Vn--~~~p~~~~~~~~ 94 (120)
..+=+|+.+. |-+.+|.|.... |..--++..+...+.++-. .. ..+.+|..+| +-++.+..++..
T Consensus 204 ~~~iLVlD~~l~~~PwEsl~~l~~~~--VsR~pSl~~l~~~~~~~~~~~~~~~~~~~~~~~~yvlNP~gDL~~T~~~~~~ 281 (383)
T PF03568_consen 204 EHTILVLDKELQSFPWESLPCLRGQS--VSRMPSLHFLRDLLKRHSNSRSPGYESKDPKRGFYVLNPSGDLKRTEKRFEP 281 (383)
T ss_pred CCEEEEECcccccCchhhCccccCCe--eEecChHHHHHHHHHHhhhhcccccccccccceEEEECCCCCHHHHHHHHHH
Confidence 4444555443 346788987765 5555566666666655322 11 2234777788 347888888888
Q ss_pred HHhHcc
Q 033386 95 IYEENK 100 (120)
Q Consensus 95 lY~~~k 100 (120)
+++..+
T Consensus 282 ~~~~~~ 287 (383)
T PF03568_consen 282 FFKSWK 287 (383)
T ss_pred HHhccc
Confidence 888776
No 101
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=25.16 E-value=1e+02 Score=17.51 Aligned_cols=21 Identities=14% Similarity=0.270 Sum_probs=17.6
Q ss_pred HHHHHHhCCCCCceEEEEEcC
Q 033386 63 YVVRKRIKLSAEKAIFVFVKN 83 (120)
Q Consensus 63 ~~lRk~l~l~~~~slfl~Vn~ 83 (120)
.-+|+.+++.+++.+.+.+.+
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~~ 33 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVEG 33 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEET
T ss_pred HHHHHHcCCCCCCEEEEEEeC
Confidence 457899999999999998864
No 102
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=24.57 E-value=84 Score=24.74 Aligned_cols=101 Identities=13% Similarity=0.099 Sum_probs=53.2
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEecCCC-CCCCCcc-------c-eEEecCCC---chHhHHHHHHHHhCCCCCce
Q 033386 9 EHPLERRLAESARIREKYPDRIPVIVEKAEKT-DVPDIDK-------K-KYLVPADL---SVGQFVYVVRKRIKLSAEKA 76 (120)
Q Consensus 9 ~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~-~~p~L~k-------~-Kflvp~~~---tv~~~~~~lRk~l~l~~~~s 76 (120)
.-|.|||..-.+...+.-.+++|||+--..+. .+-.+-+ . -.++|.-. +-.++..+.+.=..- .+-.
T Consensus 49 ~Ls~eEr~~l~~~~~~~~~~~~pvi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~-~~~p 127 (289)
T cd00951 49 SLTPDEYAQVVRAAVEETAGRVPVLAGAGYGTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKS-TDLG 127 (289)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCCEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhc-CCCC
Confidence 35779999999988888889999999654310 0000000 1 11222221 224444444433322 2356
Q ss_pred EEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEecCc
Q 033386 77 IFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 77 lfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
+++|=+....-+.+.+.+|-+.+ +.+..|.+|+.
T Consensus 128 i~lYn~~g~~l~~~~l~~L~~~~---pnivgiKds~~ 161 (289)
T cd00951 128 VIVYNRANAVLTADSLARLAERC---PNLVGFKDGVG 161 (289)
T ss_pred EEEEeCCCCCCCHHHHHHHHhcC---CCEEEEEeCCC
Confidence 88884322222234666665333 45777777643
No 103
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=24.46 E-value=85 Score=19.90 Aligned_cols=36 Identities=14% Similarity=0.091 Sum_probs=24.0
Q ss_pred CCCchHhHHHHHHHHhC-----CCCCceEEEEEcCCCCCCCc
Q 033386 54 ADLSVGQFVYVVRKRIK-----LSAEKAIFVFVKNTLPPTGA 90 (120)
Q Consensus 54 ~~~tv~~~~~~lRk~l~-----l~~~~slfl~Vn~~~p~~~~ 90 (120)
...|++++...|.++.. +. ...+-++||..+-+.+.
T Consensus 24 ~~~tv~~l~~~L~~~~~~~~~~~~-~~~~~~aVN~~~~~~~~ 64 (81)
T PRK11130 24 DFPTVEALRQHLAQKGDRWALALE-DGKLLAAVNQTLVSFDH 64 (81)
T ss_pred CCCCHHHHHHHHHHhCccHHhhhc-CCCEEEEECCEEcCCCC
Confidence 35799999999987742 22 34466889986544443
No 104
>cd01938 ADPGK_ADPPFK ADP-dependent glucokinase (ADPGK) and phosphofructokinase (ADPPFK). ADPGK and ADPPFK are proteins that rely on ADP rather than ATP to donate a phosphoryl group. They are found in certain hyperthermophilic archaea and in higher eukaryotes. A functional ADPGK has been characterized in mouse and is assumed to be desirable during ischemia/hypoxia. ADPGK and ADPPFK contain a large and a small domain with the binding site located in a groove between the domains. Partial domain closing is seen when ADP is bound, and further domain closing is observed when glucose is also bound. The oligomerization state apparently varies depending on the species, with some existing as monomers, some as dimers, and some as tetramers.
Probab=24.38 E-value=1e+02 Score=26.41 Aligned_cols=39 Identities=26% Similarity=0.208 Sum_probs=33.1
Q ss_pred CCCCcccccCCHHHHHHHHHHHHHhCCCeeeEEEEecCC
Q 033386 1 MAKSSFKLEHPLERRLAESARIREKYPDRIPVIVEKAEK 39 (120)
Q Consensus 1 ~~~~~fk~~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~ 39 (120)
||+..|....+.++|.+++.+.....|+++||=+|-+.-
T Consensus 216 mm~~~~~~~~~~~~~l~~~~~~l~~l~~~i~iH~E~As~ 254 (445)
T cd01938 216 MMEGQSFDEGTRKELLERVKSILEILPPLIPIHLELAST 254 (445)
T ss_pred hhcccCCChhhHHHHHHHHHHHHHhccccCcEEEEeccc
Confidence 566666667778999999999999999999999999763
No 105
>PF14060 DUF4252: Domain of unknown function (DUF4252)
Probab=23.95 E-value=95 Score=21.74 Aligned_cols=25 Identities=12% Similarity=0.321 Sum_probs=21.1
Q ss_pred CCchHHHHHhHccCCCCeEEEEecC
Q 033386 88 TGALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 88 ~~~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
..+.+..+|++|++.+|+.+++-+.
T Consensus 20 ~~~~~~~~~~~~~~~~~~~~v~i~~ 44 (155)
T PF14060_consen 20 QGQSLQKYFDKYSENKGVTSVNISK 44 (155)
T ss_pred cchhHHHHHHHhCCCCCeEEEEECH
Confidence 3578899999999999999988653
No 106
>smart00537 DCX Domain in the Doublecortin (DCX) gene product. Tandemly-repeated domain in doublin, the Doublecortin gene product. Proposed to bind tubulin. Doublecortin (DCX) is mutated in human X-linked neuronal migration defects.
Probab=23.90 E-value=2.2e+02 Score=18.61 Aligned_cols=72 Identities=17% Similarity=0.127 Sum_probs=40.3
Q ss_pred ecCCCCCCCCccceEEecC--CCchHhHHHHHHHHhCCCCCc-eEEEEEcCCCCCCCchHHHHHhHccCCCCeEEEEecC
Q 033386 36 KAEKTDVPDIDKKKYLVPA--DLSVGQFVYVVRKRIKLSAEK-AIFVFVKNTLPPTGALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 36 ~~~~~~~p~L~k~Kflvp~--~~tv~~~~~~lRk~l~l~~~~-slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
-..+++. .-...+++|+. -.++.+|...|.+.+.+.... .=-||- |.. ..+.+|=+ . +||-.||+.+.
T Consensus 10 ~~rNGD~-~~~g~~~~v~~~~~~s~d~lL~~lt~~v~l~~~~~Vr~lyt----~~G-~~v~~l~~-l--~~g~~yVa~g~ 80 (89)
T smart00537 10 FYRNGDR-FFKGVRLVVNRKRFKSFEALLQDLTEVVKLDLPHGVRKLYT----LDG-KKVTSLDE-L--EDGGSYVASGT 80 (89)
T ss_pred EEeCCCC-CCCCEEEEEChhhcCCHHHHHHHHhhhcccCCCCCeeEEEc----CCC-CEECCHHH-h--CcCCEEEEEcC
Confidence 3444553 23567888986 458999999999944433221 112222 211 12222211 1 47889999988
Q ss_pred ccccC
Q 033386 113 ENTFG 117 (120)
Q Consensus 113 ~~afG 117 (120)
| .|.
T Consensus 81 e-~fk 84 (89)
T smart00537 81 E-AFK 84 (89)
T ss_pred C-cce
Confidence 7 554
No 107
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=23.86 E-value=91 Score=24.64 Aligned_cols=99 Identities=11% Similarity=0.076 Sum_probs=53.5
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC--CCCCcc--------ceEEecCC---CchHhHHHHHHHHhCCCCCce
Q 033386 10 HPLERRLAESARIREKYPDRIPVIVEKAEKTD--VPDIDK--------KKYLVPAD---LSVGQFVYVVRKRIKLSAEKA 76 (120)
Q Consensus 10 ~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~--~p~L~k--------~Kflvp~~---~tv~~~~~~lRk~l~l~~~~s 76 (120)
-|.|||+.-.+...+.-.+++|||+--...+. +-.+-+ --.++|.. .+-.++..+.+.=..-.++-.
T Consensus 51 Lt~eEr~~~~~~~~~~~~~~~pvi~gv~~~~t~~~i~la~~a~~~Gad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~~lp 130 (290)
T TIGR00683 51 LSTEEKKEIFRIAKDEAKDQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSFPEIKHYYDTIIAETGGLN 130 (290)
T ss_pred CCHHHHHHHHHHHHHHhCCCCcEEEecCCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCCCHHHHHHHHHHHHhhCCCCC
Confidence 47899999999899888899999997653221 000000 01122221 123556655554433233457
Q ss_pred EEEEEcCC---CCCCCchHHHHHhHccCCCCeEEEEecC
Q 033386 77 IFVFVKNT---LPPTGALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 77 lfl~Vn~~---~p~~~~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
+++|=+-. .+-+.+.+.+|-+ .+.+..|.+|+
T Consensus 131 v~lYn~P~~tg~~l~~~~i~~L~~----~pnv~giK~s~ 165 (290)
T TIGR00683 131 MIVYSIPFLTGVNMGIEQFGELYK----NPKVLGVKFTA 165 (290)
T ss_pred EEEEeCccccccCcCHHHHHHHhc----CCCEEEEEeCC
Confidence 88885432 1222334555542 24566666654
No 108
>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=23.73 E-value=2.2e+02 Score=20.23 Aligned_cols=51 Identities=4% Similarity=0.033 Sum_probs=35.4
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCc--eEEEEEcC----CCCCCCchHHHHHh
Q 033386 47 KKKYLVPADLSVGQFVYVVRKRIKLSAEK--AIFVFVKN----TLPPTGALMSAIYE 97 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~l~l~~~~--slfl~Vn~----~~p~~~~~~~~lY~ 97 (120)
...+.+.+..|+.+++..+.+++++...+ +||....+ ..+.++.+|.+.-.
T Consensus 15 ~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~ 71 (207)
T smart00295 15 TLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDV 71 (207)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcC
Confidence 35688999999999999999999996543 33444332 13556666665543
No 109
>PRK08577 hypothetical protein; Provisional
Probab=23.42 E-value=87 Score=21.84 Aligned_cols=21 Identities=5% Similarity=0.246 Sum_probs=18.3
Q ss_pred HHHHHHhCCCCCceEEEEEcC
Q 033386 63 YVVRKRIKLSAEKAIFVFVKN 83 (120)
Q Consensus 63 ~~lRk~l~l~~~~slfl~Vn~ 83 (120)
.-+|+.|++.+++.+-+++++
T Consensus 19 ~~~r~~l~~~~g~~~~~~~~~ 39 (136)
T PRK08577 19 LEIREALGIREGMYVLLIADT 39 (136)
T ss_pred HHHHHHcCcCCCCEEEEEEEC
Confidence 457999999999999999875
No 110
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=23.37 E-value=1.7e+02 Score=21.25 Aligned_cols=28 Identities=18% Similarity=0.412 Sum_probs=20.9
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCCc
Q 033386 48 KKYLVPADLSVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~l~l~~~~ 75 (120)
..+.||.+.|+++|-.+|..-++.....
T Consensus 20 Rri~Vp~~~tl~~Lh~~Iq~afgw~~~H 47 (179)
T PF07929_consen 20 RRIEVPADITLADLHEVIQAAFGWDDDH 47 (179)
T ss_dssp EEEEEETT-BHHHHHHHHHHHTT----S
T ss_pred EEEEECCCCCHHHHHHHHHHHhCcCCCE
Confidence 5678999999999999999999987553
No 111
>TIGR01051 topA_bact DNA topoisomerase I, bacterial. This model describes DNA topoisomerase I among the members of bacteria. DNA topoisomerase I transiently cleaves one DNA strand and thus relaxes negatively supercoiled DNA during replication, transcription and recombination events.
Probab=22.73 E-value=3.1e+02 Score=24.26 Aligned_cols=50 Identities=20% Similarity=0.394 Sum_probs=35.0
Q ss_pred cCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCCCchHHHHHhHccCCCCeE-EEEecCcc
Q 033386 53 PADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPPTGALMSAIYEENKDEDGFL-YMTYSGEN 114 (120)
Q Consensus 53 p~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfL-yi~Ys~~~ 114 (120)
|.-.+.++++...-+++++.+.++ -..+..||+.++-.+|-. +|+|-.+.
T Consensus 250 P~pf~l~~Lq~~a~~~~g~S~~~t------------l~iaQ~LYe~~~~~~~~~g~iSYPRTd 300 (610)
T TIGR01051 250 PPPFTTSTLQQEASRKLGFSAKKT------------MMIAQRLYEGVSTGDGTIGLITYMRTD 300 (610)
T ss_pred CCCcCHHHHHHHHHHhcCCCHHHH------------HHHHHHHHhcccccCCceeEEeecCcC
Confidence 344677888888889999887764 246678998754345444 78887664
No 112
>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=22.55 E-value=2e+02 Score=19.26 Aligned_cols=61 Identities=8% Similarity=0.108 Sum_probs=38.7
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcC------CCCCCCchHHHHHhHcc-CCCCeEEE
Q 033386 48 KKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKN------TLPPTGALMSAIYEENK-DEDGFLYM 108 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~------~~p~~~~~~~~lY~~~k-d~DGfLyi 108 (120)
+--.|++++|++++...|-.+.++.+...--|+=-. ...-..+.+.++-.... +.+..||.
T Consensus 15 K~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l~lER~~EDHE~vvdvl~~W~~~~~n~l~f 82 (85)
T cd01787 15 KSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHLQLERLFEDHELVVEVLSTWHSAGNSVLFF 82 (85)
T ss_pred eEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecchhhhhhhccchHHHHHHHHhcccCCCcEEEE
Confidence 345799999999999999999988876554443211 01233455555555543 35555554
No 113
>smart00148 PLCXc Phospholipase C, catalytic domain (part); domain X. Phosphoinositide-specific phospholipases C. These enzymes contain 2 regions (X and Y) which together form a TIM barrel-like structure containing the active site residues. Phospholipase C enzymes (PI-PLC) act as signal transducers that generate two second messengers, inositol-1,4,5-trisphosphate and diacylglycerol. The bacterial enzyme [6] appears to be a homologue of the mammalian PLCs.
Probab=22.50 E-value=94 Score=21.84 Aligned_cols=32 Identities=3% Similarity=0.142 Sum_probs=28.3
Q ss_pred CCCchHhHHHHHHHHhCCCCCceEEEEEcCCC
Q 033386 54 ADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTL 85 (120)
Q Consensus 54 ~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~ 85 (120)
...++.+++..|++-|.-.+++.+.|-+++-.
T Consensus 67 ~~~~~~dvL~~i~~fl~~~p~e~VIl~l~~~~ 98 (135)
T smart00148 67 LPIKLSEVLEAIKDFAFVTSPYPVILSLENHC 98 (135)
T ss_pred ccEEHHHHHHHHHHHHHhCCCCcEEEeehhhC
Confidence 45689999999999999999999999998754
No 114
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=22.44 E-value=1e+02 Score=24.50 Aligned_cols=29 Identities=17% Similarity=0.147 Sum_probs=24.4
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEec
Q 033386 9 EHPLERRLAESARIREKYPDRIPVIVEKA 37 (120)
Q Consensus 9 ~~s~e~R~~e~~~i~~kyp~~ipVIvE~~ 37 (120)
.-|.|||+.-.+...+.-.+++|||+--.
T Consensus 56 ~Lt~eEr~~~~~~~~~~~~~~~pvi~gv~ 84 (303)
T PRK03620 56 SLTPDEYSQVVRAAVETTAGRVPVIAGAG 84 (303)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCcEEEecC
Confidence 34679999999989988899999998654
No 115
>PRK13669 hypothetical protein; Provisional
Probab=22.37 E-value=59 Score=21.45 Aligned_cols=27 Identities=19% Similarity=0.463 Sum_probs=22.0
Q ss_pred ceEEEEEcCCC---CCCCchHHHHHhHccC
Q 033386 75 KAIFVFVKNTL---PPTGALMSAIYEENKD 101 (120)
Q Consensus 75 ~slfl~Vn~~~---p~~~~~~~~lY~~~kd 101 (120)
...|.+||+.. +.+++.+..||+.-++
T Consensus 45 ~~~FAlVng~~V~a~t~eeL~~kI~~~i~e 74 (78)
T PRK13669 45 EGLFALVNGEVVEGETPEELVENIYAHLEE 74 (78)
T ss_pred cCceEEECCeEeecCCHHHHHHHHHHHHhh
Confidence 57899999863 7888999999987653
No 116
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=22.29 E-value=1e+02 Score=24.09 Aligned_cols=100 Identities=9% Similarity=0.090 Sum_probs=54.5
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC---------CCCCccc-eEEecCCC---chHhHHHHHHHHhCCCCCc
Q 033386 9 EHPLERRLAESARIREKYPDRIPVIVEKAEKTD---------VPDIDKK-KYLVPADL---SVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 9 ~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~---------~p~L~k~-Kflvp~~~---tv~~~~~~lRk~l~l~~~~ 75 (120)
.-|.+||++-.+..++..++++|||+--...+. +-.+.=. -.++|... +-.++..+.+.=..-. .-
T Consensus 50 ~ls~~Er~~~~~~~~~~~~~~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~-~~ 128 (292)
T PRK03170 50 TLTHEEHEELIRAVVEAVNGRVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEAT-DL 128 (292)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCcEEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcC-CC
Confidence 457899999999999999999999986654221 0001001 12333322 2244555444333221 35
Q ss_pred eEEEEEcCC---CCCCCchHHHHHhHccCCCCeEEEEecCc
Q 033386 76 AIFVFVKNT---LPPTGALMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 76 slfl~Vn~~---~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
.+++|=+-. ..-+.+.+.+| .++ ..+..+.+++.
T Consensus 129 pv~lYn~P~~~g~~l~~~~~~~L-~~~---p~v~giK~s~~ 165 (292)
T PRK03170 129 PIILYNVPGRTGVDILPETVARL-AEH---PNIVGIKEATG 165 (292)
T ss_pred CEEEEECccccCCCCCHHHHHHH-HcC---CCEEEEEECCC
Confidence 688884311 22223466666 333 45777777653
No 117
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=22.28 E-value=98 Score=24.33 Aligned_cols=29 Identities=10% Similarity=0.135 Sum_probs=24.8
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecC
Q 033386 10 HPLERRLAESARIREKYPDRIPVIVEKAE 38 (120)
Q Consensus 10 ~s~e~R~~e~~~i~~kyp~~ipVIvE~~~ 38 (120)
-|.|||..-.+..++.-++++|||+--..
T Consensus 54 Ls~eEr~~~~~~~~~~~~~~~~viagvg~ 82 (293)
T PRK04147 54 LSTEEKKQVLEIVAEEAKGKVKLIAQVGS 82 (293)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEecCCC
Confidence 46799999999999999999999996643
No 118
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=22.15 E-value=92 Score=24.25 Aligned_cols=100 Identities=13% Similarity=0.124 Sum_probs=55.2
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC---------CCCCcc-ceEEecCC---CchHhHHHHHHHHhCCCCCc
Q 033386 9 EHPLERRLAESARIREKYPDRIPVIVEKAEKTD---------VPDIDK-KKYLVPAD---LSVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 9 ~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~---------~p~L~k-~Kflvp~~---~tv~~~~~~lRk~l~l~~~~ 75 (120)
.-|.+||+.-.+...+.-+.++|||+--...+. +-.+.= --.++|.- .+-.++..+.+.=. -..+-
T Consensus 50 ~Lt~~Er~~l~~~~~~~~~~~~~vi~gv~~~st~~~i~~a~~a~~~Gad~v~v~~P~~~~~s~~~l~~y~~~ia-~~~~~ 128 (289)
T PF00701_consen 50 SLTDEERKELLEIVVEAAAGRVPVIAGVGANSTEEAIELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIA-DATDL 128 (289)
T ss_dssp GS-HHHHHHHHHHHHHHHTTSSEEEEEEESSSHHHHHHHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHH-HHSSS
T ss_pred cCCHHHHHHHHHHHHHHccCceEEEecCcchhHHHHHHHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHH-hhcCC
Confidence 356799999999989888999999997655321 001100 12233332 24455555554443 22345
Q ss_pred eEEEEEcCC---CCCCCchHHHHHhHccCCCCeEEEEecCc
Q 033386 76 AIFVFVKNT---LPPTGALMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 76 slfl~Vn~~---~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
.+++|-+-. ..-+.+++.+|.+ + +.+-.+.+++-
T Consensus 129 pi~iYn~P~~tg~~ls~~~l~~L~~-~---~nv~giK~s~~ 165 (289)
T PF00701_consen 129 PIIIYNNPARTGNDLSPETLARLAK-I---PNVVGIKDSSG 165 (289)
T ss_dssp EEEEEEBHHHHSSTSHHHHHHHHHT-S---TTEEEEEESSS
T ss_pred CEEEEECCCccccCCCHHHHHHHhc-C---CcEEEEEcCch
Confidence 788887642 2233345555555 3 34555665543
No 119
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=22.09 E-value=2.8e+02 Score=20.68 Aligned_cols=95 Identities=18% Similarity=0.187 Sum_probs=61.1
Q ss_pred cccCCHHHHHHHHHHHHHhCCCeeeEEEEecCC--CCCCCCccceEEecCCCchHhHHHHHH-----HHhCCCCCceEEE
Q 033386 7 KLEHPLERRLAESARIREKYPDRIPVIVEKAEK--TDVPDIDKKKYLVPADLSVGQFVYVVR-----KRIKLSAEKAIFV 79 (120)
Q Consensus 7 k~~~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~--~~~p~L~k~Kflvp~~~tv~~~~~~lR-----k~l~l~~~~slfl 79 (120)
+--.|+|||.+-.++.....|+- -|....+ -+.-.-..-+++|..=-++++|-+-+. ++|.- .=+++||
T Consensus 43 ~plFsleER~~l~~~~~~~l~nV---~V~~f~~Llvd~ak~~~a~~ivRGLR~~sDfeYE~qma~~N~~L~~-eveTvFl 118 (159)
T COG0669 43 KPLFSLEERVELIREATKHLPNV---EVVGFSGLLVDYAKKLGATVLVRGLRAVSDFEYELQMAHMNRKLAP-EVETVFL 118 (159)
T ss_pred CCCcCHHHHHHHHHHHhcCCCce---EEEecccHHHHHHHHcCCCEEEEeccccchHHHHHHHHHHHHhhcc-cccEEEe
Confidence 44678999999999998777763 3333321 011111235689998888888866554 44322 3579999
Q ss_pred EEcCCC-CCCCchHHHHHhHccCCCCe
Q 033386 80 FVKNTL-PPTGALMSAIYEENKDEDGF 105 (120)
Q Consensus 80 ~Vn~~~-p~~~~~~~~lY~~~kd~DGf 105 (120)
.-.... .-.++.+.+|..--.|-++|
T Consensus 119 ~~s~~~~~iSSs~Vreia~~ggdvs~~ 145 (159)
T COG0669 119 MPSPEYSFISSSLVREIAAFGGDVSEF 145 (159)
T ss_pred cCCcceehhhHHHHHHHHHhCCCchhh
Confidence 877653 55566778887766665554
No 120
>PF10336 DUF2420: Protein of unknown function (DUF2420); InterPro: IPR018822 This entry represents a family of proteins conserved in fungi. Their function is not known.
Probab=21.74 E-value=2.8e+02 Score=19.08 Aligned_cols=63 Identities=17% Similarity=0.201 Sum_probs=41.0
Q ss_pred CCchHhHHHHHHHHhC------CCCCceEEEEEcC--------CCCCCCchHHHHHhHccC---C---------CCeEEE
Q 033386 55 DLSVGQFVYVVRKRIK------LSAEKAIFVFVKN--------TLPPTGALMSAIYEENKD---E---------DGFLYM 108 (120)
Q Consensus 55 ~~tv~~~~~~lRk~l~------l~~~~slfl~Vn~--------~~p~~~~~~~~lY~~~kd---~---------DGfLyi 108 (120)
+.++++|...+|+.+. +..++-|.|-+.. .+-..+-++++|-+-|.. . =+-||+
T Consensus 10 ~~~l~~lf~~lR~~le~~~g~~~~~~~ELvl~i~~L~L~i~EDn~y~~~iTl~di~~lf~~L~~n~~~~~~~~~p~~L~i 89 (113)
T PF10336_consen 10 NEPLEELFAALRQFLENEEGELFSAEDELVLDIPELGLEISEDNVYCSDITLSDIVDLFDILCENDGKNEEPDLPEPLYI 89 (113)
T ss_pred hCCHHHHHHHHHHHHHhccccccCCCCEEEEEeccCCcEEeccccccccCcHHHHHHHHHHHHhccCccccCCCCCcEEE
Confidence 3578999999999984 4455666665542 233455566665444432 2 238999
Q ss_pred EecCccccC
Q 033386 109 TYSGENTFG 117 (120)
Q Consensus 109 ~Ys~~~afG 117 (120)
+-+..+.|-
T Consensus 90 ~LstrPRFi 98 (113)
T PF10336_consen 90 TLSTRPRFI 98 (113)
T ss_pred EEecCccHH
Confidence 999988773
No 121
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 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. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=21.57 E-value=1.1e+02 Score=24.10 Aligned_cols=31 Identities=16% Similarity=0.443 Sum_probs=25.4
Q ss_pred cCCCchHhHHHHHH--------HHhCCCCCceEEEEEcC
Q 033386 53 PADLSVGQFVYVVR--------KRIKLSAEKAIFVFVKN 83 (120)
Q Consensus 53 p~~~tv~~~~~~lR--------k~l~l~~~~slfl~Vn~ 83 (120)
..+.|...|..+|+ +.|...+++.||+|..+
T Consensus 77 g~~v~~~~fl~vL~G~~~~~~~kvl~s~~~D~vfiy~~~ 115 (256)
T PF01650_consen 77 GEDVTPENFLNVLTGDKSVPSGKVLNSTENDNVFIYFTG 115 (256)
T ss_pred ccccCHHHHHHHhcCCCCCCccccccCCCCCeEEEEEec
Confidence 45788999999999 55577889999999863
No 122
>PF08216 CTNNBL: Catenin-beta-like, Arm-motif containing nuclear; InterPro: IPR013180 This domain is found in eukaryotic proteins. A human nuclear protein with this domain (Q8WYA6 from SWISSPROT) is thought to have a role in apoptosis [].
Probab=21.26 E-value=92 Score=21.75 Aligned_cols=20 Identities=35% Similarity=0.730 Sum_probs=17.4
Q ss_pred CCHHHHHHHHHHHHHhCCCe
Q 033386 10 HPLERRLAESARIREKYPDR 29 (120)
Q Consensus 10 ~s~e~R~~e~~~i~~kyp~~ 29 (120)
..||.|...-+..|-|||+.
T Consensus 33 l~fek~i~kN~e~R~K~~dd 52 (108)
T PF08216_consen 33 LSFEKRINKNQEMRIKYPDD 52 (108)
T ss_pred HHHHHHHHHhHHHHHhCCCC
Confidence 35899999999999999974
No 123
>PF05768 DUF836: Glutaredoxin-like domain (DUF836); InterPro: IPR008554 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This family contains several viral glutaredoxins, and many related bacterial and eukaryotic proteins of unknown function. The best characterised member of this family is G4L (P68460 from SWISSPROT) from Vaccinia virus (strain Western Reserve/WR) (VACV), which is necessary for virion morphogenesis and virus replication []. This is a cytomplasmic protein which functions as a shuttle in a redox pathway between membrane-associated E10R and L1R or F9L []. ; PDB: 1TTZ_A 1XPV_A 2FGX_A 2G2Q_C 1WJK_A.
Probab=21.02 E-value=71 Score=20.15 Aligned_cols=18 Identities=39% Similarity=0.543 Sum_probs=14.3
Q ss_pred HHHHHhCCCeeeEEEEec
Q 033386 20 ARIREKYPDRIPVIVEKA 37 (120)
Q Consensus 20 ~~i~~kyp~~ipVIvE~~ 37 (120)
..+..+|..+|||+.-..
T Consensus 40 ~~l~~~Y~~~IPVl~~~~ 57 (81)
T PF05768_consen 40 PELFEKYGYRIPVLHIDG 57 (81)
T ss_dssp HHHHHHSCTSTSEEEETT
T ss_pred HHHHHHhcCCCCEEEEcC
Confidence 347889999999987544
No 124
>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=20.85 E-value=78 Score=19.15 Aligned_cols=37 Identities=11% Similarity=0.233 Sum_probs=25.5
Q ss_pred ccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCC
Q 033386 46 DKKKYLVPADLSVGQFVYVVRKRIKLSAEKAIFVFVKNTLPP 87 (120)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~l~l~~~~slfl~Vn~~~p~ 87 (120)
....+-+++..|+.++...+ ++++ +.+-+.||+.+.+
T Consensus 5 Ng~~~~~~~~~tv~~ll~~l----~~~~-~~i~V~vNg~~v~ 41 (65)
T cd00565 5 NGEPREVEEGATLAELLEEL----GLDP-RGVAVALNGEIVP 41 (65)
T ss_pred CCeEEEcCCCCCHHHHHHHc----CCCC-CcEEEEECCEEcC
Confidence 34566788889998876544 5554 4567889988633
No 125
>TIGR01091 upp uracil phosphoribosyltransferase. that includes uracil phosphoribosyltransferase, uridine kinases, and other, uncharacterized proteins.
Probab=20.32 E-value=1.2e+02 Score=22.76 Aligned_cols=33 Identities=15% Similarity=0.454 Sum_probs=24.0
Q ss_pred HHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecC
Q 033386 17 AESARIREKYPDRIPVIVEKAEKTDVPDIDKKKYLVPA 54 (120)
Q Consensus 17 ~e~~~i~~kyp~~ipVIvE~~~~~~~p~L~k~Kflvp~ 54 (120)
.-.+++.++||+ |.|++-... |.|+.+.|+||.
T Consensus 163 ~gl~~l~~~~p~-v~i~~~~id----~~l~~~~yivPG 195 (207)
T TIGR01091 163 EGIEAVEKAHPD-VDIYTAAID----EKLNDNGYIVPG 195 (207)
T ss_pred HHHHHHHHHCCC-CEEEEEEEC----CCccCCccCcCC
Confidence 346678889997 777764432 577888899995
No 126
>KOG0765 consensus Predicted mitochondrial carrier protein [Energy production and conversion]
Probab=20.30 E-value=43 Score=27.63 Aligned_cols=35 Identities=17% Similarity=0.391 Sum_probs=27.0
Q ss_pred CCccceEEecCCCchHhH------HHHHHHHhCCCCCceEE
Q 033386 44 DIDKKKYLVPADLSVGQF------VYVVRKRIKLSAEKAIF 78 (120)
Q Consensus 44 ~L~k~Kflvp~~~tv~~~------~~~lRk~l~l~~~~slf 78 (120)
.|||+||.+..-..+.-+ ...||.||++.+++.+|
T Consensus 30 ~lDK~kFy~~g~~l~~~Vr~aLYP~~vlkTrlQVq~~~~vy 70 (333)
T KOG0765|consen 30 MLDKKKFYPLGAALFSGVRTALYPLTVLKTRLQVQKKNTVY 70 (333)
T ss_pred hccccceeehhhHHhhcceeeeeehhhhhhHHhhccccchh
Confidence 689999998877665554 56789999998877544
No 127
>PLN02417 dihydrodipicolinate synthase
Probab=20.28 E-value=1.2e+02 Score=23.75 Aligned_cols=97 Identities=6% Similarity=0.051 Sum_probs=52.9
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC--C-------CCCc-cceEEecCCC---chHhHHHHHHHHhCCCCCce
Q 033386 10 HPLERRLAESARIREKYPDRIPVIVEKAEKTD--V-------PDID-KKKYLVPADL---SVGQFVYVVRKRIKLSAEKA 76 (120)
Q Consensus 10 ~s~e~R~~e~~~i~~kyp~~ipVIvE~~~~~~--~-------p~L~-k~Kflvp~~~---tv~~~~~~lRk~l~l~~~~s 76 (120)
-|.+||..-.+...+.-+.++|||+--...+. + -.+. .--.++|... +-.++..+.+.-... . .
T Consensus 51 ls~~Er~~~~~~~~~~~~~~~pvi~gv~~~~t~~~i~~a~~a~~~Gadav~~~~P~y~~~~~~~i~~~f~~va~~--~-p 127 (280)
T PLN02417 51 MSWDEHIMLIGHTVNCFGGKIKVIGNTGSNSTREAIHATEQGFAVGMHAALHINPYYGKTSQEGLIKHFETVLDM--G-P 127 (280)
T ss_pred CCHHHHHHHHHHHHHHhCCCCcEEEECCCccHHHHHHHHHHHHHcCCCEEEEcCCccCCCCHHHHHHHHHHHHhh--C-C
Confidence 46799999888888888999999997654321 0 0000 0111222211 224555555443332 3 7
Q ss_pred EEEEEcCC---CCCCCchHHHHHhHccCCCCeEEEEecCc
Q 033386 77 IFVFVKNT---LPPTGALMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 77 lfl~Vn~~---~p~~~~~~~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
+++|=+-. ..-+.+++.+|- +.+.+..|.+++.
T Consensus 128 i~lYn~P~~tg~~l~~~~l~~l~----~~pni~giKdss~ 163 (280)
T PLN02417 128 TIIYNVPGRTGQDIPPEVIFKIA----QHPNFAGVKECTG 163 (280)
T ss_pred EEEEEChhHhCcCCCHHHHHHHh----cCCCEEEEEeCCC
Confidence 88884421 222234566664 2356777777654
No 128
>PF02938 GAD: GAD domain; InterPro: IPR004115 This entry represetns an 2 layer alpha/beta insertion domain found in some glutamyl-tRNA amidotransferases and aspartyl tRNA synthetases [, ]. The function of this domain is not yet known.; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0005737 cytoplasm; PDB: 1ZQ1_D 1EQR_B 1IL2_B 1C0A_A 1L0W_A 1G51_B 1EFW_B 2D6F_D.
Probab=20.20 E-value=1.6e+02 Score=19.31 Aligned_cols=25 Identities=4% Similarity=0.086 Sum_probs=18.9
Q ss_pred HhHHHHHHHHhCCCCCceEEEEEcC
Q 033386 59 GQFVYVVRKRIKLSAEKAIFVFVKN 83 (120)
Q Consensus 59 ~~~~~~lRk~l~l~~~~slfl~Vn~ 83 (120)
.+...-|.+++++.+++.+|+..+.
T Consensus 63 e~~~~~l~~~~~a~~GD~ll~~Ag~ 87 (95)
T PF02938_consen 63 EEELKALIERLGAKPGDLLLFVAGK 87 (95)
T ss_dssp HHHHHHHHHHTT--TTEEEEEEEES
T ss_pred HHHHHHHHHHhCCCCCCEEEEECCC
Confidence 5667888999999999999887764
No 129
>PF13905 Thioredoxin_8: Thioredoxin-like; PDB: 1FG4_A 1I5G_A 1OC8_B 1O6J_A 1OC9_B 1O81_A 3FKF_A 1O85_A 1O7U_A 1O8W_A ....
Probab=20.13 E-value=1.7e+02 Score=18.12 Aligned_cols=23 Identities=17% Similarity=0.304 Sum_probs=13.7
Q ss_pred chHHHHHhHccCCCCeEEEEecC
Q 033386 90 ALMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 90 ~~~~~lY~~~kd~DGfLyi~Ys~ 112 (120)
..|.++|++|++.+++=.|.-+.
T Consensus 21 ~~l~~l~~~~~~~~~v~~v~Vs~ 43 (95)
T PF13905_consen 21 PKLKELYKKYKKKDDVEFVFVSL 43 (95)
T ss_dssp HHHHHHHHHHTTTTTEEEEEEE-
T ss_pred HHHHHHHHHhCCCCCEEEEEEEe
Confidence 36788888887655544444433
Done!