Query 033381
Match_columns 120
No_of_seqs 122 out of 389
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 13:12:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033381.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033381hhsearch_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 1.9E-54 4.1E-59 299.9 12.5 116 2-117 1-116 (116)
2 cd01611 GABARAP Ubiquitin doma 100.0 1.2E-52 2.6E-57 294.2 14.2 112 6-117 1-112 (112)
3 PTZ00380 microtubule-associate 100.0 2.8E-50 6E-55 284.8 12.7 110 4-118 2-112 (121)
4 PF02991 Atg8: Autophagy prote 100.0 1.2E-49 2.6E-54 275.8 12.5 104 14-117 1-104 (104)
5 cd01612 APG12_C Ubiquitin-like 100.0 8.7E-34 1.9E-38 190.9 10.6 84 33-117 3-87 (87)
6 PF04110 APG12: Ubiquitin-like 99.9 1.1E-25 2.4E-30 151.4 7.8 86 29-117 1-87 (87)
7 KOG3439 Protein conjugation fa 99.9 2.1E-24 4.6E-29 150.0 9.9 86 29-117 30-116 (116)
8 PF04106 APG5: Autophagy prote 96.9 0.0025 5.4E-08 48.4 5.4 100 10-111 88-195 (197)
9 PF11816 DUF3337: Domain of un 95.8 0.1 2.2E-06 42.4 9.5 87 26-112 211-328 (331)
10 PF11976 Rad60-SLD: Ubiquitin- 92.6 0.32 6.9E-06 30.2 4.5 49 47-95 12-60 (72)
11 cd06406 PB1_P67 A PB1 domain i 91.5 1.1 2.3E-05 29.8 6.2 55 51-108 16-75 (80)
12 PF13019 Telomere_Sde2: Telome 90.1 3 6.5E-05 31.1 8.1 78 30-110 1-81 (162)
13 smart00213 UBQ Ubiquitin homol 87.9 1.8 4E-05 25.5 4.8 46 48-94 12-57 (64)
14 KOG2976 Protein involved in au 87.1 9.6 0.00021 30.6 9.6 92 11-110 161-273 (278)
15 KOG2660 Locus-specific chromos 87.0 1.5 3.3E-05 36.1 5.2 73 41-114 159-235 (331)
16 PF00240 ubiquitin: Ubiquitin 86.7 1 2.2E-05 27.6 3.2 46 49-95 9-54 (69)
17 cd00196 UBQ Ubiquitin-like pro 84.4 4.8 0.0001 21.9 5.5 40 45-85 7-46 (69)
18 cd06398 PB1_Joka2 The PB1 doma 80.7 5.1 0.00011 26.9 4.9 52 47-98 11-72 (91)
19 cd01813 UBP_N UBP ubiquitin pr 80.4 3.5 7.5E-05 26.3 3.9 45 51-95 15-61 (74)
20 cd01763 Sumo Small ubiquitin-r 79.9 6.2 0.00014 25.7 5.1 62 27-95 9-70 (87)
21 PF10302 DUF2407: DUF2407 ubiq 79.5 11 0.00025 25.5 6.4 71 41-112 10-94 (97)
22 cd01798 parkin_N amino-termina 77.0 5.2 0.00011 24.7 3.9 44 50-94 13-56 (70)
23 cd01807 GDX_N ubiquitin-like d 76.5 5.2 0.00011 25.0 3.8 44 50-94 15-58 (74)
24 cd01769 UBL Ubiquitin-like dom 75.8 12 0.00026 22.1 5.2 57 49-110 11-68 (69)
25 cd01806 Nedd8 Nebb8-like ubiq 75.4 10 0.00022 23.3 4.9 57 50-111 15-72 (76)
26 PF03671 Ufm1: Ubiquitin fold 73.0 16 0.00036 23.9 5.4 59 43-101 13-71 (76)
27 cd05992 PB1 The PB1 domain is 72.1 21 0.00045 22.2 7.3 63 47-109 11-79 (81)
28 cd01810 ISG15_repeat2 ISG15 ub 71.0 14 0.00031 23.0 4.8 58 50-111 13-70 (74)
29 cd01805 RAD23_N Ubiquitin-like 69.5 10 0.00022 23.5 3.9 56 49-109 14-72 (77)
30 COG3343 RpoE DNA-directed RNA 68.9 7.3 0.00016 29.4 3.5 47 55-117 30-77 (175)
31 cd01790 Herp_N Homocysteine-re 68.5 30 0.00065 22.6 7.2 62 49-111 15-79 (79)
32 cd01803 Ubiquitin Ubiquitin. U 68.3 15 0.00032 22.5 4.4 58 49-111 14-72 (76)
33 cd01809 Scythe_N Ubiquitin-lik 66.7 18 0.00039 21.8 4.6 45 49-94 14-58 (72)
34 smart00666 PB1 PB1 domain. Pho 65.7 30 0.00065 21.6 6.9 62 47-108 12-78 (81)
35 PF12752 SUZ: SUZ domain; Int 65.4 7.5 0.00016 23.9 2.6 19 7-25 35-53 (59)
36 cd01796 DDI1_N DNA damage indu 64.8 11 0.00023 23.5 3.3 55 50-108 14-69 (71)
37 cd01799 Hoil1_N Ubiquitin-like 64.6 23 0.00049 22.6 4.8 57 49-108 16-72 (75)
38 cd01812 BAG1_N Ubiquitin-like 64.3 16 0.00035 22.1 4.0 44 50-94 14-57 (71)
39 cd01793 Fubi Fubi ubiquitin-li 63.1 23 0.0005 22.0 4.6 59 47-109 10-68 (74)
40 cd01791 Ubl5 UBL5 ubiquitin-li 62.7 20 0.00042 22.8 4.2 43 51-94 17-59 (73)
41 cd06396 PB1_NBR1 The PB1 domai 61.9 44 0.00095 22.1 6.1 62 46-110 10-78 (81)
42 cd01794 DC_UbP_C dendritic cel 61.4 23 0.0005 22.1 4.4 45 49-94 12-56 (70)
43 PF00837 T4_deiodinase: Iodoth 61.1 11 0.00024 29.7 3.4 35 4-39 158-192 (237)
44 PF14836 Ubiquitin_3: Ubiquiti 60.9 11 0.00023 25.4 2.8 47 51-97 19-71 (88)
45 PF08154 NLE: NLE (NUC135) dom 59.9 39 0.00085 20.9 6.5 42 44-85 14-56 (65)
46 PF12436 USP7_ICP0_bdg: ICP0-b 59.4 13 0.00028 29.0 3.5 59 49-111 88-152 (249)
47 cd06407 PB1_NLP A PB1 domain i 59.0 23 0.00049 23.2 4.1 53 47-99 11-68 (82)
48 PF00564 PB1: PB1 domain; Int 57.2 43 0.00094 20.8 5.2 52 50-101 16-71 (84)
49 PF00788 RA: Ras association ( 57.1 46 0.001 20.9 8.2 64 46-109 17-89 (93)
50 cd01808 hPLIC_N Ubiquitin-like 56.9 22 0.00049 21.8 3.7 58 49-110 13-70 (71)
51 cd01776 Rin1_RA Ubiquitin doma 56.9 27 0.00059 23.5 4.2 57 48-104 16-80 (87)
52 PTZ00044 ubiquitin; Provisiona 56.9 31 0.00067 21.2 4.4 45 49-94 14-58 (76)
53 cd01792 ISG15_repeat1 ISG15 ub 54.9 22 0.00048 22.5 3.5 58 51-111 18-76 (80)
54 cd01800 SF3a120_C Ubiquitin-li 53.1 28 0.00062 21.8 3.8 58 50-111 12-69 (76)
55 cd01795 USP48_C USP ubiquitin- 51.3 32 0.00069 24.0 4.0 25 50-74 19-43 (107)
56 cd01804 midnolin_N Ubiquitin-l 48.5 68 0.0015 20.2 5.4 58 50-112 16-73 (78)
57 PF14560 Ubiquitin_2: Ubiquiti 45.7 43 0.00093 21.5 3.8 33 48-80 16-49 (87)
58 cd01815 BMSC_UbP_N Ubiquitin-l 45.6 52 0.0011 21.3 4.2 43 51-94 16-61 (75)
59 PF14533 USP7_C2: Ubiquitin-sp 44.6 18 0.00038 27.6 2.1 50 46-95 34-90 (213)
60 PF12436 USP7_ICP0_bdg: ICP0-b 41.3 84 0.0018 24.4 5.5 53 28-83 175-227 (249)
61 KOG1209 1-Acyl dihydroxyaceton 41.0 56 0.0012 26.2 4.4 52 45-100 54-110 (289)
62 TIGR00601 rad23 UV excision re 39.9 1.2E+02 0.0026 25.5 6.4 59 51-113 16-77 (378)
63 PF00255 GSHPx: Glutathione pe 39.7 36 0.00079 23.4 2.9 38 77-117 23-65 (108)
64 PRK13125 trpA tryptophan synth 38.5 37 0.0008 26.1 3.1 17 101-119 151-167 (244)
65 PF11543 UN_NPL4: Nuclear pore 38.2 26 0.00056 22.8 1.9 57 48-108 16-77 (80)
66 TIGR01682 moaD molybdopterin c 38.2 35 0.00076 21.5 2.5 41 49-89 19-62 (80)
67 cd01802 AN1_N ubiquitin-like d 37.8 66 0.0014 21.7 3.9 76 26-111 24-99 (103)
68 PF09358 UBA_e1_C: Ubiquitin-a 36.9 32 0.00069 24.2 2.3 52 48-99 35-94 (125)
69 KOG1651 Glutathione peroxidase 36.6 77 0.0017 23.9 4.4 41 76-118 35-80 (171)
70 cd01789 Alp11_N Ubiquitin-like 36.1 76 0.0016 20.4 3.9 33 51-83 18-51 (84)
71 PF06970 RepA_N: Replication i 35.7 18 0.00039 23.4 0.8 17 99-115 42-58 (76)
72 KOG0010 Ubiquitin-like protein 35.5 1.1E+02 0.0024 26.8 5.7 53 47-104 26-78 (493)
73 cd06411 PB1_p51 The PB1 domain 35.4 1.3E+02 0.0028 19.8 6.0 57 51-107 12-74 (78)
74 cd01797 NIRF_N amino-terminal 35.0 71 0.0015 20.3 3.6 57 52-112 19-75 (78)
75 cd06408 PB1_NoxR The PB1 domai 35.0 53 0.0011 22.0 3.0 50 49-100 15-68 (86)
76 PRK04115 hypothetical protein; 34.6 1.8E+02 0.0038 21.2 5.9 56 17-81 50-114 (137)
77 PRK06437 hypothetical protein; 34.1 57 0.0012 20.2 2.9 38 50-92 15-52 (67)
78 PF09379 FERM_N: FERM N-termin 34.1 1E+02 0.0022 18.9 4.1 35 47-81 8-42 (80)
79 PF01886 DUF61: Protein of unk 33.9 1.1E+02 0.0023 22.0 4.6 56 16-80 46-111 (132)
80 PF08825 E2_bind: E2 binding d 32.8 54 0.0012 21.6 2.8 45 51-95 2-59 (84)
81 cd00952 CHBPH_aldolase Trans-o 31.8 54 0.0012 26.2 3.1 99 10-112 58-172 (309)
82 cd00754 MoaD Ubiquitin domain 31.8 45 0.00098 20.5 2.2 41 49-89 19-62 (80)
83 cd01775 CYR1_RA Ubiquitin doma 30.6 1.2E+02 0.0026 20.8 4.2 35 49-83 16-52 (97)
84 PF11470 TUG-UBL1: GLUT4 regul 30.5 1.1E+02 0.0024 19.1 3.8 40 44-84 5-44 (65)
85 COG0386 BtuE Glutathione perox 28.8 91 0.002 23.3 3.6 38 76-114 26-67 (162)
86 cd00408 DHDPS-like Dihydrodipi 28.7 72 0.0016 24.6 3.3 98 10-112 47-160 (281)
87 PF11767 SET_assoc: Histone ly 28.7 1.3E+02 0.0028 18.9 3.9 54 50-111 6-62 (66)
88 PF05990 DUF900: Alpha/beta hy 28.7 1.3E+02 0.0028 23.0 4.6 51 59-111 2-55 (233)
89 TIGR02313 HpaI-NOT-DapA 2,4-di 28.5 69 0.0015 25.3 3.2 101 10-113 50-166 (294)
90 cd00951 KDGDH 5-dehydro-4-deox 27.9 68 0.0015 25.2 3.0 100 10-113 50-161 (289)
91 PF06395 CDC24: CDC24 Calponin 27.8 54 0.0012 22.0 2.1 23 56-79 44-66 (89)
92 PRK02363 DNA-directed RNA poly 27.8 78 0.0017 22.6 3.1 50 53-117 17-66 (129)
93 TIGR00683 nanA N-acetylneurami 26.7 75 0.0016 25.1 3.1 99 10-112 51-165 (290)
94 PF05717 TnpB_IS66: IS66 Orf2 26.6 1E+02 0.0022 21.1 3.3 27 57-83 16-43 (107)
95 COG2002 AbrB Regulators of sta 26.4 79 0.0017 20.6 2.7 21 63-83 20-40 (89)
96 cd06401 PB1_TFG The PB1 domain 26.4 1.8E+02 0.0039 19.2 4.4 22 49-70 13-35 (81)
97 PF10336 DUF2420: Protein of u 26.4 2.2E+02 0.0048 19.6 5.3 62 56-117 11-98 (113)
98 PRK08364 sulfur carrier protei 26.2 65 0.0014 20.0 2.2 37 49-90 17-53 (70)
99 PF03568 Peptidase_C50: Peptid 25.9 3.8E+02 0.0082 22.1 7.5 71 28-100 204-287 (383)
100 PF04441 Pox_VERT_large: Poxvi 25.5 79 0.0017 28.5 3.2 55 54-113 58-123 (700)
101 PF02597 ThiS: ThiS family; I 25.5 31 0.00067 21.1 0.6 41 47-87 13-54 (77)
102 PF01704 UDPGP: UTP--glucose-1 25.4 1.5E+02 0.0032 25.1 4.8 56 12-86 88-143 (420)
103 PF00701 DHDPS: Dihydrodipicol 25.2 74 0.0016 24.8 2.8 100 9-113 50-165 (289)
104 PRK04147 N-acetylneuraminate l 25.1 81 0.0018 24.8 3.0 29 10-38 54-82 (293)
105 PRK03170 dihydrodipicolinate s 24.7 86 0.0019 24.5 3.1 100 9-113 50-165 (292)
106 PRK03620 5-dehydro-4-deoxygluc 24.7 87 0.0019 24.9 3.1 100 10-113 57-168 (303)
107 cd01938 ADPGK_ADPPFK ADP-depen 24.7 92 0.002 26.7 3.4 38 1-38 216-253 (445)
108 TIGR01683 thiS thiamine biosyn 24.1 1.5E+02 0.0033 17.7 3.6 35 46-85 4-38 (64)
109 PRK10953 cysJ sulfite reductas 23.8 5.1E+02 0.011 22.9 9.4 87 26-113 432-522 (600)
110 PF04014 Antitoxin-MazE: Antid 23.8 1.1E+02 0.0025 17.3 2.8 21 63-83 13-33 (47)
111 smart00295 B41 Band 4.1 homolo 23.3 2.3E+02 0.005 20.1 5.0 51 47-97 15-71 (207)
112 cd03483 MutL_Trans_MLH1 MutL_T 23.2 85 0.0019 21.7 2.5 26 74-99 47-75 (127)
113 smart00148 PLCXc Phospholipase 23.1 1.1E+02 0.0023 21.5 3.1 32 54-85 67-98 (135)
114 PF14060 DUF4252: Domain of un 22.7 1E+02 0.0023 21.5 3.0 25 88-112 20-44 (155)
115 PLN02417 dihydrodipicolinate s 22.1 1.1E+02 0.0023 24.1 3.2 97 10-113 51-163 (280)
116 PRK13669 hypothetical protein; 22.1 80 0.0017 20.8 2.0 27 75-101 45-74 (78)
117 COG0669 CoaD Phosphopantethein 21.9 3.1E+02 0.0067 20.4 5.3 96 7-106 43-146 (159)
118 PF08469 NPHI_C: Nucleoside tr 21.9 63 0.0014 23.8 1.6 22 86-107 101-122 (148)
119 TIGR02728 spore_gerQ spore coa 21.7 98 0.0021 20.5 2.4 33 86-118 2-34 (82)
120 PF05768 DUF836: Glutaredoxin- 21.6 68 0.0015 20.2 1.6 18 20-37 40-57 (81)
121 PF01119 DNA_mis_repair: DNA m 21.4 80 0.0017 21.4 2.1 28 72-99 37-67 (119)
122 PF09671 Spore_GerQ: Spore coa 21.3 1.2E+02 0.0025 20.2 2.7 34 85-118 3-36 (81)
123 TIGR01051 topA_bact DNA topois 21.3 3.2E+02 0.0069 24.2 6.2 50 53-114 250-300 (610)
124 cd00950 DHDPS Dihydrodipicolin 21.3 1.2E+02 0.0025 23.6 3.2 100 9-113 49-164 (284)
125 smart00537 DCX Domain in the D 21.1 2.5E+02 0.0054 18.3 5.7 60 46-117 19-84 (89)
126 PF12108 SF3a60_bindingd: Spli 21.1 1.2E+02 0.0025 16.2 2.2 17 12-28 12-28 (28)
127 PF13905 Thioredoxin_8: Thiore 21.0 1.6E+02 0.0035 18.2 3.4 23 90-112 21-43 (95)
128 PF15243 ANAPC15: Anaphase-pro 20.9 89 0.0019 21.2 2.1 20 13-32 35-54 (92)
129 PHA01078 putative upper collar 20.9 1.5E+02 0.0032 23.5 3.6 38 60-100 20-58 (249)
130 cd01766 Ufm1 Urm1-like ubiquit 20.7 1.7E+02 0.0037 19.3 3.3 54 47-101 17-71 (82)
131 PF15130 DUF4566: Domain of un 20.6 1.5E+02 0.0033 23.2 3.6 51 47-97 153-211 (241)
132 PRK11130 moaD molybdopterin sy 20.6 1.1E+02 0.0023 19.4 2.4 35 55-90 25-64 (81)
133 cd00954 NAL N-Acetylneuraminic 20.4 1.3E+02 0.0028 23.6 3.3 29 9-37 50-78 (288)
134 smart00314 RA Ras association 20.2 2.4E+02 0.0052 17.8 6.0 39 43-81 13-54 (90)
135 cd04117 Rab15 Rab15 subfamily. 20.1 1.1E+02 0.0024 21.0 2.7 34 8-42 84-117 (161)
136 PRK08577 hypothetical protein; 20.0 1.1E+02 0.0024 21.2 2.6 21 63-83 19-39 (136)
No 1
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=100.00 E-value=1.9e-54 Score=299.91 Aligned_cols=116 Identities=75% Similarity=1.192 Sum_probs=114.1
Q ss_pred CCCcccccCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEE
Q 033381 2 AKSSFKLEHPLERRQAESARIREKYPDRIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFV 81 (120)
Q Consensus 2 ~~~~fk~~~~~e~R~~e~~~i~~k~P~~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 033381 82 KNILPPTAAMMSAIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 82 n~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG 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=294.17 Aligned_cols=112 Identities=72% Similarity=1.215 Sum_probs=111.1
Q ss_pred ccccCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC
Q 033381 6 FKLEHPLERRQAESARIREKYPDRIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNIL 85 (120)
Q Consensus 6 fk~~~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~l 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 033381 86 PPTAAMMSAIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 86 p~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG 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=2.8e-50 Score=284.76 Aligned_cols=110 Identities=35% Similarity=0.616 Sum_probs=107.0
Q ss_pred CcccccCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceE-EecCCCchHhHHHHHHHHhCCCCCceEEEEEc
Q 033381 4 SSFKLEHPLERRQAESARIREKYPDRIPVIVEKAERSDIPDIDKKKY-LVPADLTVGQFVYVVRKRIKLSAEKAIFIFVK 82 (120)
Q Consensus 4 ~~fk~~~~~e~R~~e~~~i~~k~P~~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 68999999999999999999999999999999999887 79999 6999999999999999999999999 999999
Q ss_pred CCCCCccchHHHHHhHccCCCCeEEEEecCccccCC
Q 033381 83 NILPPTAAMMSAIYEENKDEDGFLYMTYSGENTFGA 118 (120)
Q Consensus 83 ~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG~ 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=1.2e-49 Score=275.80 Aligned_cols=104 Identities=66% Similarity=1.150 Sum_probs=95.1
Q ss_pred HHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHH
Q 033381 14 RRQAESARIREKYPDRIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMS 93 (120)
Q Consensus 14 ~R~~e~~~i~~k~P~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~ 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 033381 94 AIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 94 ~lY~~~kd~DGfLyi~Ys~~~~fG 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=8.7e-34 Score=190.89 Aligned_cols=84 Identities=21% Similarity=0.430 Sum_probs=78.1
Q ss_pred EEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCC-CCCccchHHHHHhHccCCCCeEEEEec
Q 033381 33 IVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNI-LPPTAAMMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 33 IvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~-lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (120)
.|--.+.+++|.|+++||+||+++||++|+.+||+||++++++||||||||+ .|++|++||+||++| |+||||||+||
T Consensus 3 ~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~~dGfLyi~Ys 81 (87)
T cd01612 3 TIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-GTNGELIVSYC 81 (87)
T ss_pred EEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-CCCCEEEEEEe
Confidence 3333445689999999999999999999999999999999999999999997 699999999999999 89999999999
Q ss_pred CccccC
Q 033381 112 GENTFG 117 (120)
Q Consensus 112 ~~~~fG 117 (120)
+++|||
T Consensus 82 ~~~afG 87 (87)
T cd01612 82 KTVAFG 87 (87)
T ss_pred CccccC
Confidence 999999
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=1.1e-25 Score=151.43 Aligned_cols=86 Identities=22% Similarity=0.476 Sum_probs=62.2
Q ss_pred eeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCC-CCCccchHHHHHhHccCCCCeEE
Q 033381 29 RIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNI-LPPTAAMMSAIYEENKDEDGFLY 107 (120)
Q Consensus 29 ~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~-lp~~~~~m~~lY~~~kd~DGfLy 107 (120)
||-|.....+ ++|.|+++||.|.++.|++.++.+|||+|+++++++||+|||++ .|++|+++|+||+||+ .||.|.
T Consensus 1 KV~v~fk~iG--~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~-~~~~Li 77 (87)
T PF04110_consen 1 KVTVRFKAIG--SAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFG-TNGELI 77 (87)
T ss_dssp EEEEEEEEET--T----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH--BTTBEE
T ss_pred CEEEEEEecC--CCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhC-CCCEEE
Confidence 3455555555 79999999999999999999999999999999999999999996 5999999999999997 899999
Q ss_pred EEecCccccC
Q 033381 108 MTYSGENTFG 117 (120)
Q Consensus 108 i~Ys~~~~fG 117 (120)
|+||.++|||
T Consensus 78 v~Ys~t~A~G 87 (87)
T PF04110_consen 78 VSYSKTPAWG 87 (87)
T ss_dssp EEEESSS---
T ss_pred EEEecccccC
Confidence 9999999999
No 7
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=2.1e-24 Score=149.95 Aligned_cols=86 Identities=23% Similarity=0.493 Sum_probs=78.7
Q ss_pred eeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC-CCccchHHHHHhHccCCCCeEE
Q 033381 29 RIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNIL-PPTAAMMSAIYEENKDEDGFLY 107 (120)
Q Consensus 29 ~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~l-p~~~~~m~~lY~~~kd~DGfLy 107 (120)
||-|.+... .++|.|+++||.|+.+.||+.++.+|||+|+|.++++|||||||++ |++|+.+|+||+||+ .||.|.
T Consensus 30 kV~i~l~ai--G~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~cf~-~d~~Lv 106 (116)
T KOG3439|consen 30 KVQIRLRAI--GDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYECFG-TDGKLV 106 (116)
T ss_pred eEEEEEecc--CCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHhcC-CCCEEE
Confidence 455555433 4899999999999999999999999999999999999999999975 999999999999995 899999
Q ss_pred EEecCccccC
Q 033381 108 MTYSGENTFG 117 (120)
Q Consensus 108 i~Ys~~~~fG 117 (120)
++||...|||
T Consensus 107 l~Yc~s~A~G 116 (116)
T KOG3439|consen 107 LNYCISVAWG 116 (116)
T ss_pred EEEeeecccC
Confidence 9999999999
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=96.86 E-value=0.0025 Score=48.43 Aligned_cols=100 Identities=15% Similarity=0.208 Sum_probs=49.0
Q ss_pred CCHHHHHHHHHHHH---HhCCCeeeEEEEecCCCCCCCCccceEEec---CCCchHhHHHHHHHHh--CCCCCceEEEEE
Q 033381 10 HPLERRQAESARIR---EKYPDRIPVIVEKAERSDIPDIDKKKYLVP---ADLTVGQFVYVVRKRI--KLSAEKAIFIFV 81 (120)
Q Consensus 10 ~~~e~R~~e~~~i~---~k~P~~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 34444344455555 5666899999977653 233222211111 2246666554332211 012345567888
Q ss_pred cCCCCCccchHHHHHhHccCCCCeEEEEec
Q 033381 82 KNILPPTAAMMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 82 n~~lp~~~~~m~~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 998888899999999999999999999753
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=95.82 E-value=0.1 Score=42.42 Aligned_cols=87 Identities=16% Similarity=0.274 Sum_probs=71.9
Q ss_pred CCCeeeEEEEecCCCCCCCCccc-----------------eEEecCCCchHhHHHHHHHHh--------------CCCCC
Q 033381 26 YPDRIPVIVEKAERSDIPDIDKK-----------------KYLVPADLTVGQFVYVVRKRI--------------KLSAE 74 (120)
Q Consensus 26 ~P~~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 45788889999886555655555 888999999999999999999 45778
Q ss_pred ceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEecC
Q 033381 75 KAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 75 ~slfl~Vn~~lp~~~~~m~~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 99999999998888999999988854468899999964
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=92.58 E-value=0.32 Score=30.24 Aligned_cols=49 Identities=12% Similarity=0.137 Sum_probs=38.9
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHH
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAI 95 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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 5678999999999999999999999995667777777655666677664
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=91.54 E-value=1.1 Score=29.80 Aligned_cols=55 Identities=20% Similarity=0.319 Sum_probs=42.6
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEEEc----C-CCCCccchHHHHHhHccCCCCeEEE
Q 033381 51 LVPADLTVGQFVYVVRKRIKLSAEKAIFIFVK----N-ILPPTAAMMSAIYEENKDEDGFLYM 108 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn----~-~lp~~~~~m~~lY~~~kd~DGfLyi 108 (120)
-||.+.+++++...|++||++++ +.+-|.-- + ..|-.|+.|...+.+=+ ||-|-+
T Consensus 16 rvp~~~~y~~L~~ki~~kLkl~~-e~i~LsYkde~s~~~v~l~d~dle~aws~~~--~~~lTL 75 (80)
T cd06406 16 QVARGLSYATLLQKISSKLELPA-EHITLSYKSEASGEDVILSDTNMEDVWSQAK--DGCLTL 75 (80)
T ss_pred EcCCCCCHHHHHHHHHHHhCCCc-hhcEEEeccCCCCCccCcChHHHHHHHHhhc--CCeEEE
Confidence 58999999999999999999984 45666553 2 24567889999999886 666544
No 12
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=90.07 E-value=3 Score=31.12 Aligned_cols=78 Identities=18% Similarity=0.388 Sum_probs=56.2
Q ss_pred eeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEc-C-CC-CCccchHHHHHhHccCCCCeE
Q 033381 30 IPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVK-N-IL-PPTAAMMSAIYEENKDEDGFL 106 (120)
Q Consensus 30 ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn-~-~l-p~~~~~m~~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 35667555432222 3455779999999999999999999988877888886 4 45 56777888888777543 676
Q ss_pred EEEe
Q 033381 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=87.87 E-value=1.8 Score=25.47 Aligned_cols=46 Identities=11% Similarity=0.054 Sum_probs=34.7
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHH
Q 033381 48 KKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 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 4467999999999999999999998764 445566665555666654
No 14
>KOG2976 consensus Protein involved in autophagy and nutrient starvation [Posttranslational modification, protein turnover, chaperones]
Probab=87.14 E-value=9.6 Score=30.62 Aligned_cols=92 Identities=15% Similarity=0.276 Sum_probs=56.0
Q ss_pred CHHHHHHHHHHHHHh----CCCeeeEEEEec--C-------CCCCCCCccceEEecCCCchHhHHHHHHHHhC-------
Q 033381 11 PLERRQAESARIREK----YPDRIPVIVEKA--E-------RSDIPDIDKKKYLVPADLTVGQFVYVVRKRIK------- 70 (120)
Q Consensus 11 ~~e~R~~e~~~i~~k----~P~~ipVIvE~~--~-------~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~------- 70 (120)
.|.+=..-+.++..- .+-+||+.+--. + +...|. .-.++-....+-.+|.+++.
T Consensus 161 ~fd~F~~Is~Kl~~s~e~n~~r~IPL~iy~sq~~t~r~f~~~~~~P~------~~~~d~~~stlge~l~d~~~~s~~s~d 234 (278)
T KOG2976|consen 161 NFDDFWEISNKLMESVEDNRSRHIPLRIYTSQVKTARDFRTSLTFPC------ISQPDGSLSTLGEFLKDRLPDSLDSKD 234 (278)
T ss_pred cHHHHHHHHHHHHhhccccccccceeEeeccccccccchhhccccce------eecCchhhhhhhHHHHhhcccccCccc
Confidence 344444445555554 789999999743 1 112331 11223334444445667764
Q ss_pred -CCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEe
Q 033381 71 -LSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTY 110 (120)
Q Consensus 71 -l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Y 110 (120)
...++. +.+.+.-++..+.+..||+.....||||||+-
T Consensus 235 ~~~~~~~--viihGIei~l~tpL~~l~~~L~ypD~FLHI~l 273 (278)
T KOG2976|consen 235 DINGNDP--VIIHGIEIPLHTPLYWLYSNLSYPDGFLHIVL 273 (278)
T ss_pred cccccCc--eEEecccccccchHHHHHhhccCCCcceEEEE
Confidence 112233 45555567888999999999999999999975
No 15
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=87.00 E-value=1.5 Score=36.13 Aligned_cols=73 Identities=22% Similarity=0.260 Sum_probs=59.5
Q ss_pred CCCCCccceEE-ecCCCchHhHHHHHHHHhC-CCCCceEEEEEcCCCCCccchHHHHHhHccCC--CCeEEEEecCcc
Q 033381 41 DIPDIDKKKYL-VPADLTVGQFVYVVRKRIK-LSAEKAIFIFVKNILPPTAAMMSAIYEENKDE--DGFLYMTYSGEN 114 (120)
Q Consensus 41 ~~p~L~k~Kfl-vp~~~tv~~~~~~lRk~L~-l~~~~slfl~Vn~~lp~~~~~m~~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 5665 8999999999999999998 66666677888888888999999998887664 999999998543
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=86.66 E-value=1 Score=27.59 Aligned_cols=46 Identities=13% Similarity=0.073 Sum_probs=37.4
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHH
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAI 95 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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 457999999999999999999998876 5555677766777888765
No 17
>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=84.43 E-value=4.8 Score=21.86 Aligned_cols=40 Identities=20% Similarity=0.278 Sum_probs=30.8
Q ss_pred CccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC
Q 033381 45 IDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNIL 85 (120)
Q Consensus 45 L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~l 85 (120)
.....+.++.+.|++++...|..+.+..+ +...|++|+..
T Consensus 7 ~~~~~~~~~~~~tv~~l~~~i~~~~~~~~-~~~~l~~~~~~ 46 (69)
T cd00196 7 GKTVELLVPSGTTVADLKEKLAKKLGLPP-EQQRLLVNGKI 46 (69)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHHCcCh-HHeEEEECCeE
Confidence 34566788889999999999999998544 45677777654
No 18
>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=80.66 E-value=5.1 Score=26.89 Aligned_cols=52 Identities=12% Similarity=0.199 Sum_probs=35.7
Q ss_pred cceEEecC-----CCchHhHHHHHHHHhCCCCCceEEE-EEcC--C--CCCccchHHHHHhH
Q 033381 47 KKKYLVPA-----DLTVGQFVYVVRKRIKLSAEKAIFI-FVKN--I--LPPTAAMMSAIYEE 98 (120)
Q Consensus 47 k~Kflvp~-----~~tv~~~~~~lRk~L~l~~~~slfl-~Vn~--~--lp~~~~~m~~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 45677885 7999999999999999987544444 4442 2 24555556555555
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=80.43 E-value=3.5 Score=26.28 Aligned_cols=45 Identities=16% Similarity=0.103 Sum_probs=37.3
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEE--EcCCCCCccchHHHH
Q 033381 51 LVPADLTVGQFVYVVRKRIKLSAEKAIFIF--VKNILPPTAAMMSAI 95 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~--Vn~~lp~~~~~m~~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 588999999999999999999988666676 456677778888876
No 20
>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=79.94 E-value=6.2 Score=25.70 Aligned_cols=62 Identities=13% Similarity=0.171 Sum_probs=44.6
Q ss_pred CCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHH
Q 033381 27 PDRIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAI 95 (120)
Q Consensus 27 P~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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-----DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLF-DGQRIRDNQTPDDL 70 (87)
T ss_pred CCeEEEEEEC-C-----CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEE-CCeECCCCCCHHHc
Confidence 4566666622 2 1234568999999999999999999999988766666 45444456677766
No 21
>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=79.53 E-value=11 Score=25.49 Aligned_cols=71 Identities=18% Similarity=0.235 Sum_probs=45.4
Q ss_pred CCCCCccceEEecCCCchHhHHHHHHHHh-CCCCCceEEEEEcCCCCCccchHHHHHhHc---------cCCCC----eE
Q 033381 41 DIPDIDKKKYLVPADLTVGQFVYVVRKRI-KLSAEKAIFIFVKNILPPTAAMMSAIYEEN---------KDEDG----FL 106 (120)
Q Consensus 41 ~~p~L~k~Kflvp~~~tv~~~~~~lRk~L-~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~---------kd~DG----fL 106 (120)
.+|+|.=. +--|.+.|+.++...||.++ .-..+..|=|.-++.+.+.++.++..-... |..++ -.
T Consensus 10 sipDl~L~-I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l~~~~~~~~~~~gk~~~~~~~~~~ 88 (97)
T PF10302_consen 10 SIPDLPLD-IPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSELKLPTARSSKGKGKAPERQEAPRI 88 (97)
T ss_pred CCCCceee-cCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhhccccccCccccCcCccCCCCCeE
Confidence 67764411 11448899999999999999 445566675555777655555555544444 23333 78
Q ss_pred EEEecC
Q 033381 107 YMTYSG 112 (120)
Q Consensus 107 yi~Ys~ 112 (120)
||+.+.
T Consensus 89 yIhCsI 94 (97)
T PF10302_consen 89 YIHCSI 94 (97)
T ss_pred EEEEec
Confidence 888764
No 22
>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=77.00 E-value=5.2 Score=24.66 Aligned_cols=44 Identities=16% Similarity=0.169 Sum_probs=35.4
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHH
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 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 45789999999999999999997764 566667766667788887
No 23
>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=76.49 E-value=5.2 Score=25.01 Aligned_cols=44 Identities=14% Similarity=0.165 Sum_probs=34.2
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHH
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 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 45889999999999999999998764 555567766566677754
No 24
>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=75.75 E-value=12 Score=22.06 Aligned_cols=57 Identities=12% Similarity=0.096 Sum_probs=39.2
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccC-CCCeEEEEe
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKD-EDGFLYMTY 110 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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 ELEVSPDDTVAELKAKIAAKEGVPPEQQ-RLIYAGKILKDDKTLSD----YGIQDGSTLHLVL 68 (69)
T ss_pred EEEECCCChHHHHHHHHHHHHCcChHHE-EEEECCcCCCCcCCHHH----CCCCCCCEEEEEE
Confidence 4678889999999999999999887653 33556665566667755 222 344566643
No 25
>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=75.41 E-value=10 Score=23.27 Aligned_cols=57 Identities=12% Similarity=0.077 Sum_probs=40.9
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCC-eEEEEec
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDG-FLYMTYS 111 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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 568999999999999999999988764444 566655566777663 33344 6776654
No 26
>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=73.02 E-value=16 Score=23.90 Aligned_cols=59 Identities=10% Similarity=0.164 Sum_probs=42.5
Q ss_pred CCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccC
Q 033381 43 PDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKD 101 (120)
Q Consensus 43 p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd 101 (120)
|.+--+.+-||++..+..++.+--...++++..+.-+--++.=..+.++-|+++-+|..
T Consensus 13 p~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGs 71 (76)
T PF03671_consen 13 PKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGS 71 (76)
T ss_dssp STS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-S
T ss_pred CCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCc
Confidence 34445778899999999999999999999998884332223347788999999999963
No 27
>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=72.14 E-value=21 Score=22.18 Aligned_cols=63 Identities=10% Similarity=0.129 Sum_probs=47.1
Q ss_pred cceEEec-CCCchHhHHHHHHHHhCCCCCceEEEEEcC--C--CCCccchHHHHHhHccC-CCCeEEEE
Q 033381 47 KKKYLVP-ADLTVGQFVYVVRKRIKLSAEKAIFIFVKN--I--LPPTAAMMSAIYEENKD-EDGFLYMT 109 (120)
Q Consensus 47 k~Kflvp-~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~--~--lp~~~~~m~~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 4567888 999999999999999998764445556653 2 35677889999888864 46666554
No 28
>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=70.99 E-value=14 Score=22.97 Aligned_cols=58 Identities=16% Similarity=0.217 Sum_probs=41.8
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEec
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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 455567766667788887 4332 2447777643
No 29
>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=69.47 E-value=10 Score=23.49 Aligned_cols=56 Identities=14% Similarity=0.172 Sum_probs=38.6
Q ss_pred eEEecCCCchHhHHHHHHHHhCC--CCCceEEEEEcCCCCCccchHHHHHhHccCCCC-eEEEE
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKL--SAEKAIFIFVKNILPPTAAMMSAIYEENKDEDG-FLYMT 109 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l--~~~~slfl~Vn~~lp~~~~~m~~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 35588999999999999999988 6554 444556665566677766 3 33343 56654
No 30
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=68.91 E-value=7.3 Score=29.45 Aligned_cols=47 Identities=21% Similarity=0.525 Sum_probs=37.2
Q ss_pred CCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCC-eEEEEecCccccC
Q 033381 55 DLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDG-FLYMTYSGENTFG 117 (120)
Q Consensus 55 ~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DG-fLyi~Ys~~~~fG 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 688999999999999887554 235799999999 5676 6665 678888
No 31
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=68.54 E-value=30 Score=22.61 Aligned_cols=62 Identities=13% Similarity=0.136 Sum_probs=41.6
Q ss_pred eEEe--cCCCchHhHHHHHHHHhC-CCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEec
Q 033381 49 KYLV--PADLTVGQFVYVVRKRIK-LSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 49 Kflv--p~~~tv~~~~~~lRk~L~-l~~~~slfl~Vn~~lp~~~~~m~~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 232233334445566688899999987753 3335565553
No 32
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=68.30 E-value=15 Score=22.50 Aligned_cols=58 Identities=9% Similarity=0.099 Sum_probs=40.0
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCC-CCeEEEEec
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDE-DGFLYMTYS 111 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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-Y---NIQKESTLHLVLR 72 (76)
T ss_pred EEEECCcCcHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCcHHH-c---CCCCCCEEEEEEE
Confidence 367899999999999999999987664 333456665556667766 3 333 336666553
No 33
>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=66.74 E-value=18 Score=21.83 Aligned_cols=45 Identities=11% Similarity=0.178 Sum_probs=33.7
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHH
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 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 467889999999999999999987664 333347766556667765
No 34
>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=65.67 E-value=30 Score=21.56 Aligned_cols=62 Identities=16% Similarity=0.224 Sum_probs=45.9
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcC---C-CCCccchHHHHHhHccCC-CCeEEE
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKN---I-LPPTAAMMSAIYEENKDE-DGFLYM 108 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~---~-lp~~~~~m~~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 2 357788888888888643 344433
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=65.42 E-value=7.5 Score=23.86 Aligned_cols=19 Identities=37% Similarity=0.518 Sum_probs=16.4
Q ss_pred cccCCHHHHHHHHHHHHHh
Q 033381 7 KLEHPLERRQAESARIREK 25 (120)
Q Consensus 7 k~~~~~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
>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=64.85 E-value=11 Score=23.53 Aligned_cols=55 Identities=13% Similarity=0.184 Sum_probs=35.2
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCcc-chHHHHHhHccCCCCeEEE
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTA-AMMSAIYEENKDEDGFLYM 108 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~-~~m~~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 46888999999999999999998765 3444455533333 33433 32 21 3446665
No 37
>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=64.56 E-value=23 Score=22.59 Aligned_cols=57 Identities=12% Similarity=0.032 Sum_probs=36.8
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEE
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYM 108 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi 108 (120)
.+-|+.+.||+++...|-.+-+++++. .-||-+..+-..+.+|++ |.-. +++..||+
T Consensus 16 ~l~v~~~~TV~~lK~kI~~~~gip~~~-QrL~~G~~L~dD~~tL~~-ygi~-~~g~~~~l 72 (75)
T cd01799 16 WLTVRPDMTVAQLKDKVFLDYGFPPAV-QRWVIGQRLARDQETLYS-HGIR-TNGDSAFL 72 (75)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHH-EEEEcCCeeCCCcCCHHH-cCCC-CCCCEEEE
Confidence 366899999999999999999998763 233444344445567765 3322 23335554
No 38
>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=64.26 E-value=16 Score=22.10 Aligned_cols=44 Identities=9% Similarity=0.096 Sum_probs=31.3
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHH
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 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 45889999999999999998988764 334455554444556544
No 39
>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=63.14 E-value=23 Score=22.00 Aligned_cols=59 Identities=14% Similarity=0.056 Sum_probs=41.5
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEE
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMT 109 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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 34567899999999999999998887765 445556766667788877 4432 23345544
No 40
>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=62.70 E-value=20 Score=22.78 Aligned_cols=43 Identities=12% Similarity=0.089 Sum_probs=32.6
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHH
Q 033381 51 LVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 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 5889999999999998888888876555554 555555667776
No 41
>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=61.87 E-value=44 Score=22.10 Aligned_cols=62 Identities=16% Similarity=0.253 Sum_probs=47.2
Q ss_pred ccceEEecC--CCchHhHHHHHHHHhCCCCCceEEE-EEcC----CCCCccchHHHHHhHccCCCCeEEEEe
Q 033381 46 DKKKYLVPA--DLTVGQFVYVVRKRIKLSAEKAIFI-FVKN----ILPPTAAMMSAIYEENKDEDGFLYMTY 110 (120)
Q Consensus 46 ~k~Kflvp~--~~tv~~~~~~lRk~L~l~~~~slfl-~Vn~----~lp~~~~~m~~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 356789988 779999999999999999 3433 6653 256778889888888866666666654
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=61.44 E-value=23 Score=22.12 Aligned_cols=45 Identities=18% Similarity=0.107 Sum_probs=34.4
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHH
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 94 (120)
.+-|+.+.||+++...|..+-++++++-- |+.++.....+.++++
T Consensus 12 ~l~v~~~~TV~~lK~~I~~~~gi~~~~q~-Li~~G~~L~D~~~l~~ 56 (70)
T cd01794 12 KLSVSSKDTVGQLKKQLQAAEGVDPCCQR-WFFSGKLLTDKTRLQE 56 (70)
T ss_pred EEEECCcChHHHHHHHHHHHhCCCHHHeE-EEECCeECCCCCCHHH
Confidence 35688899999999999999898876533 3445666667788877
No 43
>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=61.13 E-value=11 Score=29.74 Aligned_cols=35 Identities=20% Similarity=0.501 Sum_probs=30.1
Q ss_pred CcccccCCHHHHHHHHHHHHHhCCCeeeEEEEecCC
Q 033381 4 SSFKLEHPLERRQAESARIREKYPDRIPVIVEKAER 39 (120)
Q Consensus 4 ~~fk~~~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~ 39 (120)
..+++..|+|+|..-++.+++++| .+||+|-.-.+
T Consensus 158 ~~i~qh~sledR~~aA~~l~~~~~-~~pi~vD~mdN 192 (237)
T PF00837_consen 158 YEIPQHRSLEDRLRAAKLLKEEFP-QCPIVVDTMDN 192 (237)
T ss_pred eeecCCCCHHHHHHHHHHHHhhCC-CCCEEEEccCC
Confidence 467899999999999999999997 58999977543
No 44
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=60.94 E-value=11 Score=25.44 Aligned_cols=47 Identities=17% Similarity=0.218 Sum_probs=30.4
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEEEc-CC---CCCccchHHH--HHh
Q 033381 51 LVPADLTVGQFVYVVRKRIKLSAEKAIFIFVK-NI---LPPTAAMMSA--IYE 97 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn-~~---lp~~~~~m~~--lY~ 97 (120)
..++..||+.+...+|+.+.++.+-.|+-+-+ |. |-.++.|+.+ ||+
T Consensus 19 ~FSk~DTI~~v~~~~rklf~i~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~ 71 (88)
T PF14836_consen 19 QFSKTDTIGFVEKEMRKLFNIQEETRLWNKYSENSYELLNNPEITVEDAGLYD 71 (88)
T ss_dssp EE-TTSBHHHHHHHHHHHCT-TS-EEEEEECTTTCEEEE--TTSBTTTTT--T
T ss_pred hccccChHHHHHHHHHHHhCCCccceehhccCCcchhhhCCCCccHHHccCcC
Confidence 57889999999999999999977777777655 33 3455566654 554
No 45
>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=59.85 E-value=39 Score=20.90 Aligned_cols=42 Identities=10% Similarity=0.154 Sum_probs=34.3
Q ss_pred CCccceEEecCCCchHhHHHHHHHHh-CCCCCceEEEEEcCCC
Q 033381 44 DIDKKKYLVPADLTVGQFVYVVRKRI-KLSAEKAIFIFVKNIL 85 (120)
Q Consensus 44 ~L~k~Kflvp~~~tv~~~~~~lRk~L-~l~~~~slfl~Vn~~l 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 45567899999999999999999999 6666666777888753
No 46
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=59.43 E-value=13 Score=29.00 Aligned_cols=59 Identities=17% Similarity=0.392 Sum_probs=36.4
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEc---CCC--CCccchHHHHHhHccCCCC-eEEEEec
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVK---NIL--PPTAAMMSAIYEENKDEDG-FLYMTYS 111 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn---~~l--p~~~~~m~~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 5789999999999999999999999988988864 222 255666666 222 344 6665553
No 47
>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=58.96 E-value=23 Score=23.19 Aligned_cols=53 Identities=17% Similarity=0.240 Sum_probs=38.8
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEE-EEcCC----CCCccchHHHHHhHc
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFI-FVKNI----LPPTAAMMSAIYEEN 99 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl-~Vn~~----lp~~~~~m~~lY~~~ 99 (120)
.-.|.+|.+.++.++...|++++++.....+-| |.++- ..+.|+-+.+..+-+
T Consensus 11 ~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~ 68 (82)
T cd06407 11 KIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVY 68 (82)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHH
Confidence 456889999999999999999999976445555 66532 356677776654444
No 48
>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=57.18 E-value=43 Score=20.82 Aligned_cols=52 Identities=13% Similarity=0.264 Sum_probs=42.9
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcC---C-CCCccchHHHHHhHccC
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKN---I-LPPTAAMMSAIYEENKD 101 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~---~-lp~~~~~m~~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 6789999999999999999999877777778863 2 35788888888888865
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=57.09 E-value=46 Score=20.85 Aligned_cols=64 Identities=8% Similarity=0.046 Sum_probs=43.9
Q ss_pred ccceEEecCCCchHhHHHHHHHHhCCCCC-ceEEEE--EcC----CCCCccchHHHHHhHccCC--CCeEEEE
Q 033381 46 DKKKYLVPADLTVGQFVYVVRKRIKLSAE-KAIFIF--VKN----ILPPTAAMMSAIYEENKDE--DGFLYMT 109 (120)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~L~l~~~-~slfl~--Vn~----~lp~~~~~m~~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 46778999999999999999999999333 334442 322 1345666666777666543 6666664
No 50
>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=56.92 E-value=22 Score=21.82 Aligned_cols=58 Identities=12% Similarity=0.179 Sum_probs=38.9
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEe
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTY 110 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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-I-KDGLTVHLVI 70 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHH-HEEEEECCeEcCCCCcHHHc-C-C-CCCCEEEEEE
Confidence 46688999999999999988887654 34444466655556677553 1 2 1455777753
No 51
>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=56.92 E-value=27 Score=23.48 Aligned_cols=57 Identities=16% Similarity=0.274 Sum_probs=39.7
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCC--CCceEEEEEcCC--CCCccc----hHHHHHhHccCCCC
Q 033381 48 KKYLVPADLTVGQFVYVVRKRIKLS--AEKAIFIFVKNI--LPPTAA----MMSAIYEENKDEDG 104 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~--~~~slfl~Vn~~--lp~~~~----~m~~lY~~~kd~DG 104 (120)
+-..|+.+.|..++-...-.+..+. .+=+||+||++. ..++|+ .=++|...-.-.++
T Consensus 16 KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd~~Pq~ika~L~~~~~~~~f 80 (87)
T cd01776 16 KTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPDTYPQRIKAELHSRPQPNTF 80 (87)
T ss_pred eeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCcccccceechhhccCCCCcce
Confidence 3467999999999999999999875 456899999984 233332 33555554443443
No 52
>PTZ00044 ubiquitin; Provisional
Probab=56.86 E-value=31 Score=21.23 Aligned_cols=45 Identities=13% Similarity=0.132 Sum_probs=33.0
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHH
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 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 4678999999999999999999987653333 45554455666643
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=54.93 E-value=22 Score=22.53 Aligned_cols=58 Identities=7% Similarity=0.055 Sum_probs=37.9
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEE-EEEcCCCCCccchHHHHHhHccCCCCeEEEEec
Q 033381 51 LVPADLTVGQFVYVVRKRIKLSAEKAIF-IFVKNILPPTAAMMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slf-l~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (120)
-|+.+.||+++...|.++.+++++.--. +..++.....+.++++ |. - .++..|++.-+
T Consensus 18 ~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~-~g-i-~~gs~l~l~~~ 76 (80)
T cd01792 18 SLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVS-QG-L-GPGSTVLLVVQ 76 (80)
T ss_pred EcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHH-cC-C-CCCCEEEEEEE
Confidence 4688999999999999988887654333 1224555555667765 22 2 14557887654
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=53.12 E-value=28 Score=21.78 Aligned_cols=58 Identities=7% Similarity=0.076 Sum_probs=39.0
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEec
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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-N-LA-NGTIIHLQLK 69 (76)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHH-EEEEECCEEcCCCCcHHHc-C-CC-CCCEEEEEEe
Confidence 45889999999999999999988764 3444566655666677542 2 21 3446666543
No 55
>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=51.25 E-value=32 Score=23.99 Aligned_cols=25 Identities=16% Similarity=0.210 Sum_probs=21.7
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCC
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAE 74 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~ 74 (120)
-.|+.+.|++++...|..++++.|.
T Consensus 19 L~V~~~~TVg~LK~lImQ~f~V~P~ 43 (107)
T cd01795 19 LLVSANQTLKELKIQIMHAFSVAPF 43 (107)
T ss_pred EEeCccccHHHHHHHHHHHhcCCcc
Confidence 4588999999999999999998876
No 56
>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=48.52 E-value=68 Score=20.23 Aligned_cols=58 Identities=16% Similarity=0.187 Sum_probs=39.0
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEecC
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (120)
.-|+.+.||+++...|.++.+++++.- -|..++.....+ ++++ | .- .++..|||.-+-
T Consensus 16 l~v~~~~TV~~LK~~I~~~~~~~~~~q-rL~~~Gk~L~d~-~L~~-~-gi-~~~~~i~l~~~~ 73 (78)
T cd01804 16 LSVPPDETVEGLKKRISQRLKVPKERL-ALLHRETRLSSG-KLQD-L-GL-GDGSKLTLVPTV 73 (78)
T ss_pred EEECCcCHHHHHHHHHHHHhCCChHHE-EEEECCcCCCCC-cHHH-c-CC-CCCCEEEEEeec
Confidence 568999999999999998888877653 444445443334 6554 2 22 246688887655
No 57
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=45.67 E-value=43 Score=21.47 Aligned_cols=33 Identities=12% Similarity=0.139 Sum_probs=26.6
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCC-ceEEEE
Q 033381 48 KKYLVPADLTVGQFVYVVRKRIKLSAE-KAIFIF 80 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~-~slfl~ 80 (120)
..-.+|.++||+++...|-+..+++++ ..|+++
T Consensus 16 ~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 16 VEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 345799999999999999999999865 566665
No 58
>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=45.64 E-value=52 Score=21.35 Aligned_cols=43 Identities=12% Similarity=0.131 Sum_probs=29.0
Q ss_pred EecCCCchHhHHHHHHHHhC--CC-CCceEEEEEcCCCCCccchHHH
Q 033381 51 LVPADLTVGQFVYVVRKRIK--LS-AEKAIFIFVKNILPPTAAMMSA 94 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~--l~-~~~slfl~Vn~~lp~~~~~m~~ 94 (120)
.-|.+.||+++...|..+.+ .. +++---+| +++....+.+|++
T Consensus 16 ~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy-~GKiL~D~~TL~d 61 (75)
T cd01815 16 VSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIH-CGRKLKDDQTLDF 61 (75)
T ss_pred cCCccCcHHHHHHHHHHhhccCCCChHHeEEEe-CCcCCCCCCcHHH
Confidence 35889999999999999964 54 44333333 4555566667765
No 59
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=44.57 E-value=18 Score=27.57 Aligned_cols=50 Identities=20% Similarity=0.343 Sum_probs=29.0
Q ss_pred ccceEEecCCCchHhHHHHHHHHhCCCCC--ceEEEE-E-cCC---CCCccchHHHH
Q 033381 46 DKKKYLVPADLTVGQFVYVVRKRIKLSAE--KAIFIF-V-KNI---LPPTAAMMSAI 95 (120)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~L~l~~~--~slfl~-V-n~~---lp~~~~~m~~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 46678888777
No 60
>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=41.33 E-value=84 Score=24.41 Aligned_cols=53 Identities=17% Similarity=0.283 Sum_probs=35.6
Q ss_pred CeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcC
Q 033381 28 DRIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKN 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 6888888775433322 5567899999999999999999999998766776764
No 61
>KOG1209 consensus 1-Acyl dihydroxyacetone phosphate reductase and related dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=41.01 E-value=56 Score=26.20 Aligned_cols=52 Identities=19% Similarity=0.153 Sum_probs=41.6
Q ss_pred CccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCC-----CCCccchHHHHHhHcc
Q 033381 45 IDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNI-----LPPTAAMMSAIYEENK 100 (120)
Q Consensus 45 L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~-----lp~~~~~m~~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 334556688999999999999885 455688888873 5899999999999995
No 62
>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=39.87 E-value=1.2e+02 Score=25.45 Aligned_cols=59 Identities=12% Similarity=0.116 Sum_probs=42.2
Q ss_pred EecCCCchHhHHHHHHHHhC---CCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEecCc
Q 033381 51 LVPADLTVGQFVYVVRKRIK---LSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~---l~~~~slfl~Vn~~lp~~~~~m~~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-I-KEKDFVVVMVSKP 77 (378)
T ss_pred EeCCcChHHHHHHHHHHhhCCCCCChhH-eEEEECCEECCCCCcHHH-cC-C-CCCCEEEEEeccC
Confidence 47789999999999998876 66554 455567777777778876 32 2 2566888876653
No 63
>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=39.68 E-value=36 Score=23.41 Aligned_cols=38 Identities=18% Similarity=0.480 Sum_probs=27.0
Q ss_pred EEEEEcC--C---CCCccchHHHHHhHccCCCCeEEEEecCccccC
Q 033381 77 IFIFVKN--I---LPPTAAMMSAIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 77 lfl~Vn~--~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG 117 (120)
+-|.||= . .+ .=..|.+||++|+ ++|+..|.+-+.+ ||
T Consensus 23 v~LIVNvAs~Cg~t~-qy~~L~~L~~ky~-~~gl~ILaFPcnq-Fg 65 (108)
T PF00255_consen 23 VLLIVNVASKCGYTK-QYKQLNELYEKYK-DKGLEILAFPCNQ-FG 65 (108)
T ss_dssp EEEEEEEESSSTTHH-HHHHHHHHHHHHG-GGTEEEEEEEBST-TT
T ss_pred EEEEEecccccCCcc-ccHHHHHHHHHHh-cCCeEEEeeehHH-hc
Confidence 4566662 1 13 3358999999997 5899999998655 55
No 64
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=38.55 E-value=37 Score=26.11 Aligned_cols=17 Identities=18% Similarity=0.188 Sum_probs=13.6
Q ss_pred CCCCeEEEEecCccccCCC
Q 033381 101 DEDGFLYMTYSGENTFGAS 119 (120)
Q Consensus 101 d~DGfLyi~Ys~~~~fG~~ 119 (120)
..|||||| +..+.+|..
T Consensus 151 ~~~~~l~m--sv~~~~g~~ 167 (244)
T PRK13125 151 LSPLFIYY--GLRPATGVP 167 (244)
T ss_pred hCCCEEEE--EeCCCCCCC
Confidence 47999999 678888853
No 65
>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=38.22 E-value=26 Score=22.76 Aligned_cols=57 Identities=14% Similarity=0.233 Sum_probs=29.9
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcC--C--CC-CccchHHHHHhHccCCCCeEEE
Q 033381 48 KKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKN--I--LP-PTAAMMSAIYEENKDEDGFLYM 108 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~--~--lp-~~~~~m~~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 56666653 1 32 345566655444432 5554
No 66
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=38.16 E-value=35 Score=21.49 Aligned_cols=41 Identities=17% Similarity=0.233 Sum_probs=28.1
Q ss_pred eEEecCC-CchHhHHHHHHHHhC-C-CCCceEEEEEcCCCCCcc
Q 033381 49 KYLVPAD-LTVGQFVYVVRKRIK-L-SAEKAIFIFVKNILPPTA 89 (120)
Q Consensus 49 Kflvp~~-~tv~~~~~~lRk~L~-l-~~~~slfl~Vn~~lp~~~ 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 3456766 899999999988763 2 223567889998654333
No 67
>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=37.81 E-value=66 Score=21.71 Aligned_cols=76 Identities=12% Similarity=0.096 Sum_probs=46.6
Q ss_pred CCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCe
Q 033381 26 YPDRIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGF 105 (120)
Q Consensus 26 ~P~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGf 105 (120)
.++.+-|.|.-..+. ...+-|..+.||+++...|..+-++++++-- |+.++.....+.++++ |. - .++.-
T Consensus 24 ~~~~M~I~Vk~l~G~------~~~leV~~~~TV~~lK~kI~~~~gip~~~Qr-Li~~Gk~L~D~~tL~d-y~-I-~~~st 93 (103)
T cd01802 24 FYDTMELFIETLTGT------CFELRVSPFETVISVKAKIQRLEGIPVAQQH-LIWNNMELEDEYCLND-YN-I-SEGCT 93 (103)
T ss_pred cCCCEEEEEEcCCCC------EEEEEeCCCCcHHHHHHHHHHHhCCChHHEE-EEECCEECCCCCcHHH-cC-C-CCCCE
Confidence 345555666333221 1334689999999999999999898876533 3345655566667755 32 1 13446
Q ss_pred EEEEec
Q 033381 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 766543
No 68
>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=36.88 E-value=32 Score=24.21 Aligned_cols=52 Identities=15% Similarity=0.239 Sum_probs=33.1
Q ss_pred ceEEecCCCchHhHHHHHHHHhCCCCC----ceEEEEEcCCCC----CccchHHHHHhHc
Q 033381 48 KKYLVPADLTVGQFVYVVRKRIKLSAE----KAIFIFVKNILP----PTAAMMSAIYEEN 99 (120)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~----~slfl~Vn~~lp----~~~~~m~~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 578899999999999999999987743 122233322001 2567999999964
No 69
>KOG1651 consensus Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=36.59 E-value=77 Score=23.90 Aligned_cols=41 Identities=17% Similarity=0.433 Sum_probs=30.3
Q ss_pred eEEEEEcC--C---CCCccchHHHHHhHccCCCCeEEEEecCccccCC
Q 033381 76 AIFIFVKN--I---LPPTAAMMSAIYEENKDEDGFLYMTYSGENTFGA 118 (120)
Q Consensus 76 slfl~Vn~--~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG~ 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 35667772 1 3556669999999997 6899999987665 553
No 70
>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=36.10 E-value=76 Score=20.42 Aligned_cols=33 Identities=12% Similarity=0.133 Sum_probs=26.6
Q ss_pred EecCCCchHhHHHHHHHHhCCCCC-ceEEEEEcC
Q 033381 51 LVPADLTVGQFVYVVRKRIKLSAE-KAIFIFVKN 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 589999999999999999999765 555556654
No 71
>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=35.75 E-value=18 Score=23.40 Aligned_cols=17 Identities=35% Similarity=0.507 Sum_probs=14.4
Q ss_pred ccCCCCeEEEEecCccc
Q 033381 99 NKDEDGFLYMTYSGENT 115 (120)
Q Consensus 99 ~kd~DGfLyi~Ys~~~~ 115 (120)
+-|+||-+|+.|+.++.
T Consensus 42 wiDe~G~vYi~~s~eel 58 (76)
T PF06970_consen 42 WIDENGNVYIIFSIEEL 58 (76)
T ss_pred cCCCCCCEEEEeeHHHH
Confidence 56999999999998763
No 72
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=35.50 E-value=1.1e+02 Score=26.76 Aligned_cols=53 Identities=17% Similarity=0.221 Sum_probs=40.5
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCC
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDG 104 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DG 104 (120)
|.-|-|+.+.||.+|...|-++-+.++++-.-+ -.+++.+.+.|+. .|+-.||
T Consensus 26 k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLI-faGrILKD~dTL~----~~gI~Dg 78 (493)
T KOG0010|consen 26 KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLI-YAGRILKDDDTLK----QYGIQDG 78 (493)
T ss_pred ceeEecccchHHHHHHHHHHHhcCCChhHeeee-ecCccccChhhHH----HcCCCCC
Confidence 677899999999999999999998887764444 4556666777764 3555777
No 73
>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=35.40 E-value=1.3e+02 Score=19.77 Aligned_cols=57 Identities=11% Similarity=0.193 Sum_probs=42.0
Q ss_pred EecCCCchHhHHHHHHHHhCCCCCceEEEEEc---C-C-CCCc-cchHHHHHhHccCCCCeEE
Q 033381 51 LVPADLTVGQFVYVVRKRIKLSAEKAIFIFVK---N-I-LPPT-AAMMSAIYEENKDEDGFLY 107 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn---~-~-lp~~-~~~m~~lY~~~kd~DGfLy 107 (120)
.+|....++++...|+++|.+.++..-.=|-. + . .|-. ++.|.+.+.+=++.=.-|.
T Consensus 12 ~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~~~~ltLw 74 (78)
T cd06411 12 RAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAWQDVADGPRGLQ 74 (78)
T ss_pred EccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHHHhccCCceEEE
Confidence 47888899999999999999998764444443 2 3 3555 8899999998875433343
No 74
>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=35.02 E-value=71 Score=20.28 Aligned_cols=57 Identities=7% Similarity=0.085 Sum_probs=39.2
Q ss_pred ecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEecC
Q 033381 52 VPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 52 vp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (120)
+..+.||+++...|..+.++++++-- |+.+++....+.++++ |.-. ++.++++.-..
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~Qr-Li~~Gk~L~D~~tL~~-y~i~--~~~~i~l~~~~ 75 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQR-LFYRGKQMEDGHTLFD-YNVG--LNDIIQLLVRQ 75 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHeE-EEeCCEECCCCCCHHH-cCCC--CCCEEEEEEec
Confidence 57889999999999999888876433 3346666677778866 3222 45577776443
No 75
>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=34.99 E-value=53 Score=21.96 Aligned_cols=50 Identities=8% Similarity=0.169 Sum_probs=33.6
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEE-EEcC-CC--CCccchHHHHHhHcc
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFI-FVKN-IL--PPTAAMMSAIYEENK 100 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl-~Vn~-~l--p~~~~~m~~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 344455555544443
No 76
>PRK04115 hypothetical protein; Provisional
Probab=34.64 E-value=1.8e+02 Score=21.18 Aligned_cols=56 Identities=20% Similarity=0.328 Sum_probs=33.5
Q ss_pred HHHHHHHHhCC-----CeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCC----CCceEEEEE
Q 033381 17 AESARIREKYP-----DRIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLS----AEKAIFIFV 81 (120)
Q Consensus 17 ~e~~~i~~k~P-----~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~----~~~slfl~V 81 (120)
.|.+.+.+--| =|+|+|+|..+. ...-.|.|....-+ .+|++-|+.. .++.+++|=
T Consensus 50 ~ELe~L~~~l~~~~~~lrLPIile~~~~-----~~~g~~~VrG~~ev----k~IskiLg~~~~~~e~~~l~lyr 114 (137)
T PRK04115 50 RELEFLKELLDEDACRLRLPIILEIDSS-----LGEGAIVVRGKEEV----KVISKILGKEDIFSEEDILYLYR 114 (137)
T ss_pred HHHHHHHHhccchhhheeeeEEEEEecC-----CCceEEEEcCHHHH----HHHHHHhCccccccCCCEEEEec
Confidence 35566655555 369999999763 22345777777633 3455555543 456666653
No 77
>PRK06437 hypothetical protein; Provisional
Probab=34.14 E-value=57 Score=20.22 Aligned_cols=38 Identities=13% Similarity=0.170 Sum_probs=26.2
Q ss_pred EEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchH
Q 033381 50 YLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMM 92 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m 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 45788889998775 458865 567888999754444433
No 78
>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=34.10 E-value=1e+02 Score=18.92 Aligned_cols=35 Identities=14% Similarity=0.116 Sum_probs=30.0
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEE
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFV 81 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~V 81 (120)
...|-|.++.|+.++...|-++|+|...+-+=|.+
T Consensus 8 ~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 8 TKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred cEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 35688999999999999999999999877666666
No 79
>PF01886 DUF61: Protein of unknown function DUF61; InterPro: IPR002746 The proteins in this entry are functionally uncharacterised.
Probab=33.87 E-value=1.1e+02 Score=21.96 Aligned_cols=56 Identities=25% Similarity=0.484 Sum_probs=36.4
Q ss_pred HHHHHHHHHhCCC------eeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCC----CceEEEE
Q 033381 16 QAESARIREKYPD------RIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSA----EKAIFIF 80 (120)
Q Consensus 16 ~~e~~~i~~k~P~------~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-----TLGEGSYRVRGKEEV----KAISKILGKEREFEEEDELYIY 111 (132)
T ss_pred HHHHHHHHHhCCHHHHhceeccEEEEEec-----cCCCceEEEeCHHHH----HHHHHHhCCCcccccCCeEEEc
Confidence 4578888887774 5999999865 244556778777633 33555555543 4566665
No 80
>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=32.81 E-value=54 Score=21.60 Aligned_cols=45 Identities=13% Similarity=0.291 Sum_probs=30.4
Q ss_pred EecCCCchHhHHHHHHHH--hCCC------CCceEEEEE-----cCCCCCccchHHHH
Q 033381 51 LVPADLTVGQFVYVVRKR--IKLS------AEKAIFIFV-----KNILPPTAAMMSAI 95 (120)
Q Consensus 51 lvp~~~tv~~~~~~lRk~--L~l~------~~~slfl~V-----n~~lp~~~~~m~~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 378899999999999988 6654 245666511 11236777888888
No 81
>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=31.77 E-value=54 Score=26.17 Aligned_cols=99 Identities=22% Similarity=0.219 Sum_probs=53.6
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC---------CCCCccceE-EecCC---CchHhHHHHHHHHhCCCCCce
Q 033381 10 HPLERRQAESARIREKYPDRIPVIVEKAERSD---------IPDIDKKKY-LVPAD---LTVGQFVYVVRKRIKLSAEKA 76 (120)
Q Consensus 10 ~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~---------~p~L~k~Kf-lvp~~---~tv~~~~~~lRk~L~l~~~~s 76 (120)
-|.|||.+-.+...+.-.+++|||+--...+. +-.+.=.-. ++|+. .+-.++..+.+.=..-.+.-.
T Consensus 58 Lt~eEr~~v~~~~~~~~~grvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~lP 137 (309)
T cd00952 58 LTWEEKQAFVATVVETVAGRVPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEMA 137 (309)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCCCc
Confidence 46799999999999999999999997754321 001110111 22221 123455555544332222346
Q ss_pred EEEEEcC-C--CCCccchHHHHHhHccCCCCeEEEEecC
Q 033381 77 IFIFVKN-I--LPPTAAMMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 77 lfl~Vn~-~--lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (120)
+++|=+- . .+-+-+++.+|- + .+++.-|.+|+
T Consensus 138 v~iYn~P~~tg~~l~~~~l~~L~-~---~pnivgiKdss 172 (309)
T cd00952 138 IAIYANPEAFKFDFPRAAWAELA-Q---IPQVVAAKYLG 172 (309)
T ss_pred EEEEcCchhcCCCCCHHHHHHHh-c---CCCEEEEEecC
Confidence 8888542 1 233344666663 2 24566666655
No 82
>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=31.75 E-value=45 Score=20.52 Aligned_cols=41 Identities=17% Similarity=0.142 Sum_probs=27.8
Q ss_pred eEEecCCCchHhHHHHHHHHhCC---CCCceEEEEEcCCCCCcc
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKL---SAEKAIFIFVKNILPPTA 89 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l---~~~~slfl~Vn~~lp~~~ 89 (120)
.+-+|+..|+++++..|..+..- .....+-++||+...+.+
T Consensus 19 ~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~ 62 (80)
T cd00754 19 ELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLD 62 (80)
T ss_pred EEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCC
Confidence 44567789999999988876421 123567788998754444
No 83
>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=30.62 E-value=1.2e+02 Score=20.84 Aligned_cols=35 Identities=14% Similarity=0.219 Sum_probs=28.9
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCC--ceEEEEEcC
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAE--KAIFIFVKN 83 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~--~slfl~Vn~ 83 (120)
-+.+|-+.||+|++..|.++..+.++ -.|++.+++
T Consensus 16 Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~ 52 (97)
T cd01775 16 TLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHD 52 (97)
T ss_pred EEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECC
Confidence 46788999999999999999988764 456777776
No 84
>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=30.48 E-value=1.1e+02 Score=19.13 Aligned_cols=40 Identities=18% Similarity=0.130 Sum_probs=26.1
Q ss_pred CCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCC
Q 033381 44 DIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNI 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 34678899999999999999999999999883 44544554
No 85
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=28.84 E-value=91 Score=23.32 Aligned_cols=38 Identities=18% Similarity=0.483 Sum_probs=28.7
Q ss_pred eEEEEEcC--C--CCCccchHHHHHhHccCCCCeEEEEecCcc
Q 033381 76 AIFIFVKN--I--LPPTAAMMSAIYEENKDEDGFLYMTYSGEN 114 (120)
Q Consensus 76 slfl~Vn~--~--lp~~~~~m~~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 36678883 2 3334568999999998 5899999987766
No 86
>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=28.74 E-value=72 Score=24.60 Aligned_cols=98 Identities=13% Similarity=0.150 Sum_probs=54.3
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCC---------CCCcc-ceEEecCCC---chHhHHHHHHHHhCCCCCce
Q 033381 10 HPLERRQAESARIREKYPDRIPVIVEKAERSDI---------PDIDK-KKYLVPADL---TVGQFVYVVRKRIKLSAEKA 76 (120)
Q Consensus 10 ~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~~---------p~L~k-~Kflvp~~~---tv~~~~~~lRk~L~l~~~~s 76 (120)
-|.+||++-.+..++.-.+++|||+--...+.. -.+.= --.++|+.. +-.++..+.+.=..- ..-.
T Consensus 47 ls~~Er~~l~~~~~~~~~~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~-~~~p 125 (281)
T cd00408 47 LTDEERKEVIEAVVEAVAGRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADA-SDLP 125 (281)
T ss_pred CCHHHHHHHHHHHHHHhCCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhc-CCCC
Confidence 467999999999999888999999976543210 00000 112233221 224555544443322 2456
Q ss_pred EEEEEcCC---CCCccchHHHHHhHccCCCCeEEEEecC
Q 033381 77 IFIFVKNI---LPPTAAMMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 77 lfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (120)
+++|=+-. .+-+.+.+.+|-+ .+.+..+.+++
T Consensus 126 i~iYn~P~~tg~~l~~~~~~~L~~----~~~v~giK~s~ 160 (281)
T cd00408 126 VILYNIPGRTGVDLSPETIARLAE----HPNIVGIKDSS 160 (281)
T ss_pred EEEEECccccCCCCCHHHHHHHhc----CCCEEEEEeCC
Confidence 88884422 2222345666653 35677777776
No 87
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=28.70 E-value=1.3e+02 Score=18.93 Aligned_cols=54 Identities=22% Similarity=0.311 Sum_probs=37.3
Q ss_pred EEecCCCchHhHHHHHHHHh---CCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEec
Q 033381 50 YLVPADLTVGQFVYVVRKRI---KLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L---~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (120)
|.-....++.++..-||+.- -+.....+|+.-||.- +.=+||..+||-+..+|.
T Consensus 6 ~vp~~~~~v~d~K~~Lr~y~~~~I~~d~tGfYIvF~~~~--------Ea~rC~~~~~~~~~f~y~ 62 (66)
T PF11767_consen 6 FVPVHGVTVEDFKKRLRKYRWDRIRDDRTGFYIVFNDSK--------EAERCFRAEDGTLFFTYR 62 (66)
T ss_pred cCCCCCccHHHHHHHHhcCCcceEEecCCEEEEEECChH--------HHHHHHHhcCCCEEEEEE
Confidence 34445667888777776432 1345567888777643 777888889999988885
No 88
>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=28.67 E-value=1.3e+02 Score=23.01 Aligned_cols=51 Identities=16% Similarity=0.275 Sum_probs=34.9
Q ss_pred HhHHHHHHHHhCCCCCceEEEEEcCCC---CCccchHHHHHhHccCCCCeEEEEec
Q 033381 59 GQFVYVVRKRIKLSAEKAIFIFVKNIL---PPTAAMMSAIYEENKDEDGFLYMTYS 111 (120)
Q Consensus 59 ~~~~~~lRk~L~l~~~~slfl~Vn~~l---p~~~~~m~~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 356778888988888899999997642 223347788877775 444 555554
No 89
>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=28.52 E-value=69 Score=25.34 Aligned_cols=101 Identities=10% Similarity=0.074 Sum_probs=54.1
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC---------CCCCc-cceEEecCCC---chHhHHHHHHHHhCCCCCce
Q 033381 10 HPLERRQAESARIREKYPDRIPVIVEKAERSD---------IPDID-KKKYLVPADL---TVGQFVYVVRKRIKLSAEKA 76 (120)
Q Consensus 10 ~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~---------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~s 76 (120)
-|.|||.+-.+...+...+++|||+--...+. +-.+. .--.++|+-. +-.+++.+.+.=..-.++-.
T Consensus 50 Ls~~Er~~l~~~~~~~~~g~~pvi~gv~~~~t~~ai~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~~lp 129 (294)
T TIGR02313 50 LTLEERKQAIENAIDQIAGRIPFAPGTGALNHDETLELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVPDFP 129 (294)
T ss_pred CCHHHHHHHHHHHHHHhCCCCcEEEECCcchHHHHHHHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhccCCC
Confidence 46799999999999989999999986543221 00000 0112222211 12444444443332222456
Q ss_pred EEEEEcCC---CCCccchHHHHHhHccCCCCeEEEEecCc
Q 033381 77 IFIFVKNI---LPPTAAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 77 lfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
+++|=+-. ..-+.+.+.+|-+++ ..+..|..|+.
T Consensus 130 v~iYn~P~~tg~~l~~~~l~~L~~~~---pnv~giK~ss~ 166 (294)
T TIGR02313 130 IIIYNIPGRAAQEIAPKTMARLRKDC---PNIVGAKESNK 166 (294)
T ss_pred EEEEeCchhcCcCCCHHHHHHHHhhC---CCEEEEEeCCC
Confidence 88884321 222234666666544 35777777653
No 90
>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=27.86 E-value=68 Score=25.24 Aligned_cols=100 Identities=12% Similarity=0.099 Sum_probs=53.7
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC--------CCCCccc-eEEecCCC---chHhHHHHHHHHhCCCCCceE
Q 033381 10 HPLERRQAESARIREKYPDRIPVIVEKAERSD--------IPDIDKK-KYLVPADL---TVGQFVYVVRKRIKLSAEKAI 77 (120)
Q Consensus 10 ~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~--------~p~L~k~-Kflvp~~~---tv~~~~~~lRk~L~l~~~~sl 77 (120)
-|.|||.+-.+...+.-.+++|||+--..+.. +-.+.=. -.++|+-. +-.++..+.+.=..-. +-.+
T Consensus 50 Ls~eEr~~l~~~~~~~~~~~~pvi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~-~~pi 128 (289)
T cd00951 50 LTPDEYAQVVRAAVEETAGRVPVLAGAGYGTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKST-DLGV 128 (289)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcC-CCCE
Confidence 46799999999988888899999996543100 0000001 12233222 2245555554433322 3458
Q ss_pred EEEEcCCCCCccchHHHHHhHccCCCCeEEEEecCc
Q 033381 78 FIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 78 fl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
++|=+....-+.+.+.+|-+.+ +.+..|.+|+.
T Consensus 129 ~lYn~~g~~l~~~~l~~L~~~~---pnivgiKds~~ 161 (289)
T cd00951 129 IVYNRANAVLTADSLARLAERC---PNLVGFKDGVG 161 (289)
T ss_pred EEEeCCCCCCCHHHHHHHHhcC---CCEEEEEeCCC
Confidence 8884322222234666665333 45777777643
No 91
>PF06395 CDC24: CDC24 Calponin; InterPro: IPR010481 This is a calponin homology domain.
Probab=27.79 E-value=54 Score=22.05 Aligned_cols=23 Identities=13% Similarity=0.436 Sum_probs=17.7
Q ss_pred CchHhHHHHHHHHhCCCCCceEEE
Q 033381 56 LTVGQFVYVVRKRIKLSAEKAIFI 79 (120)
Q Consensus 56 ~tv~~~~~~lRk~L~l~~~~slfl 79 (120)
..+..|+...++.|+++.++ +|.
T Consensus 44 ~ai~~Fi~ack~~L~~~~~e-~Ft 66 (89)
T PF06395_consen 44 KAIYKFIQACKQELGFPDEE-LFT 66 (89)
T ss_pred HHHHHHHHHHHHhcCCCccc-eee
Confidence 45789999999999997664 554
No 92
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=27.75 E-value=78 Score=22.56 Aligned_cols=50 Identities=20% Similarity=0.343 Sum_probs=36.7
Q ss_pred cCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeEEEEecCccccC
Q 033381 53 PADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 53 p~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG 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 3466888888
No 93
>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=26.71 E-value=75 Score=25.08 Aligned_cols=99 Identities=8% Similarity=0.095 Sum_probs=53.9
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC--C-------CCCcc-ceEEecCC---CchHhHHHHHHHHhCCCCCce
Q 033381 10 HPLERRQAESARIREKYPDRIPVIVEKAERSD--I-------PDIDK-KKYLVPAD---LTVGQFVYVVRKRIKLSAEKA 76 (120)
Q Consensus 10 ~~~e~R~~e~~~i~~k~P~~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 47799999999999988999999997643221 0 00000 11222331 133566666654433222457
Q ss_pred EEEEEcCC---CCCccchHHHHHhHccCCCCeEEEEecC
Q 033381 77 IFIFVKNI---LPPTAAMMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 77 lfl~Vn~~---lp~~~~~m~~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 88884422 1222335555542 24566666654
No 94
>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=26.56 E-value=1e+02 Score=21.13 Aligned_cols=27 Identities=19% Similarity=0.480 Sum_probs=22.5
Q ss_pred chHhHHHHHHHHhCCCC-CceEEEEEcC
Q 033381 57 TVGQFVYVVRKRIKLSA-EKAIFIFVKN 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 46778899999999874 5789999995
No 95
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=26.43 E-value=79 Score=20.64 Aligned_cols=21 Identities=14% Similarity=0.271 Sum_probs=18.7
Q ss_pred HHHHHHhCCCCCceEEEEEcC
Q 033381 63 YVVRKRIKLSAEKAIFIFVKN 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 568999999999999999974
No 96
>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=26.39 E-value=1.8e+02 Score=19.24 Aligned_cols=22 Identities=5% Similarity=0.350 Sum_probs=16.4
Q ss_pred eEEecCC-CchHhHHHHHHHHhC
Q 033381 49 KYLVPAD-LTVGQFVYVVRKRIK 70 (120)
Q Consensus 49 Kflvp~~-~tv~~~~~~lRk~L~ 70 (120)
.+-+|.+ .|+.++...+.+..+
T Consensus 13 ~~~~~~~~~t~~~L~~~v~~~F~ 35 (81)
T cd06401 13 RIPIHNEDITYDELLLMMQRVFR 35 (81)
T ss_pred EEeccCccccHHHHHHHHHHHhc
Confidence 3666754 699999999976654
No 97
>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=26.37 E-value=2.2e+02 Score=19.56 Aligned_cols=62 Identities=18% Similarity=0.231 Sum_probs=40.4
Q ss_pred CchHhHHHHHHHHhC------CCCCceEEEEEcC--------CCCCccchHHHH---HhHccCC---------CCeEEEE
Q 033381 56 LTVGQFVYVVRKRIK------LSAEKAIFIFVKN--------ILPPTAAMMSAI---YEENKDE---------DGFLYMT 109 (120)
Q Consensus 56 ~tv~~~~~~lRk~L~------l~~~~slfl~Vn~--------~lp~~~~~m~~l---Y~~~kd~---------DGfLyi~ 109 (120)
.++++|...+|+.+. +..++-|.|-+.. .+-..+.|+.+| |...+.. =+-||++
T Consensus 11 ~~l~~lf~~lR~~le~~~g~~~~~~~ELvl~i~~L~L~i~EDn~y~~~iTl~di~~lf~~L~~n~~~~~~~~~p~~L~i~ 90 (113)
T PF10336_consen 11 EPLEELFAALRQFLENEEGELFSAEDELVLDIPELGLEISEDNVYCSDITLSDIVDLFDILCENDGKNEEPDLPEPLYIT 90 (113)
T ss_pred CCHHHHHHHHHHHHHhccccccCCCCEEEEEeccCCcEEeccccccccCcHHHHHHHHHHHHhccCccccCCCCCcEEEE
Confidence 468999999999984 4555666665542 122445566655 4444222 2389999
Q ss_pred ecCccccC
Q 033381 110 YSGENTFG 117 (120)
Q Consensus 110 Ys~~~~fG 117 (120)
-+.++.|-
T Consensus 91 LstrPRFi 98 (113)
T PF10336_consen 91 LSTRPRFI 98 (113)
T ss_pred EecCccHH
Confidence 99998873
No 98
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=26.19 E-value=65 Score=19.99 Aligned_cols=37 Identities=5% Similarity=0.070 Sum_probs=25.4
Q ss_pred eEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccc
Q 033381 49 KYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAA 90 (120)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~ 90 (120)
.+-+++..|++++.. .|++++ +.+.+.+|+.+.+.+.
T Consensus 17 ~~~~~~~~tv~~ll~----~l~~~~-~~v~v~vNg~iv~~~~ 53 (70)
T PRK08364 17 EIEWRKGMKVADILR----AVGFNT-ESAIAKVNGKVALEDD 53 (70)
T ss_pred EEEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCCc
Confidence 344688889988764 457765 5688889987644443
No 99
>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=25.90 E-value=3.8e+02 Score=22.10 Aligned_cols=71 Identities=13% Similarity=0.181 Sum_probs=45.6
Q ss_pred CeeeEEEEec----CCCCCCCCccceEEecCCCchHhHHHHHHHHhC-CC------CCceEEEEEcC--CCCCccchHHH
Q 033381 28 DRIPVIVEKA----ERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIK-LS------AEKAIFIFVKN--ILPPTAAMMSA 94 (120)
Q Consensus 28 ~~ipVIvE~~----~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~-l~------~~~slfl~Vn~--~lp~~~~~m~~ 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 4455555553 346788998876 5555567776666655322 11 22347777883 47888888888
Q ss_pred HHhHcc
Q 033381 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 888876
No 100
>PF04441 Pox_VERT_large: Poxvirus early transcription factor (VETF), large subunit ; InterPro: IPR007532 The poxvirus early transcription factor (VETF), in addition to the viral RNA polymerase, is required for efficient transcription of early genes in vitro. VETF is a heterodimeric protein that binds specifically to early gene promoters. The heterodimer is comprised of an 82 kDa (this family) subunit and a 70 kDa subunit.; GO: 0045893 positive regulation of transcription, DNA-dependent
Probab=25.51 E-value=79 Score=28.48 Aligned_cols=55 Identities=22% Similarity=0.390 Sum_probs=36.1
Q ss_pred CCCchHhHHHHHHHHhCCCCCceE--------EEEEcCCC--CCc-cchHHHHHhHccCCCCeEEEEecCc
Q 033381 54 ADLTVGQFVYVVRKRIKLSAEKAI--------FIFVKNIL--PPT-AAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 54 ~~~tv~~~~~~lRk~L~l~~~~sl--------fl~Vn~~l--p~~-~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
=++++.|+.-.|+.-|+++.+--+ |=||+|+. |=. .+..-- =..|||||..|.+-
T Consensus 58 LTlki~QlkGYl~nlL~i~edIIiyShkNNLeYsYvdNtIFnPf~~tQkktL-----Iksd~fLYNiY~~a 123 (700)
T PF04441_consen 58 LTLKISQLKGYLCNLLNINEDIIIYSHKNNLEYSYVDNTIFNPFTHTQKKTL-----IKSDSFLYNIYPDA 123 (700)
T ss_pred EEEEHHHhhhHHHHhhCCCccEEEEEeccCceEEeecCcccCCcchhhhceE-----eccCceEEEecccc
Confidence 357889999999999999865333 44888863 522 221110 12579999888654
No 101
>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=25.47 E-value=31 Score=21.08 Aligned_cols=41 Identities=20% Similarity=0.312 Sum_probs=30.2
Q ss_pred cceEEecCCCchHhHHHHHHHHhC-CCCCceEEEEEcCCCCC
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIK-LSAEKAIFIFVKNILPP 87 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~-l~~~~slfl~Vn~~lp~ 87 (120)
.....++...|++++...|..+.. +...+.+-+.||+....
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~ 54 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVP 54 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEG
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcC
Confidence 345678999999999999887752 22336788999987533
No 102
>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=25.38 E-value=1.5e+02 Score=25.15 Aligned_cols=56 Identities=21% Similarity=0.329 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHhCCCeeeEEEEecCCCCCCCCccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCC
Q 033381 12 LERRQAESARIREKYPDRIPVIVEKAERSDIPDIDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILP 86 (120)
Q Consensus 12 ~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp 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 35566677788888877888766 34445677888999996667655 7766655544
No 103
>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=25.21 E-value=74 Score=24.76 Aligned_cols=100 Identities=14% Similarity=0.154 Sum_probs=56.0
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC---------CCCCcc-ceEEecCC---CchHhHHHHHHHHhCCCCCc
Q 033381 9 EHPLERRQAESARIREKYPDRIPVIVEKAERSD---------IPDIDK-KKYLVPAD---LTVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 9 ~~~~e~R~~e~~~i~~k~P~~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 SLTDEERKELLEIVVEAAAGRVPVIAGVGANSTEEAIELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIAD-ATDL 128 (289)
T ss_dssp GS-HHHHHHHHHHHHHHHTTSSEEEEEEESSSHHHHHHHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHHH-HSSS
T ss_pred cCCHHHHHHHHHHHHHHccCceEEEecCcchhHHHHHHHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHHh-hcCC
Confidence 346799999999988888999999997654321 001111 12234332 244555555554442 2345
Q ss_pred eEEEEEcCC---CCCccchHHHHHhHccCCCCeEEEEecCc
Q 033381 76 AIFIFVKNI---LPPTAAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 76 slfl~Vn~~---lp~~~~~m~~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 688887641 2333345666665 3 44666666543
No 104
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=25.08 E-value=81 Score=24.78 Aligned_cols=29 Identities=10% Similarity=0.177 Sum_probs=24.6
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecC
Q 033381 10 HPLERRQAESARIREKYPDRIPVIVEKAE 38 (120)
Q Consensus 10 ~~~e~R~~e~~~i~~k~P~~ipVIvE~~~ 38 (120)
-|.|||..-.+...+.-++++|||+--..
T Consensus 54 Ls~eEr~~~~~~~~~~~~~~~~viagvg~ 82 (293)
T PRK04147 54 LSTEEKKQVLEIVAEEAKGKVKLIAQVGS 82 (293)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEecCCC
Confidence 46799999999999999999999996643
No 105
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=24.71 E-value=86 Score=24.48 Aligned_cols=100 Identities=11% Similarity=0.107 Sum_probs=55.3
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC---------CCCCccc-eEEecCCC---chHhHHHHHHHHhCCCCCc
Q 033381 9 EHPLERRQAESARIREKYPDRIPVIVEKAERSD---------IPDIDKK-KYLVPADL---TVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 9 ~~~~e~R~~e~~~i~~k~P~~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 457799999999999999999999986654221 0011111 22333332 2245555554433222 35
Q ss_pred eEEEEEcCC---CCCccchHHHHHhHccCCCCeEEEEecCc
Q 033381 76 AIFIFVKNI---LPPTAAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 76 slfl~Vn~~---lp~~~~~m~~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 45777777654
No 106
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=24.70 E-value=87 Score=24.86 Aligned_cols=100 Identities=13% Similarity=0.117 Sum_probs=52.0
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC--------CCCCc-cceEEecCCC---chHhHHHHHHHHhCCCCCceE
Q 033381 10 HPLERRQAESARIREKYPDRIPVIVEKAERSD--------IPDID-KKKYLVPADL---TVGQFVYVVRKRIKLSAEKAI 77 (120)
Q Consensus 10 ~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~--------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~sl 77 (120)
-|.|||++-.+...+.-.+++|||+--..+.. +-.+. .--.++|+.. +=.++..+.+.=..-. .-.+
T Consensus 57 Lt~eEr~~~~~~~~~~~~~~~pvi~gv~~~t~~~i~~~~~a~~~Gadav~~~pP~y~~~~~~~i~~~f~~va~~~-~lpi 135 (303)
T PRK03620 57 LTPDEYSQVVRAAVETTAGRVPVIAGAGGGTAQAIEYAQAAERAGADGILLLPPYLTEAPQEGLAAHVEAVCKST-DLGV 135 (303)
T ss_pred CCHHHHHHHHHHHHHHhCCCCcEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHHhC-CCCE
Confidence 46799999999999888999999985532100 00000 0112233321 1234444443322211 2457
Q ss_pred EEEEcCCCCCccchHHHHHhHccCCCCeEEEEecCc
Q 033381 78 FIFVKNILPPTAAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 78 fl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
++|=+....-+.+++.+|-+++ +.+..|.+|+.
T Consensus 136 ~lYn~~g~~l~~~~l~~L~~~~---pni~giK~s~~ 168 (303)
T PRK03620 136 IVYNRDNAVLTADTLARLAERC---PNLVGFKDGVG 168 (303)
T ss_pred EEEcCCCCCCCHHHHHHHHhhC---CCEEEEEeCCC
Confidence 8874322222334666665444 35666666643
No 107
>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=24.67 E-value=92 Score=26.69 Aligned_cols=38 Identities=24% Similarity=0.163 Sum_probs=32.4
Q ss_pred CCCCcccccCCHHHHHHHHHHHHHhCCCeeeEEEEecC
Q 033381 1 MAKSSFKLEHPLERRQAESARIREKYPDRIPVIVEKAE 38 (120)
Q Consensus 1 ~~~~~fk~~~~~e~R~~e~~~i~~k~P~~ipVIvE~~~ 38 (120)
||+..|....+.++|.+++.+.....|+++||=+|-+.
T Consensus 216 mm~~~~~~~~~~~~~l~~~~~~l~~l~~~i~iH~E~As 253 (445)
T cd01938 216 MMEGQSFDEGTRKELLERVKSILEILPPLIPIHLELAS 253 (445)
T ss_pred hhcccCCChhhHHHHHHHHHHHHHhccccCcEEEEecc
Confidence 56656666777899999999999999999999999976
No 108
>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=24.08 E-value=1.5e+02 Score=17.75 Aligned_cols=35 Identities=14% Similarity=0.239 Sum_probs=25.0
Q ss_pred ccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC
Q 033381 46 DKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNIL 85 (120)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~l 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 345667888889888666 456665 56778899875
No 109
>PRK10953 cysJ sulfite reductase subunit alpha; Provisional
Probab=23.84 E-value=5.1e+02 Score=22.92 Aligned_cols=87 Identities=11% Similarity=0.237 Sum_probs=57.0
Q ss_pred CCCeeeEEEEecCCCCCCC-CccceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCC
Q 033381 26 YPDRIPVIVEKAERSDIPD-IDKKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDG 104 (120)
Q Consensus 26 ~P~~ipVIvE~~~~~~~p~-L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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 4578888876644335663 34556778888889999999999886655455777777766555554455555553 344
Q ss_pred e---EEEEecCc
Q 033381 105 F---LYMTYSGE 113 (120)
Q Consensus 105 f---Lyi~Ys~~ 113 (120)
. |.+.||.+
T Consensus 511 ~l~~l~~afSRd 522 (600)
T PRK10953 511 LLTRIDLAWSRD 522 (600)
T ss_pred CcceEEEEECCC
Confidence 3 55677644
No 110
>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=23.83 E-value=1.1e+02 Score=17.28 Aligned_cols=21 Identities=19% Similarity=0.284 Sum_probs=17.7
Q ss_pred HHHHHHhCCCCCceEEEEEcC
Q 033381 63 YVVRKRIKLSAEKAIFIFVKN 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 457899999999999988864
No 111
>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=23.31 E-value=2.3e+02 Score=20.14 Aligned_cols=51 Identities=8% Similarity=0.021 Sum_probs=35.1
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceE--EEEEcC----CCCCccchHHHHHh
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIKLSAEKAI--FIFVKN----ILPPTAAMMSAIYE 97 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~sl--fl~Vn~----~lp~~~~~m~~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 4568899999999999999999999754433 333322 13455666665543
No 112
>cd03483 MutL_Trans_MLH1 MutL_Trans_MLH1: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH1 (MutL homologue 1). This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking hMLH1 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot syndrome (HNPCC variant). Mutation in hMLH1 accounts for a large fraction of HNPCC families.
Probab=23.17 E-value=85 Score=21.69 Aligned_cols=26 Identities=15% Similarity=0.382 Sum_probs=19.4
Q ss_pred CceEEEEEcCCC---CCccchHHHHHhHc
Q 033381 74 EKAIFIFVKNIL---PPTAAMMSAIYEEN 99 (120)
Q Consensus 74 ~~slfl~Vn~~l---p~~~~~m~~lY~~~ 99 (120)
.+..|+|||+.. +.....+.+.|..+
T Consensus 47 ~~~q~~fVNgR~V~~~~l~~aI~~~Y~~~ 75 (127)
T cd03483 47 KIIFILFINNRLVECSALRRAIENVYANY 75 (127)
T ss_pred CceEEEEEcCCEecCHHHHHHHHHHHHHh
Confidence 467899999964 45566777888776
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=23.12 E-value=1.1e+02 Score=21.48 Aligned_cols=32 Identities=3% Similarity=0.132 Sum_probs=28.2
Q ss_pred CCCchHhHHHHHHHHhCCCCCceEEEEEcCCC
Q 033381 54 ADLTVGQFVYVVRKRIKLSAEKAIFIFVKNIL 85 (120)
Q Consensus 54 ~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~l 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
>PF14060 DUF4252: Domain of unknown function (DUF4252)
Probab=22.71 E-value=1e+02 Score=21.49 Aligned_cols=25 Identities=8% Similarity=0.250 Sum_probs=20.9
Q ss_pred ccchHHHHHhHccCCCCeEEEEecC
Q 033381 88 TAAMMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 88 ~~~~m~~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 3478889999999999999987653
No 115
>PLN02417 dihydrodipicolinate synthase
Probab=22.14 E-value=1.1e+02 Score=24.06 Aligned_cols=97 Identities=7% Similarity=0.015 Sum_probs=53.7
Q ss_pred CCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC---------CCCCc-cceEEecCCC---chHhHHHHHHHHhCCCCCce
Q 033381 10 HPLERRQAESARIREKYPDRIPVIVEKAERSD---------IPDID-KKKYLVPADL---TVGQFVYVVRKRIKLSAEKA 76 (120)
Q Consensus 10 ~~~e~R~~e~~~i~~k~P~~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 46799999988888888999999986654321 00000 0112233211 235555555544332 3 7
Q ss_pred EEEEEcCC---CCCccchHHHHHhHccCCCCeEEEEecCc
Q 033381 77 IFIFVKNI---LPPTAAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 77 lfl~Vn~~---lp~~~~~m~~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 88884321 222234666664 2356777777654
No 116
>PRK13669 hypothetical protein; Provisional
Probab=22.11 E-value=80 Score=20.79 Aligned_cols=27 Identities=15% Similarity=0.338 Sum_probs=22.1
Q ss_pred ceEEEEEcCC---CCCccchHHHHHhHccC
Q 033381 75 KAIFIFVKNI---LPPTAAMMSAIYEENKD 101 (120)
Q Consensus 75 ~slfl~Vn~~---lp~~~~~m~~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 5789999985 37888999999987653
No 117
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=21.88 E-value=3.1e+02 Score=20.44 Aligned_cols=96 Identities=17% Similarity=0.162 Sum_probs=62.1
Q ss_pred cccCCHHHHHHHHHHHHHhCCCeeeEEEEecCC--CCCCCCccceEEecCCCchHhHHHHHH-----HHhCCCCCceEEE
Q 033381 7 KLEHPLERRQAESARIREKYPDRIPVIVEKAER--SDIPDIDKKKYLVPADLTVGQFVYVVR-----KRIKLSAEKAIFI 79 (120)
Q Consensus 7 k~~~~~e~R~~e~~~i~~k~P~~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 44678999999999998777764 3333321 011011235789998888888866655 44322 3589999
Q ss_pred EEcCC-CCCccchHHHHHhHccCCCCeE
Q 033381 80 FVKNI-LPPTAAMMSAIYEENKDEDGFL 106 (120)
Q Consensus 80 ~Vn~~-lp~~~~~m~~lY~~~kd~DGfL 106 (120)
.-... ..-.++.+.+|..--.|-++|+
T Consensus 119 ~~s~~~~~iSSs~Vreia~~ggdvs~~V 146 (159)
T COG0669 119 MPSPEYSFISSSLVREIAAFGGDVSEFV 146 (159)
T ss_pred cCCcceehhhHHHHHHHHHhCCCchhhC
Confidence 77764 3555667788877766666553
No 118
>PF08469 NPHI_C: Nucleoside triphosphatase I C-terminal; InterPro: IPR013676 This viral domain is found to the C terminus of Poxvirus nucleoside triphosphatase phosphohydrolase I (NPH I) [] together with the helicase conserved C-terminal domain (IPR001650 from INTERPRO). ; GO: 0005524 ATP binding, 0017111 nucleoside-triphosphatase activity, 0006351 transcription, DNA-dependent
Probab=21.86 E-value=63 Score=23.82 Aligned_cols=22 Identities=23% Similarity=0.308 Sum_probs=19.3
Q ss_pred CCccchHHHHHhHccCCCCeEE
Q 033381 86 PPTAAMMSAIYEENKDEDGFLY 107 (120)
Q Consensus 86 p~~~~~m~~lY~~~kd~DGfLy 107 (120)
=+.+..|..++.-||+.||.+|
T Consensus 101 Ys~s~~l~tI~kGfk~~dg~iy 122 (148)
T PF08469_consen 101 YSFSSRLVTIHKGFKTKDGRIY 122 (148)
T ss_pred EEccchhHHHHhcccCCCCcEe
Confidence 3678889999999999999887
No 119
>TIGR02728 spore_gerQ spore coat protein GerQ. Members of this protein family are the spore coat protein GerQ of endospore-forming Firmicutes (low GC Gram-positive bacteria). This protein is cross-linked by a spore coat-associated transglutaminase.
Probab=21.74 E-value=98 Score=20.55 Aligned_cols=33 Identities=21% Similarity=0.457 Sum_probs=25.9
Q ss_pred CCccchHHHHHhHccCCCCeEEEEecCccccCC
Q 033381 86 PPTAAMMSAIYEENKDEDGFLYMTYSGENTFGA 118 (120)
Q Consensus 86 p~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG~ 118 (120)
|-..+=+.++-+-.+..=|-.|++|...+-|++
T Consensus 2 p~eqSyieNILRlN~GK~~T~y~Tfenn~ew~a 34 (82)
T TIGR02728 2 PVEQSYIENILRMNRGKTATVYMTFENSPEWAA 34 (82)
T ss_pred cchHHHHHHHHHhcCCceEEEEEEEcCChHhhh
Confidence 444556778888888888899999999888874
No 120
>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=21.63 E-value=68 Score=20.21 Aligned_cols=18 Identities=39% Similarity=0.543 Sum_probs=14.3
Q ss_pred HHHHHhCCCeeeEEEEec
Q 033381 20 ARIREKYPDRIPVIVEKA 37 (120)
Q Consensus 20 ~~i~~k~P~~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 121
>PF01119 DNA_mis_repair: DNA mismatch repair protein, C-terminal domain; InterPro: IPR013507 This entry represents the C-terminal domain of DNA mismatch repair proteins, such as MutL. This domain functions in promoting dimerisation []. The dimeric MutL protein has a key function in communicating mismatch recognition by MutS to downstream repair processes. Mismatch repair contributes to the overall fidelity of DNA replication by targeting mispaired bases that arise through replication errors during homologous recombination and as a result of DNA damage. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1B62_A 1NHJ_A 1BKN_B 1NHH_A 1B63_A 1NHI_A 3NA3_A 1EA6_A 1H7U_A 1H7S_B ....
Probab=21.41 E-value=80 Score=21.37 Aligned_cols=28 Identities=25% Similarity=0.390 Sum_probs=19.1
Q ss_pred CCCceEEEEEcCCC---CCccchHHHHHhHc
Q 033381 72 SAEKAIFIFVKNIL---PPTAAMMSAIYEEN 99 (120)
Q Consensus 72 ~~~~slfl~Vn~~l---p~~~~~m~~lY~~~ 99 (120)
...+..|+|||+.. +.....+.++|+..
T Consensus 37 ~~~~~q~ifVN~R~V~~~~l~~~I~~~y~~~ 67 (119)
T PF01119_consen 37 SSRDRQFIFVNGRPVENKALSKAINEAYRER 67 (119)
T ss_dssp SSCTCEEEEETTEEE--HHHHHHHHHHHHCT
T ss_pred CCCCcEEEEeCCCeEeChHHHHHHHHHHhhc
Confidence 44578999999974 44455666777643
No 122
>PF09671 Spore_GerQ: Spore coat protein (Spore_GerQ); InterPro: IPR014099 Members of this protein family are the spore coat protein GerQ of endospore-forming Firmicutes (low GC Gram-positive bacteria). This protein is cross-linked by a spore coat-associated transglutaminase.
Probab=21.32 E-value=1.2e+02 Score=20.18 Aligned_cols=34 Identities=26% Similarity=0.482 Sum_probs=27.2
Q ss_pred CCCccchHHHHHhHccCCCCeEEEEecCccccCC
Q 033381 85 LPPTAAMMSAIYEENKDEDGFLYMTYSGENTFGA 118 (120)
Q Consensus 85 lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG~ 118 (120)
+|-..+=+.+|-+-.+..-|-+|++|...+.|.+
T Consensus 3 lp~eqsYiENILRlN~GK~~T~Y~Tyenn~ewna 36 (81)
T PF09671_consen 3 LPLEQSYIENILRLNRGKLATFYMTYENNSEWNA 36 (81)
T ss_pred CcchHHHHHHHHHhcCCceEEEEEEecCchhhhh
Confidence 5655667788888888888999999998888864
No 123
>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=21.29 E-value=3.2e+02 Score=24.17 Aligned_cols=50 Identities=22% Similarity=0.418 Sum_probs=33.8
Q ss_pred cCCCchHhHHHHHHHHhCCCCCceEEEEEcCCCCCccchHHHHHhHccCCCCeE-EEEecCcc
Q 033381 53 PADLTVGQFVYVVRKRIKLSAEKAIFIFVKNILPPTAAMMSAIYEENKDEDGFL-YMTYSGEN 114 (120)
Q Consensus 53 p~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~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 344577888888888988887753 246678888654344444 77886554
No 124
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=21.26 E-value=1.2e+02 Score=23.57 Aligned_cols=100 Identities=9% Similarity=0.081 Sum_probs=55.4
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCC---------CCCCc-cceEEecCCC---chHhHHHHHHHHhCCCCCc
Q 033381 9 EHPLERRQAESARIREKYPDRIPVIVEKAERSD---------IPDID-KKKYLVPADL---TVGQFVYVVRKRIKLSAEK 75 (120)
Q Consensus 9 ~~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~---------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~ 75 (120)
.-|.+||++-.+..++...+++|||+--...+. +-.+. .--.++|+.. +=.++..+.++=..- .+-
T Consensus 49 ~lt~~Er~~l~~~~~~~~~~~~~vi~gv~~~~~~~~~~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~~~~~~ia~~-~~~ 127 (284)
T cd00950 49 TLSDEEHEAVIEAVVEAVNGRVPVIAGTGSNNTAEAIELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKAIAEA-TDL 127 (284)
T ss_pred hCCHHHHHHHHHHHHHHhCCCCcEEeccCCccHHHHHHHHHHHHHcCCCEEEEcccccCCCCHHHHHHHHHHHHhc-CCC
Confidence 457799999999999999999999986654221 00111 1122333322 224555555544332 245
Q ss_pred eEEEEEcCC---CCCccchHHHHHhHccCCCCeEEEEecCc
Q 033381 76 AIFIFVKNI---LPPTAAMMSAIYEENKDEDGFLYMTYSGE 113 (120)
Q Consensus 76 slfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (120)
.+++|=+-. ..-+-..+.+|-+ .+.+..+.+++.
T Consensus 128 pi~lYn~P~~~g~~ls~~~~~~L~~----~p~v~giK~s~~ 164 (284)
T cd00950 128 PVILYNVPGRTGVNIEPETVLRLAE----HPNIVGIKEATG 164 (284)
T ss_pred CEEEEEChhHhCCCCCHHHHHHHhc----CCCEEEEEECCC
Confidence 688884421 1112235555653 255777777653
No 125
>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=21.14 E-value=2.5e+02 Score=18.28 Aligned_cols=60 Identities=13% Similarity=0.296 Sum_probs=36.7
Q ss_pred ccceEEecC--CCchHhHHHHHHH--HhCCC-CCceEEEEEcCC-CCCccchHHHHHhHccCCCCeEEEEecCccccC
Q 033381 46 DKKKYLVPA--DLTVGQFVYVVRK--RIKLS-AEKAIFIFVKNI-LPPTAAMMSAIYEENKDEDGFLYMTYSGENTFG 117 (120)
Q Consensus 46 ~k~Kflvp~--~~tv~~~~~~lRk--~L~l~-~~~slfl~Vn~~-lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG 117 (120)
...+++|+. -.++.++...|.+ .|.+. +-..||=. ++. +.+ +.+| +||-.||..+.+ .|.
T Consensus 19 ~g~~~~v~~~~~~s~d~lL~~lt~~v~l~~~~~Vr~lyt~-~G~~v~~----l~~l------~~g~~yVa~g~e-~fk 84 (89)
T smart00537 19 KGVRLVVNRKRFKSFEALLQDLTEVVKLDLPHGVRKLYTL-DGKKVTS----LDEL------EDGGSYVASGTE-AFK 84 (89)
T ss_pred CCEEEEEChhhcCCHHHHHHHHhhhcccCCCCCeeEEEcC-CCCEECC----HHHh------CcCCEEEEEcCC-cce
Confidence 567888886 4589999999999 55454 22333311 111 222 2222 478899998877 554
No 126
>PF12108 SF3a60_bindingd: Splicing factor SF3a60 binding domain; InterPro: IPR021966 This domain is found in eukaryotes. This domain is about 30 amino acids in length. This domain has a single completely conserved residue Y that may be functionally important. SF3a60 makes up the SF3a complex with SF3a66 and SF3a120. This domain is the binding site of SF3a60 for SF3a120. The SF3a complex is part of the spliceosome, a protein complex involved in splicing mRNA after transcription. ; PDB: 2DT7_A.
Probab=21.07 E-value=1.2e+02 Score=16.16 Aligned_cols=17 Identities=24% Similarity=0.487 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHhCCC
Q 033381 12 LERRQAESARIREKYPD 28 (120)
Q Consensus 12 ~e~R~~e~~~i~~k~P~ 28 (120)
|=+|.++....-++||+
T Consensus 12 FY~rlk~Ike~Hrr~Pn 28 (28)
T PF12108_consen 12 FYERLKEIKEYHRRYPN 28 (28)
T ss_dssp HHHHHHHHHHHHHS--S
T ss_pred HHHHHHHHHHHHHhCCC
Confidence 56788999988889986
No 127
>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=20.96 E-value=1.6e+02 Score=18.20 Aligned_cols=23 Identities=17% Similarity=0.314 Sum_probs=14.4
Q ss_pred chHHHHHhHccCCCCeEEEEecC
Q 033381 90 AMMSAIYEENKDEDGFLYMTYSG 112 (120)
Q Consensus 90 ~~m~~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 47888888888655544444443
No 128
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=20.92 E-value=89 Score=21.15 Aligned_cols=20 Identities=30% Similarity=0.375 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHhCCCeeeE
Q 033381 13 ERRQAESARIREKYPDRIPV 32 (120)
Q Consensus 13 e~R~~e~~~i~~k~P~~ipV 32 (120)
.++++..+.|++|+.+.|||
T Consensus 35 q~~q~Wl~sI~ekd~nlvPI 54 (92)
T PF15243_consen 35 QQHQAWLQSIAEKDNNLVPI 54 (92)
T ss_pred HHHHHHHHHHHHhccCcCcc
Confidence 56788999999999999886
No 129
>PHA01078 putative upper collar protein
Probab=20.92 E-value=1.5e+02 Score=23.46 Aligned_cols=38 Identities=21% Similarity=0.513 Sum_probs=27.5
Q ss_pred hHHHHHHHHhCCCCCceEEEEEcCCCCCcc-chHHHHHhHcc
Q 033381 60 QFVYVVRKRIKLSAEKAIFIFVKNILPPTA-AMMSAIYEENK 100 (120)
Q Consensus 60 ~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~-~~m~~lY~~~k 100 (120)
.+..-++++|. ++-+++.+++.+|+.+ ..+..+|+.+-
T Consensus 20 n~~~~~~~~l~---~~di~fi~~~~l~~~~~~~~~~~~d~~~ 58 (249)
T PHA01078 20 NFNFQFQKRLT---KEDIYFIVPDYLIPDDCLQIHKLYDNCM 58 (249)
T ss_pred ccchhhhcccc---CCceEEEecCccCCchHHHHHHHhcccc
Confidence 34445667763 3469999999998877 47888888775
No 130
>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=20.74 E-value=1.7e+02 Score=19.33 Aligned_cols=54 Identities=13% Similarity=0.156 Sum_probs=42.7
Q ss_pred cceEEecCCCchHhHHHHHHHHhCCCCCceEEEEEcCCC-CCccchHHHHHhHccC
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIKLSAEKAIFIFVKNIL-PPTAAMMSAIYEENKD 101 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~l-p~~~~~m~~lY~~~kd 101 (120)
-+..-||++.-+.-++.+--...++++..| -+.-|+-+ ..+.++-|++|=+|..
T Consensus 17 fkvlsVpE~aPftAvlkfaAEeFkv~~~Ts-AiiTndGvGINP~qtAGnvflkhgs 71 (82)
T cd01766 17 FKVLSVPESTPFTAVLKFAAEEFKVPAATS-AIITNDGIGINPAQTAGNVFLKHGS 71 (82)
T ss_pred ceEEeccccCchHHHHHHHHHhcCCCccce-eEEecCccccChhhcccceeeecCC
Confidence 355679999999999999999999998877 34455544 7888889999988853
No 131
>PF15130 DUF4566: Domain of unknown function (DUF4566)
Probab=20.63 E-value=1.5e+02 Score=23.16 Aligned_cols=51 Identities=22% Similarity=0.348 Sum_probs=34.3
Q ss_pred cceEEecCCCchHhHHHHHHHHhC-----CCCCceEEEEEcC---CCCCccchHHHHHh
Q 033381 47 KKKYLVPADLTVGQFVYVVRKRIK-----LSAEKAIFIFVKN---ILPPTAAMMSAIYE 97 (120)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~-----l~~~~slfl~Vn~---~lp~~~~~m~~lY~ 97 (120)
+.||-...-.--.|+.+.+-++=+ -+|++++|+|+.. ..|..-++|-.|-.
T Consensus 153 q~kFeFhh~dyekQ~lh~lsrkdk~g~VlnNP~QsvFlfidrq~l~tpk~ka~~fkLs~ 211 (241)
T PF15130_consen 153 QQKFEFHHGDYEKQFLHVLSRKDKPGAVLNNPEQSVFLFIDRQQLQTPKNKATMFKLSS 211 (241)
T ss_pred hhheeeccchHHHHHHHHHhcccCCCceecCCCceEEEEEeHhhhCCcchhhHHHHHhh
Confidence 356666666666788887766522 3589999999974 25777666665543
No 132
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=20.58 E-value=1.1e+02 Score=19.42 Aligned_cols=35 Identities=14% Similarity=0.064 Sum_probs=23.3
Q ss_pred CCchHhHHHHHHHHhC-----CCCCceEEEEEcCCCCCccc
Q 033381 55 DLTVGQFVYVVRKRIK-----LSAEKAIFIFVKNILPPTAA 90 (120)
Q Consensus 55 ~~tv~~~~~~lRk~L~-----l~~~~slfl~Vn~~lp~~~~ 90 (120)
..|++++...|..+.. +. ...+-++||..+-+.+.
T Consensus 25 ~~tv~~l~~~L~~~~~~~~~~~~-~~~~~~aVN~~~~~~~~ 64 (81)
T PRK11130 25 FPTVEALRQHLAQKGDRWALALE-DGKLLAAVNQTLVSFDH 64 (81)
T ss_pred CCCHHHHHHHHHHhCccHHhhhc-CCCEEEEECCEEcCCCC
Confidence 4799999999987641 22 33466889986544443
No 133
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=20.38 E-value=1.3e+02 Score=23.59 Aligned_cols=29 Identities=14% Similarity=0.203 Sum_probs=24.2
Q ss_pred cCCHHHHHHHHHHHHHhCCCeeeEEEEec
Q 033381 9 EHPLERRQAESARIREKYPDRIPVIVEKA 37 (120)
Q Consensus 9 ~~~~e~R~~e~~~i~~k~P~~ipVIvE~~ 37 (120)
.-|.|||.+-.+...+.-.+++|||+--.
T Consensus 50 ~Lt~~Er~~~~~~~~~~~~~~~~viagv~ 78 (288)
T cd00954 50 LLSVEERKQIAEIVAEAAKGKVTLIAHVG 78 (288)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCeEEeccC
Confidence 34679999999888888889999999554
No 134
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=20.21 E-value=2.4e+02 Score=17.75 Aligned_cols=39 Identities=13% Similarity=0.182 Sum_probs=30.3
Q ss_pred CCCccceEEecCCCchHhHHHHHHHHhCCCCC---ceEEEEE
Q 033381 43 PDIDKKKYLVPADLTVGQFVYVVRKRIKLSAE---KAIFIFV 81 (120)
Q Consensus 43 p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~---~slfl~V 81 (120)
|.-.-+-..|+.+.|+++++..+-++.+++.+ =+||..+
T Consensus 13 ~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~ 54 (90)
T smart00314 13 PGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVL 54 (90)
T ss_pred CCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEe
Confidence 44445667899999999999999999999763 4555555
No 135
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to
Probab=20.15 E-value=1.1e+02 Score=21.02 Aligned_cols=34 Identities=15% Similarity=0.192 Sum_probs=23.2
Q ss_pred ccCCHHHHHHHHHHHHHhCCCeeeEEEEecCCCCC
Q 033381 8 LEHPLERRQAESARIREKYPDRIPVIVEKAERSDI 42 (120)
Q Consensus 8 ~~~~~e~R~~e~~~i~~k~P~~ipVIvE~~~~~~~ 42 (120)
.+.||++-......++...++.+|+|+= ..+.++
T Consensus 84 ~~~sf~~~~~~~~~~~~~~~~~~~iilv-gnK~Dl 117 (161)
T cd04117 84 SERSYQHIMKWVSDVDEYAPEGVQKILI-GNKADE 117 (161)
T ss_pred CHHHHHHHHHHHHHHHHhCCCCCeEEEE-EECccc
Confidence 4567777777777777777888998883 333443
No 136
>PRK08577 hypothetical protein; Provisional
Probab=20.02 E-value=1.1e+02 Score=21.23 Aligned_cols=21 Identities=5% Similarity=0.262 Sum_probs=18.3
Q ss_pred HHHHHHhCCCCCceEEEEEcC
Q 033381 63 YVVRKRIKLSAEKAIFIFVKN 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 458999999999999999874
Done!