Query 033424
Match_columns 119
No_of_seqs 116 out of 364
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 13:43:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033424.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033424hhsearch_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 1.7E-54 3.6E-59 299.5 12.2 116 2-117 1-116 (116)
2 cd01611 GABARAP Ubiquitin doma 100.0 6.2E-53 1.3E-57 294.9 13.5 112 6-117 1-112 (112)
3 PTZ00380 microtubule-associate 100.0 6.1E-51 1.3E-55 287.5 12.2 111 4-119 2-113 (121)
4 PF02991 Atg8: Autophagy prote 100.0 5.2E-50 1.1E-54 277.0 11.4 104 14-117 1-104 (104)
5 cd01612 APG12_C Ubiquitin-like 100.0 4.5E-34 9.8E-39 191.9 10.2 85 32-117 2-87 (87)
6 PF04110 APG12: Ubiquitin-like 99.9 2.8E-25 6.1E-30 149.1 6.8 81 36-117 6-87 (87)
7 KOG3439 Protein conjugation fa 99.9 7.6E-24 1.7E-28 146.8 9.4 85 32-117 31-116 (116)
8 PF04106 APG5: Autophagy prote 97.0 0.0016 3.6E-08 49.3 5.3 99 11-111 89-195 (197)
9 PF11816 DUF3337: Domain of un 95.7 0.11 2.3E-06 42.3 9.0 87 26-112 211-328 (331)
10 PF11976 Rad60-SLD: Ubiquitin- 93.7 0.17 3.7E-06 31.4 4.5 49 47-95 12-60 (72)
11 PF13019 Telomere_Sde2: Telome 91.6 2 4.2E-05 32.0 8.3 78 30-110 1-81 (162)
12 cd06406 PB1_P67 A PB1 domain i 91.0 1.7 3.7E-05 28.8 6.7 56 51-109 16-76 (80)
13 KOG2976 Protein involved in au 88.1 7.3 0.00016 31.2 9.4 79 24-110 178-273 (278)
14 KOG2660 Locus-specific chromos 88.1 1.2 2.5E-05 36.7 5.1 73 41-114 159-235 (331)
15 smart00213 UBQ Ubiquitin homol 85.9 2.9 6.3E-05 24.5 4.9 46 48-94 12-57 (64)
16 PF10302 DUF2407: DUF2407 ubiq 84.1 6.2 0.00013 26.7 6.4 71 41-112 10-94 (97)
17 cd06398 PB1_Joka2 The PB1 doma 82.4 3.5 7.7E-05 27.6 4.6 52 47-98 11-72 (91)
18 cd00196 UBQ Ubiquitin-like pro 82.4 6 0.00013 21.4 5.6 39 45-84 7-45 (69)
19 cd01763 Sumo Small ubiquitin-r 81.6 7.7 0.00017 25.2 5.9 62 27-95 9-70 (87)
20 cd01813 UBP_N UBP ubiquitin pr 76.3 5 0.00011 25.5 3.7 45 51-95 15-61 (74)
21 cd01790 Herp_N Homocysteine-re 76.1 19 0.00041 23.5 7.3 62 49-111 15-79 (79)
22 PF00240 ubiquitin: Ubiquitin 74.6 2.9 6.3E-05 25.4 2.2 47 48-95 8-54 (69)
23 PF03671 Ufm1: Ubiquitin fold 74.5 15 0.00033 24.0 5.5 59 43-101 13-71 (76)
24 cd01806 Nedd8 Nebb8-like ubiq 73.3 13 0.00029 22.6 5.1 58 49-111 14-72 (76)
25 COG3343 RpoE DNA-directed RNA 72.9 4.9 0.00011 30.3 3.3 47 55-117 30-77 (175)
26 cd01769 UBL Ubiquitin-like dom 71.2 17 0.00038 21.3 5.1 57 49-110 11-68 (69)
27 cd05992 PB1 The PB1 domain is 71.1 22 0.00047 22.0 7.3 63 47-109 11-79 (81)
28 cd01807 GDX_N ubiquitin-like d 70.0 8.8 0.00019 23.9 3.7 45 49-94 14-58 (74)
29 cd01798 parkin_N amino-termina 69.0 17 0.00036 22.2 4.8 57 49-109 12-68 (70)
30 PF14836 Ubiquitin_3: Ubiquiti 68.2 6.4 0.00014 26.5 2.8 47 51-97 19-71 (88)
31 cd01810 ISG15_repeat2 ISG15 ub 67.1 24 0.00053 21.8 5.3 59 49-111 12-70 (74)
32 cd06396 PB1_NBR1 The PB1 domai 66.3 34 0.00075 22.5 6.0 62 46-110 10-78 (81)
33 PF12752 SUZ: SUZ domain; Int 66.3 6.5 0.00014 24.1 2.4 19 7-25 35-53 (59)
34 cd01805 RAD23_N Ubiquitin-like 64.8 24 0.00053 21.7 5.0 57 49-110 14-73 (77)
35 cd01808 hPLIC_N Ubiquitin-like 64.0 31 0.00067 21.1 5.6 58 49-110 13-70 (71)
36 cd01803 Ubiquitin Ubiquitin. U 62.8 22 0.00047 21.6 4.4 59 49-111 14-72 (76)
37 cd01809 Scythe_N Ubiquitin-lik 62.3 26 0.00056 21.0 4.7 45 49-94 14-58 (72)
38 PF08154 NLE: NLE (NUC135) dom 62.1 35 0.00076 21.1 6.1 41 44-84 14-55 (65)
39 PF00837 T4_deiodinase: Iodoth 61.2 12 0.00026 29.4 3.6 35 4-39 158-192 (237)
40 smart00666 PB1 PB1 domain. Pho 61.0 38 0.00081 21.1 7.1 62 47-108 12-78 (81)
41 PF12436 USP7_ICP0_bdg: ICP0-b 60.2 12 0.00026 29.1 3.5 59 49-111 88-152 (249)
42 cd06407 PB1_NLP A PB1 domain i 60.2 24 0.00052 23.0 4.4 53 47-99 11-68 (82)
43 cd01776 Rin1_RA Ubiquitin doma 59.7 22 0.00048 23.8 4.2 36 48-83 16-53 (87)
44 cd01794 DC_UbP_C dendritic cel 59.1 28 0.00062 21.7 4.5 46 48-94 11-56 (70)
45 cd01799 Hoil1_N Ubiquitin-like 57.7 34 0.00074 21.7 4.7 56 49-108 16-72 (75)
46 cd01796 DDI1_N DNA damage indu 57.2 18 0.00039 22.5 3.3 56 49-108 13-69 (71)
47 cd01812 BAG1_N Ubiquitin-like 56.3 26 0.00056 21.1 3.9 45 49-94 13-57 (71)
48 cd01793 Fubi Fubi ubiquitin-li 55.4 40 0.00087 20.8 4.7 59 47-109 10-68 (74)
49 PF00788 RA: Ras association ( 55.1 50 0.0011 20.6 7.6 64 46-109 17-89 (93)
50 cd01791 Ubl5 UBL5 ubiquitin-li 54.8 31 0.00066 21.8 4.1 43 51-94 17-59 (73)
51 PF00564 PB1: PB1 domain; Int 52.1 55 0.0012 20.3 5.4 52 50-101 16-71 (84)
52 PTZ00044 ubiquitin; Provisiona 50.8 46 0.001 20.4 4.5 45 49-94 14-58 (76)
53 PF14533 USP7_C2: Ubiquitin-sp 45.6 21 0.00046 27.0 2.7 50 46-95 34-90 (213)
54 cd01792 ISG15_repeat1 ISG15 ub 45.5 35 0.00077 21.5 3.4 59 51-112 18-77 (80)
55 PF12436 USP7_ICP0_bdg: ICP0-b 44.6 73 0.0016 24.7 5.6 53 28-83 175-227 (249)
56 cd01800 SF3a120_C Ubiquitin-li 43.4 48 0.0011 20.6 3.7 58 50-111 12-69 (76)
57 cd01795 USP48_C USP ubiquitin- 42.7 51 0.0011 22.9 3.9 25 50-74 19-43 (107)
58 cd01815 BMSC_UbP_N Ubiquitin-l 42.3 61 0.0013 21.0 4.1 54 52-108 17-72 (75)
59 PF09358 UBA_e1_C: Ubiquitin-a 40.0 26 0.00057 24.6 2.3 53 47-99 34-94 (125)
60 cd06411 PB1_p51 The PB1 domain 39.3 1.1E+02 0.0024 20.1 5.9 58 51-108 12-75 (78)
61 PRK06437 hypothetical protein; 39.0 46 0.001 20.6 3.1 39 49-92 14-52 (67)
62 PF09379 FERM_N: FERM N-termin 38.7 90 0.0019 19.1 4.5 35 47-81 8-42 (80)
63 PRK02363 DNA-directed RNA poly 37.9 39 0.00085 24.1 2.9 50 53-117 17-66 (129)
64 cd06408 PB1_NoxR The PB1 domai 37.3 44 0.00096 22.3 2.9 50 49-100 15-68 (86)
65 PF11543 UN_NPL4: Nuclear pore 36.3 43 0.00093 21.6 2.7 56 49-108 17-77 (80)
66 cd01804 midnolin_N Ubiquitin-l 35.5 1.1E+02 0.0025 19.1 5.8 59 49-112 15-73 (78)
67 TIGR01682 moaD molybdopterin c 35.3 41 0.00088 21.1 2.4 38 49-86 19-59 (80)
68 PF06970 RepA_N: Replication i 34.8 19 0.0004 23.3 0.8 17 99-115 42-58 (76)
69 smart00537 DCX Domain in the D 34.7 1.3E+02 0.0029 19.6 5.8 73 31-116 5-83 (89)
70 PF05717 TnpB_IS66: IS66 Orf2 34.0 54 0.0012 22.4 3.0 27 57-83 16-43 (107)
71 PRK13669 hypothetical protein; 33.2 40 0.00087 22.2 2.1 27 75-101 45-74 (78)
72 PF14560 Ubiquitin_2: Ubiquiti 32.4 61 0.0013 20.7 2.9 33 48-80 16-49 (87)
73 PF08825 E2_bind: E2 binding d 31.9 53 0.0012 21.6 2.6 45 51-95 2-59 (84)
74 cd01775 CYR1_RA Ubiquitin doma 31.8 1.1E+02 0.0024 21.0 4.1 35 49-83 16-52 (97)
75 cd00754 MoaD Ubiquitin domain 31.1 45 0.00098 20.5 2.1 41 49-89 19-62 (80)
76 cd00952 CHBPH_aldolase Trans-o 31.1 61 0.0013 25.8 3.3 99 10-112 58-172 (309)
77 smart00148 PLCXc Phospholipase 30.9 66 0.0014 22.6 3.1 43 54-96 67-110 (135)
78 cd01802 AN1_N ubiquitin-like d 30.7 1.5E+02 0.0033 19.9 4.8 59 49-111 41-99 (103)
79 PF10336 DUF2420: Protein of u 30.6 1.8E+02 0.0039 20.0 5.2 62 55-116 10-97 (113)
80 cd03483 MutL_Trans_MLH1 MutL_T 30.3 93 0.002 21.5 3.8 26 74-99 47-75 (127)
81 COG1019 Predicted nucleotidylt 30.2 2.3E+02 0.005 21.0 7.4 66 10-75 54-122 (158)
82 PF03568 Peptidase_C50: Peptid 29.6 3.1E+02 0.0067 22.6 7.3 71 28-100 204-287 (383)
83 PRK04115 hypothetical protein; 29.6 2.2E+02 0.0048 20.6 5.9 56 17-81 50-114 (137)
84 PRK08364 sulfur carrier protei 29.6 54 0.0012 20.3 2.3 38 49-91 17-54 (70)
85 PF14533 USP7_C2: Ubiquitin-sp 29.1 1.4E+02 0.0031 22.5 4.9 64 48-111 135-207 (213)
86 cd00137 PI-PLCc Catalytic doma 28.9 75 0.0016 25.0 3.5 52 55-108 73-127 (274)
87 PF11470 TUG-UBL1: GLUT4 regul 28.8 1.2E+02 0.0026 19.0 3.7 40 44-84 5-44 (65)
88 cd00951 KDGDH 5-dehydro-4-deox 28.7 70 0.0015 25.1 3.3 101 9-113 49-161 (289)
89 cd01938 ADPGK_ADPPFK ADP-depen 28.2 75 0.0016 27.2 3.5 39 1-39 216-254 (445)
90 TIGR02313 HpaI-NOT-DapA 2,4-di 27.8 74 0.0016 25.1 3.3 101 10-113 50-166 (294)
91 cd00408 DHDPS-like Dihydrodipi 27.4 77 0.0017 24.4 3.2 99 9-112 46-160 (281)
92 COG2002 AbrB Regulators of sta 27.3 74 0.0016 20.7 2.7 21 63-83 20-40 (89)
93 PF01886 DUF61: Protein of unk 27.1 1.7E+02 0.0037 20.8 4.7 56 16-80 46-111 (132)
94 PRK13125 trpA tryptophan synth 27.1 64 0.0014 24.7 2.7 16 100-117 150-165 (244)
95 PF09671 Spore_GerQ: Spore coa 27.1 77 0.0017 21.0 2.7 34 85-118 3-36 (81)
96 TIGR02609 doc_partner putative 27.0 69 0.0015 20.2 2.4 21 63-83 16-36 (74)
97 TIGR02728 spore_gerQ spore coa 27.0 67 0.0014 21.3 2.4 33 86-118 2-34 (82)
98 smart00295 B41 Band 4.1 homolo 26.9 1.9E+02 0.0042 20.5 5.1 50 47-96 15-70 (207)
99 PF12108 SF3a60_bindingd: Spli 26.5 78 0.0017 16.8 2.2 17 12-28 12-28 (28)
100 PF02597 ThiS: ThiS family; I 26.5 35 0.00076 20.8 1.0 40 47-86 13-53 (77)
101 KOG1209 1-Acyl dihydroxyaceton 26.0 1.6E+02 0.0034 23.6 4.7 51 46-100 55-110 (289)
102 TIGR00683 nanA N-acetylneurami 25.9 84 0.0018 24.8 3.2 100 10-113 51-166 (290)
103 PF07929 PRiA4_ORF3: Plasmid p 25.6 1.7E+02 0.0036 21.2 4.6 29 47-75 19-47 (179)
104 PF08469 NPHI_C: Nucleoside tr 25.0 50 0.0011 24.3 1.7 21 87-107 102-122 (148)
105 PRK03620 5-dehydro-4-deoxygluc 24.8 91 0.002 24.7 3.3 100 10-113 57-168 (303)
106 PF14060 DUF4252: Domain of un 24.8 89 0.0019 21.8 2.9 25 88-112 20-44 (155)
107 PRK04147 N-acetylneuraminate l 24.7 89 0.0019 24.5 3.2 29 10-38 54-82 (293)
108 PRK03170 dihydrodipicolinate s 24.5 91 0.002 24.3 3.2 100 9-113 50-165 (292)
109 PF00388 PI-PLC-X: Phosphatidy 24.3 58 0.0013 22.7 1.9 31 54-84 65-95 (146)
110 TIGR00601 rad23 UV excision re 24.3 3.1E+02 0.0067 22.9 6.4 59 50-112 15-76 (378)
111 PF04014 Antitoxin-MazE: Antid 23.9 1.1E+02 0.0025 17.2 2.8 21 63-83 13-33 (47)
112 cd01789 Alp11_N Ubiquitin-like 23.8 94 0.002 19.9 2.7 33 51-83 18-51 (84)
113 cd06401 PB1_TFG The PB1 domain 23.6 2.3E+02 0.0049 18.7 4.7 22 49-70 13-35 (81)
114 cd01797 NIRF_N amino-terminal 23.5 1.4E+02 0.0031 18.8 3.5 57 52-112 19-75 (78)
115 COG2879 Uncharacterized small 23.3 56 0.0012 20.8 1.4 16 18-33 28-43 (65)
116 PF01704 UDPGP: UTP--glucose-1 23.2 1.6E+02 0.0036 24.8 4.6 55 12-85 88-142 (420)
117 COG0669 CoaD Phosphopantethein 23.1 2.5E+02 0.0055 20.8 5.1 95 7-106 43-146 (159)
118 PLN02417 dihydrodipicolinate s 22.8 1.1E+02 0.0023 24.0 3.2 97 10-113 51-163 (280)
119 PF06395 CDC24: CDC24 Calponin 22.6 60 0.0013 21.8 1.6 23 56-79 44-66 (89)
120 PF00701 DHDPS: Dihydrodipicol 22.2 89 0.0019 24.3 2.7 100 9-113 50-165 (289)
121 KOG1651 Glutathione peroxidase 22.2 1.2E+02 0.0027 22.8 3.3 37 77-114 36-77 (171)
122 cd01766 Ufm1 Urm1-like ubiquit 22.1 1.6E+02 0.0034 19.4 3.4 54 47-101 17-71 (82)
123 PRK08577 hypothetical protein; 22.0 97 0.0021 21.5 2.6 21 63-83 19-39 (136)
124 cd08555 PI-PLCc_GDPD_SF Cataly 21.7 3.1E+02 0.0067 19.6 5.9 55 55-110 59-121 (179)
125 PF07494 Reg_prop: Two compone 21.3 67 0.0015 15.8 1.3 14 96-109 8-21 (24)
126 TIGR01051 topA_bact DNA topois 21.2 2.7E+02 0.0059 24.5 5.7 50 53-114 250-300 (610)
127 PRK11347 antitoxin ChpS; Provi 21.1 2.4E+02 0.0053 18.3 4.2 38 63-100 18-60 (83)
128 PF05768 DUF836: Glutaredoxin- 21.1 89 0.0019 19.6 2.1 18 20-37 40-57 (81)
129 PF12923 RRP7: Ribosomal RNA-p 21.0 56 0.0012 23.0 1.2 14 100-113 47-60 (131)
130 KOG0010 Ubiquitin-like protein 20.8 1.7E+02 0.0036 25.6 4.2 53 47-104 26-78 (493)
131 cd00950 DHDPS Dihydrodipicolin 20.8 1.2E+02 0.0026 23.4 3.2 100 9-113 49-164 (284)
132 PF13905 Thioredoxin_8: Thiore 20.6 1.6E+02 0.0035 18.2 3.3 24 89-112 20-43 (95)
133 PF15243 ANAPC15: Anaphase-pro 20.5 1E+02 0.0022 20.9 2.3 20 13-32 35-54 (92)
134 PF01119 DNA_mis_repair: DNA m 20.4 81 0.0018 21.3 1.9 29 71-99 36-67 (119)
135 PF11767 SET_assoc: Histone ly 20.2 2.4E+02 0.0051 17.7 4.1 55 50-112 6-63 (66)
136 KOG0765 Predicted mitochondria 20.2 43 0.00092 27.6 0.5 36 43-78 29-70 (333)
137 PF00501 AMP-binding: AMP-bind 20.1 3.1E+02 0.0068 21.4 5.5 47 21-84 3-56 (417)
No 1
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=100.00 E-value=1.7e-54 Score=299.49 Aligned_cols=116 Identities=72% Similarity=1.199 Sum_probs=114.2
Q ss_pred CCccccccCCHHHHHHHHHHHHhhCCCCccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEE
Q 033424 2 AKNSFKLEHPLERRQAEAARIRDKYPDRIPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFV 81 (119)
Q Consensus 2 ~~~~fk~~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~V 81 (119)
|+++||++||||+|++|+++||+|||+|||||||..+++++|.|||+|||||+++|||||+.+||+||+|+|++|+||+|
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 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCccchHHHHHhhccCCCCeEEEEecCccccc
Q 033424 82 KNILPPTAAMMSAIYEENRDEDGFLYMTYSGENTFG 117 (119)
Q Consensus 82 n~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG 117 (119)
||.+|+.+++|++||+++||+||||||+||+|+|||
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=6.2e-53 Score=294.94 Aligned_cols=112 Identities=73% Similarity=1.236 Sum_probs=111.2
Q ss_pred ccccCCHHHHHHHHHHHHhhCCCCccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCC
Q 033424 6 FKLEHPLERRQAEAARIRDKYPDRIPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNIL 85 (119)
Q Consensus 6 fk~~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~l 85 (119)
||++||||+|++|+++||+|||++||||||+++++++|.|+++||+||+++||++|+.+||++|+|++++||||||||++
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 033424 86 PPTAAMMSAIYEENRDEDGFLYMTYSGENTFG 117 (119)
Q Consensus 86 p~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG 117 (119)
|++|++||+||++|||+||||||+||+++|||
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=6.1e-51 Score=287.47 Aligned_cols=111 Identities=32% Similarity=0.611 Sum_probs=107.5
Q ss_pred ccccccCCHHHHHHHHHHHHhhCCCCccEEEEccCCCCCCccceeEE-EecCCCchHHHHHHHHHhhCCCCCCeEEEEEc
Q 033424 4 NSFKLEHPLERRQAEAARIRDKYPDRIPVIVERAEKSDVPEIDKKKY-LVPADLTVGQFVYVVRKRIKLSPEKAIFIFVK 82 (119)
Q Consensus 4 ~~fk~~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~~p~L~k~Kf-lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn 82 (119)
++||++||||+|++|+++||+|||++||||||++++++ +|+|| |||+|+||+||+.+||+||+|++++ +|||||
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 67999999999999999999999999999999998887 79999 6999999999999999999999999 999999
Q ss_pred CCCCCccchHHHHHhhccCCCCeEEEEecCcccccCC
Q 033424 83 NILPPTAAMMSAIYEENRDEDGFLYMTYSGENTFGIF 119 (119)
Q Consensus 83 ~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG~~ 119 (119)
|.+|+++++||+||++|||+||||||+||+|+|||.+
T Consensus 77 n~lp~~s~~mg~lYe~~KDeDGFLYi~Ys~e~tFG~~ 113 (121)
T PTZ00380 77 GSTPAVTATVGDIADACKRDDGFLYVSVRTEQAMGAF 113 (121)
T ss_pred CccCCccchHHHHHHHhcCCCCeEEEEEccccccccc
Confidence 9999999999999999999999999999999999964
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=5.2e-50 Score=276.98 Aligned_cols=104 Identities=65% Similarity=1.163 Sum_probs=95.2
Q ss_pred HHHHHHHHHHhhCCCCccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHH
Q 033424 14 RRQAEAARIRDKYPDRIPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMS 93 (119)
Q Consensus 14 ~R~~e~~~ir~k~P~kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~ 93 (119)
+|++|+++||+|||++||||||+++++++|.|||+|||||.++||+||+.+||++|++++++||||||||++|+++++||
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 033424 94 AIYEENRDEDGFLYMTYSGENTFG 117 (119)
Q Consensus 94 ~lY~~~kd~DGfLyi~Ys~~~~fG 117 (119)
+||++|||+||||||+||++++||
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=4.5e-34 Score=191.85 Aligned_cols=85 Identities=21% Similarity=0.439 Sum_probs=79.8
Q ss_pred EEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCC-CCCccchHHHHHhhccCCCCeEEEEe
Q 033424 32 VIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNI-LPPTAAMMSAIYEENRDEDGFLYMTY 110 (119)
Q Consensus 32 VIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~-lp~~~~~m~~lY~~~kd~DGfLyi~Y 110 (119)
|.|--.+.+++|.|+++||+||+++||++|+.+||++|++++++||||||||+ +|++|++||+||++| |+||||||+|
T Consensus 2 v~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~~dGfLyi~Y 80 (87)
T cd01612 2 VTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-GTNGELIVSY 80 (87)
T ss_pred eEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-CCCCEEEEEE
Confidence 44444566899999999999999999999999999999999999999999995 999999999999999 8999999999
Q ss_pred cCccccc
Q 033424 111 SGENTFG 117 (119)
Q Consensus 111 s~~~~fG 117 (119)
|+++|||
T Consensus 81 s~~~afG 87 (87)
T cd01612 81 CKTVAFG 87 (87)
T ss_pred eCccccC
Confidence 9999999
No 6
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=99.92 E-value=2.8e-25 Score=149.14 Aligned_cols=81 Identities=23% Similarity=0.508 Sum_probs=59.6
Q ss_pred ccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcC-CCCCccchHHHHHhhccCCCCeEEEEecCcc
Q 033424 36 RAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKN-ILPPTAAMMSAIYEENRDEDGFLYMTYSGEN 114 (119)
Q Consensus 36 ~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~-~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~ 114 (119)
-.+-+++|.|+++||.|.++.|++.++.+|||+|+++++++||+|||+ +.|++|+++|+||+||+ .||-|.|+||.++
T Consensus 6 fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~-~~~~Liv~Ys~t~ 84 (87)
T PF04110_consen 6 FKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFG-TNGELIVSYSKTP 84 (87)
T ss_dssp EEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH--BTTBEEEEEESSS
T ss_pred EEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhC-CCCEEEEEEeccc
Confidence 334478999999999999999999999999999999999999999998 79999999999999997 8999999999999
Q ss_pred ccc
Q 033424 115 TFG 117 (119)
Q Consensus 115 ~fG 117 (119)
|||
T Consensus 85 A~G 87 (87)
T PF04110_consen 85 AWG 87 (87)
T ss_dssp ---
T ss_pred ccC
Confidence 999
No 7
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=7.6e-24 Score=146.85 Aligned_cols=85 Identities=24% Similarity=0.469 Sum_probs=78.9
Q ss_pred EEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcC-CCCCccchHHHHHhhccCCCCeEEEEe
Q 033424 32 VIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKN-ILPPTAAMMSAIYEENRDEDGFLYMTY 110 (119)
Q Consensus 32 VIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~-~lp~~~~~m~~lY~~~kd~DGfLyi~Y 110 (119)
|.|.-.+-+++|.|+++||.|+.+.||+.++.+|||.|+|.+.++||||||| ++||+|+++|+||+||+ .||.|.++|
T Consensus 31 V~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~cf~-~d~~Lvl~Y 109 (116)
T KOG3439|consen 31 VQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYECFG-TDGKLVLNY 109 (116)
T ss_pred EEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHhcC-CCCEEEEEE
Confidence 3333445589999999999999999999999999999999999999999998 79999999999999995 899999999
Q ss_pred cCccccc
Q 033424 111 SGENTFG 117 (119)
Q Consensus 111 s~~~~fG 117 (119)
|...|||
T Consensus 110 c~s~A~G 116 (116)
T KOG3439|consen 110 CISVAWG 116 (116)
T ss_pred eeecccC
Confidence 9999999
No 8
>PF04106 APG5: Autophagy protein Apg5 ; InterPro: IPR007239 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents autophagy protein 5 (Apg5).; GO: 0006914 autophagy, 0005737 cytoplasm; PDB: 2DYM_G 2DYO_A.
Probab=96.99 E-value=0.0016 Score=49.31 Aligned_cols=99 Identities=15% Similarity=0.188 Sum_probs=48.6
Q ss_pred CHHHHHHHHHHHH---hhCCCCccEEEEccCCCCCCccceeEEEec---CCCchHHHHHHHHHhh--CCCCCCeEEEEEc
Q 033424 11 PLERRQAEAARIR---DKYPDRIPVIVERAEKSDVPEIDKKKYLVP---ADLTVGQFVYVVRKRI--KLSPEKAIFIFVK 82 (119)
Q Consensus 11 ~~e~R~~e~~~ir---~k~P~kipVIvE~~~~~~~p~L~k~Kflvp---~~~tv~~~~~~lRk~L--~l~~~~slfl~Vn 82 (119)
.|++=..-..++. ..-..+|||.|-.... .|.++..--... ...|++++...+=--+ .-+......++++
T Consensus 89 ~~~~f~~i~~kl~~~~~~~~r~IPiRiy~~~~--~~~iQ~~i~~~~~~g~~~TL~d~L~~~lp~~f~s~~~~~~~~~iih 166 (197)
T PF04106_consen 89 DFDQFWSINSKLMPPDPSKFRHIPIRIYLPGS--VPVIQPPIPPIKEDGQPQTLGDALSELLPELFPSSDEPELARVIIH 166 (197)
T ss_dssp -HHHHHHHHHHHS----SS-SB--EEEEE-SS----EE----B----TT---BTGGGHHHHHTTT--T------EEEEET
T ss_pred CHHHHHHHHHHHHhhcCCCcceeEEEEEeCCC--cceEecccccccCCCCcCcHHHHHHHhChhhcccccCccccEEEEe
Confidence 3443333444555 5667899999988753 333332211111 2346776655442221 1123445678889
Q ss_pred CCCCCccchHHHHHhhccCCCCeEEEEec
Q 033424 83 NILPPTAAMMSAIYEENRDEDGFLYMTYS 111 (119)
Q Consensus 83 ~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (119)
+..++.|+.|..||+.+.-.||||||.-.
T Consensus 167 GI~ipldtpl~~l~~~l~~~D~FLhivv~ 195 (197)
T PF04106_consen 167 GIEIPLDTPLQWLYENLSYPDGFLHIVVR 195 (197)
T ss_dssp TEEE-TTSBHHHHHHHH--TTS-EEEEEE
T ss_pred CeeCCCCCcHHHHHHHccCCCCeEEEEEE
Confidence 98888899999999999999999999753
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=95.66 E-value=0.11 Score=42.26 Aligned_cols=87 Identities=17% Similarity=0.305 Sum_probs=71.8
Q ss_pred CCCCccEEEEccCCCCCCcccee-----------------EEEecCCCchHHHHHHHHHhh--------------CCCCC
Q 033424 26 YPDRIPVIVERAEKSDVPEIDKK-----------------KYLVPADLTVGQFVYVVRKRI--------------KLSPE 74 (119)
Q Consensus 26 ~P~kipVIvE~~~~~~~p~L~k~-----------------Kflvp~~~tv~~~~~~lRk~L--------------~l~~~ 74 (119)
-+.||+-++.++.++..|.+... |.--+.-+.|..+...|-.|+ .+.++
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 44788889999885555555544 888899999999999999999 45778
Q ss_pred CeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEecC
Q 033424 75 KAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 75 ~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
+.|=|+||+.+..+++||+.|=.-+=-..|-|.+.|..
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=93.73 E-value=0.17 Score=31.45 Aligned_cols=49 Identities=14% Similarity=0.187 Sum_probs=39.2
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHH
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAI 95 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~l 95 (119)
...|.|..+.+++.++...+++.++++.+++-|+.++....++.|++++
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 5578999999999999999999999996677777787655666777765
No 11
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=91.55 E-value=2 Score=32.04 Aligned_cols=78 Identities=18% Similarity=0.379 Sum_probs=56.0
Q ss_pred ccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEc-C-CC-CCccchHHHHHhhccCCCCeE
Q 033424 30 IPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVK-N-IL-PPTAAMMSAIYEENRDEDGFL 106 (119)
Q Consensus 30 ipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn-~-~l-p~~~~~m~~lY~~~kd~DGfL 106 (119)
|-|+|...++-.+| ....+-+|.+.|++++...|..++.......++|+++ | .+ +..+..++.+...-.+. +|+
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 34666665443332 3445679999999999999999999988887888886 3 34 56777888888776433 676
Q ss_pred EEEe
Q 033424 107 YMTY 110 (119)
Q Consensus 107 yi~Y 110 (119)
.+..
T Consensus 78 ~l~l 81 (162)
T PF13019_consen 78 TLRL 81 (162)
T ss_pred EEEE
Confidence 6554
No 12
>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=90.97 E-value=1.7 Score=28.78 Aligned_cols=56 Identities=16% Similarity=0.280 Sum_probs=43.0
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCCeEEEEEc-----CCCCCccchHHHHHhhccCCCCeEEEE
Q 033424 51 LVPADLTVGQFVYVVRKRIKLSPEKAIFIFVK-----NILPPTAAMMSAIYEENRDEDGFLYMT 109 (119)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn-----~~lp~~~~~m~~lY~~~kd~DGfLyi~ 109 (119)
-||.+.+++++...|++||++.+ +.+-|.-. ...|-.|+.|.+.+.+=+ ||-|-+-
T Consensus 16 rvp~~~~y~~L~~ki~~kLkl~~-e~i~LsYkde~s~~~v~l~d~dle~aws~~~--~~~lTLw 76 (80)
T cd06406 16 QVARGLSYATLLQKISSKLELPA-EHITLSYKSEASGEDVILSDTNMEDVWSQAK--DGCLTLW 76 (80)
T ss_pred EcCCCCCHHHHHHHHHHHhCCCc-hhcEEEeccCCCCCccCcChHHHHHHHHhhc--CCeEEEE
Confidence 58999999999999999999984 45666553 234557889999998876 7766543
No 13
>KOG2976 consensus Protein involved in autophagy and nutrient starvation [Posttranslational modification, protein turnover, chaperones]
Probab=88.10 E-value=7.3 Score=31.19 Aligned_cols=79 Identities=16% Similarity=0.315 Sum_probs=49.9
Q ss_pred hhCCCCccEEEEccC---------CCCCCccceeEEEecCCCchHHHHHHHHHhhC--------CCCCCeEEEEEcCCCC
Q 033424 24 DKYPDRIPVIVERAE---------KSDVPEIDKKKYLVPADLTVGQFVYVVRKRIK--------LSPEKAIFIFVKNILP 86 (119)
Q Consensus 24 ~k~P~kipVIvE~~~---------~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~--------l~~~~slfl~Vn~~lp 86 (119)
...+-+||+.+.-.. +...|. .-.++-..+-+-.++.++++ ....+. +.+.+.-+
T Consensus 178 ~n~~r~IPL~iy~sq~~t~r~f~~~~~~P~------~~~~d~~~stlge~l~d~~~~s~~s~d~~~~~~~--viihGIei 249 (278)
T KOG2976|consen 178 DNRSRHIPLRIYTSQVKTARDFRTSLTFPC------ISQPDGSLSTLGEFLKDRLPDSLDSKDDINGNDP--VIIHGIEI 249 (278)
T ss_pred ccccccceeEeeccccccccchhhccccce------eecCchhhhhhhHHHHhhcccccCccccccccCc--eEEecccc
Confidence 348899999998441 122331 11223334444455566664 122233 44555567
Q ss_pred CccchHHHHHhhccCCCCeEEEEe
Q 033424 87 PTAAMMSAIYEENRDEDGFLYMTY 110 (119)
Q Consensus 87 ~~~~~m~~lY~~~kd~DGfLyi~Y 110 (119)
+..+.+..+|......||||||+.
T Consensus 250 ~l~tpL~~l~~~L~ypD~FLHI~l 273 (278)
T KOG2976|consen 250 PLHTPLYWLYSNLSYPDGFLHIVL 273 (278)
T ss_pred cccchHHHHHhhccCCCcceEEEE
Confidence 788899999999999999999975
No 14
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=88.06 E-value=1.2 Score=36.68 Aligned_cols=73 Identities=21% Similarity=0.225 Sum_probs=59.5
Q ss_pred CCCccceeEE-EecCCCchHHHHHHHHHhhC-CCCCCeEEEEEcCCCCCccchHHHHHhhccCC--CCeEEEEecCcc
Q 033424 41 DVPEIDKKKY-LVPADLTVGQFVYVVRKRIK-LSPEKAIFIFVKNILPPTAAMMSAIYEENRDE--DGFLYMTYSGEN 114 (119)
Q Consensus 41 ~~p~L~k~Kf-lvp~~~tv~~~~~~lRk~L~-l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~--DGfLyi~Ys~~~ 114 (119)
.++.|. .+| .++...|+.++..+++++++ +...-.+=+++|+-+..-+.||.++.-.+... ||=|-+.|...+
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 466 48999999999999999998 77666677788888889999999998887664 999999998543
No 15
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=85.91 E-value=2.9 Score=24.49 Aligned_cols=46 Identities=11% Similarity=0.040 Sum_probs=34.7
Q ss_pred eEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHH
Q 033424 48 KKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSA 94 (119)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 94 (119)
..+-|+.+.|++++...|.++.+++++. +=|+.++.....+.+|++
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 3567999999999999999999997663 445567765555666655
No 16
>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=84.08 E-value=6.2 Score=26.73 Aligned_cols=71 Identities=14% Similarity=0.216 Sum_probs=46.8
Q ss_pred CCCccceeEEEecCCCchHHHHHHHHHhh-CCCCCCeEEEEEcCCCCCccchHHHHHhhc---------cCCCC----eE
Q 033424 41 DVPEIDKKKYLVPADLTVGQFVYVVRKRI-KLSPEKAIFIFVKNILPPTAAMMSAIYEEN---------RDEDG----FL 106 (119)
Q Consensus 41 ~~p~L~k~Kflvp~~~tv~~~~~~lRk~L-~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~---------kd~DG----fL 106 (119)
.+|+|.=. +--|.+.|+.++...||.++ .-.++..|=|.-++.+.+.++.++..-... |..++ -.
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 57764311 01458899999999999999 555667776666776665666665555444 33343 88
Q ss_pred EEEecC
Q 033424 107 YMTYSG 112 (119)
Q Consensus 107 yi~Ys~ 112 (119)
||+++.
T Consensus 89 yIhCsI 94 (97)
T PF10302_consen 89 YIHCSI 94 (97)
T ss_pred EEEEec
Confidence 888874
No 17
>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=82.39 E-value=3.5 Score=27.61 Aligned_cols=52 Identities=13% Similarity=0.246 Sum_probs=36.1
Q ss_pred eeEEEecC-----CCchHHHHHHHHHhhCCCCCCeEEE-EEcC--C--CCCccchHHHHHhh
Q 033424 47 KKKYLVPA-----DLTVGQFVYVVRKRIKLSPEKAIFI-FVKN--I--LPPTAAMMSAIYEE 98 (119)
Q Consensus 47 k~Kflvp~-----~~tv~~~~~~lRk~L~l~~~~slfl-~Vn~--~--lp~~~~~m~~lY~~ 98 (119)
...|-+|. +.++.++..-|++++++.+...+-| |-+. - ....|..+.+.-+.
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 45677785 7999999999999999987544444 4442 1 34566666665555
No 18
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=82.37 E-value=6 Score=21.41 Aligned_cols=39 Identities=21% Similarity=0.255 Sum_probs=30.2
Q ss_pred cceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCC
Q 033424 45 IDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNI 84 (119)
Q Consensus 45 L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~ 84 (119)
.....+.++.+.|++++...|..+.+.. .+...|++|+.
T Consensus 7 ~~~~~~~~~~~~tv~~l~~~i~~~~~~~-~~~~~l~~~~~ 45 (69)
T cd00196 7 GKTVELLVPSGTTVADLKEKLAKKLGLP-PEQQRLLVNGK 45 (69)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHHCcC-hHHeEEEECCe
Confidence 3456778889999999999999998854 44567777764
No 19
>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=81.60 E-value=7.7 Score=25.19 Aligned_cols=62 Identities=11% Similarity=0.141 Sum_probs=44.1
Q ss_pred CCCccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHH
Q 033424 27 PDRIPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAI 95 (119)
Q Consensus 27 P~kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~l 95 (119)
+.+|.|-|.-. .-+...|.|..+.+++.++..+..+.++++++--|+| ++.....+.|+.++
T Consensus 9 ~~~i~I~v~~~------~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f-~G~~L~~~~T~~~l 70 (87)
T cd01763 9 SEHINLKVKGQ------DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLF-DGQRIRDNQTPDDL 70 (87)
T ss_pred CCeEEEEEECC------CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEE-CCeECCCCCCHHHc
Confidence 35566666332 1234578999999999999999999999987655655 55544556677776
No 20
>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=76.35 E-value=5 Score=25.49 Aligned_cols=45 Identities=18% Similarity=0.157 Sum_probs=36.7
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCCeEEEE--EcCCCCCccchHHHH
Q 033424 51 LVPADLTVGQFVYVVRKRIKLSPEKAIFIF--VKNILPPTAAMMSAI 95 (119)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~--Vn~~lp~~~~~m~~l 95 (119)
=|+.+.|+++|...|..+.+++++.-=.+| +.+.++..+.+++++
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 488999999999999999999887555665 456677788888876
No 21
>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=76.10 E-value=19 Score=23.53 Aligned_cols=62 Identities=13% Similarity=0.126 Sum_probs=42.9
Q ss_pred EEEe--cCCCchHHHHHHHHHhhC-CCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEec
Q 033424 49 KYLV--PADLTVGQFVYVVRKRIK-LSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYS 111 (119)
Q Consensus 49 Kflv--p~~~tv~~~~~~lRk~L~-l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (119)
-|-| +.+.||+++...|....+ ..+.+..=|.-.+.+...+.+|++..+.-+ ..--+++.|+
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 332334444445666688999999987753 3445666654
No 22
>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=74.60 E-value=2.9 Score=25.39 Aligned_cols=47 Identities=15% Similarity=0.100 Sum_probs=37.5
Q ss_pred eEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHH
Q 033424 48 KKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAI 95 (119)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~l 95 (119)
-.+-|+.+.||+++...|-.+.++++++ +-|+.++.....+.+|+++
T Consensus 8 ~~~~v~~~~tV~~lK~~i~~~~~~~~~~-~~L~~~G~~L~d~~tL~~~ 54 (69)
T PF00240_consen 8 FTLEVDPDDTVADLKQKIAEETGIPPEQ-QRLIYNGKELDDDKTLSDY 54 (69)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTSTGGG-EEEEETTEEESTTSBTGGG
T ss_pred EEEEECCCCCHHHhhhhccccccccccc-ceeeeeeecccCcCcHHHc
Confidence 3467999999999999999999988765 4555677655888888765
No 23
>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=74.52 E-value=15 Score=23.98 Aligned_cols=59 Identities=12% Similarity=0.210 Sum_probs=43.0
Q ss_pred CccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccC
Q 033424 43 PEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRD 101 (119)
Q Consensus 43 p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd 101 (119)
|.+--+.+-||++..+..++.+--...++++..+.-+--++.--.+.++-|+++-+|..
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 44446778899999999999999999999999884332223566788999999999964
No 24
>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=73.31 E-value=13 Score=22.60 Aligned_cols=58 Identities=12% Similarity=0.122 Sum_probs=41.2
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCC-eEEEEec
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDG-FLYMTYS 111 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DG-fLyi~Ys 111 (119)
.+-|+.+.|++++...|..+.++++++--.+ .++.....+.++++. .-.|| .|++...
T Consensus 14 ~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~-~~g~~L~d~~tl~~~----~i~~g~~i~l~~~ 72 (76)
T cd01806 14 EIDIEPTDKVERIKERVEEKEGIPPQQQRLI-YSGKQMNDDKTAADY----KLEGGSVLHLVLA 72 (76)
T ss_pred EEEECCCCCHHHHHHHHhHhhCCChhhEEEE-ECCeEccCCCCHHHc----CCCCCCEEEEEEE
Confidence 3568999999999999999999988753333 566555667777663 33344 7777654
No 25
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=72.89 E-value=4.9 Score=30.30 Aligned_cols=47 Identities=21% Similarity=0.523 Sum_probs=37.5
Q ss_pred CCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCC-eEEEEecCccccc
Q 033424 55 DLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDG-FLYMTYSGENTFG 117 (119)
Q Consensus 55 ~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DG-fLyi~Ys~~~~fG 117 (119)
.+++++++.-|++.++++..+ .-..++.+|... ..|| |+++ +.+.||
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 789999999999999887554 246799999999 6777 7665 577787
No 26
>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=71.23 E-value=17 Score=21.29 Aligned_cols=57 Identities=14% Similarity=0.130 Sum_probs=39.1
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccC-CCCeEEEEe
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRD-EDGFLYMTY 110 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd-~DGfLyi~Y 110 (119)
.+-++.+.|++++...|.++.+++++. +=|..|+.....+.++++ +.- .+..+|+..
T Consensus 11 ~~~~~~~~ti~~lK~~i~~~~~~~~~~-~~l~~~g~~l~d~~~l~~----~~v~~~~~i~v~~ 68 (69)
T cd01769 11 ELEVSPDDTVAELKAKIAAKEGVPPEQ-QRLIYAGKILKDDKTLSD----YGIQDGSTLHLVL 68 (69)
T ss_pred EEEECCCChHHHHHHHHHHHHCcChHH-EEEEECCcCCCCcCCHHH----CCCCCCCEEEEEE
Confidence 467888999999999999999987764 333556655566677765 222 344566643
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=71.10 E-value=22 Score=22.01 Aligned_cols=63 Identities=10% Similarity=0.163 Sum_probs=47.0
Q ss_pred eeEEEec-CCCchHHHHHHHHHhhCCCCCCeEEEEEcC---C-CCCccchHHHHHhhccC-CCCeEEEE
Q 033424 47 KKKYLVP-ADLTVGQFVYVVRKRIKLSPEKAIFIFVKN---I-LPPTAAMMSAIYEENRD-EDGFLYMT 109 (119)
Q Consensus 47 k~Kflvp-~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~---~-lp~~~~~m~~lY~~~kd-~DGfLyi~ 109 (119)
...|.++ .+.++.+|...|++++++....-.+=|.++ . ..+.+..|.+..+.+.. .++.|.+.
T Consensus 11 ~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~~~~~~l~l~ 79 (81)
T cd05992 11 IRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSDEDLEEAIEEARRSGSKKLRLF 79 (81)
T ss_pred CEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhhcCCccEEEE
Confidence 3567888 999999999999999998764444556653 2 44777889888888864 46666654
No 28
>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=70.00 E-value=8.8 Score=23.86 Aligned_cols=45 Identities=13% Similarity=0.158 Sum_probs=34.6
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHH
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSA 94 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 94 (119)
.+-|+.+.||+++...|..+-++++++ .-|+.++.....+.++++
T Consensus 14 ~l~v~~~~tV~~lK~~i~~~~gi~~~~-q~L~~~G~~L~d~~~L~~ 58 (74)
T cd01807 14 SLQVSEKESVSTLKKLVSEHLNVPEEQ-QRLLFKGKALADDKRLSD 58 (74)
T ss_pred EEEECCCCcHHHHHHHHHHHHCCCHHH-eEEEECCEECCCCCCHHH
Confidence 355889999999999999999997754 455677765566677755
No 29
>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=69.04 E-value=17 Score=22.25 Aligned_cols=57 Identities=16% Similarity=0.199 Sum_probs=40.5
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEE
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMT 109 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~ 109 (119)
.+-|+++.|++++...|-.+.++++++ .-|+.++.....+.++++ |.-- ++-.|++.
T Consensus 12 ~~~v~~~~tV~~lK~~i~~~~gi~~~~-q~Li~~G~~L~d~~~l~~-~~i~--~~stl~l~ 68 (70)
T cd01798 12 PVEVDPDTDIKQLKEVVAKRQGVPPDQ-LRVIFAGKELRNTTTIQE-CDLG--QQSILHAV 68 (70)
T ss_pred EEEECCCChHHHHHHHHHHHHCCCHHH-eEEEECCeECCCCCcHHH-cCCC--CCCEEEEE
Confidence 355889999999999999999997654 566677765577788887 4322 23355543
No 30
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=68.22 E-value=6.4 Score=26.47 Aligned_cols=47 Identities=17% Similarity=0.215 Sum_probs=31.2
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCCeEEEEEc-CC---CCCccchHHH--HHh
Q 033424 51 LVPADLTVGQFVYVVRKRIKLSPEKAIFIFVK-NI---LPPTAAMMSA--IYE 97 (119)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn-~~---lp~~~~~m~~--lY~ 97 (119)
..++..||+.+...+|+.+.++.+-.|+-+-+ +. |-.++.|+.+ ||+
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 57889999999999999999977777877655 32 5566667755 554
No 31
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=67.07 E-value=24 Score=21.83 Aligned_cols=59 Identities=14% Similarity=0.190 Sum_probs=42.3
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEec
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYS 111 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (119)
-+-|..+.||+++...|..+-++++++ .-|+.++.....+.++++ |.-. ++-.|+|.-.
T Consensus 12 ~l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~~G~~L~D~~tL~~-~~i~--~~~tl~l~~~ 70 (74)
T cd01810 12 IYEVQLTQTVATLKQQVSQRERVQADQ-FWLSFEGRPMEDEHPLGE-YGLK--PGCTVFMNLR 70 (74)
T ss_pred EEEECCcChHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCCHHH-cCCC--CCCEEEEEEE
Confidence 356889999999999999998886653 455567766667788887 4322 3457777643
No 32
>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=66.33 E-value=34 Score=22.55 Aligned_cols=62 Identities=16% Similarity=0.251 Sum_probs=47.2
Q ss_pred ceeEEEecC--CCchHHHHHHHHHhhCCCCCCeEEE-EEcC----CCCCccchHHHHHhhccCCCCeEEEEe
Q 033424 46 DKKKYLVPA--DLTVGQFVYVVRKRIKLSPEKAIFI-FVKN----ILPPTAAMMSAIYEENRDEDGFLYMTY 110 (119)
Q Consensus 46 ~k~Kflvp~--~~tv~~~~~~lRk~L~l~~~~slfl-~Vn~----~lp~~~~~m~~lY~~~kd~DGfLyi~Y 110 (119)
+...|.++. +.++.++..-|+++.+++ ++-| |+++ .+.+.+..+.+.++-+......|-|+-
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 4433 6653 367778889888888865666666653
No 33
>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=66.26 E-value=6.5 Score=24.08 Aligned_cols=19 Identities=37% Similarity=0.508 Sum_probs=16.4
Q ss_pred cccCCHHHHHHHHHHHHhh
Q 033424 7 KLEHPLERRQAEAARIRDK 25 (119)
Q Consensus 7 k~~~~~e~R~~e~~~ir~k 25 (119)
....|||+|.++++..|++
T Consensus 35 ~~~kSlEERE~eY~~AR~R 53 (59)
T PF12752_consen 35 RPSKSLEEREAEYAEARAR 53 (59)
T ss_pred cccCCHHHHHHHHHHHHHH
Confidence 4578999999999999874
No 34
>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=64.82 E-value=24 Score=21.68 Aligned_cols=57 Identities=14% Similarity=0.202 Sum_probs=39.2
Q ss_pred EEEecCCCchHHHHHHHHHhhCC--CCCCeEEEEEcCCCCCccchHHHHHhhccCCCC-eEEEEe
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKL--SPEKAIFIFVKNILPPTAAMMSAIYEENRDEDG-FLYMTY 110 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l--~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DG-fLyi~Y 110 (119)
.+=|+.+.||+++...|..+.++ ++++ .-|..++.....+.++++ | +-.|| .|++.-
T Consensus 14 ~l~v~~~~TV~~lK~~i~~~~~i~~~~~~-q~L~~~G~~L~d~~~L~~-~---~i~~~~~i~~~~ 73 (77)
T cd01805 14 PIEVDPDDTVAELKEKIEEEKGCDYPPEQ-QKLIYSGKILKDDTTLEE-Y---KIDEKDFVVVMV 73 (77)
T ss_pred EEEECCCCcHHHHHHHHHHhhCCCCChhH-eEEEECCEEccCCCCHHH-c---CCCCCCEEEEEE
Confidence 45688999999999999999888 5543 445567765566777776 3 33343 566543
No 35
>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=64.04 E-value=31 Score=21.12 Aligned_cols=58 Identities=12% Similarity=0.179 Sum_probs=39.2
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEe
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTY 110 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Y 110 (119)
.+-|..+.||+++...|.++.++++. .+-|..++.....+.++++. .- .++..|+|.-
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~~-~~~Li~~Gk~L~d~~tL~~~--~i-~~~stl~l~~ 70 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQE-QLVLIFAGKILKDTDTLTQH--NI-KDGLTVHLVI 70 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHH-HEEEEECCeEcCCCCcHHHc--CC-CCCCEEEEEE
Confidence 46688999999999999988887544 44454466555566677553 12 2455787753
No 36
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=62.76 E-value=22 Score=21.62 Aligned_cols=59 Identities=10% Similarity=0.146 Sum_probs=40.4
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEec
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYS 111 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (119)
.+-|+.+.|++++...|.++.++++++ .=|+.++.....+.++++ |.-. ++.-+++...
T Consensus 14 ~~~v~~~~tV~~lK~~i~~~~g~~~~~-q~L~~~g~~L~d~~~L~~-~~i~--~~~~i~l~~~ 72 (76)
T cd01803 14 TLEVEPSDTIENVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLSD-YNIQ--KESTLHLVLR 72 (76)
T ss_pred EEEECCcCcHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCcHHH-cCCC--CCCEEEEEEE
Confidence 467899999999999999999987653 334456665566677766 3221 3446666654
No 37
>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=62.26 E-value=26 Score=21.04 Aligned_cols=45 Identities=11% Similarity=0.164 Sum_probs=33.7
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHH
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSA 94 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 94 (119)
.+-++.+.|++++...|.++.+++++. .=|..++.....+.++++
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 467889999999999999999987653 233347765566677765
No 38
>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=62.11 E-value=35 Score=21.07 Aligned_cols=41 Identities=12% Similarity=0.183 Sum_probs=34.0
Q ss_pred ccceeEEEecCCCchHHHHHHHHHhh-CCCCCCeEEEEEcCC
Q 033424 44 EIDKKKYLVPADLTVGQFVYVVRKRI-KLSPEKAIFIFVKNI 84 (119)
Q Consensus 44 ~L~k~Kflvp~~~tv~~~~~~lRk~L-~l~~~~slfl~Vn~~ 84 (119)
.+...-+.||.+.|..++...+.+-| +.......=++||+.
T Consensus 14 ~~~~~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~ 55 (65)
T PF08154_consen 14 EVPGTPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGE 55 (65)
T ss_pred cCCCCCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCE
Confidence 44567899999999999999999999 666677777788874
No 39
>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=61.18 E-value=12 Score=29.45 Aligned_cols=35 Identities=20% Similarity=0.511 Sum_probs=30.1
Q ss_pred ccccccCCHHHHHHHHHHHHhhCCCCccEEEEccCC
Q 033424 4 NSFKLEHPLERRQAEAARIRDKYPDRIPVIVERAEK 39 (119)
Q Consensus 4 ~~fk~~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~ 39 (119)
..+++..|+|+|..-++.+++++| .+||+|-.-.+
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 68999987643
No 40
>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=60.96 E-value=38 Score=21.06 Aligned_cols=62 Identities=16% Similarity=0.218 Sum_probs=45.7
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcC----CCCCccchHHHHHhhccCC-CCeEEE
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKN----ILPPTAAMMSAIYEENRDE-DGFLYM 108 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~----~lp~~~~~m~~lY~~~kd~-DGfLyi 108 (119)
...+.+|.+.++.+|...|.+++++..+.-..-|.++ ...+.++.|....+.++.. .+.|-|
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 2457788888888887643 344433
No 41
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=60.23 E-value=12 Score=29.07 Aligned_cols=59 Identities=19% Similarity=0.405 Sum_probs=36.4
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEc---CC--CCCccchHHHHHhhccCCCC-eEEEEec
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVK---NI--LPPTAAMMSAIYEENRDEDG-FLYMTYS 111 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn---~~--lp~~~~~m~~lY~~~kd~DG-fLyi~Ys 111 (119)
.+.|+.+.+++++...|+++++++++..|-||-. +. ...++.++.+ .+- .|| .|+.+-.
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 5789999999999999999999999999988874 21 2256667766 221 344 5555543
No 42
>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=60.19 E-value=24 Score=23.03 Aligned_cols=53 Identities=17% Similarity=0.281 Sum_probs=39.2
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCCeEEE-EEcC----CCCCccchHHHHHhhc
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFI-FVKN----ILPPTAAMMSAIYEEN 99 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl-~Vn~----~lp~~~~~m~~lY~~~ 99 (119)
.-.|-+|.+.++.++...|++++++.....+-| |..+ .+.+.++-|.+..+-+
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 457889999999999999999999976455555 6653 2557777776644444
No 43
>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=59.75 E-value=22 Score=23.82 Aligned_cols=36 Identities=25% Similarity=0.472 Sum_probs=30.8
Q ss_pred eEEEecCCCchHHHHHHHHHhhCCC--CCCeEEEEEcC
Q 033424 48 KKYLVPADLTVGQFVYVVRKRIKLS--PEKAIFIFVKN 83 (119)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~--~~~slfl~Vn~ 83 (119)
+-.+|+.+.|..++....-.+..+. .+-+||+||++
T Consensus 16 KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg 53 (87)
T cd01776 16 KTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEE 53 (87)
T ss_pred eeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECC
Confidence 3467999999999999999998875 45689999997
No 44
>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=59.10 E-value=28 Score=21.66 Aligned_cols=46 Identities=20% Similarity=0.139 Sum_probs=35.2
Q ss_pred eEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHH
Q 033424 48 KKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSA 94 (119)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 94 (119)
..+-|+.+.||+++...|..+-++++++- =|+.++.....+.++++
T Consensus 11 ~~l~v~~~~TV~~lK~~I~~~~gi~~~~q-~Li~~G~~L~D~~~l~~ 56 (70)
T cd01794 11 VKLSVSSKDTVGQLKKQLQAAEGVDPCCQ-RWFFSGKLLTDKTRLQE 56 (70)
T ss_pred EEEEECCcChHHHHHHHHHHHhCCCHHHe-EEEECCeECCCCCCHHH
Confidence 34568899999999999999988877643 33456666777888877
No 45
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=57.70 E-value=34 Score=21.70 Aligned_cols=56 Identities=14% Similarity=0.122 Sum_probs=36.8
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCC-CeEEEEEcCCCCCccchHHHHHhhccCCCCeEEE
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPE-KAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYM 108 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~-~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi 108 (119)
.+-|+.+.||+++...|-.+-+++++ +.| |-+..+-..+.+|++ |.-. +++..||+
T Consensus 16 ~l~v~~~~TV~~lK~kI~~~~gip~~~QrL--~~G~~L~dD~~tL~~-ygi~-~~g~~~~l 72 (75)
T cd01799 16 WLTVRPDMTVAQLKDKVFLDYGFPPAVQRW--VIGQRLARDQETLYS-HGIR-TNGDSAFL 72 (75)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHHEEE--EcCCeeCCCcCCHHH-cCCC-CCCCEEEE
Confidence 46689999999999999999999875 444 433345445577765 3222 23345554
No 46
>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=57.17 E-value=18 Score=22.46 Aligned_cols=56 Identities=9% Similarity=0.153 Sum_probs=36.0
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCcc-chHHHHHhhccCCCCeEEE
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTA-AMMSAIYEENRDEDGFLYM 108 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~-~~m~~lY~~~kd~DGfLyi 108 (119)
-.-|+++.||+++...|..+-++++++ .-|+.++.....+ .++++ |. - .++.+|++
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~gip~~~-q~Li~~Gk~L~D~~~~L~~-~g-i-~~~~~l~l 69 (71)
T cd01796 13 SLDVDPDLELENFKALCEAESGIPASQ-QQLIYNGRELVDNKRLLAL-YG-V-KDGDLVVL 69 (71)
T ss_pred EEEECCcCCHHHHHHHHHHHhCCCHHH-eEEEECCeEccCCcccHHH-cC-C-CCCCEEEE
Confidence 356889999999999999999997754 3444555533444 34443 22 2 24556665
No 47
>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=56.31 E-value=26 Score=21.08 Aligned_cols=45 Identities=11% Similarity=0.152 Sum_probs=31.8
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHH
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSA 94 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 94 (119)
.+-|+.+.|++++...|...-+++++. .=|+.++.....+.++++
T Consensus 13 ~i~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~~g~~l~d~~~L~~ 57 (71)
T cd01812 13 DLSISSQATFGDLKKMLAPVTGVEPRD-QKLIFKGKERDDAETLDM 57 (71)
T ss_pred EEEECCCCcHHHHHHHHHHhhCCChHH-eEEeeCCcccCccCcHHH
Confidence 355889999999999999998987653 334456554444556644
No 48
>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=55.38 E-value=40 Score=20.82 Aligned_cols=59 Identities=14% Similarity=0.045 Sum_probs=41.9
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEE
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMT 109 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~ 109 (119)
...+-|.++.||+++...|..+-++++++ .-|+.++.....+.++++ |.-- ++--|++.
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 44567899999999999999998887665 345566766677788877 4322 23355554
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=55.09 E-value=50 Score=20.64 Aligned_cols=64 Identities=8% Similarity=0.025 Sum_probs=44.3
Q ss_pred ceeEEEecCCCchHHHHHHHHHhhCCCC-CCeEEEE--EcC----CCCCccchHHHHHhhccCC--CCeEEEE
Q 033424 46 DKKKYLVPADLTVGQFVYVVRKRIKLSP-EKAIFIF--VKN----ILPPTAAMMSAIYEENRDE--DGFLYMT 109 (119)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~L~l~~-~~slfl~--Vn~----~lp~~~~~m~~lY~~~kd~--DGfLyi~ 109 (119)
.-+-+.|+.+.|+.+++..+-+++++.. .+...|+ ... .....++..-.+....... ++.+++.
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 4667899999999999999999999933 3334442 222 2456667777777777543 6666664
No 50
>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=54.85 E-value=31 Score=21.81 Aligned_cols=43 Identities=14% Similarity=0.145 Sum_probs=32.0
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHH
Q 033424 51 LVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSA 94 (119)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 94 (119)
-|+++.||+++...|-.+-+++++.-=.+|. +.+...+.++++
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 5889999999999998887888765444444 555556667776
No 51
>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=52.11 E-value=55 Score=20.27 Aligned_cols=52 Identities=12% Similarity=0.260 Sum_probs=42.8
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcC----CCCCccchHHHHHhhccC
Q 033424 50 YLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKN----ILPPTAAMMSAIYEENRD 101 (119)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~----~lp~~~~~m~~lY~~~kd 101 (119)
+-++.+.++.+|...|++++++.+..-..-|.+. ...+.+..+.+..+.++.
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 6799999999999999999999877777778863 245788888888888764
No 52
>PTZ00044 ubiquitin; Provisional
Probab=50.82 E-value=46 Score=20.36 Aligned_cols=45 Identities=13% Similarity=0.118 Sum_probs=32.7
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHH
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSA 94 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~ 94 (119)
.+-|+.+.|++++...|..+.++++++--.+ .++.....+.++++
T Consensus 14 ~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~-~~g~~L~d~~~l~~ 58 (76)
T PTZ00044 14 SFNFEPDNTVQQVKMALQEKEGIDVKQIRLI-YSGKQMSDDLKLSD 58 (76)
T ss_pred EEEECCCCcHHHHHHHHHHHHCCCHHHeEEE-ECCEEccCCCcHHH
Confidence 4678999999999999999999987643333 45554456666653
No 53
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=45.61 E-value=21 Score=27.03 Aligned_cols=50 Identities=20% Similarity=0.340 Sum_probs=29.4
Q ss_pred ceeEEEecCCCchHHHHHHHHHhhCCCCC--CeEEEE-E-cCC---CCCccchHHHH
Q 033424 46 DKKKYLVPADLTVGQFVYVVRKRIKLSPE--KAIFIF-V-KNI---LPPTAAMMSAI 95 (119)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~L~l~~~--~slfl~-V-n~~---lp~~~~~m~~l 95 (119)
+.-.++||++-||+++...++++++++.+ ..|=|+ | |+. ..+.+..+++|
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 45678999999999999999999998654 344332 3 332 56788888877
No 54
>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=45.49 E-value=35 Score=21.51 Aligned_cols=59 Identities=5% Similarity=0.048 Sum_probs=38.5
Q ss_pred EecCCCchHHHHHHHHHhhCCCCC-CeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEecC
Q 033424 51 LVPADLTVGQFVYVVRKRIKLSPE-KAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~-~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
-|+.+.||+++...|-++.+++++ +.|.+..++.....+.++++ | .- .++..|++.-+.
T Consensus 18 ~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~-~-gi-~~gs~l~l~~~~ 77 (80)
T cd01792 18 SLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVS-Q-GL-GPGSTVLLVVQN 77 (80)
T ss_pred EcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHH-c-CC-CCCCEEEEEEEc
Confidence 467899999999999988888654 33322225555556667765 2 12 246688887553
No 55
>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=44.64 E-value=73 Score=24.72 Aligned_cols=53 Identities=19% Similarity=0.335 Sum_probs=35.0
Q ss_pred CCccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcC
Q 033424 28 DRIPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKN 83 (119)
Q Consensus 28 ~kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~ 83 (119)
+||-|.+.+....+-| ....-++..+|..++...|-++|+++|..=-|.-+|+
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 5777777775433333 5567899999999999999999999988766777764
No 56
>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=43.37 E-value=48 Score=20.64 Aligned_cols=58 Identities=5% Similarity=0.064 Sum_probs=39.5
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEec
Q 033424 50 YLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYS 111 (119)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (119)
+-|+.+.||++|...|....+++++. .=|..++.....+.++++. . - .++..|+|.-.
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-L-ANGTIIHLQLK 69 (76)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHH-EEEEECCEEcCCCCcHHHc-C-C-CCCCEEEEEEe
Confidence 45889999999999999999987653 3444566655666777643 2 2 13446666544
No 57
>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=42.68 E-value=51 Score=22.92 Aligned_cols=25 Identities=20% Similarity=0.307 Sum_probs=20.2
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCC
Q 033424 50 YLVPADLTVGQFVYVVRKRIKLSPE 74 (119)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~l~~~ 74 (119)
-.|+.+.|++++...|-+++++.|.
T Consensus 19 L~V~~~~TVg~LK~lImQ~f~V~P~ 43 (107)
T cd01795 19 LLVSANQTLKELKIQIMHAFSVAPF 43 (107)
T ss_pred EEeCccccHHHHHHHHHHHhcCCcc
Confidence 3588888999888888888887765
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=42.31 E-value=61 Score=21.00 Aligned_cols=54 Identities=7% Similarity=0.044 Sum_probs=33.3
Q ss_pred ecCCCchHHHHHHHHHhhC--CCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEE
Q 033424 52 VPADLTVGQFVYVVRKRIK--LSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYM 108 (119)
Q Consensus 52 vp~~~tv~~~~~~lRk~L~--l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi 108 (119)
-|.+.||+++...|..+.+ ..+.+..=|.-++.....+.+|++.= - .++.+|+|
T Consensus 17 ~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dyg--I-~~gstlhL 72 (75)
T cd01815 17 SPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYG--I-QSGSTIHI 72 (75)
T ss_pred CCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcC--C-CCCCEEEE
Confidence 4789999999999999964 54222233334455556777776521 1 13456665
No 59
>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=40.00 E-value=26 Score=24.56 Aligned_cols=53 Identities=15% Similarity=0.201 Sum_probs=33.5
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCC----CeEEEEEcCCCC----CccchHHHHHhhc
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPE----KAIFIFVKNILP----PTAAMMSAIYEEN 99 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~----~slfl~Vn~~lp----~~~~~m~~lY~~~ 99 (119)
+.+|-|+.++|+++|+..++++-+++.+ ..-.||..-..+ ..+++|.+|++.-
T Consensus 34 WDr~~v~~~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~f~~~~~~~rl~~~i~elv~~v 94 (125)
T PF09358_consen 34 WDRIEVNGDMTLQELIDYFKEKYGLEVTMLSQGVSLLYSSFPPPKHKERLKMPISELVEEV 94 (125)
T ss_dssp T-EEEEES--BHHHHHHHHHHTTS-EEEEEEETTEEEEETT-HHHHHHHTTSBHHHHHHHH
T ss_pred eeEEEEcCCCCHHHHHHHHHHHhCceEEEEEeCCEEEEecCChhhhHHHhCCcHHHHHHHh
Confidence 4588999999999999999999887642 112333322011 2567899999964
No 60
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=39.25 E-value=1.1e+02 Score=20.06 Aligned_cols=58 Identities=9% Similarity=0.193 Sum_probs=42.7
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCCeEEEEEc---C-C-CCCc-cchHHHHHhhccCCCCeEEE
Q 033424 51 LVPADLTVGQFVYVVRKRIKLSPEKAIFIFVK---N-I-LPPT-AAMMSAIYEENRDEDGFLYM 108 (119)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn---~-~-lp~~-~~~m~~lY~~~kd~DGfLyi 108 (119)
.+|....++++...|+++|.+.++..-.=|-. + . +|-. ++.|.+.+.+=++-=.-|.+
T Consensus 12 ~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~~~~ltLwc 75 (78)
T cd06411 12 RAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAWQDVADGPRGLQL 75 (78)
T ss_pred EccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHHHhccCCceEEEE
Confidence 47889999999999999999998865444543 1 2 4544 88999999988744434443
No 61
>PRK06437 hypothetical protein; Provisional
Probab=38.97 E-value=46 Score=20.61 Aligned_cols=39 Identities=13% Similarity=0.163 Sum_probs=26.4
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchH
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMM 92 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m 92 (119)
.+-+++..|+++++. .|++++ +.+.+.+|+...+.+..+
T Consensus 14 ~~~i~~~~tv~dLL~----~Lgi~~-~~vaV~vNg~iv~~~~~L 52 (67)
T PRK06437 14 TIEIDHELTVNDIIK----DLGLDE-EEYVVIVNGSPVLEDHNV 52 (67)
T ss_pred EEEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCceEc
Confidence 345788899999875 457864 567888998644444443
No 62
>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=38.70 E-value=90 Score=19.11 Aligned_cols=35 Identities=14% Similarity=0.111 Sum_probs=29.9
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEE
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFV 81 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~V 81 (119)
...|-|+++.|+.++...|-++|+|...+-+=|.+
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 35688999999999999999999999877665666
No 63
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=37.87 E-value=39 Score=24.05 Aligned_cols=50 Identities=20% Similarity=0.340 Sum_probs=37.4
Q ss_pred cCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEecCccccc
Q 033424 53 PADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSGENTFG 117 (119)
Q Consensus 53 p~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG 117 (119)
...+++.+++.-|.+.++++.++ ....++++|-.- ..||- ..+.+++.||
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 36678899999998888765433 136889999988 68883 3466888888
No 64
>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=37.34 E-value=44 Score=22.27 Aligned_cols=50 Identities=12% Similarity=0.195 Sum_probs=34.0
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEE-EEc-C--CCCCccchHHHHHhhcc
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFI-FVK-N--ILPPTAAMMSAIYEENR 100 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl-~Vn-~--~lp~~~~~m~~lY~~~k 100 (119)
-..||.+.++.+|..-||.+++++ +.+-+ |.+ + ...+.+..|....+..+
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 346999999999999999999996 45555 333 2 23355555555555444
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=36.33 E-value=43 Score=21.64 Aligned_cols=56 Identities=13% Similarity=0.217 Sum_probs=29.7
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcC--C--CC-CccchHHHHHhhccCCCCeEEE
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKN--I--LP-PTAAMMSAIYEENRDEDGFLYM 108 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~--~--lp-~~~~~m~~lY~~~kd~DGfLyi 108 (119)
..-++.+.|++++...|...++++.. ++.||.|. . +. +.+.+++++==+|.| .||+
T Consensus 17 Rie~~~~~t~~~L~~kI~~~l~~~~~-~~~L~~~~~~~~~l~s~~~~tl~~lglkHGd---mlyL 77 (80)
T PF11543_consen 17 RIEVSPSSTLSDLKEKISEQLSIPDS-SQSLSKDRNNKEELKSSDSKTLSSLGLKHGD---MLYL 77 (80)
T ss_dssp EEEE-TTSBHHHHHHHHHHHS---TT-T---BSSGGGGGCSSS-TT-CCCCT---TT----EEE-
T ss_pred EEEcCCcccHHHHHHHHHHHcCCCCc-ceEEEecCCCCcccccCCcCCHHHcCCCCcc---EEEE
Confidence 45688999999999999999998865 55666653 1 32 455666655545532 5554
No 66
>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=35.49 E-value=1.1e+02 Score=19.11 Aligned_cols=59 Identities=15% Similarity=0.224 Sum_probs=39.7
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEecC
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
-.-|+.+.||+++...|.++.++.+++ +-|..++.....+ ++++. .- .++..|||.-+-
T Consensus 15 ~l~v~~~~TV~~LK~~I~~~~~~~~~~-qrL~~~Gk~L~d~-~L~~~--gi-~~~~~i~l~~~~ 73 (78)
T cd01804 15 DLSVPPDETVEGLKKRISQRLKVPKER-LALLHRETRLSSG-KLQDL--GL-GDGSKLTLVPTV 73 (78)
T ss_pred EEEECCcCHHHHHHHHHHHHhCCChHH-EEEEECCcCCCCC-cHHHc--CC-CCCCEEEEEeec
Confidence 356899999999999999888887654 3444455444434 65542 22 256688887665
No 67
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=35.29 E-value=41 Score=21.12 Aligned_cols=38 Identities=18% Similarity=0.247 Sum_probs=26.6
Q ss_pred EEEecCC-CchHHHHHHHHHhhC-C-CCCCeEEEEEcCCCC
Q 033424 49 KYLVPAD-LTVGQFVYVVRKRIK-L-SPEKAIFIFVKNILP 86 (119)
Q Consensus 49 Kflvp~~-~tv~~~~~~lRk~L~-l-~~~~slfl~Vn~~lp 86 (119)
.+-++.+ .|+.++...|..+.. + .....+.+.||+...
T Consensus 19 ~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v 59 (80)
T TIGR01682 19 TLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYV 59 (80)
T ss_pred EEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEc
Confidence 4456766 899999999988753 2 223567889998543
No 68
>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=34.78 E-value=19 Score=23.27 Aligned_cols=17 Identities=35% Similarity=0.501 Sum_probs=14.4
Q ss_pred ccCCCCeEEEEecCccc
Q 033424 99 NRDEDGFLYMTYSGENT 115 (119)
Q Consensus 99 ~kd~DGfLyi~Ys~~~~ 115 (119)
+-|+||-+|+.|+.++.
T Consensus 42 wiDe~G~vYi~~s~eel 58 (76)
T PF06970_consen 42 WIDENGNVYIIFSIEEL 58 (76)
T ss_pred cCCCCCCEEEEeeHHHH
Confidence 56999999999998763
No 69
>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=34.66 E-value=1.3e+02 Score=19.58 Aligned_cols=73 Identities=14% Similarity=0.253 Sum_probs=42.7
Q ss_pred cEEEEccCCCCCCccceeEEEecC--CCchHHHHHHHHH--hhCCC-CCCeEEEEEcC-CCCCccchHHHHHhhccCCCC
Q 033424 31 PVIVERAEKSDVPEIDKKKYLVPA--DLTVGQFVYVVRK--RIKLS-PEKAIFIFVKN-ILPPTAAMMSAIYEENRDEDG 104 (119)
Q Consensus 31 pVIvE~~~~~~~p~L~k~Kflvp~--~~tv~~~~~~lRk--~L~l~-~~~slfl~Vn~-~lp~~~~~m~~lY~~~kd~DG 104 (119)
|-.|--+.+++.. -...+++|+. -.++.+|...|.+ .|.+. +-..||=. ++ .+.+ +.+| +||
T Consensus 5 ~k~i~~~rNGD~~-~~g~~~~v~~~~~~s~d~lL~~lt~~v~l~~~~~Vr~lyt~-~G~~v~~----l~~l------~~g 72 (89)
T smart00537 5 PKRIRFYRNGDRF-FKGVRLVVNRKRFKSFEALLQDLTEVVKLDLPHGVRKLYTL-DGKKVTS----LDEL------EDG 72 (89)
T ss_pred ceEEEEEeCCCCC-CCCEEEEEChhhcCCHHHHHHHHhhhcccCCCCCeeEEEcC-CCCEECC----HHHh------CcC
Confidence 3344444555532 2567888886 4589999999999 55444 23333311 12 1222 2222 488
Q ss_pred eEEEEecCcccc
Q 033424 105 FLYMTYSGENTF 116 (119)
Q Consensus 105 fLyi~Ys~~~~f 116 (119)
-.||+.+.| .|
T Consensus 73 ~~yVa~g~e-~f 83 (89)
T smart00537 73 GSYVASGTE-AF 83 (89)
T ss_pred CEEEEEcCC-cc
Confidence 899998877 45
No 70
>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=33.97 E-value=54 Score=22.41 Aligned_cols=27 Identities=22% Similarity=0.570 Sum_probs=22.4
Q ss_pred chHHHHHHHHHhhCCCC-CCeEEEEEcC
Q 033424 57 TVGQFVYVVRKRIKLSP-EKAIFIFVKN 83 (119)
Q Consensus 57 tv~~~~~~lRk~L~l~~-~~slfl~Vn~ 83 (119)
.+.-+..+++..++++| +.++|+|+|.
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 71
>PRK13669 hypothetical protein; Provisional
Probab=33.23 E-value=40 Score=22.16 Aligned_cols=27 Identities=15% Similarity=0.329 Sum_probs=22.3
Q ss_pred CeEEEEEcCC---CCCccchHHHHHhhccC
Q 033424 75 KAIFIFVKNI---LPPTAAMMSAIYEENRD 101 (119)
Q Consensus 75 ~slfl~Vn~~---lp~~~~~m~~lY~~~kd 101 (119)
...|.+||+. .+.+++.+..||+.=++
T Consensus 45 ~~~FAlVng~~V~a~t~eeL~~kI~~~i~e 74 (78)
T PRK13669 45 EGLFALVNGEVVEGETPEELVENIYAHLEE 74 (78)
T ss_pred cCceEEECCeEeecCCHHHHHHHHHHHHhh
Confidence 5679999983 78899999999987643
No 72
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=32.38 E-value=61 Score=20.68 Aligned_cols=33 Identities=15% Similarity=0.213 Sum_probs=26.6
Q ss_pred eEEEecCCCchHHHHHHHHHhhCCCCC-CeEEEE
Q 033424 48 KKYLVPADLTVGQFVYVVRKRIKLSPE-KAIFIF 80 (119)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~-~slfl~ 80 (119)
..--+|.++|++++...|-+..|++++ ..|+++
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 666665
No 73
>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=31.87 E-value=53 Score=21.58 Aligned_cols=45 Identities=11% Similarity=0.276 Sum_probs=31.1
Q ss_pred EecCCCchHHHHHHHHHh--hCCC------CCCeEEEEE-----cCCCCCccchHHHH
Q 033424 51 LVPADLTVGQFVYVVRKR--IKLS------PEKAIFIFV-----KNILPPTAAMMSAI 95 (119)
Q Consensus 51 lvp~~~tv~~~~~~lRk~--L~l~------~~~slfl~V-----n~~lp~~~~~m~~l 95 (119)
-|+++.|+++|+..|..+ +++. ++.+||+=. ..+-|+.+.+|.+|
T Consensus 2 ~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL 59 (84)
T PF08825_consen 2 EVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL 59 (84)
T ss_dssp EESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT
T ss_pred CcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH
Confidence 378999999999999988 5654 346666511 12357788888888
No 74
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=31.79 E-value=1.1e+02 Score=20.96 Aligned_cols=35 Identities=14% Similarity=0.212 Sum_probs=28.7
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCC--CeEEEEEcC
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPE--KAIFIFVKN 83 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~--~slfl~Vn~ 83 (119)
-+.+|-+.||+|++..|.++..++++ -.|++.+++
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 56788999999999999999888764 456667776
No 75
>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=31.12 E-value=45 Score=20.48 Aligned_cols=41 Identities=17% Similarity=0.133 Sum_probs=27.5
Q ss_pred EEEecCCCchHHHHHHHHHhhCC---CCCCeEEEEEcCCCCCcc
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKL---SPEKAIFIFVKNILPPTA 89 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l---~~~~slfl~Vn~~lp~~~ 89 (119)
.+-+++..|+++++..|..+..- .....+-++||+...+.+
T Consensus 19 ~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~ 62 (80)
T cd00754 19 ELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLD 62 (80)
T ss_pred EEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCC
Confidence 44567789999999988876421 123567788998544344
No 76
>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=31.12 E-value=61 Score=25.83 Aligned_cols=99 Identities=21% Similarity=0.243 Sum_probs=54.2
Q ss_pred CCHHHHHHHHHHHHhhCCCCccEEEEccCCCC---------CCcccee-EEEecCC---CchHHHHHHHHHhhCCCCCCe
Q 033424 10 HPLERRQAEAARIRDKYPDRIPVIVERAEKSD---------VPEIDKK-KYLVPAD---LTVGQFVYVVRKRIKLSPEKA 76 (119)
Q Consensus 10 ~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~---------~p~L~k~-Kflvp~~---~tv~~~~~~lRk~L~l~~~~s 76 (119)
-|.|||.+-.+...+.-.+++|||+--...+- +-.+.=. -.++|.. .+-.+++.+.+.=..-.+.-.
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 46799999999999999999999998864321 0000000 1112111 122455555544332222356
Q ss_pred EEEEEcC-C--CCCccchHHHHHhhccCCCCeEEEEecC
Q 033424 77 IFIFVKN-I--LPPTAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 77 lfl~Vn~-~--lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
+++|=+- . .+-+-.++.+|- + .+++.-|.+|+
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 8887542 1 233344666663 2 25677777665
No 77
>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=30.87 E-value=66 Score=22.56 Aligned_cols=43 Identities=9% Similarity=0.247 Sum_probs=32.4
Q ss_pred CCCchHHHHHHHHHhhCCCCCCeEEEEEcCC-CCCccchHHHHH
Q 033424 54 ADLTVGQFVYVVRKRIKLSPEKAIFIFVKNI-LPPTAAMMSAIY 96 (119)
Q Consensus 54 ~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~-lp~~~~~m~~lY 96 (119)
...++.+++..|++-|.-.+++.+.|-+++. -+.....|.++.
T Consensus 67 ~~~~~~dvL~~i~~fl~~~p~e~VIl~l~~~~~~~~~~~l~~~l 110 (135)
T smart00148 67 LPIKLSEVLEAIKDFAFVTSPYPVILSLENHCSPDQQAKMAQMF 110 (135)
T ss_pred ccEEHHHHHHHHHHHHHhCCCCcEEEeehhhCCHHHHHHHHHHH
Confidence 4568999999999999999999999999874 333333444333
No 78
>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=30.75 E-value=1.5e+02 Score=19.88 Aligned_cols=59 Identities=12% Similarity=0.062 Sum_probs=39.9
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEec
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYS 111 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys 111 (119)
.+-|..+.||+++...|..+-++++++- =|+.++.....+.++++ |. - .++.-|+|.-.
T Consensus 41 ~leV~~~~TV~~lK~kI~~~~gip~~~Q-rLi~~Gk~L~D~~tL~d-y~-I-~~~stL~l~~~ 99 (103)
T cd01802 41 ELRVSPFETVISVKAKIQRLEGIPVAQQ-HLIWNNMELEDEYCLND-YN-I-SEGCTLKLVLA 99 (103)
T ss_pred EEEeCCCCcHHHHHHHHHHHhCCChHHE-EEEECCEECCCCCcHHH-cC-C-CCCCEEEEEEe
Confidence 4568999999999999999988887642 23456665566677755 22 1 23456777643
No 79
>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=30.61 E-value=1.8e+02 Score=19.99 Aligned_cols=62 Identities=16% Similarity=0.259 Sum_probs=41.1
Q ss_pred CCchHHHHHHHHHhhC------CCCCCeEEEEEcC--------CCCCccchHHHH---HhhccCC---------CCeEEE
Q 033424 55 DLTVGQFVYVVRKRIK------LSPEKAIFIFVKN--------ILPPTAAMMSAI---YEENRDE---------DGFLYM 108 (119)
Q Consensus 55 ~~tv~~~~~~lRk~L~------l~~~~slfl~Vn~--------~lp~~~~~m~~l---Y~~~kd~---------DGfLyi 108 (119)
+.++++|...+|+.+. +..++-|.|-+.. .+-..+.|+.+| |+..+.- =+-||+
T Consensus 10 ~~~l~~lf~~lR~~le~~~g~~~~~~~ELvl~i~~L~L~i~EDn~y~~~iTl~di~~lf~~L~~n~~~~~~~~~p~~L~i 89 (113)
T PF10336_consen 10 NEPLEELFAALRQFLENEEGELFSAEDELVLDIPELGLEISEDNVYCSDITLSDIVDLFDILCENDGKNEEPDLPEPLYI 89 (113)
T ss_pred hCCHHHHHHHHHHHHHhccccccCCCCEEEEEeccCCcEEeccccccccCcHHHHHHHHHHHHhccCccccCCCCCcEEE
Confidence 3578999999999984 4556666665543 233455666655 4444222 238999
Q ss_pred EecCcccc
Q 033424 109 TYSGENTF 116 (119)
Q Consensus 109 ~Ys~~~~f 116 (119)
+-+.++.|
T Consensus 90 ~LstrPRF 97 (113)
T PF10336_consen 90 TLSTRPRF 97 (113)
T ss_pred EEecCccH
Confidence 99998877
No 80
>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=30.31 E-value=93 Score=21.46 Aligned_cols=26 Identities=12% Similarity=0.312 Sum_probs=19.4
Q ss_pred CCeEEEEEcCC---CCCccchHHHHHhhc
Q 033424 74 EKAIFIFVKNI---LPPTAAMMSAIYEEN 99 (119)
Q Consensus 74 ~~slfl~Vn~~---lp~~~~~m~~lY~~~ 99 (119)
.+..|+|||+. .+.....+.+.|..+
T Consensus 47 ~~~q~~fVNgR~V~~~~l~~aI~~~Y~~~ 75 (127)
T cd03483 47 KIIFILFINNRLVECSALRRAIENVYANY 75 (127)
T ss_pred CceEEEEEcCCEecCHHHHHHHHHHHHHh
Confidence 56789999995 455666777778776
No 81
>COG1019 Predicted nucleotidyltransferase [General function prediction only]
Probab=30.23 E-value=2.3e+02 Score=21.05 Aligned_cols=66 Identities=17% Similarity=0.141 Sum_probs=45.6
Q ss_pred CCHHHHHHHHHHHHhhCCCCccEEEEcc-CCCCCCccceeEEEe--cCCCchHHHHHHHHHhhCCCCCC
Q 033424 10 HPLERRQAEAARIRDKYPDRIPVIVERA-EKSDVPEIDKKKYLV--PADLTVGQFVYVVRKRIKLSPEK 75 (119)
Q Consensus 10 ~~~e~R~~e~~~ir~k~P~kipVIvE~~-~~~~~p~L~k~Kflv--p~~~tv~~~~~~lRk~L~l~~~~ 75 (119)
.+|+.|.+...+....--....+|+... +.+.++.-..--.+| |++.+.+.-++-+|.+.+++|=+
T Consensus 54 ~p~~~R~~~l~~fl~~~~~~~~~iv~i~Dp~G~t~~~~~~e~iVVS~ET~~~Al~IN~~R~~~Gl~pL~ 122 (158)
T COG1019 54 EPYEVRLRNLRNFLESIKADYEEIVPIDDPYGPTVEDPDFEAIVVSPETYPGALKINEIREKRGLPPLE 122 (158)
T ss_pred CcHHHHHHHHHHHHHHhcCCcceEEEecCCCCCCCCcCceeEEEEccccchhHHHHHHHHHHCCCCCeE
Confidence 4789999999888776665666666665 345544332333443 55667788899999999998764
No 82
>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=29.63 E-value=3.1e+02 Score=22.56 Aligned_cols=71 Identities=10% Similarity=0.162 Sum_probs=45.6
Q ss_pred CCccEEEEcc----CCCCCCccceeEEEecCCCchHHHHHHHHHhhC-CC------CCCeEEEEEcC--CCCCccchHHH
Q 033424 28 DRIPVIVERA----EKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIK-LS------PEKAIFIFVKN--ILPPTAAMMSA 94 (119)
Q Consensus 28 ~kipVIvE~~----~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~-l~------~~~slfl~Vn~--~lp~~~~~m~~ 94 (119)
..+=+|+.+. |-+.+|.|.... |.+--++..+...+..+-. .. ..+.+|..+|- -|+.+..++..
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 4455555443 346788898765 5555567777666665321 11 22347777883 58888889998
Q ss_pred HHhhcc
Q 033424 95 IYEENR 100 (119)
Q Consensus 95 lY~~~k 100 (119)
+++..+
T Consensus 282 ~~~~~~ 287 (383)
T PF03568_consen 282 FFKSWK 287 (383)
T ss_pred HHhccc
Confidence 888876
No 83
>PRK04115 hypothetical protein; Provisional
Probab=29.60 E-value=2.2e+02 Score=20.61 Aligned_cols=56 Identities=18% Similarity=0.335 Sum_probs=32.6
Q ss_pred HHHHHHHhhCCC-----CccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCC----CCCeEEEEE
Q 033424 17 AEAARIRDKYPD-----RIPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLS----PEKAIFIFV 81 (119)
Q Consensus 17 ~e~~~ir~k~P~-----kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~----~~~slfl~V 81 (119)
.|.+.+.+--|. ++|+|+|..+.. ..-.|.|....-+ .+|++-|+.. .++.+++|=
T Consensus 50 ~ELe~L~~~l~~~~~~lrLPIile~~~~~-----~~g~~~VrG~~ev----k~IskiLg~~~~~~e~~~l~lyr 114 (137)
T PRK04115 50 RELEFLKELLDEDACRLRLPIILEIDSSL-----GEGAIVVRGKEEV----KVISKILGKEDIFSEEDILYLYR 114 (137)
T ss_pred HHHHHHHHhccchhhheeeeEEEEEecCC-----CceEEEEcCHHHH----HHHHHHhCccccccCCCEEEEec
Confidence 356666655553 699999998632 1235677776633 3344555433 455666653
No 84
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=29.58 E-value=54 Score=20.30 Aligned_cols=38 Identities=5% Similarity=0.043 Sum_probs=25.4
Q ss_pred EEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccch
Q 033424 49 KYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAM 91 (119)
Q Consensus 49 Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~ 91 (119)
.+-+++..|++++.. .|++++ +.+.+.+|+...+.+..
T Consensus 17 ~~~~~~~~tv~~ll~----~l~~~~-~~v~v~vNg~iv~~~~~ 54 (70)
T PRK08364 17 EIEWRKGMKVADILR----AVGFNT-ESAIAKVNGKVALEDDP 54 (70)
T ss_pred EEEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCCcC
Confidence 344678889988775 446665 56888899864444433
No 85
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=29.12 E-value=1.4e+02 Score=22.53 Aligned_cols=64 Identities=16% Similarity=0.147 Sum_probs=31.7
Q ss_pred eEEEecCCCchHHHHHHHHHhhCCCCC----CeEEEEEcCCC--CCccchHH--HHHhhccCCCC-eEEEEec
Q 033424 48 KKYLVPADLTVGQFVYVVRKRIKLSPE----KAIFIFVKNIL--PPTAAMMS--AIYEENRDEDG-FLYMTYS 111 (119)
Q Consensus 48 ~Kflvp~~~tv~~~~~~lRk~L~l~~~----~slfl~Vn~~l--p~~~~~m~--~lY~~~kd~DG-fLyi~Ys 111 (119)
..|.|..+-+++++..-|++||+++.. =-+.+..++.. |..-..-. .||+...+.|. +|.+-..
T Consensus 135 F~f~v~~gE~f~~tK~Rl~~rlgv~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~~~~~~~~~LgLdH~ 207 (213)
T PF14533_consen 135 FLFVVKPGETFSDTKERLQKRLGVSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDEIFNPDDPWLGLDHP 207 (213)
T ss_dssp EEEEEETT--HHHHHHHHHHHH---HHHHTT-EEEEEETTEE---EE--TT-T----GGGTS-S--EEEEE--
T ss_pred EEEEeeCCCcHHHHHHHHHHHhCCChhhheeEEEEEEecCCcccceeccccchhhhhhhhcCccCCEEEEeCC
Confidence 367899999999999999999999853 33444445533 42222222 56666655553 6776543
No 86
>cd00137 PI-PLCc Catalytic domain of prokaryotic and eukaryotic phosphoinositide-specific phospholipase C. This subfamily corresponds to the catalytic domain present in prokaryotic and eukaryotic phosphoinositide-specific phospholipase C (PI-PLC), which is a ubiquitous enzyme catalyzing the cleavage of the sn3-phosphodiester bond in the membrane phosphoinositides (phosphatidylinositol, PI; Phosphatidylinositol-4-phosphate, PIP; phosphatidylinositol 4,5-bisphosphate, PIP2) to yield inositol phosphates (inositol monosphosphate, InsP; inositol diphosphate, InsP2; inositol trisphosphate, InsP3) and diacylglycerol (DAG). The higher eukaryotic PI-PLCs (EC 3.1.4.11) have a multidomain organization that consists of a PLC catalytic core domain, and various regulatory domains. They play a critical role in most signal transduction pathways, controlling numerous cellular events, such as cell growth, proliferation, excitation and secretion. These PI-PLCs strictly require Ca2+ for their catalytic a
Probab=28.87 E-value=75 Score=24.99 Aligned_cols=52 Identities=17% Similarity=0.248 Sum_probs=40.7
Q ss_pred CCchHHHHHHHHHhhCCCCCCeEEEEEcC-CCC--CccchHHHHHhhccCCCCeEEE
Q 033424 55 DLTVGQFVYVVRKRIKLSPEKAIFIFVKN-ILP--PTAAMMSAIYEENRDEDGFLYM 108 (119)
Q Consensus 55 ~~tv~~~~~~lRk~L~l~~~~slfl~Vn~-~lp--~~~~~m~~lY~~~kd~DGfLyi 108 (119)
..++.+++..|++-|.-.+++.+.|-+++ ..+ .....|.+.+.+.. +.+||.
T Consensus 73 ~~~f~dvl~~i~~fl~~~p~e~vIlsl~~~~~~~~~~q~~~~~~~~~~~--g~~l~~ 127 (274)
T cd00137 73 DIFLKEVIEAIAQFLKKNPPETIIMSLKNEVDSMDSFQAKMAEYCRTIF--GDMLLT 127 (274)
T ss_pred CcCHHHHHHHHHHHHHHCCCCeEEEEEEecCCCcHHHHHHHHHHHHHhh--hhhhcc
Confidence 67899999999999999999999999987 444 56667887777763 345543
No 87
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=28.77 E-value=1.2e+02 Score=18.96 Aligned_cols=40 Identities=20% Similarity=0.179 Sum_probs=25.9
Q ss_pred ccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCC
Q 033424 44 EIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNI 84 (119)
Q Consensus 44 ~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~ 84 (119)
...+.+..|.++.++.++....-++.++++++ --|.-|+.
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 34578899999999999999999999999884 34444444
No 88
>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=28.67 E-value=70 Score=25.10 Aligned_cols=101 Identities=11% Similarity=0.097 Sum_probs=54.3
Q ss_pred cCCHHHHHHHHHHHHhhCCCCccEEEEccCCCC--------CCccc-eeEEEecCCC---chHHHHHHHHHhhCCCCCCe
Q 033424 9 EHPLERRQAEAARIRDKYPDRIPVIVERAEKSD--------VPEID-KKKYLVPADL---TVGQFVYVVRKRIKLSPEKA 76 (119)
Q Consensus 9 ~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~--------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~s 76 (119)
.-|.|||.+-.+...+.-.+++|||+--..+.. +-.+. .--.++|.-. +-.++..+.+.=..- .+-.
T Consensus 49 ~Ls~eEr~~l~~~~~~~~~~~~pvi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~-~~~p 127 (289)
T cd00951 49 SLTPDEYAQVVRAAVEETAGRVPVLAGAGYGTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKS-TDLG 127 (289)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCCEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhc-CCCC
Confidence 346799999999989888899999997653100 00000 0112222221 224455544443322 2356
Q ss_pred EEEEEcCCCCCccchHHHHHhhccCCCCeEEEEecCc
Q 033424 77 IFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSGE 113 (119)
Q Consensus 77 lfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (119)
+++|=+....-+...+.+|-+++ +.+..|.+|+.
T Consensus 128 i~lYn~~g~~l~~~~l~~L~~~~---pnivgiKds~~ 161 (289)
T cd00951 128 VIVYNRANAVLTADSLARLAERC---PNLVGFKDGVG 161 (289)
T ss_pred EEEEeCCCCCCCHHHHHHHHhcC---CCEEEEEeCCC
Confidence 78884322222244666675434 45777777654
No 89
>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=28.23 E-value=75 Score=27.17 Aligned_cols=39 Identities=21% Similarity=0.161 Sum_probs=33.1
Q ss_pred CCCccccccCCHHHHHHHHHHHHhhCCCCccEEEEccCC
Q 033424 1 MAKNSFKLEHPLERRQAEAARIRDKYPDRIPVIVERAEK 39 (119)
Q Consensus 1 ~~~~~fk~~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~ 39 (119)
||+..|....+.++|.+++.+.....|+++||=+|-+.-
T Consensus 216 mm~~~~~~~~~~~~~l~~~~~~l~~l~~~i~iH~E~As~ 254 (445)
T cd01938 216 MMEGQSFDEGTRKELLERVKSILEILPPLIPIHLELAST 254 (445)
T ss_pred hhcccCCChhhHHHHHHHHHHHHHhccccCcEEEEeccc
Confidence 566666667778999999999999999999999999753
No 90
>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=27.80 E-value=74 Score=25.11 Aligned_cols=101 Identities=13% Similarity=0.113 Sum_probs=54.6
Q ss_pred CCHHHHHHHHHHHHhhCCCCccEEEEccCCCC---------CCccc-eeEEEecCCC---chHHHHHHHHHhhCCCCCCe
Q 033424 10 HPLERRQAEAARIRDKYPDRIPVIVERAEKSD---------VPEID-KKKYLVPADL---TVGQFVYVVRKRIKLSPEKA 76 (119)
Q Consensus 10 ~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~---------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~s 76 (119)
-|.|||.+-.+...+...+++|||+--...+. +-.+. .--.++|.-. +-.+++.+.+.=..-.++-.
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 46799999999999989999999987654321 00000 0111222211 12344444443332223456
Q ss_pred EEEEEcCC---CCCccchHHHHHhhccCCCCeEEEEecCc
Q 033424 77 IFIFVKNI---LPPTAAMMSAIYEENRDEDGFLYMTYSGE 113 (119)
Q Consensus 77 lfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (119)
+++|=+-. ..-+..++.+|-+++ ..+..+..|+.
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 122244666676554 45777777653
No 91
>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=27.35 E-value=77 Score=24.36 Aligned_cols=99 Identities=13% Similarity=0.161 Sum_probs=54.7
Q ss_pred cCCHHHHHHHHHHHHhhCCCCccEEEEccCCCC---------CCccc-eeEEEecCCC---chHHHHHHHHHhhCCCCCC
Q 033424 9 EHPLERRQAEAARIRDKYPDRIPVIVERAEKSD---------VPEID-KKKYLVPADL---TVGQFVYVVRKRIKLSPEK 75 (119)
Q Consensus 9 ~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~---------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~ 75 (119)
.-|.+||++-.+..++.-.+++|||+--...+. +-.+. .--.++|... +-.++..+.+.=..- ..-
T Consensus 46 ~ls~~Er~~l~~~~~~~~~~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~-~~~ 124 (281)
T cd00408 46 TLTDEERKEVIEAVVEAVAGRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADA-SDL 124 (281)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhc-CCC
Confidence 346799999999999988899999998765321 00000 0112222211 224444444433322 345
Q ss_pred eEEEEEcCC---CCCccchHHHHHhhccCCCCeEEEEecC
Q 033424 76 AIFIFVKNI---LPPTAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 76 slfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
.+++|=+-. .+-....+.+|-+ .+.+..+.+++
T Consensus 125 pi~iYn~P~~tg~~l~~~~~~~L~~----~~~v~giK~s~ 160 (281)
T cd00408 125 PVILYNIPGRTGVDLSPETIARLAE----HPNIVGIKDSS 160 (281)
T ss_pred CEEEEECccccCCCCCHHHHHHHhc----CCCEEEEEeCC
Confidence 678874422 2222335666653 35677777776
No 92
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=27.32 E-value=74 Score=20.74 Aligned_cols=21 Identities=14% Similarity=0.264 Sum_probs=18.6
Q ss_pred HHHHHhhCCCCCCeEEEEEcC
Q 033424 63 YVVRKRIKLSPEKAIFIFVKN 83 (119)
Q Consensus 63 ~~lRk~L~l~~~~slfl~Vn~ 83 (119)
.-+|++|++.+.+.|-++++.
T Consensus 20 keiR~~lgi~~Gd~lei~~~~ 40 (89)
T COG2002 20 KEIREALGIKEGDVLEIIVDG 40 (89)
T ss_pred HHHHHHhCCCCCCEEEEEEeC
Confidence 458999999999999999974
No 93
>PF01886 DUF61: Protein of unknown function DUF61; InterPro: IPR002746 The proteins in this entry are functionally uncharacterised.
Probab=27.11 E-value=1.7e+02 Score=20.85 Aligned_cols=56 Identities=23% Similarity=0.481 Sum_probs=35.2
Q ss_pred HHHHHHHHhhCCC------CccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCC----CCeEEEE
Q 033424 16 QAEAARIRDKYPD------RIPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSP----EKAIFIF 80 (119)
Q Consensus 16 ~~e~~~ir~k~P~------kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~----~~slfl~ 80 (119)
+.|.+.+.+.-|. ++|+|+|..+. +....|.|....-+ ..|++-|++.. +..+++|
T Consensus 46 k~ELe~L~~~lp~~~~~~lrLPIile~~~~-----~~~g~~~V~g~~e~----k~i~~ilg~~~~~~~~~~l~i~ 111 (132)
T PF01886_consen 46 KEELERLAEILPEYEWSKLRLPIILEIDPT-----LGEGSYRVRGKEEV----KAISKILGKEREFEEEDELYIY 111 (132)
T ss_pred HHHHHHHHHhCCHHHHhceeccEEEEEecc-----CCCceEEEeCHHHH----HHHHHHhCCCcccccCCeEEEc
Confidence 4577888887774 59999999643 23446777777633 33445555443 4666665
No 94
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=27.11 E-value=64 Score=24.70 Aligned_cols=16 Identities=19% Similarity=0.245 Sum_probs=12.3
Q ss_pred cCCCCeEEEEecCccccc
Q 033424 100 RDEDGFLYMTYSGENTFG 117 (119)
Q Consensus 100 kd~DGfLyi~Ys~~~~fG 117 (119)
+..|||||| +..+.+|
T Consensus 150 ~~~~~~l~m--sv~~~~g 165 (244)
T PRK13125 150 KLSPLFIYY--GLRPATG 165 (244)
T ss_pred HhCCCEEEE--EeCCCCC
Confidence 347999999 6677776
No 95
>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=27.05 E-value=77 Score=20.97 Aligned_cols=34 Identities=26% Similarity=0.471 Sum_probs=26.5
Q ss_pred CCCccchHHHHHhhccCCCCeEEEEecCcccccC
Q 033424 85 LPPTAAMMSAIYEENRDEDGFLYMTYSGENTFGI 118 (119)
Q Consensus 85 lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG~ 118 (119)
+|-..+=+.+|-.-.+..-|-+|++|...+.|.+
T Consensus 3 lp~eqsYiENILRlN~GK~~T~Y~Tyenn~ewna 36 (81)
T PF09671_consen 3 LPLEQSYIENILRLNRGKLATFYMTYENNSEWNA 36 (81)
T ss_pred CcchHHHHHHHHHhcCCceEEEEEEecCchhhhh
Confidence 4555566777888888888899999998888864
No 96
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=26.96 E-value=69 Score=20.25 Aligned_cols=21 Identities=10% Similarity=0.169 Sum_probs=17.5
Q ss_pred HHHHHhhCCCCCCeEEEEEcC
Q 033424 63 YVVRKRIKLSPEKAIFIFVKN 83 (119)
Q Consensus 63 ~~lRk~L~l~~~~slfl~Vn~ 83 (119)
.-++..|+|.+++.+++.+.+
T Consensus 16 k~i~~~lgl~~Gd~v~v~~~~ 36 (74)
T TIGR02609 16 KEVLESLGLKEGDTLYVDEEE 36 (74)
T ss_pred HHHHHHcCcCCCCEEEEEEEC
Confidence 347899999999999988764
No 97
>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=26.95 E-value=67 Score=21.28 Aligned_cols=33 Identities=21% Similarity=0.445 Sum_probs=25.0
Q ss_pred CCccchHHHHHhhccCCCCeEEEEecCcccccC
Q 033424 86 PPTAAMMSAIYEENRDEDGFLYMTYSGENTFGI 118 (119)
Q Consensus 86 p~~~~~m~~lY~~~kd~DGfLyi~Ys~~~~fG~ 118 (119)
|-..+=+.+|-.-.+..=|-.|++|...+-|++
T Consensus 2 p~eqSyieNILRlN~GK~~T~y~Tfenn~ew~a 34 (82)
T TIGR02728 2 PVEQSYIENILRMNRGKTATVYMTFENSPEWAA 34 (82)
T ss_pred cchHHHHHHHHHhcCCceEEEEEEEcCChHhhh
Confidence 444455677777778888889999998888874
No 98
>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=26.93 E-value=1.9e+02 Score=20.50 Aligned_cols=50 Identities=8% Similarity=0.034 Sum_probs=34.5
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEE--EcC----CCCCccchHHHHH
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIF--VKN----ILPPTAAMMSAIY 96 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~--Vn~----~lp~~~~~m~~lY 96 (119)
...+.+....|+.+++..+.+++++...+-.-|+ ..+ .-+.++.+|.+.-
T Consensus 15 ~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~ 70 (207)
T smart00295 15 TLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQD 70 (207)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhc
Confidence 4568899999999999999999999755443333 322 1345566665554
No 99
>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=26.52 E-value=78 Score=16.78 Aligned_cols=17 Identities=24% Similarity=0.493 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHhhCCC
Q 033424 12 LERRQAEAARIRDKYPD 28 (119)
Q Consensus 12 ~e~R~~e~~~ir~k~P~ 28 (119)
|=+|.++....-++||+
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 56899999999999986
No 100
>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=26.49 E-value=35 Score=20.78 Aligned_cols=40 Identities=18% Similarity=0.247 Sum_probs=29.8
Q ss_pred eeEEEecCCCchHHHHHHHHHhhC-CCCCCeEEEEEcCCCC
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIK-LSPEKAIFIFVKNILP 86 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~-l~~~~slfl~Vn~~lp 86 (119)
.....++...|++++...|..+.. +...+.+-+.||+...
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v 53 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIV 53 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEc
Confidence 456788999999999999987752 2234678899998543
No 101
>KOG1209 consensus 1-Acyl dihydroxyacetone phosphate reductase and related dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=25.98 E-value=1.6e+02 Score=23.64 Aligned_cols=51 Identities=20% Similarity=0.182 Sum_probs=40.6
Q ss_pred ceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCC-----CCCccchHHHHHhhcc
Q 033424 46 DKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNI-----LPPTAAMMSAIYEENR 100 (119)
Q Consensus 46 ~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~-----lp~~~~~m~~lY~~~k 100 (119)
.-.|.=|.++..|.+|...+|+. +.-.|=+++||. .|..|.+++++=++++
T Consensus 55 ~~~kLDV~~~~~V~~v~~evr~~----~~Gkld~L~NNAG~~C~~Pa~d~~i~ave~~f~ 110 (289)
T KOG1209|consen 55 KPYKLDVSKPEEVVTVSGEVRAN----PDGKLDLLYNNAGQSCTFPALDATIAAVEQCFK 110 (289)
T ss_pred eeEEeccCChHHHHHHHHHHhhC----CCCceEEEEcCCCCCcccccccCCHHHHHhhhc
Confidence 34556688999999999999986 455677778762 6899999999999995
No 102
>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=25.86 E-value=84 Score=24.75 Aligned_cols=100 Identities=10% Similarity=0.108 Sum_probs=54.3
Q ss_pred CCHHHHHHHHHHHHhhCCCCccEEEEccCCCC---------CCccc-eeEEEecCC---CchHHHHHHHHHhhCCCCCCe
Q 033424 10 HPLERRQAEAARIRDKYPDRIPVIVERAEKSD---------VPEID-KKKYLVPAD---LTVGQFVYVVRKRIKLSPEKA 76 (119)
Q Consensus 10 ~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~---------~p~L~-k~Kflvp~~---~tv~~~~~~lRk~L~l~~~~s 76 (119)
-|.|||.+-.+...+.-.+++|||+--...+- +-.+. .--.++|.. .+-.+++.+.+.=..-.++-.
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 47799999999899888999999998754321 00000 011122221 123556655554433233467
Q ss_pred EEEEEcCC---CCCccchHHHHHhhccCCCCeEEEEecCc
Q 033424 77 IFIFVKNI---LPPTAAMMSAIYEENRDEDGFLYMTYSGE 113 (119)
Q Consensus 77 lfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (119)
+++|=+-. .+=...++.+|-+ .+.+..|.+|+.
T Consensus 131 v~lYn~P~~tg~~l~~~~i~~L~~----~pnv~giK~s~~ 166 (290)
T TIGR00683 131 MIVYSIPFLTGVNMGIEQFGELYK----NPKVLGVKFTAG 166 (290)
T ss_pred EEEEeCccccccCcCHHHHHHHhc----CCCEEEEEeCCC
Confidence 88884422 1212334555542 255777776643
No 103
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=25.60 E-value=1.7e+02 Score=21.20 Aligned_cols=29 Identities=21% Similarity=0.365 Sum_probs=22.0
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCC
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEK 75 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~ 75 (119)
...+.||.+.|+++|-.+|+.-++.....
T Consensus 19 wRri~Vp~~~tl~~Lh~~Iq~afgw~~~H 47 (179)
T PF07929_consen 19 WRRIEVPADITLADLHEVIQAAFGWDDDH 47 (179)
T ss_dssp EEEEEEETT-BHHHHHHHHHHHTT----S
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCcCCCE
Confidence 56789999999999999999999987654
No 104
>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=24.97 E-value=50 Score=24.26 Aligned_cols=21 Identities=19% Similarity=0.363 Sum_probs=19.0
Q ss_pred CccchHHHHHhhccCCCCeEE
Q 033424 87 PTAAMMSAIYEENRDEDGFLY 107 (119)
Q Consensus 87 ~~~~~m~~lY~~~kd~DGfLy 107 (119)
+.+..|..++..||..||.+|
T Consensus 102 s~s~~l~tI~kGfk~~dg~iy 122 (148)
T PF08469_consen 102 SFSSRLVTIHKGFKTKDGRIY 122 (148)
T ss_pred EccchhHHHHhcccCCCCcEe
Confidence 678889999999999999887
No 105
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=24.84 E-value=91 Score=24.69 Aligned_cols=100 Identities=12% Similarity=0.122 Sum_probs=52.6
Q ss_pred CCHHHHHHHHHHHHhhCCCCccEEEEccCCCC--------CCccc-eeEEEecCCC---chHHHHHHHHHhhCCCCCCeE
Q 033424 10 HPLERRQAEAARIRDKYPDRIPVIVERAEKSD--------VPEID-KKKYLVPADL---TVGQFVYVVRKRIKLSPEKAI 77 (119)
Q Consensus 10 ~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~--------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~sl 77 (119)
-|.|||++-.+...+.-.+++|||+--..+.. +-.+. .--.++|... +=.++..+.+.=..-. .-.+
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 46799999999999888999999986643100 00000 0112233221 1233444443322211 3457
Q ss_pred EEEEcCCCCCccchHHHHHhhccCCCCeEEEEecCc
Q 033424 78 FIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSGE 113 (119)
Q Consensus 78 fl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (119)
++|=+....-+..++.+|-+++ +.+..|.+|+.
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 7774322222344667775454 45777777654
No 106
>PF14060 DUF4252: Domain of unknown function (DUF4252)
Probab=24.76 E-value=89 Score=21.82 Aligned_cols=25 Identities=8% Similarity=0.246 Sum_probs=20.9
Q ss_pred ccchHHHHHhhccCCCCeEEEEecC
Q 033424 88 TAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 88 ~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
....+..+|++|++.+|+.+++-+.
T Consensus 20 ~~~~~~~~~~~~~~~~~~~~v~i~~ 44 (155)
T PF14060_consen 20 QGQSLQKYFDKYSENKGVTSVNISK 44 (155)
T ss_pred cchhHHHHHHHhCCCCCeEEEEECH
Confidence 3578899999999999999987653
No 107
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=24.72 E-value=89 Score=24.49 Aligned_cols=29 Identities=7% Similarity=0.173 Sum_probs=24.9
Q ss_pred CCHHHHHHHHHHHHhhCCCCccEEEEccC
Q 033424 10 HPLERRQAEAARIRDKYPDRIPVIVERAE 38 (119)
Q Consensus 10 ~~~e~R~~e~~~ir~k~P~kipVIvE~~~ 38 (119)
-|.|||..-.+...+..++++|||+--..
T Consensus 54 Ls~eEr~~~~~~~~~~~~~~~~viagvg~ 82 (293)
T PRK04147 54 LSTEEKKQVLEIVAEEAKGKVKLIAQVGS 82 (293)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEecCCC
Confidence 46699999999999999999999997754
No 108
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=24.50 E-value=91 Score=24.29 Aligned_cols=100 Identities=10% Similarity=0.111 Sum_probs=55.4
Q ss_pred cCCHHHHHHHHHHHHhhCCCCccEEEEccCCCC---------CCccc-eeEEEecCCC---chHHHHHHHHHhhCCCCCC
Q 033424 9 EHPLERRQAEAARIRDKYPDRIPVIVERAEKSD---------VPEID-KKKYLVPADL---TVGQFVYVVRKRIKLSPEK 75 (119)
Q Consensus 9 ~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~---------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~ 75 (119)
.-|.+||.+-.+..++..++++|||+--...+- +-.+. .--.++|... +-.++..+.+.=..-. .-
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 457799999999999999999999987764321 00110 1122333322 2244555554433222 35
Q ss_pred eEEEEEcCC---CCCccchHHHHHhhccCCCCeEEEEecCc
Q 033424 76 AIFIFVKNI---LPPTAAMMSAIYEENRDEDGFLYMTYSGE 113 (119)
Q Consensus 76 slfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (119)
.+++|=+-. ..-+...+.+| .++ ..+..+.+++.
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 678884311 12123466667 333 55777777654
No 109
>PF00388 PI-PLC-X: Phosphatidylinositol-specific phospholipase C, X domain This entry is for the whole phospholipase C protein; InterPro: IPR000909 Phosphatidylinositol-specific phospholipase C (3.1.4.11 from EC), a eukaryotic intracellular enzyme, plays an important role in signal transduction processes []. It catalyzes the hydrolysis of 1-phosphatidyl-D-myo-inositol-3,4,5-triphosphate into the second messenger molecules diacylglycerol and inositol-1,4,5-triphosphate. This catalytic process is tightly regulated by reversible phosphorylation and binding of regulatory proteins [, , ]. In mammals, there are at least 6 different isoforms of PI-PLC, they differ in their domain structure, their regulation, and their tissue distribution. Lower eukaryotes also possess multiple isoforms of PI-PLC. All eukaryotic PI-PLCs contain two regions of homology, sometimes referred to as the 'X-box' and 'Y-box'. The order of these two regions is always the same (NH2-X-Y-COOH), but the spacing is variable. In most isoforms, the distance between these two regions is only 50-100 residues but in the gamma isoforms one PH domain, two SH2 domains, and one SH3 domain are inserted between the two PLC-specific domains. The two conserved regions have been shown to be important for the catalytic activity. By profile analysis, we could show that sequences with significant similarity to the X-box domain occur also in prokaryotic and trypanosome PI-specific phospholipases C. Apart from this region, the prokaryotic enzymes show no similarity to their eukaryotic counterparts.; GO: 0004629 phospholipase C activity, 0006629 lipid metabolic process, 0035556 intracellular signal transduction; PDB: 2FJU_B 2ZKM_X 3V18_A 3V1H_A 3V16_A 3QR1_D 3EA3_A 3EA1_A 2OR2_A 1T6M_B ....
Probab=24.28 E-value=58 Score=22.68 Aligned_cols=31 Identities=13% Similarity=0.247 Sum_probs=26.2
Q ss_pred CCCchHHHHHHHHHhhCCCCCCeEEEEEcCC
Q 033424 54 ADLTVGQFVYVVRKRIKLSPEKAIFIFVKNI 84 (119)
Q Consensus 54 ~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~ 84 (119)
...++.++...+++-|.-.+++.+.|-+++.
T Consensus 65 ~~~~~~dvL~~i~~fl~~~p~E~VIl~~~~~ 95 (146)
T PF00388_consen 65 SGITFEDVLNDIRDFLFEHPSEPVILSLKHE 95 (146)
T ss_dssp -EEEHHHHHHHHHHHTTHSTTS-EEEEEEEE
T ss_pred eeEeHHHHHHHHHHHHhcCCCeEEEEEeecc
Confidence 4578999999999999999999999999863
No 110
>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=24.28 E-value=3.1e+02 Score=22.94 Aligned_cols=59 Identities=12% Similarity=0.104 Sum_probs=42.0
Q ss_pred EEecCCCchHHHHHHHHHhhC---CCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEecC
Q 033424 50 YLVPADLTVGQFVYVVRKRIK---LSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L~---l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
+-|..+.||+++...|...-+ +..++ +=|..++.+...+.+|++ |. - .++.+|++.-+.
T Consensus 15 IeV~~~~TV~dLK~kI~~~~g~~~ip~~~-QkLIy~GkiL~Dd~tL~d-y~-I-~e~~~Ivvmv~k 76 (378)
T TIGR00601 15 IDMEPDETVKELKEKIEAEQGKDAYPVAQ-QKLIYSGKILSDDKTVRE-YK-I-KEKDFVVVMVSK 76 (378)
T ss_pred EEeCCcChHHHHHHHHHHhhCCCCCChhH-eEEEECCEECCCCCcHHH-cC-C-CCCCEEEEEecc
Confidence 347899999999999988876 65443 455567777777888877 32 2 256788877654
No 111
>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=23.90 E-value=1.1e+02 Score=17.24 Aligned_cols=21 Identities=24% Similarity=0.400 Sum_probs=17.5
Q ss_pred HHHHHhhCCCCCCeEEEEEcC
Q 033424 63 YVVRKRIKLSPEKAIFIFVKN 83 (119)
Q Consensus 63 ~~lRk~L~l~~~~slfl~Vn~ 83 (119)
.-+|+.+++.+++.+.+.+++
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 457899999999999988853
No 112
>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=23.76 E-value=94 Score=19.92 Aligned_cols=33 Identities=9% Similarity=0.112 Sum_probs=26.6
Q ss_pred EecCCCchHHHHHHHHHhhCCCCC-CeEEEEEcC
Q 033424 51 LVPADLTVGQFVYVVRKRIKLSPE-KAIFIFVKN 83 (119)
Q Consensus 51 lvp~~~tv~~~~~~lRk~L~l~~~-~slfl~Vn~ 83 (119)
-+|.++|++++...|-+..+++++ +.|.+|-+.
T Consensus 18 r~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 18 KYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred ecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 589999999999999999999765 566566654
No 113
>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=23.59 E-value=2.3e+02 Score=18.73 Aligned_cols=22 Identities=9% Similarity=0.380 Sum_probs=16.4
Q ss_pred EEEecC-CCchHHHHHHHHHhhC
Q 033424 49 KYLVPA-DLTVGQFVYVVRKRIK 70 (119)
Q Consensus 49 Kflvp~-~~tv~~~~~~lRk~L~ 70 (119)
.+-+|. +.|+.++...+++..+
T Consensus 13 ~~~~~~~~~t~~~L~~~v~~~F~ 35 (81)
T cd06401 13 RIPIHNEDITYDELLLMMQRVFR 35 (81)
T ss_pred EEeccCccccHHHHHHHHHHHhc
Confidence 356675 4699999999976654
No 114
>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=23.49 E-value=1.4e+02 Score=18.79 Aligned_cols=57 Identities=9% Similarity=0.113 Sum_probs=39.2
Q ss_pred ecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEecC
Q 033424 52 VPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 52 vp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
+..+.||+++...|..+.++++++- =|+.++.....+.++++ | .-+ ++.++++.-..
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~Q-rLi~~Gk~L~D~~tL~~-y-~i~-~~~~i~l~~~~ 75 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQ-RLFYRGKQMEDGHTLFD-Y-NVG-LNDIIQLLVRQ 75 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHe-EEEeCCEECCCCCCHHH-c-CCC-CCCEEEEEEec
Confidence 5788999999999999888876532 23346666677788866 3 222 46677776543
No 115
>COG2879 Uncharacterized small protein [Function unknown]
Probab=23.31 E-value=56 Score=20.75 Aligned_cols=16 Identities=31% Similarity=0.578 Sum_probs=12.3
Q ss_pred HHHHHHhhCCCCccEE
Q 033424 18 EAARIRDKYPDRIPVI 33 (119)
Q Consensus 18 e~~~ir~k~P~kipVI 33 (119)
-++-.|.+||+++|.-
T Consensus 28 YVehmr~~hPd~p~mT 43 (65)
T COG2879 28 YVEHMRKKHPDKPPMT 43 (65)
T ss_pred HHHHHHHhCcCCCccc
Confidence 3567889999998754
No 116
>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=23.19 E-value=1.6e+02 Score=24.83 Aligned_cols=55 Identities=20% Similarity=0.279 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHhhCCCCccEEEEccCCCCCCccceeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCC
Q 033424 12 LERRQAEAARIRDKYPDRIPVIVERAEKSDVPEIDKKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNIL 85 (119)
Q Consensus 12 ~e~R~~e~~~ir~k~P~kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~l 85 (119)
|+-..+..+.++++|-..||+++ +.+..|-++...++++.-+++.+ +++|.-+.+
T Consensus 88 ldl~~~qi~~l~~~~~~~iPl~i-----------------MtS~~T~~~T~~~l~kyfg~~~~--v~~F~Q~~~ 142 (420)
T PF01704_consen 88 LDLIVEQIEALNKKYGVDIPLYI-----------------MTSFNTHEDTRKFLEKYFGLDVD--VFFFKQSKL 142 (420)
T ss_dssp HHHHHHHHHHHHHHHTTT-EEEE-----------------EEETTTHHHHHHHHHHGCGSSCC--EEEEEE-EE
T ss_pred HHHHHHHHHHHhccccccceEEE-----------------ecCcccHHHHHHHHHHhcCCCcc--eEEEeecCc
Confidence 35566677778888877788764 55667788889999997777655 666554443
No 117
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=23.11 E-value=2.5e+02 Score=20.84 Aligned_cols=95 Identities=16% Similarity=0.157 Sum_probs=62.8
Q ss_pred cccCCHHHHHHHHHHHHhhCCCCccEEEEccCCCCCCcc---ceeEEEecCCCchHHHHHHHH-----HhhCCCCCCeEE
Q 033424 7 KLEHPLERRQAEAARIRDKYPDRIPVIVERAEKSDVPEI---DKKKYLVPADLTVGQFVYVVR-----KRIKLSPEKAIF 78 (119)
Q Consensus 7 k~~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~~p~L---~k~Kflvp~~~tv~~~~~~lR-----k~L~l~~~~slf 78 (119)
+-..|+|+|.+-.++.-+..|+- -|....+ -+-+. ...+++|..=-++++|-+-+. ++|.- .=+++|
T Consensus 43 ~plFsleER~~l~~~~~~~l~nV---~V~~f~~-Llvd~ak~~~a~~ivRGLR~~sDfeYE~qma~~N~~L~~-eveTvF 117 (159)
T COG0669 43 KPLFSLEERVELIREATKHLPNV---EVVGFSG-LLVDYAKKLGATVLVRGLRAVSDFEYELQMAHMNRKLAP-EVETVF 117 (159)
T ss_pred CCCcCHHHHHHHHHHHhcCCCce---EEEeccc-HHHHHHHHcCCCEEEEeccccchHHHHHHHHHHHHhhcc-cccEEE
Confidence 44578999999999998877763 3444322 11111 235789988888888877665 33322 368999
Q ss_pred EEEcC-CCCCccchHHHHHhhccCCCCeE
Q 033424 79 IFVKN-ILPPTAAMMSAIYEENRDEDGFL 106 (119)
Q Consensus 79 l~Vn~-~lp~~~~~m~~lY~~~kd~DGfL 106 (119)
|.-.. ...=.|+.+.+|..--.|-++|+
T Consensus 118 l~~s~~~~~iSSs~Vreia~~ggdvs~~V 146 (159)
T COG0669 118 LMPSPEYSFISSSLVREIAAFGGDVSEFV 146 (159)
T ss_pred ecCCcceehhhHHHHHHHHHhCCCchhhC
Confidence 97765 35556677788877776666553
No 118
>PLN02417 dihydrodipicolinate synthase
Probab=22.76 E-value=1.1e+02 Score=24.02 Aligned_cols=97 Identities=7% Similarity=0.028 Sum_probs=53.4
Q ss_pred CCHHHHHHHHHHHHhhCCCCccEEEEccCCCC---------CCccc-eeEEEecCCC---chHHHHHHHHHhhCCCCCCe
Q 033424 10 HPLERRQAEAARIRDKYPDRIPVIVERAEKSD---------VPEID-KKKYLVPADL---TVGQFVYVVRKRIKLSPEKA 76 (119)
Q Consensus 10 ~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~---------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~s 76 (119)
-|.+||.+-.+...+.-++++|||+--...+- +-.+. .--.++|+.. +-.++..+.+.-... . .
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 46799999888888888999999998764321 00000 0112222211 224555555443332 3 7
Q ss_pred EEEEEcCC---CCCccchHHHHHhhccCCCCeEEEEecCc
Q 033424 77 IFIFVKNI---LPPTAAMMSAIYEENRDEDGFLYMTYSGE 113 (119)
Q Consensus 77 lfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (119)
+++|=+-. ..-+..++.+|- +.+.+..|.+++.
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 222234566664 2356777777664
No 119
>PF06395 CDC24: CDC24 Calponin; InterPro: IPR010481 This is a calponin homology domain.
Probab=22.60 E-value=60 Score=21.79 Aligned_cols=23 Identities=13% Similarity=0.430 Sum_probs=17.7
Q ss_pred CchHHHHHHHHHhhCCCCCCeEEE
Q 033424 56 LTVGQFVYVVRKRIKLSPEKAIFI 79 (119)
Q Consensus 56 ~tv~~~~~~lRk~L~l~~~~slfl 79 (119)
..+..|+...++.|+++.++ +|.
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 46789999999999997654 453
No 120
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=22.22 E-value=89 Score=24.27 Aligned_cols=100 Identities=12% Similarity=0.125 Sum_probs=56.0
Q ss_pred cCCHHHHHHHHHHHHhhCCCCccEEEEccCCCC---------CCccc-eeEEEecCC---CchHHHHHHHHHhhCCCCCC
Q 033424 9 EHPLERRQAEAARIRDKYPDRIPVIVERAEKSD---------VPEID-KKKYLVPAD---LTVGQFVYVVRKRIKLSPEK 75 (119)
Q Consensus 9 ~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~---------~p~L~-k~Kflvp~~---~tv~~~~~~lRk~L~l~~~~ 75 (119)
.-|.+||+.-.+...+.-+.++|||+--...+- +..+. .--.++|+- .+-.++..+.+.=. -..+-
T Consensus 50 ~Lt~~Er~~l~~~~~~~~~~~~~vi~gv~~~st~~~i~~a~~a~~~Gad~v~v~~P~~~~~s~~~l~~y~~~ia-~~~~~ 128 (289)
T PF00701_consen 50 SLTDEERKELLEIVVEAAAGRVPVIAGVGANSTEEAIELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIA-DATDL 128 (289)
T ss_dssp GS-HHHHHHHHHHHHHHHTTSSEEEEEEESSSHHHHHHHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHH-HHSSS
T ss_pred cCCHHHHHHHHHHHHHHccCceEEEecCcchhHHHHHHHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHH-hhcCC
Confidence 346799999888888888999999998765321 00110 112233332 24445555554433 22456
Q ss_pred eEEEEEcC---CCCCccchHHHHHhhccCCCCeEEEEecCc
Q 033424 76 AIFIFVKN---ILPPTAAMMSAIYEENRDEDGFLYMTYSGE 113 (119)
Q Consensus 76 slfl~Vn~---~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (119)
.+++|-+- ...-...++.+|.+ + +.+-.+.+++-
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 78888763 12333345666665 3 45666666543
No 121
>KOG1651 consensus Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=22.22 E-value=1.2e+02 Score=22.76 Aligned_cols=37 Identities=11% Similarity=0.401 Sum_probs=27.6
Q ss_pred EEEEEcC-----CCCCccchHHHHHhhccCCCCeEEEEecCcc
Q 033424 77 IFIFVKN-----ILPPTAAMMSAIYEENRDEDGFLYMTYSGEN 114 (119)
Q Consensus 77 lfl~Vn~-----~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~~ 114 (119)
+-|+||= ..++.=..|.+||++|+ +.||..+.+--.+
T Consensus 36 V~LiVNVAS~Cg~T~~~Y~~l~~L~~ky~-~~Gl~ILaFPCNQ 77 (171)
T KOG1651|consen 36 VVLIVNVASQCGLTESQYTELNELYEKYK-DQGLEILAFPCNQ 77 (171)
T ss_pred EEEEEEcccccccchhcchhHHHHHHHHh-hCCeEEEEecccc
Confidence 4566772 25666779999999997 6899999886544
No 122
>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=22.08 E-value=1.6e+02 Score=19.41 Aligned_cols=54 Identities=13% Similarity=0.152 Sum_probs=42.8
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcC-CCCCccchHHHHHhhccC
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKN-ILPPTAAMMSAIYEENRD 101 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~-~lp~~~~~m~~lY~~~kd 101 (119)
-+..-||++..+..++.+--...++++..| -+.-|+ .=.+++++-|++|=+|..
T Consensus 17 fkvlsVpE~aPftAvlkfaAEeFkv~~~Ts-AiiTndGvGINP~qtAGnvflkhgs 71 (82)
T cd01766 17 FKVLSVPESTPFTAVLKFAAEEFKVPAATS-AIITNDGIGINPAQTAGNVFLKHGS 71 (82)
T ss_pred ceEEeccccCchHHHHHHHHHhcCCCccce-eEEecCccccChhhcccceeeecCC
Confidence 455679999999999999989999998887 444554 556788889999988853
No 123
>PRK08577 hypothetical protein; Provisional
Probab=21.95 E-value=97 Score=21.50 Aligned_cols=21 Identities=5% Similarity=0.254 Sum_probs=18.2
Q ss_pred HHHHHhhCCCCCCeEEEEEcC
Q 033424 63 YVVRKRIKLSPEKAIFIFVKN 83 (119)
Q Consensus 63 ~~lRk~L~l~~~~slfl~Vn~ 83 (119)
.-+|+.|++.+++.+-+++++
T Consensus 19 ~~~r~~l~~~~g~~~~~~~~~ 39 (136)
T PRK08577 19 LEIREALGIREGMYVLLIADT 39 (136)
T ss_pred HHHHHHcCcCCCCEEEEEEEC
Confidence 348999999999999999874
No 124
>cd08555 PI-PLCc_GDPD_SF Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily. The PI-PLC-like phosphodiesterases superfamily represents the catalytic domains of bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11), glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria, as well as their uncharacterized homologs found in organisms ranging from bacteria and archaea to metazoans, plants, and fungi. PI-PLCs are ubiquitous enzymes hydrolyzing the membrane lipid phosphoinositides to yield two important second messengers, inositol phosphates and diacylglycerol (DAG). GP-GDEs play essential roles in glycerol metabolism and catalyze the hydrolysis of glycerophosph
Probab=21.73 E-value=3.1e+02 Score=19.58 Aligned_cols=55 Identities=9% Similarity=0.068 Sum_probs=38.8
Q ss_pred CCchHHHHHHHHHhhCCCCCCeEEEEEcCCCC-----CccchHHHHHhhcc---CCCCeEEEEe
Q 033424 55 DLTVGQFVYVVRKRIKLSPEKAIFIFVKNILP-----PTAAMMSAIYEENR---DEDGFLYMTY 110 (119)
Q Consensus 55 ~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp-----~~~~~m~~lY~~~k---d~DGfLyi~Y 110 (119)
..|+.+++..++..+. .+...+.|++.-+.+ .....+.++++++. -.|..++.++
T Consensus 59 ~ptl~evl~~~~~~~~-~~~~~~~l~iEiK~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~sf 121 (179)
T cd08555 59 PPTLEEVLELIADYLK-NPDYTIILSLEIKQDSPEYDEFLAKVLKELRVYFDYDLRGKVVLSSF 121 (179)
T ss_pred CCCHHHHHHHHHhhhh-cCCCceEEEEEeCCCCCcchHHHHHHHHHHHHcCCcccCCCEEEEee
Confidence 4588999999998877 777788888875433 33457788888886 3455555554
No 125
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=21.34 E-value=67 Score=15.78 Aligned_cols=14 Identities=36% Similarity=0.641 Sum_probs=9.1
Q ss_pred HhhccCCCCeEEEE
Q 033424 96 YEENRDEDGFLYMT 109 (119)
Q Consensus 96 Y~~~kd~DGfLyi~ 109 (119)
|.-++|.||.|+|.
T Consensus 8 ~~i~~D~~G~lWig 21 (24)
T PF07494_consen 8 YSIYEDSDGNLWIG 21 (24)
T ss_dssp EEEEE-TTSCEEEE
T ss_pred EEEEEcCCcCEEEE
Confidence 33457889998874
No 126
>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=21.15 E-value=2.7e+02 Score=24.55 Aligned_cols=50 Identities=20% Similarity=0.402 Sum_probs=35.3
Q ss_pred cCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeE-EEEecCcc
Q 033424 53 PADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFL-YMTYSGEN 114 (119)
Q Consensus 53 p~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfL-yi~Ys~~~ 114 (119)
|.-.+.+++....-++++++++++ -..+..||+.++-.||-. +|+|-.+.
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 455677888888889999887765 256778999753335444 78887654
No 127
>PRK11347 antitoxin ChpS; Provisional
Probab=21.06 E-value=2.4e+02 Score=18.31 Aligned_cols=38 Identities=18% Similarity=0.295 Sum_probs=29.4
Q ss_pred HHHHHhhCCCCCCeEEEEEcC-C---CC-CccchHHHHHhhcc
Q 033424 63 YVVRKRIKLSPEKAIFIFVKN-I---LP-PTAAMMSAIYEENR 100 (119)
Q Consensus 63 ~~lRk~L~l~~~~slfl~Vn~-~---lp-~~~~~m~~lY~~~k 100 (119)
..+.++|++..++.+.+-|.+ . .| ...-++.+|...+.
T Consensus 18 k~il~~l~l~~G~~v~i~v~~~~iii~p~~~~~tL~eLla~~~ 60 (83)
T PRK11347 18 NIVMKELNLQPGQSVEAQVSNNQLILTPISRRYSLDELLAQCD 60 (83)
T ss_pred HHHHHHcCCCCCCEEEEEEECCEEEEEECCCCCCHHHHHhcCC
Confidence 346789999999999998865 3 23 34468999999984
No 128
>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=21.06 E-value=89 Score=19.61 Aligned_cols=18 Identities=33% Similarity=0.512 Sum_probs=14.4
Q ss_pred HHHHhhCCCCccEEEEcc
Q 033424 20 ARIRDKYPDRIPVIVERA 37 (119)
Q Consensus 20 ~~ir~k~P~kipVIvE~~ 37 (119)
..+..+|-.+|||+.-..
T Consensus 40 ~~l~~~Y~~~IPVl~~~~ 57 (81)
T PF05768_consen 40 PELFEKYGYRIPVLHIDG 57 (81)
T ss_dssp HHHHHHSCTSTSEEEETT
T ss_pred HHHHHHhcCCCCEEEEcC
Confidence 347889999999987655
No 129
>PF12923 RRP7: Ribosomal RNA-processing protein 7 (RRP7); InterPro: IPR024326 Ribosomal RNA-processing protein 7 (RRP7) is an essential protein in yeast that is involved in pre-rRNA processing and ribosome assembly []. It is speculated to be required for correct assembly of rpS27 into the pre-ribosomal particle [, ]. This entry includes RRP7 and homologous sequences from other organisms.
Probab=21.01 E-value=56 Score=23.02 Aligned_cols=14 Identities=43% Similarity=0.760 Sum_probs=11.2
Q ss_pred cCCCCeEEEEecCc
Q 033424 100 RDEDGFLYMTYSGE 113 (119)
Q Consensus 100 kd~DGfLyi~Ys~~ 113 (119)
-|+|||..|+-.+.
T Consensus 47 ~DEDGwvtVtr~gr 60 (131)
T PF12923_consen 47 PDEDGWVTVTRGGR 60 (131)
T ss_pred CCCCCCEEeecCCc
Confidence 47999999987744
No 130
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=20.84 E-value=1.7e+02 Score=25.61 Aligned_cols=53 Identities=17% Similarity=0.235 Sum_probs=40.5
Q ss_pred eeEEEecCCCchHHHHHHHHHhhCCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCC
Q 033424 47 KKKYLVPADLTVGQFVYVVRKRIKLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDG 104 (119)
Q Consensus 47 k~Kflvp~~~tv~~~~~~lRk~L~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DG 104 (119)
|.-|-|+.+.||.+|...|-++-+.++++- -|.-.+++.+.+.|+. .|+-.||
T Consensus 26 k~~~~V~~~ssV~qlKE~I~~~f~a~~dql-vLIfaGrILKD~dTL~----~~gI~Dg 78 (493)
T KOG0010|consen 26 KYEVNVASDSSVLQLKELIAQRFGAPPDQL-VLIYAGRILKDDDTLK----QYGIQDG 78 (493)
T ss_pred ceeEecccchHHHHHHHHHHHhcCCChhHe-eeeecCccccChhhHH----HcCCCCC
Confidence 677899999999999999999998877664 4444566666777775 3555677
No 131
>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=20.82 E-value=1.2e+02 Score=23.39 Aligned_cols=100 Identities=8% Similarity=0.086 Sum_probs=55.3
Q ss_pred cCCHHHHHHHHHHHHhhCCCCccEEEEccCCCC---------CCccc-eeEEEecCCC---chHHHHHHHHHhhCCCCCC
Q 033424 9 EHPLERRQAEAARIRDKYPDRIPVIVERAEKSD---------VPEID-KKKYLVPADL---TVGQFVYVVRKRIKLSPEK 75 (119)
Q Consensus 9 ~~~~e~R~~e~~~ir~k~P~kipVIvE~~~~~~---------~p~L~-k~Kflvp~~~---tv~~~~~~lRk~L~l~~~~ 75 (119)
.-|.+||++-.+..++...+++|||+--...+- +-.+. .--.++|... +=.++..+.++=..- .+-
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 457799999999999999999999987764321 00110 1122232221 224555555544332 346
Q ss_pred eEEEEEcCC---CCCccchHHHHHhhccCCCCeEEEEecCc
Q 033424 76 AIFIFVKNI---LPPTAAMMSAIYEENRDEDGFLYMTYSGE 113 (119)
Q Consensus 76 slfl~Vn~~---lp~~~~~m~~lY~~~kd~DGfLyi~Ys~~ 113 (119)
.+++|=+-. ..-...++.+|-+ .+.+..+.+++.
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 788884421 1111235555652 256777777654
No 132
>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=20.62 E-value=1.6e+02 Score=18.16 Aligned_cols=24 Identities=13% Similarity=0.278 Sum_probs=14.6
Q ss_pred cchHHHHHhhccCCCCeEEEEecC
Q 033424 89 AAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 89 ~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
-..|.++|++|++.+++=.|.-+.
T Consensus 20 ~~~l~~l~~~~~~~~~v~~v~Vs~ 43 (95)
T PF13905_consen 20 LPKLKELYKKYKKKDDVEFVFVSL 43 (95)
T ss_dssp HHHHHHHHHHHTTTTTEEEEEEE-
T ss_pred HHHHHHHHHHhCCCCCEEEEEEEe
Confidence 346788888888655544444443
No 133
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=20.49 E-value=1e+02 Score=20.86 Aligned_cols=20 Identities=25% Similarity=0.375 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhhCCCCccE
Q 033424 13 ERRQAEAARIRDKYPDRIPV 32 (119)
Q Consensus 13 e~R~~e~~~ir~k~P~kipV 32 (119)
.++++..+.|+.|+.+.|||
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 134
>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=20.42 E-value=81 Score=21.29 Aligned_cols=29 Identities=24% Similarity=0.336 Sum_probs=18.9
Q ss_pred CCCCCeEEEEEcCC---CCCccchHHHHHhhc
Q 033424 71 LSPEKAIFIFVKNI---LPPTAAMMSAIYEEN 99 (119)
Q Consensus 71 l~~~~slfl~Vn~~---lp~~~~~m~~lY~~~ 99 (119)
....+..|+|||+. .+.....+.++|+..
T Consensus 36 ~~~~~~q~ifVN~R~V~~~~l~~~I~~~y~~~ 67 (119)
T PF01119_consen 36 RSSRDRQFIFVNGRPVENKALSKAINEAYRER 67 (119)
T ss_dssp BSSCTCEEEEETTEEE--HHHHHHHHHHHHCT
T ss_pred cCCCCcEEEEeCCCeEeChHHHHHHHHHHhhc
Confidence 34457889999995 445555666777643
No 135
>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=20.20 E-value=2.4e+02 Score=17.68 Aligned_cols=55 Identities=24% Similarity=0.294 Sum_probs=38.8
Q ss_pred EEecCCCchHHHHHHHHHhh---CCCCCCeEEEEEcCCCCCccchHHHHHhhccCCCCeEEEEecC
Q 033424 50 YLVPADLTVGQFVYVVRKRI---KLSPEKAIFIFVKNILPPTAAMMSAIYEENRDEDGFLYMTYSG 112 (119)
Q Consensus 50 flvp~~~tv~~~~~~lRk~L---~l~~~~slfl~Vn~~lp~~~~~m~~lY~~~kd~DGfLyi~Ys~ 112 (119)
|.-....++.++..-||+.- -+.....+|+.-|+.- +-=+||..+||-+..+|..
T Consensus 6 ~vp~~~~~v~d~K~~Lr~y~~~~I~~d~tGfYIvF~~~~--------Ea~rC~~~~~~~~~f~y~m 63 (66)
T PF11767_consen 6 FVPVHGVTVEDFKKRLRKYRWDRIRDDRTGFYIVFNDSK--------EAERCFRAEDGTLFFTYRM 63 (66)
T ss_pred cCCCCCccHHHHHHHHhcCCcceEEecCCEEEEEECChH--------HHHHHHHhcCCCEEEEEEE
Confidence 34445678888777777542 1445677888777643 7778888899999888853
No 136
>KOG0765 consensus Predicted mitochondrial carrier protein [Energy production and conversion]
Probab=20.16 E-value=43 Score=27.56 Aligned_cols=36 Identities=17% Similarity=0.390 Sum_probs=27.5
Q ss_pred CccceeEEEecCCCchHHH------HHHHHHhhCCCCCCeEE
Q 033424 43 PEIDKKKYLVPADLTVGQF------VYVVRKRIKLSPEKAIF 78 (119)
Q Consensus 43 p~L~k~Kflvp~~~tv~~~------~~~lRk~L~l~~~~slf 78 (119)
..|||+||.+..-..+.-+ ...||.||++.+++.+|
T Consensus 29 e~lDK~kFy~~g~~l~~~Vr~aLYP~~vlkTrlQVq~~~~vy 70 (333)
T KOG0765|consen 29 EMLDKKKFYPLGAALFSGVRTALYPLTVLKTRLQVQKKNTVY 70 (333)
T ss_pred hhccccceeehhhHHhhcceeeeeehhhhhhHHhhccccchh
Confidence 3689999998876655444 56789999999887655
No 137
>PF00501 AMP-binding: AMP-binding enzyme; InterPro: IPR000873 A number of prokaryotic and eukaryotic enzymes, which appear to act via an ATP-dependent covalent binding of AMP to their substrate, share a region of sequence similarity [, , ]. This region is a Ser/Thr/Gly-rich domain that is further characterised by a conserved Pro-Lys-Gly triplet. The family of enzymes includes luciferase, long chain fatty acid Co-A ligase, acetyl-CoA synthetase and various other closely-related synthetases.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 2V7B_A 2Y4O_B 2VSQ_A 3L8C_B 1RY2_A 3KXW_A 3LNV_A 3ETC_B 3A9U_A 3A9V_A ....
Probab=20.11 E-value=3.1e+02 Score=21.40 Aligned_cols=47 Identities=28% Similarity=0.469 Sum_probs=32.1
Q ss_pred HHHhhCCCCccEEEEccCCCCCCccceeEEEecCCCchHHH-------HHHHHHhhCCCCCCeEEEEEcCC
Q 033424 21 RIRDKYPDRIPVIVERAEKSDVPEIDKKKYLVPADLTVGQF-------VYVVRKRIKLSPEKAIFIFVKNI 84 (119)
Q Consensus 21 ~ir~k~P~kipVIvE~~~~~~~p~L~k~Kflvp~~~tv~~~-------~~~lRk~L~l~~~~slfl~Vn~~ 84 (119)
+.-+++|+++.+|- . .. ..+|.+|+ -..|+ ++++++++.+-++++|.
T Consensus 3 ~~a~~~pd~~a~~~--~--~~------------~~~Ty~~l~~~v~~la~~L~-~~g~~~~~~V~i~~~n~ 56 (417)
T PF00501_consen 3 RQAQRYPDRIALID--D--EG------------RSLTYKQLYERVRKLAAALR-KLGVKKGDRVAILLPNS 56 (417)
T ss_dssp HHHHHSTTSEEEEE--T--TT------------EEEEHHHHHHHHHHHHHHHH-HTTSSTTSEEEEEESSS
T ss_pred hHHhhCCCceEEEE--C--CC------------EEEEHHHHHHHHHHHhhHHH-HhCCCccccccccCCcc
Confidence 44568999999987 1 11 23344444 45555 67899999999998874
Done!