Query 034167
Match_columns 102
No_of_seqs 104 out of 351
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 10:30:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034167.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034167hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1654 Microtubule-associated 100.0 2.7E-40 5.9E-45 227.2 9.2 88 8-97 29-116 (116)
2 PF02991 Atg8: Autophagy prote 100.0 6.8E-40 1.5E-44 223.5 9.9 89 7-97 16-104 (104)
3 cd01611 GABARAP Ubiquitin doma 100.0 2E-39 4.3E-44 223.6 10.9 89 7-97 24-112 (112)
4 cd01612 APG12_C Ubiquitin-like 100.0 1.5E-36 3.4E-41 201.1 10.4 85 11-97 2-87 (87)
5 PTZ00380 microtubule-associate 100.0 6.6E-36 1.4E-40 208.6 9.4 86 7-99 27-113 (121)
6 PF04110 APG12: Ubiquitin-like 100.0 2.3E-28 4.9E-33 162.4 7.6 85 11-97 2-87 (87)
7 KOG3439 Protein conjugation fa 99.9 6.6E-27 1.4E-31 161.0 9.7 88 8-97 28-116 (116)
8 PF04106 APG5: Autophagy prote 95.8 0.017 3.8E-07 42.9 4.6 56 36-91 138-195 (197)
9 PF10302 DUF2407: DUF2407 ubiq 94.8 0.38 8.3E-06 32.2 8.3 66 10-79 2-68 (97)
10 PF11976 Rad60-SLD: Ubiquitin- 94.5 0.14 3.1E-06 31.2 5.2 50 26-75 11-60 (72)
11 KOG2660 Locus-specific chromos 92.4 0.27 5.9E-06 39.8 4.9 75 19-94 157-235 (331)
12 cd06406 PB1_P67 A PB1 domain i 92.4 0.55 1.2E-05 30.8 5.5 55 31-88 16-75 (80)
13 PF11816 DUF3337: Domain of un 91.4 2.1 4.6E-05 34.0 8.9 64 29-92 251-328 (331)
14 PF11543 UN_NPL4: Nuclear pore 89.9 0.47 1E-05 30.6 3.3 70 10-89 4-78 (80)
15 PF08154 NLE: NLE (NUC135) dom 89.0 3 6.5E-05 25.6 6.4 53 11-64 2-55 (65)
16 smart00213 UBQ Ubiquitin homol 88.8 1.9 4.2E-05 24.8 5.2 47 27-74 11-57 (64)
17 cd00196 UBQ Ubiquitin-like pro 88.7 2.4 5.1E-05 22.5 5.8 40 24-64 6-45 (69)
18 PF13019 Telomere_Sde2: Telome 87.0 5.5 0.00012 29.3 7.6 63 27-90 16-81 (162)
19 PF03671 Ufm1: Ubiquitin fold 86.9 3.5 7.5E-05 26.8 5.8 61 21-81 11-71 (76)
20 cd01763 Sumo Small ubiquitin-r 83.8 4.6 0.0001 25.8 5.4 49 26-75 22-70 (87)
21 PF00240 ubiquitin: Ubiquitin 81.2 2.7 5.8E-05 25.1 3.4 47 28-75 8-54 (69)
22 cd05992 PB1 The PB1 domain is 77.4 14 0.0003 22.5 7.0 64 26-89 10-79 (81)
23 cd01806 Nedd8 Nebb8-like ubiq 76.4 11 0.00025 22.5 5.2 58 29-91 14-72 (76)
24 cd01813 UBP_N UBP ubiquitin pr 75.5 6.3 0.00014 24.6 3.9 46 30-75 14-61 (74)
25 cd06407 PB1_NLP A PB1 domain i 74.2 8.5 0.00018 24.9 4.4 54 26-79 10-68 (82)
26 smart00666 PB1 PB1 domain. Pho 72.6 19 0.00042 22.0 6.7 56 26-81 11-70 (81)
27 cd01769 UBL Ubiquitin-like dom 71.7 17 0.00036 20.9 5.5 58 29-90 11-68 (69)
28 cd01798 parkin_N amino-termina 71.0 16 0.00036 21.9 5.0 57 29-89 12-68 (70)
29 cd06396 PB1_NBR1 The PB1 domai 70.4 27 0.00059 22.8 6.2 62 26-90 10-78 (81)
30 cd01803 Ubiquitin Ubiquitin. U 68.7 18 0.0004 21.6 4.8 59 29-91 14-72 (76)
31 cd01776 Rin1_RA Ubiquitin doma 68.1 14 0.00031 24.6 4.4 57 28-84 16-80 (87)
32 cd01807 GDX_N ubiquitin-like d 68.0 20 0.00044 21.8 5.0 45 29-74 14-58 (74)
33 cd01809 Scythe_N Ubiquitin-lik 67.5 22 0.00048 20.9 5.0 47 27-74 12-58 (72)
34 PF12436 USP7_ICP0_bdg: ICP0-b 66.7 8.8 0.00019 29.3 3.7 61 29-92 88-153 (249)
35 smart00537 DCX Domain in the D 66.0 31 0.00067 22.3 5.7 75 9-97 5-84 (89)
36 cd06398 PB1_Joka2 The PB1 doma 64.7 18 0.00038 23.9 4.4 53 26-78 10-72 (91)
37 cd01805 RAD23_N Ubiquitin-like 63.8 30 0.00064 20.9 5.1 58 28-89 13-72 (77)
38 cd01794 DC_UbP_C dendritic cel 62.7 27 0.00058 21.5 4.8 49 27-77 10-58 (70)
39 PF14836 Ubiquitin_3: Ubiquiti 61.3 13 0.00028 24.7 3.3 46 32-77 20-71 (88)
40 cd01790 Herp_N Homocysteine-re 61.0 42 0.00091 21.6 7.2 64 26-90 12-78 (79)
41 PF14533 USP7_C2: Ubiquitin-sp 60.7 8.1 0.00018 28.8 2.5 50 26-75 34-90 (213)
42 cd01796 DDI1_N DNA damage indu 59.1 19 0.00041 22.0 3.6 57 29-88 13-69 (71)
43 cd01810 ISG15_repeat2 ISG15 ub 58.6 39 0.00085 20.5 5.6 58 30-91 13-70 (74)
44 cd01812 BAG1_N Ubiquitin-like 56.3 40 0.00086 19.9 4.9 45 29-74 13-57 (71)
45 PF00564 PB1: PB1 domain; Int 56.2 44 0.00095 20.3 5.1 52 30-81 16-71 (84)
46 PTZ00044 ubiquitin; Provisiona 54.5 46 0.00099 20.0 4.9 45 28-74 13-58 (76)
47 cd01793 Fubi Fubi ubiquitin-li 53.9 48 0.001 20.1 5.0 61 26-90 9-69 (74)
48 cd01808 hPLIC_N Ubiquitin-like 53.4 48 0.001 19.9 6.4 58 29-90 13-70 (71)
49 KOG2976 Protein involved in au 53.0 37 0.0008 27.0 5.0 54 35-90 212-273 (278)
50 PF09379 FERM_N: FERM N-termin 52.9 47 0.001 20.1 4.7 36 26-61 7-42 (80)
51 cd01792 ISG15_repeat1 ISG15 ub 52.5 54 0.0012 20.3 5.5 59 31-92 18-77 (80)
52 PF09358 UBA_e1_C: Ubiquitin-a 52.4 13 0.00028 25.8 2.2 51 29-79 36-94 (125)
53 PF11470 TUG-UBL1: GLUT4 regul 51.9 47 0.001 20.6 4.5 41 23-64 4-44 (65)
54 PF05717 TnpB_IS66: IS66 Orf2 49.3 30 0.00064 23.4 3.6 27 37-63 16-43 (107)
55 KOG1209 1-Acyl dihydroxyaceton 48.8 40 0.00088 26.7 4.6 52 25-80 54-110 (289)
56 PF14560 Ubiquitin_2: Ubiquiti 46.0 41 0.00089 21.1 3.7 34 27-60 15-49 (87)
57 KOG4147 Uncharacterized conser 45.2 44 0.00095 23.5 3.9 45 4-54 6-52 (127)
58 cd01799 Hoil1_N Ubiquitin-like 45.0 75 0.0016 19.8 5.9 55 30-88 17-72 (75)
59 cd01804 midnolin_N Ubiquitin-l 43.6 78 0.0017 19.6 5.4 60 28-92 14-73 (78)
60 PF00788 RA: Ras association ( 43.5 76 0.0016 19.4 8.6 64 26-89 17-89 (93)
61 TIGR01682 moaD molybdopterin c 43.4 30 0.00064 21.4 2.7 38 29-66 19-59 (80)
62 cd01766 Ufm1 Urm1-like ubiquit 43.3 41 0.00089 22.0 3.3 58 23-81 13-71 (82)
63 PRK06437 hypothetical protein; 42.9 40 0.00086 20.6 3.2 38 30-72 15-52 (67)
64 PRK12385 fumarate reductase ir 42.9 72 0.0016 24.3 5.2 43 8-50 7-49 (244)
65 PF02597 ThiS: ThiS family; I 42.8 17 0.00037 21.8 1.5 40 27-66 13-53 (77)
66 KOG0010 Ubiquitin-like protein 41.3 68 0.0015 27.6 5.2 54 26-84 25-78 (493)
67 cd01791 Ubl5 UBL5 ubiquitin-li 40.2 90 0.002 19.3 5.3 56 31-90 17-72 (73)
68 cd06411 PB1_p51 The PB1 domain 39.8 1.1E+02 0.0023 20.0 5.8 57 31-87 12-74 (78)
69 cd01795 USP48_C USP ubiquitin- 39.3 73 0.0016 22.0 4.2 30 30-59 19-49 (107)
70 cd06408 PB1_NoxR The PB1 domai 38.9 51 0.0011 21.7 3.4 31 30-62 16-47 (86)
71 TIGR02609 doc_partner putative 38.1 48 0.001 20.7 3.1 21 43-63 16-36 (74)
72 PF08825 E2_bind: E2 binding d 37.1 42 0.00091 21.8 2.7 44 32-75 3-59 (84)
73 PRK13669 hypothetical protein; 37.1 24 0.00052 23.0 1.5 27 55-81 45-74 (78)
74 cd01789 Alp11_N Ubiquitin-like 36.2 73 0.0016 20.1 3.7 33 31-63 18-51 (84)
75 cd00754 MoaD Ubiquitin domain 36.1 62 0.0013 19.5 3.3 42 28-69 18-62 (80)
76 PF00255 GSHPx: Glutathione pe 35.8 38 0.00082 22.9 2.4 28 68-97 38-65 (108)
77 KOG3483 Uncharacterized conser 35.6 65 0.0014 21.3 3.4 62 20-82 21-83 (94)
78 cd00137 PI-PLCc Catalytic doma 35.4 82 0.0018 24.3 4.5 52 35-88 73-127 (274)
79 PRK08364 sulfur carrier protei 34.9 69 0.0015 19.5 3.4 38 28-70 16-53 (70)
80 COG3343 RpoE DNA-directed RNA 34.7 52 0.0011 24.6 3.2 47 35-97 30-77 (175)
81 cd01815 BMSC_UbP_N Ubiquitin-l 34.0 1.1E+02 0.0023 19.6 4.2 53 32-88 17-72 (75)
82 cd06401 PB1_TFG The PB1 domain 33.7 1.3E+02 0.0028 19.7 4.6 25 26-50 10-35 (81)
83 cd01666 TGS_DRG_C TGS_DRG_C: 33.5 1.2E+02 0.0027 19.1 4.5 36 14-50 4-39 (75)
84 cd01800 SF3a120_C Ubiquitin-li 32.8 1.2E+02 0.0026 18.5 4.9 58 30-91 12-69 (76)
85 PF11767 SET_assoc: Histone ly 31.9 1.1E+02 0.0024 19.0 3.9 55 30-92 6-63 (66)
86 TIGR01683 thiS thiamine biosyn 31.5 99 0.0022 18.3 3.6 35 26-65 4-38 (64)
87 smart00295 B41 Band 4.1 homolo 31.4 1.5E+02 0.0031 20.6 5.0 52 26-77 14-71 (207)
88 PF06760 DUF1221: Protein of u 30.8 15 0.00032 28.2 -0.3 48 38-94 22-69 (217)
89 smart00148 PLCXc Phospholipase 30.4 57 0.0012 22.5 2.7 33 32-64 65-97 (135)
90 COG2002 AbrB Regulators of sta 30.3 71 0.0015 20.5 3.0 21 43-63 20-40 (89)
91 TIGR00601 rad23 UV excision re 29.8 2.6E+02 0.0057 23.0 6.8 60 30-93 15-77 (378)
92 PF14533 USP7_C2: Ubiquitin-sp 29.2 41 0.00088 25.0 1.9 63 28-90 135-206 (213)
93 PF12436 USP7_ICP0_bdg: ICP0-b 29.0 2.2E+02 0.0048 21.6 5.9 37 27-63 191-227 (249)
94 cd01802 AN1_N ubiquitin-like d 29.0 1.8E+02 0.0038 19.3 5.1 59 28-91 40-99 (103)
95 PF07929 PRiA4_ORF3: Plasmid p 28.9 1.2E+02 0.0027 21.5 4.3 28 28-55 20-47 (179)
96 PRK11130 moaD molybdopterin sy 28.8 71 0.0015 19.9 2.7 41 29-70 18-64 (81)
97 PRK02363 DNA-directed RNA poly 28.6 62 0.0013 22.7 2.6 50 33-97 17-66 (129)
98 PF06970 RepA_N: Replication i 28.1 26 0.00057 22.3 0.6 17 79-95 42-58 (76)
99 cd01760 RBD Ubiquitin-like dom 27.9 1.6E+02 0.0035 18.5 5.3 54 22-75 6-62 (72)
100 PF04014 Antitoxin-MazE: Antid 27.9 1E+02 0.0022 17.2 3.0 21 43-63 13-33 (47)
101 PRK08577 hypothetical protein; 27.8 64 0.0014 22.0 2.6 21 43-63 19-39 (136)
102 PF14060 DUF4252: Domain of un 27.7 66 0.0014 22.0 2.6 25 68-92 20-44 (155)
103 PRK11347 antitoxin ChpS; Provi 27.4 1.6E+02 0.0035 19.0 4.3 39 43-81 18-61 (83)
104 PF10336 DUF2420: Protein of u 26.6 2.1E+02 0.0045 19.4 5.3 63 35-97 10-98 (113)
105 PLN02799 Molybdopterin synthas 25.1 44 0.00096 20.7 1.3 45 26-70 19-65 (82)
106 cd01777 SNX27_RA Ubiquitin dom 25.1 1.7E+02 0.0036 19.5 4.0 43 22-64 8-54 (87)
107 PF02938 GAD: GAD domain; Int 24.5 1.1E+02 0.0025 19.6 3.2 25 39-63 63-87 (95)
108 PF00388 PI-PLC-X: Phosphatidy 24.0 46 0.001 22.7 1.3 31 34-64 65-95 (146)
109 PRK13125 trpA tryptophan synth 24.0 90 0.002 23.4 3.0 17 80-98 150-166 (244)
110 cd01782 AF6_RA_repeat1 Ubiquit 24.0 2.3E+02 0.0049 19.7 4.7 34 30-63 40-79 (112)
111 TIGR01051 topA_bact DNA topois 23.5 92 0.002 26.9 3.2 24 71-94 276-300 (610)
112 PF02196 RBD: Raf-like Ras-bin 23.3 1.6E+02 0.0035 18.1 3.6 38 22-60 7-44 (71)
113 cd01775 CYR1_RA Ubiquitin doma 23.2 1.9E+02 0.004 19.6 4.0 36 28-63 15-52 (97)
114 cd08555 PI-PLCc_GDPD_SF Cataly 23.2 2.7E+02 0.0059 19.5 6.2 55 35-90 59-121 (179)
115 PF01650 Peptidase_C13: Peptid 22.9 96 0.0021 23.9 3.0 31 33-63 77-115 (256)
116 KOG0765 Predicted mitochondria 22.7 36 0.00079 27.6 0.6 35 24-58 30-70 (333)
117 PF05990 DUF900: Alpha/beta hy 22.7 2.1E+02 0.0046 21.3 4.8 51 39-91 2-55 (233)
118 KOG0089 Methylenetetrahydrofol 22.5 1.4E+02 0.003 24.2 3.8 23 68-90 111-133 (309)
119 TIGR01408 Ube1 ubiquitin-activ 22.5 1.8E+02 0.0039 27.1 5.0 58 30-88 916-984 (1008)
120 PF04441 Pox_VERT_large: Poxvi 22.4 99 0.0022 27.5 3.2 52 35-93 59-123 (700)
121 PF06138 Chordopox_E11: Chordo 22.2 2E+02 0.0044 20.5 4.2 24 37-61 36-59 (130)
122 cd00565 ThiS ThiaminS ubiquiti 22.1 83 0.0018 18.6 2.0 36 26-66 5-40 (65)
123 PRK14483 DhaKLM operon coactiv 21.9 73 0.0016 25.9 2.2 57 23-80 221-281 (329)
124 PHA01078 putative upper collar 21.2 1.3E+02 0.0027 23.5 3.3 50 40-94 20-70 (249)
125 TIGR02362 dhaK1b probable dihy 21.0 80 0.0017 25.6 2.2 57 23-80 218-278 (326)
126 PF06395 CDC24: CDC24 Calponin 20.9 65 0.0014 21.4 1.4 23 36-59 44-66 (89)
127 smart00314 RA Ras association 20.9 2.2E+02 0.0048 17.6 6.2 39 23-61 13-54 (90)
128 PF13905 Thioredoxin_8: Thiore 20.8 1.6E+02 0.0034 17.8 3.2 14 71-84 22-35 (95)
129 cd01818 TIAM1_RBD Ubiquitin do 20.5 1.8E+02 0.0039 18.9 3.4 52 23-75 7-67 (77)
130 PF01131 Topoisom_bac: DNA top 20.3 46 0.00099 27.0 0.7 45 32-94 114-158 (403)
No 1
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=100.00 E-value=2.7e-40 Score=227.19 Aligned_cols=88 Identities=63% Similarity=1.026 Sum_probs=85.2
Q ss_pred eeEEEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEE
Q 034167 8 TRYLILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLY 87 (102)
Q Consensus 8 ~~vIi~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLy 87 (102)
||||+| ++. ++++|+|||+|||||+++||+||+.+|||||+|++++++|+||||.+|+.+++|++||+++||+|||||
T Consensus 29 iPVIvE-k~~-~~~lp~lDK~KyLVP~dltvgqfi~iIRkRiqL~~~kA~flfVn~~~p~ts~~ms~~Ye~~kdeDgFLY 106 (116)
T KOG1654|consen 29 IPVIVE-KAG-KSQLPDLDKKKYLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFVNNTSPPTSATMSALYEEEKDEDGFLY 106 (116)
T ss_pred CcEEEE-ecc-cccCcccccceeeccccccHHHHHHHHHHHhccChhHeEEEEEcCcCCcchhhHHHHHHhhcccCcEEE
Confidence 799999 444 899999999999999999999999999999999999999999999999889999999999999999999
Q ss_pred EEecCCcccC
Q 034167 88 VTYSGENTFG 97 (102)
Q Consensus 88 l~Ys~~~afG 97 (102)
|+||+|++||
T Consensus 107 m~Ys~e~tfG 116 (116)
T KOG1654|consen 107 MTYSGENTFG 116 (116)
T ss_pred EEeccccccC
Confidence 9999999999
No 2
>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=6.8e-40 Score=223.52 Aligned_cols=89 Identities=55% Similarity=1.000 Sum_probs=78.2
Q ss_pred EeeEEEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeE
Q 034167 7 TTRYLILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFL 86 (102)
Q Consensus 7 ~~~vIi~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfL 86 (102)
-|||||||+.. +++|+|||+|||||+++||+||+.+||+||+++++++|||||||++|+++++||+||++|||+||||
T Consensus 16 ~IPVIvEr~~~--s~lp~ldk~KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~elY~~~kdeDGFL 93 (104)
T PF02991_consen 16 KIPVIVERYPK--SKLPDLDKKKFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGELYEKYKDEDGFL 93 (104)
T ss_dssp EEEEEEEE-TT--SSS---SSSEEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHHHHHHB-TTSSE
T ss_pred ccEEEEEEccC--CChhhcCccEEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHHHHHhCCCCCeE
Confidence 38999999776 4599999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEecCCcccC
Q 034167 87 YVTYSGENTFG 97 (102)
Q Consensus 87 yl~Ys~~~afG 97 (102)
||+||+|++||
T Consensus 94 Y~~Ys~e~tFG 104 (104)
T PF02991_consen 94 YMTYSSEETFG 104 (104)
T ss_dssp EEEEESSSSBC
T ss_pred EEEeccccccC
Confidence 99999999999
No 3
>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=2e-39 Score=223.60 Aligned_cols=89 Identities=62% Similarity=1.061 Sum_probs=86.0
Q ss_pred EeeEEEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeE
Q 034167 7 TTRYLILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFL 86 (102)
Q Consensus 7 ~~~vIi~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfL 86 (102)
-||||+|+.. ++++|+|+|+||+||+++||+||+.+||+||+|++++||||||||++|++|++||+||++|||+||||
T Consensus 24 ~iPVIvE~~~--~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~~kd~DGfL 101 (112)
T cd01611 24 RIPVIVERYP--KSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEEHKDEDGFL 101 (112)
T ss_pred ceEEEEEEcC--CCCcccccCceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHHhCCCCCEE
Confidence 3899999944 58999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEecCCcccC
Q 034167 87 YVTYSGENTFG 97 (102)
Q Consensus 87 yl~Ys~~~afG 97 (102)
||+||+++|||
T Consensus 102 yl~Ys~~~tfG 112 (112)
T cd01611 102 YMTYSSEETFG 112 (112)
T ss_pred EEEEeccccCC
Confidence 99999999999
No 4
>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=1.5e-36 Score=201.12 Aligned_cols=85 Identities=22% Similarity=0.471 Sum_probs=82.4
Q ss_pred EEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCc-CCCCCchHHHHHhhccCCCCeEEEE
Q 034167 11 LILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-LPPTGAIMSAIYEEKKDEDGFLYVT 89 (102)
Q Consensus 11 Ii~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~-lp~~~~~m~~lY~~~kd~DGfLyl~ 89 (102)
|.+|+++ .|++|+|+|+||+||+++|+++|+.+|||||++++++|+||||||+ +|++|++||+||++| |+||||||+
T Consensus 2 v~i~~~~-~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~~dGfLyi~ 79 (87)
T cd01612 2 VTIRFKP-IGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-GTNGELIVS 79 (87)
T ss_pred eEEEEEE-CCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-CCCCEEEEE
Confidence 6789999 8999999999999999999999999999999999999999999996 899999999999999 799999999
Q ss_pred ecCCcccC
Q 034167 90 YSGENTFG 97 (102)
Q Consensus 90 Ys~~~afG 97 (102)
||.++|||
T Consensus 80 Ys~~~afG 87 (87)
T cd01612 80 YCKTVAFG 87 (87)
T ss_pred EeCccccC
Confidence 99999999
No 5
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=100.00 E-value=6.6e-36 Score=208.63 Aligned_cols=86 Identities=23% Similarity=0.434 Sum_probs=80.2
Q ss_pred EeeEEEEEeecCCCCCCCcceeEE-EecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCe
Q 034167 7 TTRYLILSYTNKVSSLPECENYRY-LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGF 85 (102)
Q Consensus 7 ~~~vIi~~~~~~~~~~P~L~k~Kf-lVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGf 85 (102)
-||||||+... ++ +|+|| |||+|+||+||+.+||+||+|++++ +||||||++|+++++||+||++|||+|||
T Consensus 27 rIPVIvEk~~~--s~----dK~KfllVP~d~tV~qF~~iIRkrl~l~~~k-~flfVnn~lp~~s~~mg~lYe~~KDeDGF 99 (121)
T PTZ00380 27 HVAVVVEAAEK--AG----SKVHFLALPRDATVAELEAAVRQALGTSAKK-VTLAIEGSTPAVTATVGDIADACKRDDGF 99 (121)
T ss_pred ccEEEEeecCC--CC----CceEEEEcCCCCcHHHHHHHHHHHcCCChhH-EEEEECCccCCccchHHHHHHHhcCCCCe
Confidence 38999999443 44 89999 6999999999999999999999999 99999999999999999999999999999
Q ss_pred EEEEecCCcccCCC
Q 034167 86 LYVTYSGENTFGSH 99 (102)
Q Consensus 86 Lyl~Ys~~~afG~~ 99 (102)
|||+||+|++||.+
T Consensus 100 LYi~Ys~e~tFG~~ 113 (121)
T PTZ00380 100 LYVSVRTEQAMGAF 113 (121)
T ss_pred EEEEEccccccccc
Confidence 99999999999964
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=99.95 E-value=2.3e-28 Score=162.38 Aligned_cols=85 Identities=21% Similarity=0.495 Sum_probs=64.9
Q ss_pred EEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC-cCCCCCchHHHHHhhccCCCCeEEEE
Q 034167 11 LILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN-VLPPTGAIMSAIYEEKKDEDGFLYVT 89 (102)
Q Consensus 11 Ii~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn-~lp~~~~~m~~lY~~~kd~DGfLyl~ 89 (102)
|.+|+++ .|++|.|+++||.|.++.|++.++.+|||+|+++++++||+|||| +.|++|+++|+||+||+ .||.|.++
T Consensus 2 V~v~fk~-iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~-~~~~Liv~ 79 (87)
T PF04110_consen 2 VTVRFKA-IGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFG-TNGELIVS 79 (87)
T ss_dssp EEEEEEE-ETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH--BTTBEEEE
T ss_pred EEEEEEe-cCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhC-CCCEEEEE
Confidence 6789999 899999999999999999999999999999999999999999998 69999999999999998 89999999
Q ss_pred ecCCcccC
Q 034167 90 YSGENTFG 97 (102)
Q Consensus 90 Ys~~~afG 97 (102)
||.++|||
T Consensus 80 Ys~t~A~G 87 (87)
T PF04110_consen 80 YSKTPAWG 87 (87)
T ss_dssp EESSS---
T ss_pred EecccccC
Confidence 99999999
No 7
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=6.6e-27 Score=161.00 Aligned_cols=88 Identities=22% Similarity=0.442 Sum_probs=84.7
Q ss_pred eeEEEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC-cCCCCCchHHHHHhhccCCCCeE
Q 034167 8 TRYLILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN-VLPPTGAIMSAIYEEKKDEDGFL 86 (102)
Q Consensus 8 ~~vIi~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn-~lp~~~~~m~~lY~~~kd~DGfL 86 (102)
+.-|.+|+++ .|++|.|+++||.|+.+.||+.++.+|||+|+|+++++||+|||| ++|++|+.+|+||+||+ .||.|
T Consensus 28 ~~kV~i~l~a-iG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~cf~-~d~~L 105 (116)
T KOG3439|consen 28 IRKVQIRLRA-IGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYECFG-TDGKL 105 (116)
T ss_pred cceEEEEEec-cCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHhcC-CCCEE
Confidence 4678899999 899999999999999999999999999999999999999999998 58999999999999998 79999
Q ss_pred EEEecCCcccC
Q 034167 87 YVTYSGENTFG 97 (102)
Q Consensus 87 yl~Ys~~~afG 97 (102)
.++||..+|||
T Consensus 106 vl~Yc~s~A~G 116 (116)
T KOG3439|consen 106 VLNYCISVAWG 116 (116)
T ss_pred EEEEeeecccC
Confidence 99999999999
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=95.80 E-value=0.017 Score=42.93 Aligned_cols=56 Identities=16% Similarity=0.265 Sum_probs=32.9
Q ss_pred cchHhHHHHHHHHh--cCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEec
Q 034167 36 LTVGQFVYVIRKRI--KLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 91 (102)
Q Consensus 36 ~tv~~f~~~lRk~L--~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys 91 (102)
.|+++++..+=..+ .-+......+++++-.++.|+.+..||++++-.||||||.-+
T Consensus 138 ~TL~d~L~~~lp~~f~s~~~~~~~~~iihGI~ipldtpl~~l~~~l~~~D~FLhivv~ 195 (197)
T PF04106_consen 138 QTLGDALSELLPELFPSSDEPELARVIIHGIEIPLDTPLQWLYENLSYPDGFLHIVVR 195 (197)
T ss_dssp -BTGGGHHHHHTTT--T------EEEEETTEEE-TTSBHHHHHHHH--TTS-EEEEEE
T ss_pred CcHHHHHHHhChhhcccccCccccEEEEeCeeCCCCCcHHHHHHHccCCCCeEEEEEE
Confidence 46666554432211 112344557788887788899999999999999999999753
No 9
>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=94.82 E-value=0.38 Score=32.25 Aligned_cols=66 Identities=18% Similarity=0.264 Sum_probs=43.9
Q ss_pred EEEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHh-cCCCcceEEEEEcCcCCCCCchHHHHHhhc
Q 034167 10 YLILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRI-KLSAEKAIFIFVDNVLPPTGAIMSAIYEEK 79 (102)
Q Consensus 10 vIi~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L-~l~~~~slFlyVnn~lp~~~~~m~~lY~~~ 79 (102)
.|++||.+ .+|+|.=. +--|.+.|+.++...||.++ .-.++..|=|.-++.+.+.++.++..-...
T Consensus 2 ~l~IRFs~---sipDl~L~-I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l~~~ 68 (97)
T PF10302_consen 2 YLTIRFSD---SIPDLPLD-IPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSELKLP 68 (97)
T ss_pred eEEEEECC---CCCCceee-cCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhhccc
Confidence 57899998 57775411 01448899999999999999 445567775555666555555554444433
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=94.47 E-value=0.14 Score=31.22 Aligned_cols=50 Identities=12% Similarity=0.185 Sum_probs=40.0
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHH
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAI 75 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~l 75 (102)
+..+|.|..+.+++.++...+++.++++.+++-|+.++....+++|++++
T Consensus 11 ~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~ 60 (72)
T PF11976_consen 11 KEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDL 60 (72)
T ss_dssp EEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHH
T ss_pred CEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHC
Confidence 57788999999999999999999999986677777777655666677765
No 11
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=92.39 E-value=0.27 Score=39.78 Aligned_cols=75 Identities=23% Similarity=0.224 Sum_probs=60.7
Q ss_pred CCCCCCcceeEEE-ecCCcchHhHHHHHHHHhc-CCCcceEEEEEcCcCCCCCchHHHHHhhccC--CCCeEEEEecCCc
Q 034167 19 VSSLPECENYRYL-VPADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLPPTGAIMSAIYEEKKD--EDGFLYVTYSGEN 94 (102)
Q Consensus 19 ~~~~P~L~k~Kfl-Vp~~~tv~~f~~~lRk~L~-l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd--~DGfLyl~Ys~~~ 94 (102)
.+.++.|. ++|+ ++...|+.++..++|+++. ++....+=+++|+-+..-+.||.++.-.+.. .||-|-+.|...+
T Consensus 157 ~~~~k~l~-~~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~i~~~~~~~~r~~pL~l~y~v~p 235 (331)
T KOG2660|consen 157 KDTLKDLV-RRFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKDIAYAYRWRSRDPPLPLRYRVKP 235 (331)
T ss_pred cccccccc-cceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhhhhhhhcccccCCcceeEecccc
Confidence 34566666 6787 8999999999999999998 7766667777887788889999988877766 4999999998443
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=92.37 E-value=0.55 Score=30.83 Aligned_cols=55 Identities=20% Similarity=0.306 Sum_probs=41.6
Q ss_pred EecCCcchHhHHHHHHHHhcCCCcceEEEEEc----C-cCCCCCchHHHHHhhccCCCCeEEE
Q 034167 31 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD----N-VLPPTGAIMSAIYEEKKDEDGFLYV 88 (102)
Q Consensus 31 lVp~~~tv~~f~~~lRk~L~l~~~~slFlyVn----n-~lp~~~~~m~~lY~~~kd~DGfLyl 88 (102)
-||.+.+++|+..-|++||++++ +.+.|.-- + ..|-.|+.|.....+=+ ||-|=+
T Consensus 16 rvp~~~~y~~L~~ki~~kLkl~~-e~i~LsYkde~s~~~v~l~d~dle~aws~~~--~~~lTL 75 (80)
T cd06406 16 QVARGLSYATLLQKISSKLELPA-EHITLSYKSEASGEDVILSDTNMEDVWSQAK--DGCLTL 75 (80)
T ss_pred EcCCCCCHHHHHHHHHHHhCCCc-hhcEEEeccCCCCCccCcChHHHHHHHHhhc--CCeEEE
Confidence 38999999999999999999984 45666543 1 24557888999888876 565533
No 13
>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=91.37 E-value=2.1 Score=34.00 Aligned_cols=64 Identities=16% Similarity=0.265 Sum_probs=55.5
Q ss_pred EEEecCCcchHhHHHHHHHHh--------------cCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEecC
Q 034167 29 RYLVPADLTVGQFVYVIRKRI--------------KLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSG 92 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L--------------~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys~ 92 (102)
|.-.+.-+.|..+..++-.|+ .+.+++.|=|+||+.+.+++++|+.+-..+=-..|-|.+.|..
T Consensus 251 rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 251 RLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred eecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEe
Confidence 888899999999999999999 4578899999999998888999999988833367899999964
No 14
>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=89.90 E-value=0.47 Score=30.63 Aligned_cols=70 Identities=19% Similarity=0.223 Sum_probs=37.7
Q ss_pred EEEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC--c--CC-CCCchHHHHHhhccCCCC
Q 034167 10 YLILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN--V--LP-PTGAIMSAIYEEKKDEDG 84 (102)
Q Consensus 10 vIi~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn--~--lp-~~~~~m~~lY~~~kd~DG 84 (102)
-+|+|++.+.| -.+.-++.+.|++++..-|.+.++++.. +..||.|. . +. +.+.+++++==+|+|
T Consensus 4 ~milRvrS~dG------~~Rie~~~~~t~~~L~~kI~~~l~~~~~-~~~L~~~~~~~~~l~s~~~~tl~~lglkHGd--- 73 (80)
T PF11543_consen 4 SMILRVRSKDG------MKRIEVSPSSTLSDLKEKISEQLSIPDS-SQSLSKDRNNKEELKSSDSKTLSSLGLKHGD--- 73 (80)
T ss_dssp --EEEEE-SSE------EEEEEE-TTSBHHHHHHHHHHHS---TT-T---BSSGGGGGCSSS-TT-CCCCT---TT----
T ss_pred cEEEEEECCCC------CEEEEcCCcccHHHHHHHHHHHcCCCCc-ceEEEecCCCCcccccCCcCCHHHcCCCCcc---
Confidence 46889888653 3445689999999999999999998855 45566653 2 32 456677777666653
Q ss_pred eEEEE
Q 034167 85 FLYVT 89 (102)
Q Consensus 85 fLyl~ 89 (102)
.||+.
T Consensus 74 mlyL~ 78 (80)
T PF11543_consen 74 MLYLK 78 (80)
T ss_dssp EEE--
T ss_pred EEEEe
Confidence 66653
No 15
>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=89.01 E-value=3 Score=25.64 Aligned_cols=53 Identities=8% Similarity=0.155 Sum_probs=40.7
Q ss_pred EEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHh-cCCCcceEEEEEcCc
Q 034167 11 LILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRI-KLSAEKAIFIFVDNV 64 (102)
Q Consensus 11 Ii~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L-~l~~~~slFlyVnn~ 64 (102)
|.++|..+.++ .......+.||.+.|..++...+.+-| ...+....=+++|+.
T Consensus 2 v~v~F~t~~~~-~~~~~~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~ 55 (65)
T PF08154_consen 2 VQVQFVTEDGE-YEVPGTPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGE 55 (65)
T ss_pred EEEEEEcCCCC-ccCCCCCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCE
Confidence 45677776664 456668899999999999999999998 566566666677774
No 16
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=88.77 E-value=1.9 Score=24.81 Aligned_cols=47 Identities=11% Similarity=0.057 Sum_probs=34.3
Q ss_pred eeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHH
Q 034167 27 NYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 74 (102)
Q Consensus 27 k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~ 74 (102)
...+-|+.+.|++++...|.++.+++++. .=|+.++.....+.++++
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~~-~~L~~~g~~L~d~~tL~~ 57 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVEQ-QRLIYKGKVLEDDRTLAD 57 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHHH-EEEEECCEECCCCCCHHH
Confidence 44567999999999999999999998753 334456655555566654
No 17
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=88.73 E-value=2.4 Score=22.54 Aligned_cols=40 Identities=20% Similarity=0.322 Sum_probs=31.1
Q ss_pred CcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCc
Q 034167 24 ECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV 64 (102)
Q Consensus 24 ~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~ 64 (102)
.-...++.++.+.|++++...+.++.+.. .+...|++|..
T Consensus 6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~-~~~~~l~~~~~ 45 (69)
T cd00196 6 DGKTVELLVPSGTTVADLKEKLAKKLGLP-PEQQRLLVNGK 45 (69)
T ss_pred CCCEEEEEcCCCCcHHHHHHHHHHHHCcC-hHHeEEEECCe
Confidence 34667788899999999999999999854 44556677764
No 18
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=86.98 E-value=5.5 Score=29.29 Aligned_cols=63 Identities=16% Similarity=0.392 Sum_probs=48.5
Q ss_pred eeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEc-C-cC-CCCCchHHHHHhhccCCCCeEEEEe
Q 034167 27 NYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD-N-VL-PPTGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 27 k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVn-n-~l-p~~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
..-+-+|.+.|++++...|..++.......++|+++ | .+ +..+..+.++.....+. +|+.+..
T Consensus 16 tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~-~~~~l~l 81 (162)
T PF13019_consen 16 TLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDS-DFITLRL 81 (162)
T ss_pred eEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCC-CceEEEE
Confidence 344569999999999999999999998877888886 4 34 56777888888877643 5765554
No 19
>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=86.92 E-value=3.5 Score=26.82 Aligned_cols=61 Identities=13% Similarity=0.116 Sum_probs=45.2
Q ss_pred CCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccC
Q 034167 21 SLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKD 81 (102)
Q Consensus 21 ~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd 81 (102)
+=|.+--+.+-||++..+..++.+--+..+.++..+.-+--++.--.+.++-|+++-+|+.
T Consensus 11 sDp~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGs 71 (76)
T PF03671_consen 11 SDPKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGS 71 (76)
T ss_dssp TSSTS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-S
T ss_pred cCCCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCc
Confidence 4466677888899999999999999999999998884332223456788999999999974
No 20
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=83.83 E-value=4.6 Score=25.85 Aligned_cols=49 Identities=12% Similarity=0.167 Sum_probs=38.7
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHH
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAI 75 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~l 75 (102)
+...|.|..+.+++.+...+.++.++++++--|+| ++.....+.|+.++
T Consensus 22 ~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f-~G~~L~~~~T~~~l 70 (87)
T cd01763 22 NEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLF-DGQRIRDNQTPDDL 70 (87)
T ss_pred CEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEE-CCeECCCCCCHHHc
Confidence 55678899999999999999999999987665666 55544556677776
No 21
>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=81.25 E-value=2.7 Score=25.06 Aligned_cols=47 Identities=15% Similarity=0.140 Sum_probs=37.0
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHH
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAI 75 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~l 75 (102)
..+-|+.+.|++++...|.++.++++++- -|+.++.....+.+++++
T Consensus 8 ~~~~v~~~~tV~~lK~~i~~~~~~~~~~~-~L~~~G~~L~d~~tL~~~ 54 (69)
T PF00240_consen 8 FTLEVDPDDTVADLKQKIAEETGIPPEQQ-RLIYNGKELDDDKTLSDY 54 (69)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTSTGGGE-EEEETTEEESTTSBTGGG
T ss_pred EEEEECCCCCHHHhhhhcccccccccccc-eeeeeeecccCcCcHHHc
Confidence 44569999999999999999999887654 445577655778888765
No 22
>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=77.36 E-value=14 Score=22.54 Aligned_cols=64 Identities=16% Similarity=0.152 Sum_probs=47.4
Q ss_pred ceeEEEec-CCcchHhHHHHHHHHhcCCCcceEEEEEcC--c--CCCCCchHHHHHhhccC-CCCeEEEE
Q 034167 26 ENYRYLVP-ADLTVGQFVYVIRKRIKLSAEKAIFIFVDN--V--LPPTGAIMSAIYEEKKD-EDGFLYVT 89 (102)
Q Consensus 26 ~k~KflVp-~~~tv~~f~~~lRk~L~l~~~~slFlyVnn--~--lp~~~~~m~~lY~~~kd-~DGfLyl~ 89 (102)
+...|.++ .+.++.+|...|++++++....-.+=|.++ - ..+.++.+.+..+.++. .++.|.+.
T Consensus 10 ~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~~~~~~l~l~ 79 (81)
T cd05992 10 EIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSDEDLEEAIEEARRSGSKKLRLF 79 (81)
T ss_pred CCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhhcCCccEEEE
Confidence 45678888 999999999999999999864445556753 2 34667888888888864 45565553
No 23
>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=76.42 E-value=11 Score=22.49 Aligned_cols=58 Identities=9% Similarity=0.042 Sum_probs=40.4
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCC-CeEEEEec
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDED-GFLYVTYS 91 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~D-GfLyl~Ys 91 (102)
.+-|+.+.|++++...|.++.++++++--++ .++.....+.++++. .-.| -.|++...
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 3569999999999999999999987643333 566555566777663 2333 37777654
No 24
>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=75.50 E-value=6.3 Score=24.61 Aligned_cols=46 Identities=15% Similarity=0.080 Sum_probs=36.4
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCcceEEEE--EcCcCCCCCchHHHH
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIF--VDNVLPPTGAIMSAI 75 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~~slFly--Vnn~lp~~~~~m~~l 75 (102)
.-|+.+.|+++|...|..+.+++++.-=.+| +.+.++..+.+++++
T Consensus 14 v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~ 61 (74)
T cd01813 14 VTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISAL 61 (74)
T ss_pred EEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHc
Confidence 3488999999999999999999886554555 345677778888876
No 25
>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=74.20 E-value=8.5 Score=24.86 Aligned_cols=54 Identities=22% Similarity=0.300 Sum_probs=39.2
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEE-EEcC--c--CCCCCchHHHHHhhc
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFI-FVDN--V--LPPTGAIMSAIYEEK 79 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFl-yVnn--~--lp~~~~~m~~lY~~~ 79 (102)
+...|.+|.+.++.++...|++|+++.+.+.+-| |.++ - ..+.|+-+.+..+-+
T Consensus 10 d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~ 68 (82)
T cd06407 10 EKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVY 68 (82)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHH
Confidence 5678899999999999999999999976445544 6653 2 346666666544333
No 26
>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=72.63 E-value=19 Score=22.02 Aligned_cols=56 Identities=20% Similarity=0.277 Sum_probs=44.0
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC---c-CCCCCchHHHHHhhccC
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN---V-LPPTGAIMSAIYEEKKD 81 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn---~-lp~~~~~m~~lY~~~kd 81 (102)
+...|.+|.+.|+.+|..-|++++++..+.-..-|.++ . ..+.++-+....+.++.
T Consensus 11 ~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~ 70 (81)
T smart00666 11 ETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDS 70 (81)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHHHHHHHHHH
Confidence 56778899999999999999999998865555567764 2 34677788888887764
No 27
>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=71.74 E-value=17 Score=20.94 Aligned_cols=58 Identities=16% Similarity=0.164 Sum_probs=38.6
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEe
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
.+.++.+.|++++...|.++.+++++.--+ ..|+.....+.++++ |.- + ++..+++..
T Consensus 11 ~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l-~~~g~~l~d~~~l~~-~~v-~-~~~~i~v~~ 68 (69)
T cd01769 11 ELEVSPDDTVAELKAKIAAKEGVPPEQQRL-IYAGKILKDDKTLSD-YGI-Q-DGSTLHLVL 68 (69)
T ss_pred EEEECCCChHHHHHHHHHHHHCcChHHEEE-EECCcCCCCcCCHHH-CCC-C-CCCEEEEEE
Confidence 467899999999999999999988764333 446654456666655 222 1 344666643
No 28
>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=70.98 E-value=16 Score=21.91 Aligned_cols=57 Identities=12% Similarity=0.142 Sum_probs=40.3
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEE
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVT 89 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~ 89 (102)
.+-|+++.|++++...|.++.++++++ .-|+.++.....+.++++ |.-. ++-.|++.
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 345889999999999999999997654 455566665566788887 4332 23355553
No 29
>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=70.37 E-value=27 Score=22.80 Aligned_cols=62 Identities=18% Similarity=0.243 Sum_probs=47.8
Q ss_pred ceeEEEecC--CcchHhHHHHHHHHhcCCCcceEEE-EEcC----cCCCCCchHHHHHhhccCCCCeEEEEe
Q 034167 26 ENYRYLVPA--DLTVGQFVYVIRKRIKLSAEKAIFI-FVDN----VLPPTGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 26 ~k~KflVp~--~~tv~~f~~~lRk~L~l~~~~slFl-yVnn----~lp~~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
+...|.++. +.++.++.+-++++.+++ ++-+ |++. .+.+.++.+.+.++.+......|-|+-
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 667899988 779999999999999999 4433 6653 256778888888888766666776654
No 30
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=68.69 E-value=18 Score=21.57 Aligned_cols=59 Identities=12% Similarity=0.154 Sum_probs=39.6
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEec
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 91 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys 91 (102)
.+-|+.+.|++++...|.++.++++++- =|+.++.....+.++++ |.-. ++.-+++...
T Consensus 14 ~~~v~~~~tV~~lK~~i~~~~g~~~~~q-~L~~~g~~L~d~~~L~~-~~i~--~~~~i~l~~~ 72 (76)
T cd01803 14 TLEVEPSDTIENVKAKIQDKEGIPPDQQ-RLIFAGKQLEDGRTLSD-YNIQ--KESTLHLVLR 72 (76)
T ss_pred EEEECCcCcHHHHHHHHHHHhCCCHHHe-EEEECCEECCCCCcHHH-cCCC--CCCEEEEEEE
Confidence 4669999999999999999999876532 23356655556667766 3221 2346666654
No 31
>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=68.12 E-value=14 Score=24.55 Aligned_cols=57 Identities=16% Similarity=0.260 Sum_probs=40.0
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCC--CcceEEEEEcCc--CCCCCc----hHHHHHhhccCCCC
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLS--AEKAIFIFVDNV--LPPTGA----IMSAIYEEKKDEDG 84 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~--~~~slFlyVnn~--lp~~~~----~m~~lY~~~kd~DG 84 (102)
+-..|+.+.|..++-...-.+.++. ++-+||+|+++. ..++|+ .=++|-..-.-.++
T Consensus 16 KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd~~Pq~ika~L~~~~~~~~f 80 (87)
T cd01776 16 KTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPDTYPQRIKAELHSRPQPNTF 80 (87)
T ss_pred eeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCcccccceechhhccCCCCcce
Confidence 3456999999999999999999875 467999999973 333333 33556555443443
No 32
>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=67.97 E-value=20 Score=21.79 Aligned_cols=45 Identities=9% Similarity=0.138 Sum_probs=33.9
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHH
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 74 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~ 74 (102)
.+-|+.+.|++++...|..+-++++++ .-|+.++.....+.++++
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 355899999999999999999998753 344567765566667654
No 33
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=67.54 E-value=22 Score=20.94 Aligned_cols=47 Identities=13% Similarity=0.183 Sum_probs=33.8
Q ss_pred eeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHH
Q 034167 27 NYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 74 (102)
Q Consensus 27 k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~ 74 (102)
...+-++.+.|++++...|.++.+++++.- =|..++.....+.++++
T Consensus 12 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q-~L~~~g~~L~d~~~L~~ 58 (72)
T cd01809 12 THTFTVEEEITVLDLKEKIAEEVGIPVEQQ-RLIYSGRVLKDDETLSE 58 (72)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCcCHHHe-EEEECCEECCCcCcHHH
Confidence 345678999999999999999999876532 23346665555667665
No 34
>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=66.73 E-value=8.8 Score=29.30 Aligned_cols=61 Identities=16% Similarity=0.316 Sum_probs=36.7
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEc---Cc--CCCCCchHHHHHhhccCCCCeEEEEecC
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD---NV--LPPTGAIMSAIYEEKKDEDGFLYVTYSG 92 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVn---n~--lp~~~~~m~~lY~~~kd~DGfLyl~Ys~ 92 (102)
.+.|+.+.+++++...|+++++++++..|-+|-. +. ...++.++.+ .+-.| ...|+.+-..
T Consensus 88 h~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~--~el~~-GdIi~fQ~~~ 153 (249)
T PF12436_consen 88 HVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEK--AELQD-GDIICFQRAP 153 (249)
T ss_dssp EEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHH--TT--T-TEEEEEEE--
T ss_pred EEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhh--cccCC-CCEEEEEecc
Confidence 4579999999999999999999999999988874 22 1256667776 22222 2266666543
No 35
>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=66.03 E-value=31 Score=22.31 Aligned_cols=75 Identities=19% Similarity=0.191 Sum_probs=44.8
Q ss_pred eEEEEEeecCCCCCCCcceeEEEecC--CcchHhHHHHHHHH--hcCC-CcceEEEEEcCcCCCCCchHHHHHhhccCCC
Q 034167 9 RYLILSYTNKVSSLPECENYRYLVPA--DLTVGQFVYVIRKR--IKLS-AEKAIFIFVDNVLPPTGAIMSAIYEEKKDED 83 (102)
Q Consensus 9 ~vIi~~~~~~~~~~P~L~k~KflVp~--~~tv~~f~~~lRk~--L~l~-~~~slFlyVnn~lp~~~~~m~~lY~~~kd~D 83 (102)
|..|-.|++ |+... ...++.|++ -.|+.+|+..|.+. |.+. .-..|| - |.. ..+.+|=| . +|
T Consensus 5 ~k~i~~~rN--GD~~~-~g~~~~v~~~~~~s~d~lL~~lt~~v~l~~~~~Vr~ly--t----~~G-~~v~~l~~-l--~~ 71 (89)
T smart00537 5 PKRIRFYRN--GDRFF-KGVRLVVNRKRFKSFEALLQDLTEVVKLDLPHGVRKLY--T----LDG-KKVTSLDE-L--ED 71 (89)
T ss_pred ceEEEEEeC--CCCCC-CCEEEEEChhhcCCHHHHHHHHhhhcccCCCCCeeEEE--c----CCC-CEECCHHH-h--Cc
Confidence 556666666 44433 678889986 45899999999994 4444 223333 1 221 12222211 2 47
Q ss_pred CeEEEEecCCcccC
Q 034167 84 GFLYVTYSGENTFG 97 (102)
Q Consensus 84 GfLyl~Ys~~~afG 97 (102)
|--|++.+.| .|.
T Consensus 72 g~~yVa~g~e-~fk 84 (89)
T smart00537 72 GGSYVASGTE-AFK 84 (89)
T ss_pred CCEEEEEcCC-cce
Confidence 8899998877 554
No 36
>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=64.69 E-value=18 Score=23.90 Aligned_cols=53 Identities=13% Similarity=0.180 Sum_probs=36.4
Q ss_pred ceeEEEecC-----CcchHhHHHHHHHHhcCCCcceEE-EEEcC--c--CCCCCchHHHHHhh
Q 034167 26 ENYRYLVPA-----DLTVGQFVYVIRKRIKLSAEKAIF-IFVDN--V--LPPTGAIMSAIYEE 78 (102)
Q Consensus 26 ~k~KflVp~-----~~tv~~f~~~lRk~L~l~~~~slF-lyVnn--~--lp~~~~~m~~lY~~ 78 (102)
+..+|.+|. +.++.++..-|++++++++...+- -|-+. . ....|.-+.+.-+.
T Consensus 10 ~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~ 72 (91)
T cd06398 10 TLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQY 72 (91)
T ss_pred EEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHH
Confidence 456778885 799999999999999998744443 35543 2 23555555555555
No 37
>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=63.76 E-value=30 Score=20.88 Aligned_cols=58 Identities=17% Similarity=0.213 Sum_probs=38.2
Q ss_pred eEEEecCCcchHhHHHHHHHHhcC--CCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEE
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKL--SAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVT 89 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l--~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~ 89 (102)
..+=|+.+.|++++...|..+.++ ++++ .=|..++.....+.++++ |.- + ++..|++.
T Consensus 13 ~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~-q~L~~~G~~L~d~~~L~~-~~i-~-~~~~i~~~ 72 (77)
T cd01805 13 FPIEVDPDDTVAELKEKIEEEKGCDYPPEQ-QKLIYSGKILKDDTTLEE-YKI-D-EKDFVVVM 72 (77)
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCCCChhH-eEEEECCEEccCCCCHHH-cCC-C-CCCEEEEE
Confidence 345589999999999999999888 5543 334456665556667766 322 1 23366654
No 38
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=62.72 E-value=27 Score=21.47 Aligned_cols=49 Identities=14% Similarity=0.095 Sum_probs=35.8
Q ss_pred eeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHh
Q 034167 27 NYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYE 77 (102)
Q Consensus 27 k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~ 77 (102)
...+-|+++.||+++...|..+-++++++- =|+.++.....+.++++ |.
T Consensus 10 ~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q-~Li~~G~~L~D~~~l~~-~~ 58 (70)
T cd01794 10 DVKLSVSSKDTVGQLKKQLQAAEGVDPCCQ-RWFFSGKLLTDKTRLQE-TK 58 (70)
T ss_pred EEEEEECCcChHHHHHHHHHHHhCCCHHHe-EEEECCeECCCCCCHHH-cC
Confidence 344568999999999999999988887532 22345666667788877 43
No 39
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=61.27 E-value=13 Score=24.69 Aligned_cols=46 Identities=17% Similarity=0.244 Sum_probs=30.3
Q ss_pred ecCCcchHhHHHHHHHHhcCCCcceEEEEEc-Cc---CCCCCchHHH--HHh
Q 034167 32 VPADLTVGQFVYVIRKRIKLSAEKAIFIFVD-NV---LPPTGAIMSA--IYE 77 (102)
Q Consensus 32 Vp~~~tv~~f~~~lRk~L~l~~~~slFlyVn-n~---lp~~~~~m~~--lY~ 77 (102)
..+..|++.+...+|+.+.++.+-.|.-+-+ |+ +-.++.|+.+ ||+
T Consensus 20 FSk~DTI~~v~~~~rklf~i~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~ 71 (88)
T PF14836_consen 20 FSKTDTIGFVEKEMRKLFNIQEETRLWNKYSENSYELLNNPEITVEDAGLYD 71 (88)
T ss_dssp E-TTSBHHHHHHHHHHHCT-TS-EEEEEECTTTCEEEE--TTSBTTTTT--T
T ss_pred ccccChHHHHHHHHHHHhCCCccceehhccCCcchhhhCCCCccHHHccCcC
Confidence 6788999999999999999977777877655 33 4466667755 544
No 40
>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=60.96 E-value=42 Score=21.61 Aligned_cols=64 Identities=13% Similarity=0.109 Sum_probs=42.3
Q ss_pred ceeEEEe--cCCcchHhHHHHHHHHhc-CCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEe
Q 034167 26 ENYRYLV--PADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 26 ~k~KflV--p~~~tv~~f~~~lRk~L~-l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
++.-|-| +.+.||+++...|....+ ..+.+..=|.-.+++...++++++..++-+ +.--+++-|
T Consensus 12 ~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~-~~~tiHLV~ 78 (79)
T cd01790 12 KYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQD-EYHMVHLVC 78 (79)
T ss_pred CeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhccc-CCceEEEEe
Confidence 3434666 789999999999988764 232233333345566688899999987754 333556554
No 41
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=60.67 E-value=8.1 Score=28.80 Aligned_cols=50 Identities=22% Similarity=0.427 Sum_probs=29.7
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCc--ceEEEE-E-cCc---CCCCCchHHHH
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAE--KAIFIF-V-DNV---LPPTGAIMSAI 75 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~--~slFly-V-nn~---lp~~~~~m~~l 75 (102)
+.-.++||++-||++++..++++++++++ ..|-++ + |+. ..+.+..+++|
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 56778999999999999999999998764 344332 3 333 56788888888
No 42
>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=59.14 E-value=19 Score=21.99 Aligned_cols=57 Identities=14% Similarity=0.181 Sum_probs=35.7
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEE
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYV 88 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl 88 (102)
..-|+++.|++++...|..+-++++++- -|+.++.....+...-+-|. -+ ++.+|++
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~gip~~~q-~Li~~Gk~L~D~~~~L~~~g-i~-~~~~l~l 69 (71)
T cd01796 13 SLDVDPDLELENFKALCEAESGIPASQQ-QLIYNGRELVDNKRLLALYG-VK-DGDLVVL 69 (71)
T ss_pred EEEECCcCCHHHHHHHHHHHhCCCHHHe-EEEECCeEccCCcccHHHcC-CC-CCCEEEE
Confidence 3558999999999999999999987543 34445543343323333332 22 3457665
No 43
>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=58.59 E-value=39 Score=20.52 Aligned_cols=58 Identities=14% Similarity=0.219 Sum_probs=41.4
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEec
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 91 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys 91 (102)
+-|..+.|++++...|..+-++++++ .-|+.++.....+.++++ |.- + ++-.|++.-.
T Consensus 13 l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~~G~~L~D~~tL~~-~~i-~-~~~tl~l~~~ 70 (74)
T cd01810 13 YEVQLTQTVATLKQQVSQRERVQADQ-FWLSFEGRPMEDEHPLGE-YGL-K-PGCTVFMNLR 70 (74)
T ss_pred EEECCcChHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCCHHH-cCC-C-CCCEEEEEEE
Confidence 56899999999999999998887653 334456666667788887 433 3 3447877643
No 44
>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=56.28 E-value=40 Score=19.86 Aligned_cols=45 Identities=4% Similarity=0.068 Sum_probs=30.9
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHH
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 74 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~ 74 (102)
.+-|+.+.|++++...|.++-+++++. .=|+.++.....+.++++
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 355899999999999999998988653 223345543344555544
No 45
>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=56.17 E-value=44 Score=20.34 Aligned_cols=52 Identities=17% Similarity=0.254 Sum_probs=42.4
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC-c---CCCCCchHHHHHhhccC
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN-V---LPPTGAIMSAIYEEKKD 81 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn-~---lp~~~~~m~~lY~~~kd 81 (102)
+-++.+.++.+|...|++++++.+.+--+-|.+. . ..+.++.+.+..+.++.
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 7799999999999999999999877777778863 2 34777888888888764
No 46
>PTZ00044 ubiquitin; Provisional
Probab=54.52 E-value=46 Score=20.02 Aligned_cols=45 Identities=11% Similarity=0.104 Sum_probs=32.5
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCCCc-ceEEEEEcCcCCCCCchHHH
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLSAE-KAIFIFVDNVLPPTGAIMSA 74 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~~~-~slFlyVnn~lp~~~~~m~~ 74 (102)
..+-|..+.|++++...|.++.+++++ +.|+ .++.....+.++++
T Consensus 13 ~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~--~~g~~L~d~~~l~~ 58 (76)
T PTZ00044 13 QSFNFEPDNTVQQVKMALQEKEGIDVKQIRLI--YSGKQMSDDLKLSD 58 (76)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE--ECCEEccCCCcHHH
Confidence 346689999999999999999999875 4444 45544445556643
No 47
>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=53.87 E-value=48 Score=20.11 Aligned_cols=61 Identities=15% Similarity=0.046 Sum_probs=42.4
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEe
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
+...+-|.++.|++++...|..+-++++++- -|+.++.....+.++++ |.-- ++--|++.-
T Consensus 9 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q-~Li~~Gk~L~D~~tL~~-~~i~--~~~tl~l~~ 69 (74)
T cd01793 9 NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQ-VLLLAGVPLEDDATLGQ-CGVE--ELCTLEVAG 69 (74)
T ss_pred CEEEEEECCcCcHHHHHHHHHhhhCCCHHHE-EEEECCeECCCCCCHHH-cCCC--CCCEEEEEE
Confidence 3455679999999999999999988876543 44456666667788877 5432 233555543
No 48
>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=53.40 E-value=48 Score=19.91 Aligned_cols=58 Identities=12% Similarity=0.180 Sum_probs=38.6
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEe
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
.+-|..+.|++++...|.++.+++++ .+-|..++.....+.++++. . -+ ++..|+|.-
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~~-~~~Li~~Gk~L~d~~tL~~~-~-i~-~~stl~l~~ 70 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQE-QLVLIFAGKILKDTDTLTQH-N-IK-DGLTVHLVI 70 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHH-HEEEEECCeEcCCCCcHHHc-C-CC-CCCEEEEEE
Confidence 46689999999999999988887654 33343455555556676553 1 22 455787753
No 49
>KOG2976 consensus Protein involved in autophagy and nutrient starvation [Posttranslational modification, protein turnover, chaperones]
Probab=52.98 E-value=37 Score=27.00 Aligned_cols=54 Identities=17% Similarity=0.342 Sum_probs=36.5
Q ss_pred CcchHhHHHHHHHHhc--CC------CcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEe
Q 034167 35 DLTVGQFVYVIRKRIK--LS------AEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 35 ~~tv~~f~~~lRk~L~--l~------~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
|-..+.+=.++.+++. ++ .++. +.+.+--++....+..+|++....|||||++.
T Consensus 212 d~~~stlge~l~d~~~~s~~s~d~~~~~~~--viihGIei~l~tpL~~l~~~L~ypD~FLHI~l 273 (278)
T KOG2976|consen 212 DGSLSTLGEFLKDRLPDSLDSKDDINGNDP--VIIHGIEIPLHTPLYWLYSNLSYPDGFLHIVL 273 (278)
T ss_pred chhhhhhhHHHHhhcccccCccccccccCc--eEEecccccccchHHHHHhhccCCCcceEEEE
Confidence 4445555556667764 22 2232 33444446778899999999999999999975
No 50
>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=52.94 E-value=47 Score=20.08 Aligned_cols=36 Identities=8% Similarity=0.061 Sum_probs=30.7
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEE
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFV 61 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyV 61 (102)
....|-|+++.|+.++...+.++|+|.+.+-.=|.+
T Consensus 7 ~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 7 TTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp EEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred CcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 456688999999999999999999999877665656
No 51
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=52.47 E-value=54 Score=20.28 Aligned_cols=59 Identities=10% Similarity=0.097 Sum_probs=38.6
Q ss_pred EecCCcchHhHHHHHHHHhcCCCc-ceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEecC
Q 034167 31 LVPADLTVGQFVYVIRKRIKLSAE-KAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSG 92 (102)
Q Consensus 31 lVp~~~tv~~f~~~lRk~L~l~~~-~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys~ 92 (102)
-|+.+.||+++...|.++.+++++ +.|.+..++.....+.++++ |. -+ ++..|++.-+.
T Consensus 18 ~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~-~g-i~-~gs~l~l~~~~ 77 (80)
T cd01792 18 SLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVS-QG-LG-PGSTVLLVVQN 77 (80)
T ss_pred EcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHH-cC-CC-CCCEEEEEEEc
Confidence 478899999999999998888754 44432224455555666765 32 22 45588877553
No 52
>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=52.38 E-value=13 Score=25.76 Aligned_cols=51 Identities=18% Similarity=0.264 Sum_probs=33.3
Q ss_pred EEEecCCcchHhHHHHHHHHhcCCCc----ceEEEEEcCcCC----CCCchHHHHHhhc
Q 034167 29 RYLVPADLTVGQFVYVIRKRIKLSAE----KAIFIFVDNVLP----PTGAIMSAIYEEK 79 (102)
Q Consensus 29 KflVp~~~tv~~f~~~lRk~L~l~~~----~slFlyVnn~lp----~~~~~m~~lY~~~ 79 (102)
+|-|+.++|+++|+..++++.++..+ ..-.||..-..+ ..+++|.+|++.-
T Consensus 36 r~~v~~~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~f~~~~~~~rl~~~i~elv~~v 94 (125)
T PF09358_consen 36 RIEVNGDMTLQELIDYFKEKYGLEVTMLSQGVSLLYSSFPPPKHKERLKMPISELVEEV 94 (125)
T ss_dssp EEEEES--BHHHHHHHHHHTTS-EEEEEEETTEEEEETT-HHHHHHHTTSBHHHHHHHH
T ss_pred EEEEcCCCCHHHHHHHHHHHhCceEEEEEeCCEEEEecCChhhhHHHhCCcHHHHHHHh
Confidence 57788899999999999999987743 222344322011 3678999999954
No 53
>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=51.93 E-value=47 Score=20.59 Aligned_cols=41 Identities=15% Similarity=0.134 Sum_probs=27.0
Q ss_pred CCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCc
Q 034167 23 PECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV 64 (102)
Q Consensus 23 P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~ 64 (102)
+..++.+..|.++.++.|++..--++.++++++ --|.-|++
T Consensus 4 ~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~-~~L~h~~k 44 (65)
T PF11470_consen 4 YNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSS-YDLKHNNK 44 (65)
T ss_dssp TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG--EEEETTE
T ss_pred cCCcEEEEEECCCCCHHHHHHHHHHHcCCCccc-eEEEECCE
Confidence 345788999999999999999999999999883 34444554
No 54
>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=49.31 E-value=30 Score=23.39 Aligned_cols=27 Identities=15% Similarity=0.493 Sum_probs=23.3
Q ss_pred chHhHHHHHHHHhcCCC-cceEEEEEcC
Q 034167 37 TVGQFVYVIRKRIKLSA-EKAIFIFVDN 63 (102)
Q Consensus 37 tv~~f~~~lRk~L~l~~-~~slFlyVnn 63 (102)
.+.-+...++..++++| +.++|+|+|.
T Consensus 16 g~dgL~~lV~~~~~~dp~~g~~fvF~nr 43 (107)
T PF05717_consen 16 GIDGLAALVREELGLDPFSGDLFVFCNR 43 (107)
T ss_pred ChhHHHHHHHHhhcCCCCcceEEEEEec
Confidence 57788999999999875 6799999995
No 55
>KOG1209 consensus 1-Acyl dihydroxyacetone phosphate reductase and related dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=48.81 E-value=40 Score=26.68 Aligned_cols=52 Identities=17% Similarity=0.202 Sum_probs=42.0
Q ss_pred cceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCc-----CCCCCchHHHHHhhcc
Q 034167 25 CENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-----LPPTGAIMSAIYEEKK 80 (102)
Q Consensus 25 L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~-----lp~~~~~m~~lY~~~k 80 (102)
|+-.|.=|.++..+.++...+|+. +...|=+.+||. .|..|.++.++=++|+
T Consensus 54 l~~~kLDV~~~~~V~~v~~evr~~----~~Gkld~L~NNAG~~C~~Pa~d~~i~ave~~f~ 110 (289)
T KOG1209|consen 54 LKPYKLDVSKPEEVVTVSGEVRAN----PDGKLDLLYNNAGQSCTFPALDATIAAVEQCFK 110 (289)
T ss_pred CeeEEeccCChHHHHHHHHHHhhC----CCCceEEEEcCCCCCcccccccCCHHHHHhhhc
Confidence 445566699999999999999985 455777788872 6889999999999996
No 56
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=46.02 E-value=41 Score=21.15 Aligned_cols=34 Identities=12% Similarity=0.176 Sum_probs=27.4
Q ss_pred eeEEEecCCcchHhHHHHHHHHhcCCC-cceEEEE
Q 034167 27 NYRYLVPADLTVGQFVYVIRKRIKLSA-EKAIFIF 60 (102)
Q Consensus 27 k~KflVp~~~tv~~f~~~lRk~L~l~~-~~slFly 60 (102)
...-.+|.++|++++...|.+..++++ .+.|+++
T Consensus 15 ~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 15 SVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 334569999999999999999999986 5777776
No 57
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.17 E-value=44 Score=23.49 Aligned_cols=45 Identities=31% Similarity=0.410 Sum_probs=29.4
Q ss_pred eeEEeeEEEEEeecCCCCCCCcceeEEE-ec-CCcchHhHHHHHHHHhcCCCc
Q 034167 4 WTITTRYLILSYTNKVSSLPECENYRYL-VP-ADLTVGQFVYVIRKRIKLSAE 54 (102)
Q Consensus 4 ~~~~~~vIi~~~~~~~~~~P~L~k~Kfl-Vp-~~~tv~~f~~~lRk~L~l~~~ 54 (102)
-||||+||=-. ..+ -++...|- +. .+.|+-||..+|.++++++++
T Consensus 6 ~tiTvRvIrsF-eyR-----n~KnvV~Hd~dLad~Tvk~f~~~~~~~Iq~~~s 52 (127)
T KOG4147|consen 6 VTITVRVIRSF-EYR-----NFKNVVYHDVDLADQTVKEFIVFLKQDIQLRTS 52 (127)
T ss_pred cEEEEEEEecc-ccc-----cccceeEeccchhHhhHHHHHHHHHHhcccCCC
Confidence 47777776322 211 23444444 33 478999999999999998866
No 58
>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=45.05 E-value=75 Score=19.79 Aligned_cols=55 Identities=11% Similarity=0.112 Sum_probs=36.5
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCc-ceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEE
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAE-KAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYV 88 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~-~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl 88 (102)
+-|+.+.||+++...|-.+-+++++ +.| |-+..+-..+.++++ |.-. +++..||+
T Consensus 17 l~v~~~~TV~~lK~kI~~~~gip~~~QrL--~~G~~L~dD~~tL~~-ygi~-~~g~~~~l 72 (75)
T cd01799 17 LTVRPDMTVAQLKDKVFLDYGFPPAVQRW--VIGQRLARDQETLYS-HGIR-TNGDSAFL 72 (75)
T ss_pred EEECCCCcHHHHHHHHHHHHCcCHHHEEE--EcCCeeCCCcCCHHH-cCCC-CCCCEEEE
Confidence 5689999999999999999999874 555 433344445567765 3332 23335554
No 59
>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=43.65 E-value=78 Score=19.58 Aligned_cols=60 Identities=18% Similarity=0.222 Sum_probs=39.2
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEecC
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSG 92 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys~ 92 (102)
...-|+.+.|++++...|.++.++++++- =|..++.....+ ++++ | .-+ ++..+||.-+-
T Consensus 14 ~~l~v~~~~TV~~LK~~I~~~~~~~~~~q-rL~~~Gk~L~d~-~L~~-~-gi~-~~~~i~l~~~~ 73 (78)
T cd01804 14 FDLSVPPDETVEGLKKRISQRLKVPKERL-ALLHRETRLSSG-KLQD-L-GLG-DGSKLTLVPTV 73 (78)
T ss_pred EEEEECCcCHHHHHHHHHHHHhCCChHHE-EEEECCcCCCCC-cHHH-c-CCC-CCCEEEEEeec
Confidence 33568999999999999998888876533 333445433333 5554 2 223 46688887655
No 60
>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=43.52 E-value=76 Score=19.37 Aligned_cols=64 Identities=6% Similarity=0.005 Sum_probs=45.0
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCC-cceEEE--EEcC--c--CCCCCchHHHHHhhccCC--CCeEEEE
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSA-EKAIFI--FVDN--V--LPPTGAIMSAIYEEKKDE--DGFLYVT 89 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~-~~slFl--yVnn--~--lp~~~~~m~~lY~~~kd~--DGfLyl~ 89 (102)
.-+.+.|+.+.|..+++..+-+++++.. .+...| +... . ....++..-++..+.... ++.+++.
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 5677889999999999999999999933 333344 2322 1 456777777777777653 6666664
No 61
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=43.45 E-value=30 Score=21.41 Aligned_cols=38 Identities=18% Similarity=0.279 Sum_probs=27.4
Q ss_pred EEEecCC-cchHhHHHHHHHHhc-C-CCcceEEEEEcCcCC
Q 034167 29 RYLVPAD-LTVGQFVYVIRKRIK-L-SAEKAIFIFVDNVLP 66 (102)
Q Consensus 29 KflVp~~-~tv~~f~~~lRk~L~-l-~~~~slFlyVnn~lp 66 (102)
.+-++.+ .|+.++...|..+.. + +....+.+.||+...
T Consensus 19 ~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v 59 (80)
T TIGR01682 19 TLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYV 59 (80)
T ss_pred EEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEc
Confidence 4557777 899999999988864 2 223567888998643
No 62
>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=43.27 E-value=41 Score=22.04 Aligned_cols=58 Identities=10% Similarity=0.153 Sum_probs=45.1
Q ss_pred CCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC-cCCCCCchHHHHHhhccC
Q 034167 23 PECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN-VLPPTGAIMSAIYEEKKD 81 (102)
Q Consensus 23 P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn-~lp~~~~~m~~lY~~~kd 81 (102)
|.|--+..-||++..+..++.+--...+.++..|- +.-|. .=..+.++-|+++-+|+.
T Consensus 13 p~lpfkvlsVpE~aPftAvlkfaAEeFkv~~~TsA-iiTndGvGINP~qtAGnvflkhgs 71 (82)
T cd01766 13 PKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSA-IITNDGIGINPAQTAGNVFLKHGS 71 (82)
T ss_pred CCCcceEEeccccCchHHHHHHHHHhcCCCcccee-EEecCccccChhhcccceeeecCC
Confidence 44455666799999999999999999999988873 33454 446778889999998874
No 63
>PRK06437 hypothetical protein; Provisional
Probab=42.95 E-value=40 Score=20.62 Aligned_cols=38 Identities=13% Similarity=0.188 Sum_probs=25.8
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchH
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIM 72 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m 72 (102)
+=+++..|+++++. +|++++ +.+.+.+|+...+.+..+
T Consensus 15 ~~i~~~~tv~dLL~----~Lgi~~-~~vaV~vNg~iv~~~~~L 52 (67)
T PRK06437 15 IEIDHELTVNDIIK----DLGLDE-EEYVVIVNGSPVLEDHNV 52 (67)
T ss_pred EEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCceEc
Confidence 44788899999874 457864 566788998644444433
No 64
>PRK12385 fumarate reductase iron-sulfur subunit; Provisional
Probab=42.93 E-value=72 Score=24.31 Aligned_cols=43 Identities=14% Similarity=0.250 Sum_probs=34.7
Q ss_pred eeEEEEEeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhc
Q 034167 8 TRYLILSYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIK 50 (102)
Q Consensus 8 ~~vIi~~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~ 50 (102)
+-+-|-||-++....|..+.-.+-++++.||-+++..|+..+.
T Consensus 7 v~~~i~R~~~~~~~~~~~~~~~v~~~~~~tvl~~L~~ik~~~d 49 (244)
T PRK12385 7 LKIEVLRYNPEVDTEPHSQTYEVPYDETTSLLDALGYIKDNLA 49 (244)
T ss_pred EEEEEEeeCCCCCCCceeEEEEeeCCCCCcHHHHHHHHHHhcC
Confidence 4567788887555688888887778899999999999998753
No 65
>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=42.83 E-value=17 Score=21.82 Aligned_cols=40 Identities=18% Similarity=0.242 Sum_probs=30.5
Q ss_pred eeEEEecCCcchHhHHHHHHHHhc-CCCcceEEEEEcCcCC
Q 034167 27 NYRYLVPADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLP 66 (102)
Q Consensus 27 k~KflVp~~~tv~~f~~~lRk~L~-l~~~~slFlyVnn~lp 66 (102)
.....+++..|+++++..|..+.. +...+.+-++||+...
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 466789999999999999987763 2234678889998643
No 66
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=41.25 E-value=68 Score=27.57 Aligned_cols=54 Identities=19% Similarity=0.322 Sum_probs=40.5
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCC
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDG 84 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DG 84 (102)
+|.-|-|+.+.||.||...|-++-+.++++-.-+|. +++...++++. .|+-.||
T Consensus 25 dk~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfa-GrILKD~dTL~----~~gI~Dg 78 (493)
T KOG0010|consen 25 DKYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYA-GRILKDDDTLK----QYGIQDG 78 (493)
T ss_pred cceeEecccchHHHHHHHHHHHhcCCChhHeeeeec-CccccChhhHH----HcCCCCC
Confidence 377789999999999999999999888776555554 55566666664 3555677
No 67
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=40.24 E-value=90 Score=19.32 Aligned_cols=56 Identities=18% Similarity=0.161 Sum_probs=36.8
Q ss_pred EecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEe
Q 034167 31 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 31 lVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
-|+++.||+++...|.++-+++++.-=..|. +.+...+.++++ |. -+ ++--++|-|
T Consensus 17 ~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~-Gk~L~D~~tL~~-yg-i~-~~stv~l~~ 72 (73)
T cd01791 17 KCNPDDTIGDLKKLIAAQTGTRPEKIVLKKW-YTIFKDHISLGD-YE-IH-DGMNLELYY 72 (73)
T ss_pred EeCCCCcHHHHHHHHHHHhCCChHHEEEEeC-CcCCCCCCCHHH-cC-CC-CCCEEEEEe
Confidence 4889999999999998888888764434443 555555667766 32 22 233555555
No 68
>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=39.82 E-value=1.1e+02 Score=19.97 Aligned_cols=57 Identities=11% Similarity=0.197 Sum_probs=41.4
Q ss_pred EecCCcchHhHHHHHHHHhcCCCcceEEEEEc---C-c-CCCC-CchHHHHHhhccCCCCeEE
Q 034167 31 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD---N-V-LPPT-GAIMSAIYEEKKDEDGFLY 87 (102)
Q Consensus 31 lVp~~~tv~~f~~~lRk~L~l~~~~slFlyVn---n-~-lp~~-~~~m~~lY~~~kd~DGfLy 87 (102)
.+|...+++++...|+++|.++++..-.=|-. + . .|-. ++.|.+.+.+=++.=.-|.
T Consensus 12 ~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~~~~ltLw 74 (78)
T cd06411 12 RAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAWQDVADGPRGLQ 74 (78)
T ss_pred EccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHHHhccCCceEEE
Confidence 37888899999999999999998865444543 1 2 4544 8899999988774433333
No 69
>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=39.29 E-value=73 Score=21.99 Aligned_cols=30 Identities=20% Similarity=0.243 Sum_probs=24.7
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCc-ceEEE
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAE-KAIFI 59 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~-~slFl 59 (102)
-.|+++.|++++...|.+++++++. |-|..
T Consensus 19 L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~ 49 (107)
T cd01795 19 LLVSANQTLKELKIQIMHAFSVAPFDQNLSI 49 (107)
T ss_pred EEeCccccHHHHHHHHHHHhcCCcccceeee
Confidence 4599999999999999999998875 44443
No 70
>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=38.87 E-value=51 Score=21.72 Aligned_cols=31 Identities=19% Similarity=0.350 Sum_probs=25.1
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCcceEEE-EEc
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAEKAIFI-FVD 62 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~~slFl-yVn 62 (102)
..||.+.++++|..-||.+++++ +.+-+ |.+
T Consensus 16 i~v~~~i~f~dL~~kIrdkf~~~--~~~~iKykD 47 (86)
T cd06408 16 IMIGPDTGFADFEDKIRDKFGFK--RRLKIKMKD 47 (86)
T ss_pred EEcCCCCCHHHHHHHHHHHhCCC--CceEEEEEc
Confidence 45999999999999999999996 45555 444
No 71
>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=38.09 E-value=48 Score=20.69 Aligned_cols=21 Identities=5% Similarity=0.196 Sum_probs=17.8
Q ss_pred HHHHHHhcCCCcceEEEEEcC
Q 034167 43 YVIRKRIKLSAEKAIFIFVDN 63 (102)
Q Consensus 43 ~~lRk~L~l~~~~slFlyVnn 63 (102)
.-+++.|+|.+++.+++.+.+
T Consensus 16 k~i~~~lgl~~Gd~v~v~~~~ 36 (74)
T TIGR02609 16 KEVLESLGLKEGDTLYVDEEE 36 (74)
T ss_pred HHHHHHcCcCCCCEEEEEEEC
Confidence 457899999999999998764
No 72
>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=37.14 E-value=42 Score=21.80 Aligned_cols=44 Identities=14% Similarity=0.326 Sum_probs=30.6
Q ss_pred ecCCcchHhHHHHHHHH--hcCC------CcceEEEE-E----cCcCCCCCchHHHH
Q 034167 32 VPADLTVGQFVYVIRKR--IKLS------AEKAIFIF-V----DNVLPPTGAIMSAI 75 (102)
Q Consensus 32 Vp~~~tv~~f~~~lRk~--L~l~------~~~slFly-V----nn~lp~~~~~m~~l 75 (102)
|+++.|+++|+..|..+ +++. ++++||+= + ..+-|..+.+|.||
T Consensus 3 v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL 59 (84)
T PF08825_consen 3 VSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL 59 (84)
T ss_dssp ESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT
T ss_pred cCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH
Confidence 78999999999999988 6654 34666651 1 12356778888888
No 73
>PRK13669 hypothetical protein; Provisional
Probab=37.08 E-value=24 Score=23.00 Aligned_cols=27 Identities=15% Similarity=0.367 Sum_probs=22.7
Q ss_pred ceEEEEEcCc---CCCCCchHHHHHhhccC
Q 034167 55 KAIFIFVDNV---LPPTGAIMSAIYEEKKD 81 (102)
Q Consensus 55 ~slFlyVnn~---lp~~~~~m~~lY~~~kd 81 (102)
...|.+||+. .+.+++.+.++|+.=++
T Consensus 45 ~~~FAlVng~~V~a~t~eeL~~kI~~~i~e 74 (78)
T PRK13669 45 EGLFALVNGEVVEGETPEELVENIYAHLEE 74 (78)
T ss_pred cCceEEECCeEeecCCHHHHHHHHHHHHhh
Confidence 6789999984 68899999999988753
No 74
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=36.20 E-value=73 Score=20.14 Aligned_cols=33 Identities=12% Similarity=0.156 Sum_probs=27.0
Q ss_pred EecCCcchHhHHHHHHHHhcCCC-cceEEEEEcC
Q 034167 31 LVPADLTVGQFVYVIRKRIKLSA-EKAIFIFVDN 63 (102)
Q Consensus 31 lVp~~~tv~~f~~~lRk~L~l~~-~~slFlyVnn 63 (102)
.+|.++|++++..-|.+.-++++ .+.|.+|-+.
T Consensus 18 r~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 18 KYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred ecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 48999999999999999999976 5666666654
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=36.11 E-value=62 Score=19.46 Aligned_cols=42 Identities=17% Similarity=0.139 Sum_probs=28.3
Q ss_pred eEEEecCCcchHhHHHHHHHHhcC---CCcceEEEEEcCcCCCCC
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKL---SAEKAIFIFVDNVLPPTG 69 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l---~~~~slFlyVnn~lp~~~ 69 (102)
..+-+++..|+++++..|..+..- ...+.+-++||+...+.+
T Consensus 18 ~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~ 62 (80)
T cd00754 18 EELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLD 62 (80)
T ss_pred EEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCC
Confidence 445577889999999998877431 123566788998643334
No 76
>PF00255 GSHPx: Glutathione peroxidase; InterPro: IPR000889 Glutathione peroxidase (GSHPx) (1.11.1.9 from EC) is an enzyme that catalyses the reduction of hydroxyperoxides by glutathione [, ]. Its main function is to protect against the damaging effect of endogenously formed hydroxyperoxides. In higher vertebrates, several forms of GSHPx are known, including a ubiquitous cytosolic form (GSHPx-1), a gastrointestinal cytosolic form (GSHPx-GI), a plasma secreted form (GSHPx-P), and an epididymal secretory form (GSHPx-EP). In addition to these characterised forms, the sequence of a protein of unknown function [] has been shown to be evolutionary related to those of GSHPx's. In filarial nematode parasites, the major soluble cuticular protein (gp29) is a secreted GSHPx, which may provide a mechanism of resistance to the immune reaction of the mammalian host by neutralising the products of the oxidative burst of leukocytes []. The Escherichia coli protein btuE, a periplasmic protein involved in vitamin B12 transport, is evolutionarily related to GSHPxs, although the significance of this relationship is unclear. The structure of bovine seleno-glutathione peroxidase has been determined []. The protein belongs to the alpha-beta class, with a 3 layer(aba) sandwich architecture. The catalyic site of GSHPx contains a conserved residue which is either a cysteine or, in many eukaryotic GSHPx, a selenocysteine []. ; GO: 0004602 glutathione peroxidase activity, 0006979 response to oxidative stress, 0055114 oxidation-reduction process; PDB: 3E0U_A 2VUP_A 2RM5_A 2RM6_A 3DWV_B 2P31_B 2R37_B 1GP1_B 2F8A_B 3KIJ_C ....
Probab=35.79 E-value=38 Score=22.93 Aligned_cols=28 Identities=21% Similarity=0.516 Sum_probs=22.4
Q ss_pred CCchHHHHHhhccCCCCeEEEEecCCcccC
Q 034167 68 TGAIMSAIYEEKKDEDGFLYVTYSGENTFG 97 (102)
Q Consensus 68 ~~~~m~~lY~~~kd~DGfLyl~Ys~~~afG 97 (102)
.=..|.+||++|+ ++|+..+.+-..+ ||
T Consensus 38 qy~~L~~L~~ky~-~~gl~ILaFPcnq-Fg 65 (108)
T PF00255_consen 38 QYKQLNELYEKYK-DKGLEILAFPCNQ-FG 65 (108)
T ss_dssp HHHHHHHHHHHHG-GGTEEEEEEEBST-TT
T ss_pred ccHHHHHHHHHHh-cCCeEEEeeehHH-hc
Confidence 3348899999998 5899999998655 55
No 77
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.60 E-value=65 Score=21.33 Aligned_cols=62 Identities=13% Similarity=0.127 Sum_probs=47.6
Q ss_pred CCCCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCc-CCCCCchHHHHHhhccCC
Q 034167 20 SSLPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-LPPTGAIMSAIYEEKKDE 82 (102)
Q Consensus 20 ~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~-lp~~~~~m~~lY~~~kd~ 82 (102)
.+=|.|--+.+-||+...+..++.+--...+.++..|--+ -|.. =..+.++-|++|=+|++|
T Consensus 21 tsdpklpfkv~svpestpftavlkfaaeefkvpaatsaii-tndgiginpaq~agnvflkhgse 83 (94)
T KOG3483|consen 21 TSDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSAII-TNDGIGINPAQTAGNVFLKHGSE 83 (94)
T ss_pred ccCCCCccceecCCCCCchHHHHHHHHHHccCCccceeEE-ecCccccCccccccceeeccCCE
Confidence 4457777788889999999999999999999988766443 4543 356777888888888653
No 78
>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=35.38 E-value=82 Score=24.33 Aligned_cols=52 Identities=15% Similarity=0.156 Sum_probs=40.3
Q ss_pred CcchHhHHHHHHHHhcCCCcceEEEEEcCc-CC--CCCchHHHHHhhccCCCCeEEE
Q 034167 35 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-LP--PTGAIMSAIYEEKKDEDGFLYV 88 (102)
Q Consensus 35 ~~tv~~f~~~lRk~L~l~~~~slFlyVnn~-lp--~~~~~m~~lY~~~kd~DGfLyl 88 (102)
..++.+++..+++.+.-.+++.+.|-+++. -+ .....|.+.+.+.. +.+||.
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 678999999999999999999999999873 33 55667777777664 335543
No 79
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=34.93 E-value=69 Score=19.53 Aligned_cols=38 Identities=5% Similarity=0.062 Sum_probs=25.6
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCc
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGA 70 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~ 70 (102)
..+-+++..|++++.. .|++++ +.+.+.+|+...+.+.
T Consensus 16 ~~~~~~~~~tv~~ll~----~l~~~~-~~v~v~vNg~iv~~~~ 53 (70)
T PRK08364 16 KEIEWRKGMKVADILR----AVGFNT-ESAIAKVNGKVALEDD 53 (70)
T ss_pred eEEEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCCc
Confidence 3445788889988774 446765 5688889986544343
No 80
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=34.65 E-value=52 Score=24.58 Aligned_cols=47 Identities=23% Similarity=0.511 Sum_probs=36.9
Q ss_pred CcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCC-eEEEEecCCcccC
Q 034167 35 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDG-FLYVTYSGENTFG 97 (102)
Q Consensus 35 ~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DG-fLyl~Ys~~~afG 97 (102)
.+++++++.-|++.++++..+- ...++++|...- .|| |+++ +.+.||
T Consensus 30 ~~~F~dii~EI~~~~~~s~~ei------------~~~i~~FYTdln-~DgrFi~L---Gdn~Wg 77 (175)
T COG3343 30 PFNFSDIINEIQKLLGVSKEEI------------RSRIGQFYTDLN-IDGRFISL---GDNKWG 77 (175)
T ss_pred CccHHHHHHHHHHHhCcCHHHH------------HHHHHHHHHHhc-cCCceeec---cccccc
Confidence 7899999999999999885542 357899999985 555 7765 577787
No 81
>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=33.95 E-value=1.1e+02 Score=19.60 Aligned_cols=53 Identities=11% Similarity=0.104 Sum_probs=32.1
Q ss_pred ecCCcchHhHHHHHHHHhc--CC-CcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEE
Q 034167 32 VPADLTVGQFVYVIRKRIK--LS-AEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYV 88 (102)
Q Consensus 32 Vp~~~tv~~f~~~lRk~L~--l~-~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl 88 (102)
-|.+.||+++...|..+.+ .. +++---+| +++....+.++++. . -+ ++.+|+|
T Consensus 17 ~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy-~GKiL~D~~TL~dy-g-I~-~gstlhL 72 (75)
T cd01815 17 SPGGYQVSTLKQLIAAQLPDSLPDPELIDLIH-CGRKLKDDQTLDFY-G-IQ-SGSTIHI 72 (75)
T ss_pred CCccCcHHHHHHHHHHhhccCCCChHHeEEEe-CCcCCCCCCcHHHc-C-CC-CCCEEEE
Confidence 4889999999999999964 43 43222233 44555666676652 1 11 3446655
No 82
>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=33.69 E-value=1.3e+02 Score=19.72 Aligned_cols=25 Identities=8% Similarity=0.321 Sum_probs=18.1
Q ss_pred ceeEEEecCC-cchHhHHHHHHHHhc
Q 034167 26 ENYRYLVPAD-LTVGQFVYVIRKRIK 50 (102)
Q Consensus 26 ~k~KflVp~~-~tv~~f~~~lRk~L~ 50 (102)
|-+.+-+|.+ .|+.++...+++..+
T Consensus 10 DiR~~~~~~~~~t~~~L~~~v~~~F~ 35 (81)
T cd06401 10 DIRRIPIHNEDITYDELLLMMQRVFR 35 (81)
T ss_pred eEEEEeccCccccHHHHHHHHHHHhc
Confidence 3344667764 699999999987655
No 83
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=33.54 E-value=1.2e+02 Score=19.06 Aligned_cols=36 Identities=19% Similarity=0.254 Sum_probs=27.8
Q ss_pred EeecCCCCCCCcceeEEEecCCcchHhHHHHHHHHhc
Q 034167 14 SYTNKVSSLPECENYRYLVPADLTVGQFVYVIRKRIK 50 (102)
Q Consensus 14 ~~~~~~~~~P~L~k~KflVp~~~tv~~f~~~lRk~L~ 50 (102)
-|..+.+.-|+++.. +++|...|+.+|...+.+-+.
T Consensus 4 vytk~~g~~~d~~~~-liL~~GaTV~D~a~~iH~di~ 39 (75)
T cd01666 4 VYTKPKGQEPDFDEP-VILRRGSTVEDVCNKIHKDLV 39 (75)
T ss_pred EEeCCCCCCCCCCCC-EEECCCCCHHHHHHHHHHHHH
Confidence 355557788888865 678999999999988876543
No 84
>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=32.79 E-value=1.2e+02 Score=18.50 Aligned_cols=58 Identities=7% Similarity=0.087 Sum_probs=38.5
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEec
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 91 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys 91 (102)
+-|+.+.|+++|...|...-+++++.- =|..++.....+.++++. . -+ ++..|+|.-.
T Consensus 12 l~v~~~~TV~~lK~~i~~~~gip~~~q-~L~~~G~~L~d~~tL~~~-~-i~-~g~~l~v~~~ 69 (76)
T cd01800 12 FTLQLSDPVSVLKVKIHEETGMPAGKQ-KLQYEGIFIKDSNSLAYY-N-LA-NGTIIHLQLK 69 (76)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHHE-EEEECCEEcCCCCcHHHc-C-CC-CCCEEEEEEe
Confidence 458899999999999999999887532 333455555556677542 2 22 3447776654
No 85
>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=31.89 E-value=1.1e+02 Score=19.05 Aligned_cols=55 Identities=22% Similarity=0.293 Sum_probs=37.9
Q ss_pred EEecCCcchHhHHHHHHHHh---cCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEecC
Q 034167 30 YLVPADLTVGQFVYVIRKRI---KLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSG 92 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L---~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys~ 92 (102)
|.-....++.++..-||+.- -+......|+.-||.- |.=.||+.+||-+..+|..
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 33344567888777776543 1445678888777643 7778888899999888863
No 86
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=31.49 E-value=99 Score=18.28 Aligned_cols=35 Identities=14% Similarity=0.214 Sum_probs=24.9
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcC
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL 65 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~l 65 (102)
..+++-+++..|+.+++.. +++++ +.+-+-+|+..
T Consensus 4 Ng~~~~~~~~~tv~~ll~~----l~~~~-~~v~v~vN~~i 38 (64)
T TIGR01683 4 NGEPVEVEDGLTLAALLES----LGLDP-RRVAVAVNGEI 38 (64)
T ss_pred CCeEEEcCCCCcHHHHHHH----cCCCC-CeEEEEECCEE
Confidence 4456678888898887764 45664 56778889864
No 87
>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=31.38 E-value=1.5e+02 Score=20.65 Aligned_cols=52 Identities=4% Similarity=0.046 Sum_probs=35.5
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcc--eEEEEEcC----cCCCCCchHHHHHh
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEK--AIFIFVDN----VLPPTGAIMSAIYE 77 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~--slFlyVnn----~lp~~~~~m~~lY~ 77 (102)
...++.+.+..|+.+++..+.+++++...+ +||....+ ..+.++.++.+.-.
T Consensus 14 ~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~ 71 (207)
T smart00295 14 TTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDV 71 (207)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcC
Confidence 355788999999999999999999997543 34443332 13455666655443
No 88
>PF06760 DUF1221: Protein of unknown function (DUF1221); InterPro: IPR010632 This is a group of plant proteins, most of which are hypothetical and of unknown function. All members contain the IPR000719 from INTERPRO domain, suggesting that they may possess kinase activity.
Probab=30.81 E-value=15 Score=28.19 Aligned_cols=48 Identities=13% Similarity=0.171 Sum_probs=35.5
Q ss_pred hHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEecCCc
Q 034167 38 VGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGEN 94 (102)
Q Consensus 38 v~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys~~~ 94 (102)
+..+..-+|..|++.+.. -+-=+.++.+.+||.-|| ||-+||--|.++
T Consensus 22 ~~~va~eir~nLrfeEk~-------tKWr~LE~PLREl~rvfr--egE~YvR~CLd~ 69 (217)
T PF06760_consen 22 FDTVAEEIRQNLRFEEKN-------TKWRPLEQPLRELHRVFR--EGEGYVRHCLDP 69 (217)
T ss_pred HHHHHHHHHHhhchHhhc-------CcccccchhHHHHHHHHh--hhHHHHHHccCc
Confidence 345566788998887552 256678899999999998 677777666554
No 89
>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=30.44 E-value=57 Score=22.48 Aligned_cols=33 Identities=6% Similarity=0.172 Sum_probs=28.7
Q ss_pred ecCCcchHhHHHHHHHHhcCCCcceEEEEEcCc
Q 034167 32 VPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV 64 (102)
Q Consensus 32 Vp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~ 64 (102)
+....++.+++..+|+-+.-.+++.+.|-+++.
T Consensus 65 ~~~~~~~~dvL~~i~~fl~~~p~e~VIl~l~~~ 97 (135)
T smart00148 65 FTLPIKLSEVLEAIKDFAFVTSPYPVILSLENH 97 (135)
T ss_pred ccccEEHHHHHHHHHHHHHhCCCCcEEEeehhh
Confidence 334578999999999999999999999999874
No 90
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=30.27 E-value=71 Score=20.49 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=18.7
Q ss_pred HHHHHHhcCCCcceEEEEEcC
Q 034167 43 YVIRKRIKLSAEKAIFIFVDN 63 (102)
Q Consensus 43 ~~lRk~L~l~~~~slFlyVnn 63 (102)
.-+|++|++++.+.+-++++.
T Consensus 20 keiR~~lgi~~Gd~lei~~~~ 40 (89)
T COG2002 20 KEIREALGIKEGDVLEIIVDG 40 (89)
T ss_pred HHHHHHhCCCCCCEEEEEEeC
Confidence 568999999999999999974
No 91
>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=29.81 E-value=2.6e+02 Score=22.96 Aligned_cols=60 Identities=17% Similarity=0.151 Sum_probs=42.2
Q ss_pred EEecCCcchHhHHHHHHHHhc---CCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEecCC
Q 034167 30 YLVPADLTVGQFVYVIRKRIK---LSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGE 93 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~---l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys~~ 93 (102)
+-|..+.||.++...|..+-+ ++.++ .=|..+++....+.+|++ |. -+ ++.++++.-+..
T Consensus 15 IeV~~~~TV~dLK~kI~~~~g~~~ip~~~-QkLIy~GkiL~Dd~tL~d-y~-I~-e~~~Ivvmv~k~ 77 (378)
T TIGR00601 15 IDMEPDETVKELKEKIEAEQGKDAYPVAQ-QKLIYSGKILSDDKTVRE-YK-IK-EKDFVVVMVSKP 77 (378)
T ss_pred EEeCCcChHHHHHHHHHHhhCCCCCChhH-eEEEECCEECCCCCcHHH-cC-CC-CCCEEEEEeccC
Confidence 348899999999999988876 65443 344556776677778877 32 22 566888877653
No 92
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=29.18 E-value=41 Score=25.03 Aligned_cols=63 Identities=16% Similarity=0.185 Sum_probs=30.8
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCCCc----ceEEEEEcCcC--CCCCchHH--HHHhhccCCCC-eEEEEe
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLSAE----KAIFIFVDNVL--PPTGAIMS--AIYEEKKDEDG-FLYVTY 90 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~~~----~slFlyVnn~l--p~~~~~m~--~lY~~~kd~DG-fLyl~Y 90 (102)
-.|.|..+-+++++..-||+|++++.. =.+.+..++.. |..-..-. .||+.....|. +|.+-.
T Consensus 135 F~f~v~~gE~f~~tK~Rl~~rlgv~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~~~~~~~~~LgLdH 206 (213)
T PF14533_consen 135 FLFVVKPGETFSDTKERLQKRLGVSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDEIFNPDDPWLGLDH 206 (213)
T ss_dssp EEEEEETT--HHHHHHHHHHHH---HHHHTT-EEEEEETTEE---EE--TT-T----GGGTS-S--EEEEE-
T ss_pred EEEEeeCCCcHHHHHHHHHHHhCCChhhheeEEEEEEecCCcccceeccccchhhhhhhhcCccCCEEEEeC
Confidence 457899999999999999999999854 22344344433 43222222 56666655453 676654
No 93
>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=29.04 E-value=2.2e+02 Score=21.59 Aligned_cols=37 Identities=14% Similarity=0.305 Sum_probs=26.3
Q ss_pred eeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC
Q 034167 27 NYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN 63 (102)
Q Consensus 27 k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn 63 (102)
.-..-++..+|..|+...+-++|+++|..--|.-+|+
T Consensus 191 ~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~~~~~ 227 (249)
T PF12436_consen 191 EFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFFTVNP 227 (249)
T ss_dssp -EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE---T
T ss_pred CEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEEecc
Confidence 5666799999999999999999999998766777764
No 94
>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=29.02 E-value=1.8e+02 Score=19.27 Aligned_cols=59 Identities=14% Similarity=0.092 Sum_probs=39.5
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCCCc-ceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEec
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLSAE-KAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 91 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~~~-~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys 91 (102)
..+-|..+.||+++..-|.++-+++++ +.| +.++.....+.++++ |. -+ ++.-|++.-.
T Consensus 40 ~~leV~~~~TV~~lK~kI~~~~gip~~~QrL--i~~Gk~L~D~~tL~d-y~-I~-~~stL~l~~~ 99 (103)
T cd01802 40 FELRVSPFETVISVKAKIQRLEGIPVAQQHL--IWNNMELEDEYCLND-YN-IS-EGCTLKLVLA 99 (103)
T ss_pred EEEEeCCCCcHHHHHHHHHHHhCCChHHEEE--EECCEECCCCCcHHH-cC-CC-CCCEEEEEEe
Confidence 335599999999999999999898875 443 345555556667755 32 12 3446777643
No 95
>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=28.90 E-value=1.2e+02 Score=21.45 Aligned_cols=28 Identities=29% Similarity=0.405 Sum_probs=20.5
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCCCcc
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLSAEK 55 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~~~~ 55 (102)
+.+.||.+.|+++|-.+|+.-++.....
T Consensus 20 Rri~Vp~~~tl~~Lh~~Iq~afgw~~~H 47 (179)
T PF07929_consen 20 RRIEVPADITLADLHEVIQAAFGWDDDH 47 (179)
T ss_dssp EEEEEETT-BHHHHHHHHHHHTT----S
T ss_pred EEEEECCCCCHHHHHHHHHHHhCcCCCE
Confidence 4578999999999999999999987543
No 96
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=28.82 E-value=71 Score=19.88 Aligned_cols=41 Identities=15% Similarity=0.092 Sum_probs=26.0
Q ss_pred EEEecC-CcchHhHHHHHHHHhc-----CCCcceEEEEEcCcCCCCCc
Q 034167 29 RYLVPA-DLTVGQFVYVIRKRIK-----LSAEKAIFIFVDNVLPPTGA 70 (102)
Q Consensus 29 KflVp~-~~tv~~f~~~lRk~L~-----l~~~~slFlyVnn~lp~~~~ 70 (102)
..-++. ..|++++...|.++.. +. ...+-++||...-+.+.
T Consensus 18 ~~~v~~~~~tv~~l~~~L~~~~~~~~~~~~-~~~~~~aVN~~~~~~~~ 64 (81)
T PRK11130 18 ALELAADFPTVEALRQHLAQKGDRWALALE-DGKLLAAVNQTLVSFDH 64 (81)
T ss_pred eEEecCCCCCHHHHHHHHHHhCccHHhhhc-CCCEEEEECCEEcCCCC
Confidence 344543 5799999999987742 22 34456788876544443
No 97
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=28.65 E-value=62 Score=22.72 Aligned_cols=50 Identities=22% Similarity=0.336 Sum_probs=37.1
Q ss_pred cCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEecCCcccC
Q 034167 33 PADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 97 (102)
Q Consensus 33 p~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys~~~afG 97 (102)
...+++.+++..+.+.++.+.++- ...++++|-.-- .|| -..+..++.||
T Consensus 17 ~~~m~f~dL~~ev~~~~~~s~e~~------------~~~iaq~YtdLn-~DG--RFi~lG~n~Wg 66 (129)
T PRK02363 17 KEPMSFYDLVNEIQKYLGKSDEEI------------RERIAQFYTDLN-LDG--RFISLGDNKWG 66 (129)
T ss_pred CCcccHHHHHHHHHHHhCCCHHHH------------HHHHHHHHHHHh-ccC--CeeEcCCCcee
Confidence 467889999999999988764431 368899998884 677 23456788888
No 98
>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=28.11 E-value=26 Score=22.28 Aligned_cols=17 Identities=35% Similarity=0.521 Sum_probs=14.4
Q ss_pred ccCCCCeEEEEecCCcc
Q 034167 79 KKDEDGFLYVTYSGENT 95 (102)
Q Consensus 79 ~kd~DGfLyl~Ys~~~a 95 (102)
+-|+||-+|+-|+.++.
T Consensus 42 wiDe~G~vYi~~s~eel 58 (76)
T PF06970_consen 42 WIDENGNVYIIFSIEEL 58 (76)
T ss_pred cCCCCCCEEEEeeHHHH
Confidence 56899999999998764
No 99
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=27.91 E-value=1.6e+02 Score=18.47 Aligned_cols=54 Identities=17% Similarity=0.137 Sum_probs=39.7
Q ss_pred CCCcceeEEEecCCcchHhHHHHHHHHhcCCCcc-eEEEEEcC--cCCCCCchHHHH
Q 034167 22 LPECENYRYLVPADLTVGQFVYVIRKRIKLSAEK-AIFIFVDN--VLPPTGAIMSAI 75 (102)
Q Consensus 22 ~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~-slFlyVnn--~lp~~~~~m~~l 75 (102)
+|+=..+.-.|.+.+|+.+++.-+-++-+++++. .+|+..++ ..+..++.++.|
T Consensus 6 LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~~~~~~~~~~~~d~~~L 62 (72)
T cd01760 6 LPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLGLDEKKPLDLDTDSSSL 62 (72)
T ss_pred CcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEecCCCcCCcCchhhhhhh
Confidence 5666778888999999999999999999998753 34444344 455666666555
No 100
>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=27.86 E-value=1e+02 Score=17.24 Aligned_cols=21 Identities=24% Similarity=0.322 Sum_probs=17.7
Q ss_pred HHHHHHhcCCCcceEEEEEcC
Q 034167 43 YVIRKRIKLSAEKAIFIFVDN 63 (102)
Q Consensus 43 ~~lRk~L~l~~~~slFlyVnn 63 (102)
.-+|+.+++++++.+.+.+++
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 457899999999999988863
No 101
>PRK08577 hypothetical protein; Provisional
Probab=27.77 E-value=64 Score=22.04 Aligned_cols=21 Identities=14% Similarity=0.343 Sum_probs=18.3
Q ss_pred HHHHHHhcCCCcceEEEEEcC
Q 034167 43 YVIRKRIKLSAEKAIFIFVDN 63 (102)
Q Consensus 43 ~~lRk~L~l~~~~slFlyVnn 63 (102)
.-+|++|++.+++.+-+++++
T Consensus 19 ~~~r~~l~~~~g~~~~~~~~~ 39 (136)
T PRK08577 19 LEIREALGIREGMYVLLIADT 39 (136)
T ss_pred HHHHHHcCcCCCCEEEEEEEC
Confidence 457999999999999999874
No 102
>PF14060 DUF4252: Domain of unknown function (DUF4252)
Probab=27.66 E-value=66 Score=22.03 Aligned_cols=25 Identities=16% Similarity=0.340 Sum_probs=21.0
Q ss_pred CCchHHHHHhhccCCCCeEEEEecC
Q 034167 68 TGAIMSAIYEEKKDEDGFLYVTYSG 92 (102)
Q Consensus 68 ~~~~m~~lY~~~kd~DGfLyl~Ys~ 92 (102)
..+.+.++|++|++.+|+-+++-+.
T Consensus 20 ~~~~~~~~~~~~~~~~~~~~v~i~~ 44 (155)
T PF14060_consen 20 QGQSLQKYFDKYSENKGVTSVNISK 44 (155)
T ss_pred cchhHHHHHHHhCCCCCeEEEEECH
Confidence 4578899999999999999987653
No 103
>PRK11347 antitoxin ChpS; Provisional
Probab=27.41 E-value=1.6e+02 Score=18.95 Aligned_cols=39 Identities=13% Similarity=0.195 Sum_probs=30.4
Q ss_pred HHHHHHhcCCCcceEEEEEcC-c---CC-CCCchHHHHHhhccC
Q 034167 43 YVIRKRIKLSAEKAIFIFVDN-V---LP-PTGAIMSAIYEEKKD 81 (102)
Q Consensus 43 ~~lRk~L~l~~~~slFlyVnn-~---lp-~~~~~m~~lY~~~kd 81 (102)
..+.++++++.++.+.+-+.+ . .| ...-++.+|...+..
T Consensus 18 k~il~~l~l~~G~~v~i~v~~~~iii~p~~~~~tL~eLla~~~~ 61 (83)
T PRK11347 18 NIVMKELNLQPGQSVEAQVSNNQLILTPISRRYSLDELLAQCDM 61 (83)
T ss_pred HHHHHHcCCCCCCEEEEEEECCEEEEEECCCCCCHHHHHhcCCc
Confidence 456799999999999999875 3 24 344689999999854
No 104
>PF10336 DUF2420: Protein of unknown function (DUF2420); InterPro: IPR018822 This entry represents a family of proteins conserved in fungi. Their function is not known.
Probab=26.58 E-value=2.1e+02 Score=19.36 Aligned_cols=63 Identities=16% Similarity=0.251 Sum_probs=41.8
Q ss_pred CcchHhHHHHHHHHhc------CCCcceEEEEEcC--------cCCCCCchHHH---HHhhccCC---------CCeEEE
Q 034167 35 DLTVGQFVYVIRKRIK------LSAEKAIFIFVDN--------VLPPTGAIMSA---IYEEKKDE---------DGFLYV 88 (102)
Q Consensus 35 ~~tv~~f~~~lRk~L~------l~~~~slFlyVnn--------~lp~~~~~m~~---lY~~~kd~---------DGfLyl 88 (102)
+.++++|...+|+.+. +..++-|.+-+.. .+-+.+-++.| +|+..+.. =+-||+
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 5566777765543 12344556665 45554222 238999
Q ss_pred EecCCcccC
Q 034167 89 TYSGENTFG 97 (102)
Q Consensus 89 ~Ys~~~afG 97 (102)
+-+.++.|-
T Consensus 90 ~LstrPRFi 98 (113)
T PF10336_consen 90 TLSTRPRFI 98 (113)
T ss_pred EEecCccHH
Confidence 999998874
No 105
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=25.12 E-value=44 Score=20.66 Aligned_cols=45 Identities=11% Similarity=0.184 Sum_probs=28.2
Q ss_pred ceeEEEecCCcchHhHHHHHHHHh-cCCC-cceEEEEEcCcCCCCCc
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRI-KLSA-EKAIFIFVDNVLPPTGA 70 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L-~l~~-~~slFlyVnn~lp~~~~ 70 (102)
+...+-++...|++++...|..+. ++.. ...+.+.||+...+.+.
T Consensus 19 ~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~~ 65 (82)
T PLN02799 19 SDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTESA 65 (82)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCCc
Confidence 445556889999999999887654 1221 12456788986433443
No 106
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=25.07 E-value=1.7e+02 Score=19.45 Aligned_cols=43 Identities=16% Similarity=0.218 Sum_probs=32.9
Q ss_pred CCCcceeEEEecCCcchHhHHHHHHHHhcCCCc----ceEEEEEcCc
Q 034167 22 LPECENYRYLVPADLTVGQFVYVIRKRIKLSAE----KAIFIFVDNV 64 (102)
Q Consensus 22 ~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~----~slFlyVnn~ 64 (102)
+|+=.+-.--|..+.+-+++...+-++|+|+.+ -+||+..+..
T Consensus 8 Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~YFaLFev~~~~ 54 (87)
T cd01777 8 LPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQNYFALFEVINHS 54 (87)
T ss_pred ccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhheeeeEEecce
Confidence 344344555688889999999999999999976 5788877753
No 107
>PF02938 GAD: GAD domain; InterPro: IPR004115 This entry represetns an 2 layer alpha/beta insertion domain found in some glutamyl-tRNA amidotransferases and aspartyl tRNA synthetases [, ]. The function of this domain is not yet known.; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0005737 cytoplasm; PDB: 1ZQ1_D 1EQR_B 1IL2_B 1C0A_A 1L0W_A 1G51_B 1EFW_B 2D6F_D.
Probab=24.50 E-value=1.1e+02 Score=19.59 Aligned_cols=25 Identities=4% Similarity=0.127 Sum_probs=18.9
Q ss_pred HhHHHHHHHHhcCCCcceEEEEEcC
Q 034167 39 GQFVYVIRKRIKLSAEKAIFIFVDN 63 (102)
Q Consensus 39 ~~f~~~lRk~L~l~~~~slFlyVnn 63 (102)
.+...-|.+++++.+++.+|+..+.
T Consensus 63 e~~~~~l~~~~~a~~GD~ll~~Ag~ 87 (95)
T PF02938_consen 63 EEELKALIERLGAKPGDLLLFVAGK 87 (95)
T ss_dssp HHHHHHHHHHTT--TTEEEEEEEES
T ss_pred HHHHHHHHHHhCCCCCCEEEEECCC
Confidence 5567888899999999999987764
No 108
>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=24.05 E-value=46 Score=22.74 Aligned_cols=31 Identities=10% Similarity=0.158 Sum_probs=26.3
Q ss_pred CCcchHhHHHHHHHHhcCCCcceEEEEEcCc
Q 034167 34 ADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV 64 (102)
Q Consensus 34 ~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~ 64 (102)
...++.+++..+++-|.-.+++.+.|-+++.
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 4579999999999999999999999999763
No 109
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=24.03 E-value=90 Score=23.41 Aligned_cols=17 Identities=24% Similarity=0.204 Sum_probs=13.4
Q ss_pred cCCCCeEEEEecCCcccCC
Q 034167 80 KDEDGFLYVTYSGENTFGS 98 (102)
Q Consensus 80 kd~DGfLyl~Ys~~~afG~ 98 (102)
+..|||||| +.++.+|.
T Consensus 150 ~~~~~~l~m--sv~~~~g~ 166 (244)
T PRK13125 150 KLSPLFIYY--GLRPATGV 166 (244)
T ss_pred HhCCCEEEE--EeCCCCCC
Confidence 347999999 67888885
No 110
>cd01782 AF6_RA_repeat1 Ubiquitin domain of AT-6, first repeat. The AF-6 protein (also known as afadin and canoe) is a multidomain cell junction protein that contains two N-terminal Ras-associating (RA) domains in addition to FHA (forkhead-associated), DIL (class V myosin homology region), and PDZ domains and a proline-rich region. AF6 acts downstream of the Egfr (Epidermal Growth Factor-receptor)/Ras signalling pathway and provides a link from Egfr to cytoskeletal elements.
Probab=24.00 E-value=2.3e+02 Score=19.75 Aligned_cols=34 Identities=9% Similarity=0.208 Sum_probs=27.0
Q ss_pred EEecCCcchHhHHHHHHHHhcCC------CcceEEEEEcC
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLS------AEKAIFIFVDN 63 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~------~~~slFlyVnn 63 (102)
--|.+++|..|++..|-++.+.+ ++-|||....|
T Consensus 40 VrVsS~~tt~eVI~~LLeKFk~d~~~~s~p~FALYevh~n 79 (112)
T cd01782 40 IRVSSTATTRDVIDTLSEKFRPDMRMLSNPTYSLYEVHEN 79 (112)
T ss_pred EEEecCCCHHHHHHHHHHHhcccccccCCcceEEEEEecC
Confidence 34999999999999999988833 56788876644
No 111
>TIGR01051 topA_bact DNA topoisomerase I, bacterial. This model describes DNA topoisomerase I among the members of bacteria. DNA topoisomerase I transiently cleaves one DNA strand and thus relaxes negatively supercoiled DNA during replication, transcription and recombination events.
Probab=23.46 E-value=92 Score=26.91 Aligned_cols=24 Identities=29% Similarity=0.541 Sum_probs=15.9
Q ss_pred hHHHHHhhccCCCCeE-EEEecCCc
Q 034167 71 IMSAIYEEKKDEDGFL-YVTYSGEN 94 (102)
Q Consensus 71 ~m~~lY~~~kd~DGfL-yl~Ys~~~ 94 (102)
...+||+.++-.+|-. +++|-.++
T Consensus 276 iaQ~LYe~~~~~~~~~g~iSYPRTd 300 (610)
T TIGR01051 276 IAQRLYEGVSTGDGTIGLITYMRTD 300 (610)
T ss_pred HHHHHHhcccccCCceeEEeecCcC
Confidence 4468999754445444 78997665
No 112
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=23.26 E-value=1.6e+02 Score=18.15 Aligned_cols=38 Identities=18% Similarity=0.128 Sum_probs=28.1
Q ss_pred CCCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEE
Q 034167 22 LPECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIF 60 (102)
Q Consensus 22 ~P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFly 60 (102)
+|+=+...--|.+.+|+.+++.-+-++-+|+++.- ++|
T Consensus 7 LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~-~V~ 44 (71)
T PF02196_consen 7 LPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECC-DVR 44 (71)
T ss_dssp ETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCE-EEE
T ss_pred CCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHE-EEE
Confidence 56667777889999999999999999999998743 444
No 113
>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=23.18 E-value=1.9e+02 Score=19.62 Aligned_cols=36 Identities=14% Similarity=0.216 Sum_probs=29.9
Q ss_pred eEEEecCCcchHhHHHHHHHHhcCCC--cceEEEEEcC
Q 034167 28 YRYLVPADLTVGQFVYVIRKRIKLSA--EKAIFIFVDN 63 (102)
Q Consensus 28 ~KflVp~~~tv~~f~~~lRk~L~l~~--~~slFlyVnn 63 (102)
.-+..|-+.|++|++..|.++..+++ +-.|++.+++
T Consensus 15 ~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~ 52 (97)
T cd01775 15 TTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHD 52 (97)
T ss_pred EEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECC
Confidence 34678999999999999999998876 4567778887
No 114
>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=23.15 E-value=2.7e+02 Score=19.48 Aligned_cols=55 Identities=9% Similarity=0.020 Sum_probs=38.8
Q ss_pred CcchHhHHHHHHHHhcCCCcceEEEEEcCcCCC-----CCchHHHHHhhcc---CCCCeEEEEe
Q 034167 35 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP-----TGAIMSAIYEEKK---DEDGFLYVTY 90 (102)
Q Consensus 35 ~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~-----~~~~m~~lY~~~k---d~DGfLyl~Y 90 (102)
..|+.+++..++..+. .++..+.|++.-+.++ ..+.+.++++++. -.|..++.++
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 7777788888765332 3346777888876 3455666665
No 115
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=22.92 E-value=96 Score=23.87 Aligned_cols=31 Identities=23% Similarity=0.473 Sum_probs=25.2
Q ss_pred cCCcchHhHHHHHH--------HHhcCCCcceEEEEEcC
Q 034167 33 PADLTVGQFVYVIR--------KRIKLSAEKAIFIFVDN 63 (102)
Q Consensus 33 p~~~tv~~f~~~lR--------k~L~l~~~~slFlyVnn 63 (102)
..+.|..+|+.+|+ |.|...+++-||+|..+
T Consensus 77 g~~v~~~~fl~vL~G~~~~~~~kvl~s~~~D~vfiy~~~ 115 (256)
T PF01650_consen 77 GEDVTPENFLNVLTGDKSVPSGKVLNSTENDNVFIYFTG 115 (256)
T ss_pred ccccCHHHHHHHhcCCCCCCccccccCCCCCeEEEEEec
Confidence 34778999999999 45567899999999863
No 116
>KOG0765 consensus Predicted mitochondrial carrier protein [Energy production and conversion]
Probab=22.75 E-value=36 Score=27.64 Aligned_cols=35 Identities=6% Similarity=0.280 Sum_probs=27.2
Q ss_pred CcceeEEEecCCcchHhH------HHHHHHHhcCCCcceEE
Q 034167 24 ECENYRYLVPADLTVGQF------VYVIRKRIKLSAEKAIF 58 (102)
Q Consensus 24 ~L~k~KflVp~~~tv~~f------~~~lRk~L~l~~~~slF 58 (102)
-|||+||.+..-..+.-+ +..||.||++++++.+|
T Consensus 30 ~lDK~kFy~~g~~l~~~Vr~aLYP~~vlkTrlQVq~~~~vy 70 (333)
T KOG0765|consen 30 MLDKKKFYPLGAALFSGVRTALYPLTVLKTRLQVQKKNTVY 70 (333)
T ss_pred hccccceeehhhHHhhcceeeeeehhhhhhHHhhccccchh
Confidence 479999998776655544 57899999999887655
No 117
>PF05990 DUF900: Alpha/beta hydrolase of unknown function (DUF900); InterPro: IPR010297 This domain is associated with proteins of unknown function, which are hydrolase-like.
Probab=22.74 E-value=2.1e+02 Score=21.29 Aligned_cols=51 Identities=16% Similarity=0.262 Sum_probs=34.6
Q ss_pred HhHHHHHHHHhcCCCcceEEEEEcCcC---CCCCchHHHHHhhccCCCCeEEEEec
Q 034167 39 GQFVYVIRKRIKLSAEKAIFIFVDNVL---PPTGAIMSAIYEEKKDEDGFLYVTYS 91 (102)
Q Consensus 39 ~~f~~~lRk~L~l~~~~slFlyVnn~l---p~~~~~m~~lY~~~kd~DGfLyl~Ys 91 (102)
+.|...++++|.-.+.+.+.+||.+.- ...-...+++....+ -+| ..+.|+
T Consensus 2 ~~~~~~~~~~l~~~~~~~vlvfVHGyn~~f~~a~~r~aql~~~~~-~~~-~~i~Fs 55 (233)
T PF05990_consen 2 AAFQAQLNQRLAKSPDKEVLVFVHGYNNSFEDALRRAAQLAHDLG-FPG-VVILFS 55 (233)
T ss_pred hHHHHHHHHHHhhCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCc-eEEEEE
Confidence 357788899999888999999998632 223346677777775 344 444443
No 118
>KOG0089 consensus Methylenetetrahydrofolate dehydrogenase/methylenetetrahydrofolate cyclohydrolase [Coenzyme transport and metabolism]
Probab=22.53 E-value=1.4e+02 Score=24.21 Aligned_cols=23 Identities=22% Similarity=0.267 Sum_probs=18.2
Q ss_pred CCchHHHHHhhccCCCCeEEEEe
Q 034167 68 TGAIMSAIYEEKKDEDGFLYVTY 90 (102)
Q Consensus 68 ~~~~m~~lY~~~kd~DGfLyl~Y 90 (102)
.++.+-+.-..-||.|||.|++-
T Consensus 111 ~eq~i~n~Vs~eKDVDgfh~~Ni 133 (309)
T KOG0089|consen 111 QEQYILNAVSPEKDVDGFHPLNI 133 (309)
T ss_pred cHHHHHhhcCcccccccccccch
Confidence 34677777777799999999974
No 119
>TIGR01408 Ube1 ubiquitin-activating enzyme E1. This model represents the full length, over a thousand amino acids, of a multicopy family of eukaryotic proteins, many of which are designated ubiquitin-activating enzyme E1. Members have two copies of the ThiF family domain (pfam00899), a repeat found in ubiquitin-activating proteins (pfam02134), and other regions.
Probab=22.49 E-value=1.8e+02 Score=27.06 Aligned_cols=58 Identities=12% Similarity=0.251 Sum_probs=36.9
Q ss_pred EEecCCcchHhHHHHHHHHhcCCCc----ceEEEEEcCcCC----CCCchHHHHHhhccC---CCCeEEE
Q 034167 30 YLVPADLTVGQFVYVIRKRIKLSAE----KAIFIFVDNVLP----PTGAIMSAIYEEKKD---EDGFLYV 88 (102)
Q Consensus 30 flVp~~~tv~~f~~~lRk~L~l~~~----~slFlyVnn~lp----~~~~~m~~lY~~~kd---~DGfLyl 88 (102)
|-++.+.|+.+|+..++++.+++.. ..--|| ++.+| ..+.+|.+|+++=.. .++.-|+
T Consensus 916 ~~i~~~~Tl~~~i~~~~~~~~~~v~~is~g~~~lY-~~~~~~~~erl~~~l~el~~~~~k~~~~~~~~~l 984 (1008)
T TIGR01408 916 WTLHGDFTLLEFINAVKEKYGLEPTMVSQGVKLLY-VPVMPGHAERLKLKMHKLVKPTTKKKLPPYRVHL 984 (1008)
T ss_pred EEecCCCcHHHHHHHHHHHhCCeeEEEEcCceEEE-eccchhhHHhcCCCHHHHHHHhccCCCCCCceEE
Confidence 4488899999999999999887532 111123 22233 345578999987732 3554444
No 120
>PF04441 Pox_VERT_large: Poxvirus early transcription factor (VETF), large subunit ; InterPro: IPR007532 The poxvirus early transcription factor (VETF), in addition to the viral RNA polymerase, is required for efficient transcription of early genes in vitro. VETF is a heterodimeric protein that binds specifically to early gene promoters. The heterodimer is comprised of an 82 kDa (this family) subunit and a 70 kDa subunit.; GO: 0045893 positive regulation of transcription, DNA-dependent
Probab=22.42 E-value=99 Score=27.49 Aligned_cols=52 Identities=27% Similarity=0.495 Sum_probs=34.9
Q ss_pred CcchHhHHHHHHHHhcCCCcceEE--------EEEcCcC--CCC-Cc--hHHHHHhhccCCCCeEEEEecCC
Q 034167 35 DLTVGQFVYVIRKRIKLSAEKAIF--------IFVDNVL--PPT-GA--IMSAIYEEKKDEDGFLYVTYSGE 93 (102)
Q Consensus 35 ~~tv~~f~~~lRk~L~l~~~~slF--------lyVnn~l--p~~-~~--~m~~lY~~~kd~DGfLyl~Ys~~ 93 (102)
+++++|+.-.|+.-|+++++=-+| =||+|+. |=. .+ ++- | .|||||..|.+-
T Consensus 59 Tlki~QlkGYl~nlL~i~edIIiyShkNNLeYsYvdNtIFnPf~~tQkktLI------k-sd~fLYNiY~~a 123 (700)
T PF04441_consen 59 TLKISQLKGYLCNLLNINEDIIIYSHKNNLEYSYVDNTIFNPFTHTQKKTLI------K-SDSFLYNIYPDA 123 (700)
T ss_pred EEEHHHhhhHHHHhhCCCccEEEEEeccCceEEeecCcccCCcchhhhceEe------c-cCceEEEecccc
Confidence 578899999999999998664443 3888853 421 22 211 1 578888888653
No 121
>PF06138 Chordopox_E11: Chordopoxvirus E11 protein; InterPro: IPR009201 This group represents a virion core protein, vaccinia E11L type.
Probab=22.24 E-value=2e+02 Score=20.48 Aligned_cols=24 Identities=25% Similarity=0.570 Sum_probs=18.6
Q ss_pred chHhHHHHHHHHhcCCCcceEEEEE
Q 034167 37 TVGQFVYVIRKRIKLSAEKAIFIFV 61 (102)
Q Consensus 37 tv~~f~~~lRk~L~l~~~~slFlyV 61 (102)
-+..|+..|+|.++++++ +.||.|
T Consensus 36 Av~~Fl~~L~kyI~veeS-tFylvv 59 (130)
T PF06138_consen 36 AVKHFLSVLKKYIDVEES-TFYLVV 59 (130)
T ss_pred HHHHHHHHHHhhEEeccc-EEEEEE
Confidence 688999999999998855 444544
No 122
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=22.07 E-value=83 Score=18.64 Aligned_cols=36 Identities=8% Similarity=0.145 Sum_probs=24.5
Q ss_pred ceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCC
Q 034167 26 ENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLP 66 (102)
Q Consensus 26 ~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp 66 (102)
....+-+++..|+++++..+ ++++ +.+-+.+|+...
T Consensus 5 Ng~~~~~~~~~tv~~ll~~l----~~~~-~~i~V~vNg~~v 40 (65)
T cd00565 5 NGEPREVEEGATLAELLEEL----GLDP-RGVAVALNGEIV 40 (65)
T ss_pred CCeEEEcCCCCCHHHHHHHc----CCCC-CcEEEEECCEEc
Confidence 45566788888988877554 4554 456677998643
No 123
>PRK14483 DhaKLM operon coactivator DhaQ; Provisional
Probab=21.86 E-value=73 Score=25.89 Aligned_cols=57 Identities=5% Similarity=0.156 Sum_probs=39.4
Q ss_pred CCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC--cCCCCCc--hHHHHHhhcc
Q 034167 23 PECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN--VLPPTGA--IMSAIYEEKK 80 (102)
Q Consensus 23 P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn--~lp~~~~--~m~~lY~~~k 80 (102)
|-..+.+ +.|.+..+.+++..|.+.+++++++.+-++||| ..|.+.. ...++.+..+
T Consensus 221 pG~~r~~-~~~a~~l~~~l~~~ll~~~~~~~gd~v~vlVN~LG~ts~~El~i~~~~v~~~L~ 281 (329)
T PRK14483 221 PGYRKEP-FSSSEILAIELVNKLKSKYRWQKGDNFILLINGLGATTLMEQYIFANDIRRLLE 281 (329)
T ss_pred CcccCCC-CCCHHHHHHHHHHHHHhhcCcCCCCeEEEEEeCCCCCcHHHHHHHHHHHHHHHH
Confidence 3345555 356677889999999998888899999999998 3565443 2244444443
No 124
>PHA01078 putative upper collar protein
Probab=21.24 E-value=1.3e+02 Score=23.53 Aligned_cols=50 Identities=20% Similarity=0.450 Sum_probs=32.0
Q ss_pred hHHHHHHHHhcCCCcceEEEEEcCcCCCCCc-hHHHHHhhccCCCCeEEEEecCCc
Q 034167 40 QFVYVIRKRIKLSAEKAIFIFVDNVLPPTGA-IMSAIYEEKKDEDGFLYVTYSGEN 94 (102)
Q Consensus 40 ~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~-~m~~lY~~~kd~DGfLyl~Ys~~~ 94 (102)
.|.+-++++|. ++-+++.+++-+|+.+- .+-.+||.|-..| |. +-|..+.
T Consensus 20 n~~~~~~~~l~---~~di~fi~~~~l~~~~~~~~~~~~d~~~~Gn-fV-V~~NK~~ 70 (249)
T PHA01078 20 NFNFQFQKRLT---KEDIYFIVPDYLIPDDCLQIHKLYDNCMSGN-FV-VMQNKPI 70 (249)
T ss_pred ccchhhhcccc---CCceEEEecCccCCchHHHHHHHhcccccCC-EE-EEeccch
Confidence 34455666654 34688889999887665 6788898886433 44 3344443
No 125
>TIGR02362 dhaK1b probable dihydroxyacetone kinase DhaK1b subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form with a phosphoprotein donor related to PTS transport proteins. This family represents a protein, unique to the Firmicutes (low GC Gram-positives), that appears to be a divergent second copy of the K subunit of that complex; its gene is always found in operons with the other three proteins of the complex.
Probab=20.99 E-value=80 Score=25.62 Aligned_cols=57 Identities=14% Similarity=0.233 Sum_probs=39.9
Q ss_pred CCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEEEEcC--cCCCCCc--hHHHHHhhcc
Q 034167 23 PECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN--VLPPTGA--IMSAIYEEKK 80 (102)
Q Consensus 23 P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn--~lp~~~~--~m~~lY~~~k 80 (102)
|-..+.|+ .|.+..+.+++..|.+.+.+++++.+-+.||| ..|.+.. ...++.+..+
T Consensus 218 pG~~r~~~-~~a~elv~~l~~~ll~~~~~~~gd~v~vlvN~LG~t~~lEl~i~~~~v~~~L~ 278 (326)
T TIGR02362 218 PGYRTEPF-VSSEHLAVELVNKLKLKFRWQADDHYAVLVNNLGGTTPMEQMVFNNDVHELLA 278 (326)
T ss_pred CcccCCCC-CCHHHHHHHHHHHHHhhcCCCCCCEEEEEecCCCCCCHHHHHHHHHHHHHHHH
Confidence 34455553 56666788888888888888889999999998 4665443 3355555554
No 126
>PF06395 CDC24: CDC24 Calponin; InterPro: IPR010481 This is a calponin homology domain.
Probab=20.87 E-value=65 Score=21.40 Aligned_cols=23 Identities=13% Similarity=0.420 Sum_probs=17.3
Q ss_pred cchHhHHHHHHHHhcCCCcceEEE
Q 034167 36 LTVGQFVYVIRKRIKLSAEKAIFI 59 (102)
Q Consensus 36 ~tv~~f~~~lRk~L~l~~~~slFl 59 (102)
..+.+|+...+++|+++.++ +|.
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 46788999999999987554 453
No 127
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=20.86 E-value=2.2e+02 Score=17.57 Aligned_cols=39 Identities=13% Similarity=0.170 Sum_probs=31.2
Q ss_pred CCcceeEEEecCCcchHhHHHHHHHHhcCCC---cceEEEEE
Q 034167 23 PECENYRYLVPADLTVGQFVYVIRKRIKLSA---EKAIFIFV 61 (102)
Q Consensus 23 P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~---~~slFlyV 61 (102)
|.-.-+-..|+++.|.++++..+-++.+++. +=+||..+
T Consensus 13 ~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~ 54 (90)
T smart00314 13 PGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVL 54 (90)
T ss_pred CCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEe
Confidence 5555666789999999999999999999975 34566655
No 128
>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=20.75 E-value=1.6e+02 Score=17.85 Aligned_cols=14 Identities=21% Similarity=0.510 Sum_probs=8.6
Q ss_pred hHHHHHhhccCCCC
Q 034167 71 IMSAIYEEKKDEDG 84 (102)
Q Consensus 71 ~m~~lY~~~kd~DG 84 (102)
.|.++|++|++.++
T Consensus 22 ~l~~l~~~~~~~~~ 35 (95)
T PF13905_consen 22 KLKELYKKYKKKDD 35 (95)
T ss_dssp HHHHHHHHHTTTTT
T ss_pred HHHHHHHHhCCCCC
Confidence 56677777764444
No 129
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=20.48 E-value=1.8e+02 Score=18.95 Aligned_cols=52 Identities=15% Similarity=0.252 Sum_probs=35.3
Q ss_pred CCcceeEEEecCCcchHhHHHHHHHHhcCCCcceEEE----EEc-C---c-CCCCCchHHHH
Q 034167 23 PECENYRYLVPADLTVGQFVYVIRKRIKLSAEKAIFI----FVD-N---V-LPPTGAIMSAI 75 (102)
Q Consensus 23 P~L~k~KflVp~~~tv~~f~~~lRk~L~l~~~~slFl----yVn-n---~-lp~~~~~m~~l 75 (102)
|+=...--.|.+++|+.++.....++=++++++- || +++ | . .|.+.+.|.++
T Consensus 7 Pn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh-~Lrlk~~~~e~~~~~~~p~~~e~~~~~ 67 (77)
T cd01818 7 PDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEH-YLRLKFLRMENHEYFYIPNPLEDIYDL 67 (77)
T ss_pred CCCceEEEEECCCCCHHHHHHHHHHhcCCChhHh-eeEEEEEecCCccEEEcCChHHHHHHh
Confidence 4444555679999999999999999999988643 22 332 2 1 56666655544
No 130
>PF01131 Topoisom_bac: DNA topoisomerase; InterPro: IPR013497 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. Type IA topoisomerases are comprised of four domains that together form a toroidal structure with a central hole large enough to accommodate single- and double-stranded DNA: an N-terminal alpha/beta Toprim domain, domain 2 and the C-terminal domain 4 are winged-helix domains, and domain 3 is a beta-barrel. Domains 1 (Toprim) and 3 form the active site of the enzyme, while the winged helix domains 2 and 4 form a single-strand DNA-binding groove [, ]. This entry represents the central portion of the enzyme, which covers domains 2 and 3 in topoisomerase type IA enzymes. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome; PDB: 1CYY_A 3PWT_A 1CY4_A 1CY9_A 1ECL_A 1CY7_A 1CY8_A 1CY6_A 1MW8_X 1CY0_A ....
Probab=20.32 E-value=46 Score=26.98 Aligned_cols=45 Identities=18% Similarity=0.361 Sum_probs=24.8
Q ss_pred ecCCcchHhHHHHHHHHhcCCCcceEEEEEcCcCCCCCchHHHHHhhccCCCCeEEEEecCCc
Q 034167 32 VPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGEN 94 (102)
Q Consensus 32 Vp~~~tv~~f~~~lRk~L~l~~~~slFlyVnn~lp~~~~~m~~lY~~~kd~DGfLyl~Ys~~~ 94 (102)
=|.-.+.++++....++++++++++ -+.+.+||++++ ||+|-.+.
T Consensus 114 pP~p~~l~~Lq~~a~k~~g~s~~~t------------l~iaQ~LYE~~g------~ISYPRTd 158 (403)
T PF01131_consen 114 PPLPFNLSTLQKEASKKLGFSAKET------------LDIAQKLYEKHG------LISYPRTD 158 (403)
T ss_dssp ---SB-HHHHHHHHHHHH---HHHH------------HHHHHHHHHTTT------SBS-SS-S
T ss_pred CCChHHHHHHHHHHHHHhhhhHHHH------------HHHHHHHHhhhh------eeeeeccc
Confidence 4446677888888888888887665 245678888655 35665554
Done!