Query 034290
Match_columns 99
No_of_seqs 106 out of 327
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 11:51:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034290.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034290hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02991 Atg8: Autophagy prote 100.0 7.4E-47 1.6E-51 254.9 9.2 97 2-99 7-104 (104)
2 KOG1654 Microtubule-associated 100.0 1.8E-46 3.9E-51 254.4 8.8 97 2-99 19-116 (116)
3 cd01611 GABARAP Ubiquitin doma 100.0 2.9E-45 6.2E-50 249.8 10.4 97 2-99 15-112 (112)
4 PTZ00380 microtubule-associate 100.0 1.7E-42 3.6E-47 238.9 9.0 92 2-99 18-111 (121)
5 cd01612 APG12_C Ubiquitin-like 100.0 4.2E-34 9.1E-39 187.3 10.0 84 14-99 3-87 (87)
6 PF04110 APG12: Ubiquitin-like 99.9 1.4E-23 3.1E-28 137.7 7.1 79 19-99 8-87 (87)
7 KOG3439 Protein conjugation fa 99.9 8.6E-23 1.9E-27 138.8 9.3 77 21-99 39-116 (116)
8 PF04106 APG5: Autophagy prote 95.9 0.017 3.7E-07 42.5 4.9 85 6-93 106-195 (197)
9 PF11816 DUF3337: Domain of un 95.6 0.15 3.2E-06 40.1 9.5 87 7-94 211-328 (331)
10 PF11976 Rad60-SLD: Ubiquitin- 94.5 0.13 2.8E-06 31.1 4.9 49 29-77 12-60 (72)
11 cd06406 PB1_P67 A PB1 domain i 91.6 0.8 1.7E-05 29.7 5.5 53 33-88 16-73 (80)
12 PF00240 ubiquitin: Ubiquitin 90.3 0.71 1.5E-05 27.4 4.2 47 30-77 8-54 (69)
13 smart00213 UBQ Ubiquitin homol 90.2 1.2 2.5E-05 25.5 5.0 47 29-76 11-57 (64)
14 KOG2660 Locus-specific chromos 89.6 0.55 1.2E-05 37.6 4.1 66 30-95 165-234 (331)
15 cd00196 UBQ Ubiquitin-like pro 87.2 3 6.4E-05 21.9 5.6 38 29-67 9-46 (69)
16 PF03671 Ufm1: Ubiquitin fold 87.0 3.3 7.2E-05 26.5 5.7 59 24-83 13-71 (76)
17 PF10302 DUF2407: DUF2407 ubiq 86.9 6.8 0.00015 25.8 7.9 71 22-94 10-94 (97)
18 PF13019 Telomere_Sde2: Telome 86.1 3.4 7.4E-05 30.0 6.1 63 29-92 16-81 (162)
19 cd01763 Sumo Small ubiquitin-r 83.6 5 0.00011 25.4 5.5 48 29-77 23-70 (87)
20 KOG2976 Protein involved in au 82.8 6.4 0.00014 30.8 6.6 32 61-92 242-273 (278)
21 cd01807 GDX_N ubiquitin-like d 82.6 3.1 6.7E-05 25.3 4.0 45 31-76 14-58 (74)
22 cd01798 parkin_N amino-termina 82.5 3.2 7E-05 24.9 4.1 45 31-76 12-56 (70)
23 cd01806 Nedd8 Nebb8-like ubiq 82.0 6.1 0.00013 23.5 5.2 59 30-93 13-72 (76)
24 cd01813 UBP_N UBP ubiquitin pr 81.3 3.3 7.1E-05 25.6 3.9 45 33-77 15-61 (74)
25 cd01803 Ubiquitin Ubiquitin. U 79.5 7.3 0.00016 23.1 5.0 61 29-93 12-72 (76)
26 cd01810 ISG15_repeat2 ISG15 ub 78.9 10 0.00022 22.9 5.5 59 31-93 12-70 (74)
27 cd01769 UBL Ubiquitin-like dom 77.4 11 0.00024 21.5 5.5 60 29-92 9-68 (69)
28 cd01805 RAD23_N Ubiquitin-like 77.1 6.4 0.00014 23.7 4.2 57 31-92 14-73 (77)
29 cd06396 PB1_NBR1 The PB1 domai 75.6 18 0.00039 23.3 6.1 61 29-92 11-78 (81)
30 PF14836 Ubiquitin_3: Ubiquiti 74.1 5.2 0.00011 26.3 3.3 47 33-79 19-71 (88)
31 cd01793 Fubi Fubi ubiquitin-li 73.0 14 0.0003 22.3 5.0 59 29-91 10-68 (74)
32 cd01809 Scythe_N Ubiquitin-lik 72.4 16 0.00034 21.4 5.1 47 29-76 12-58 (72)
33 cd01812 BAG1_N Ubiquitin-like 71.4 9.6 0.00021 22.4 3.9 44 32-76 14-57 (71)
34 cd01796 DDI1_N DNA damage indu 71.2 8.3 0.00018 23.4 3.6 55 32-90 14-69 (71)
35 cd01790 Herp_N Homocysteine-re 71.0 24 0.00052 22.5 7.3 62 31-93 15-79 (79)
36 cd01794 DC_UbP_C dendritic cel 70.5 17 0.00036 22.1 4.9 47 29-76 10-56 (70)
37 cd01799 Hoil1_N Ubiquitin-like 70.4 17 0.00036 22.6 5.0 58 29-90 14-72 (75)
38 cd05992 PB1 The PB1 domain is 69.8 21 0.00047 21.4 7.0 63 29-91 11-79 (81)
39 cd01776 Rin1_RA Ubiquitin doma 69.5 12 0.00026 24.6 4.2 57 30-86 16-80 (87)
40 PF11543 UN_NPL4: Nuclear pore 68.2 4.7 0.0001 25.6 2.1 59 29-91 15-78 (80)
41 cd06407 PB1_NLP A PB1 domain i 66.4 16 0.00034 23.3 4.3 54 29-82 11-69 (82)
42 PF12436 USP7_ICP0_bdg: ICP0-b 66.0 7.7 0.00017 29.3 3.2 46 31-76 88-138 (249)
43 smart00666 PB1 PB1 domain. Pho 64.8 29 0.00062 21.0 6.8 62 29-90 12-78 (81)
44 cd01791 Ubl5 UBL5 ubiquitin-li 64.0 19 0.00041 22.2 4.2 56 33-92 17-72 (73)
45 PTZ00044 ubiquitin; Provisiona 63.9 27 0.00059 20.8 4.9 46 30-76 13-58 (76)
46 cd01800 SF3a120_C Ubiquitin-li 61.3 20 0.00044 21.8 4.0 58 31-92 11-68 (76)
47 cd06398 PB1_Joka2 The PB1 doma 60.4 22 0.00048 23.1 4.2 52 29-80 11-72 (91)
48 cd01792 ISG15_repeat1 ISG15 ub 58.3 20 0.00042 22.1 3.6 58 33-93 18-76 (80)
49 cd01808 hPLIC_N Ubiquitin-like 58.1 38 0.00081 20.2 6.7 58 31-92 13-70 (71)
50 PF11767 SET_assoc: Histone ly 56.8 32 0.0007 21.2 4.3 55 31-93 5-62 (66)
51 PF14533 USP7_C2: Ubiquitin-sp 56.0 11 0.00024 27.7 2.5 49 29-77 35-90 (213)
52 PF05717 TnpB_IS66: IS66 Orf2 54.7 24 0.00051 23.6 3.7 27 39-65 16-43 (107)
53 PF14560 Ubiquitin_2: Ubiquiti 54.4 24 0.00053 22.0 3.6 32 31-62 17-49 (87)
54 cd01795 USP48_C USP ubiquitin- 54.2 31 0.00068 23.5 4.2 30 32-61 19-49 (107)
55 PF09358 UBA_e1_C: Ubiquitin-a 52.5 13 0.00028 25.5 2.2 53 29-81 34-94 (125)
56 TIGR01682 moaD molybdopterin c 50.2 24 0.00052 21.6 3.0 41 31-71 19-62 (80)
57 cd01815 BMSC_UbP_N Ubiquitin-l 49.6 45 0.00097 21.1 4.2 44 33-76 16-61 (75)
58 cd01802 AN1_N ubiquitin-like d 49.1 41 0.00089 22.1 4.2 59 31-93 41-99 (103)
59 cd01789 Alp11_N Ubiquitin-like 47.0 41 0.00088 21.1 3.8 33 33-65 18-51 (84)
60 PF08154 NLE: NLE (NUC135) dom 46.7 61 0.0013 19.4 4.4 41 25-66 14-55 (65)
61 cd01797 NIRF_N amino-terminal 46.5 46 0.001 20.6 3.9 56 34-93 19-74 (78)
62 PF09379 FERM_N: FERM N-termin 44.1 69 0.0015 19.1 4.5 35 29-63 8-42 (80)
63 PRK06437 hypothetical protein; 44.0 42 0.00091 20.3 3.4 39 31-74 14-52 (67)
64 PF00788 RA: Ras association ( 43.9 72 0.0016 19.3 8.2 63 29-91 18-89 (93)
65 cd01804 midnolin_N Ubiquitin-l 43.8 75 0.0016 19.4 6.4 58 32-94 16-73 (78)
66 PF02597 ThiS: ThiS family; I 42.5 22 0.00047 21.1 1.9 41 29-69 13-54 (77)
67 cd01766 Ufm1 Urm1-like ubiquit 42.3 45 0.00097 21.6 3.4 55 29-83 17-71 (82)
68 cd06411 PB1_p51 The PB1 domain 41.3 96 0.0021 19.9 5.8 58 33-90 12-75 (78)
69 cd06408 PB1_NoxR The PB1 domai 41.0 37 0.0008 22.1 2.9 28 32-61 16-43 (86)
70 PF11470 TUG-UBL1: GLUT4 regul 40.5 86 0.0019 19.1 4.5 37 29-66 8-44 (65)
71 PRK08364 sulfur carrier protei 40.2 40 0.00086 20.4 2.8 37 31-72 17-53 (70)
72 TIGR00601 rad23 UV excision re 39.6 1.7E+02 0.0037 23.8 7.1 59 32-94 15-76 (378)
73 PF06970 RepA_N: Replication i 39.4 15 0.00033 23.1 0.9 16 81-96 42-57 (76)
74 COG3343 RpoE DNA-directed RNA 38.6 45 0.00098 24.6 3.3 47 37-99 30-77 (175)
75 cd03483 MutL_Trans_MLH1 MutL_T 38.1 45 0.00098 22.4 3.1 26 56-81 47-75 (127)
76 PF00564 PB1: PB1 domain; Int 37.7 91 0.002 18.7 6.1 52 32-83 16-71 (84)
77 cd00754 MoaD Ubiquitin domain 36.9 44 0.00096 19.9 2.7 42 30-71 18-62 (80)
78 cd01775 CYR1_RA Ubiquitin doma 36.7 81 0.0018 21.1 4.1 37 29-65 14-52 (97)
79 KOG0010 Ubiquitin-like protein 35.9 63 0.0014 27.4 4.2 53 29-86 26-78 (493)
80 KOG3483 Uncharacterized conser 34.4 71 0.0015 20.8 3.4 61 23-84 23-83 (94)
81 TIGR02609 doc_partner putative 33.8 55 0.0012 20.2 2.8 21 45-65 16-36 (74)
82 COG1218 CysQ 3'-Phosphoadenosi 33.8 42 0.00092 26.2 2.7 44 2-45 56-100 (276)
83 PRK02363 DNA-directed RNA poly 33.5 49 0.0011 23.0 2.7 50 35-99 17-66 (129)
84 KOG1209 1-Acyl dihydroxyaceton 33.1 1.1E+02 0.0023 24.1 4.7 51 29-83 56-111 (289)
85 PF06395 CDC24: CDC24 Calponin 32.3 31 0.00068 22.6 1.5 22 38-60 44-65 (89)
86 PF00255 GSHPx: Glutathione pe 32.1 47 0.001 22.2 2.4 37 59-96 23-63 (108)
87 cd01782 AF6_RA_repeat1 Ubiquit 31.9 1.3E+02 0.0029 20.6 4.6 36 30-65 37-79 (112)
88 PF10336 DUF2420: Protein of u 30.6 1.7E+02 0.0037 19.6 5.3 62 37-98 10-97 (113)
89 PRK11130 moaD molybdopterin sy 29.8 78 0.0017 19.5 3.0 35 37-72 25-64 (81)
90 COG2002 AbrB Regulators of sta 28.7 66 0.0014 20.4 2.6 21 45-65 20-40 (89)
91 PF14060 DUF4252: Domain of un 28.7 71 0.0015 21.7 2.9 24 70-93 20-43 (155)
92 PF06490 FleQ: Flagellar regul 28.0 96 0.0021 20.3 3.4 46 3-50 62-107 (109)
93 COG0386 BtuE Glutathione perox 27.2 80 0.0017 23.0 3.0 37 59-96 27-67 (162)
94 KOG1651 Glutathione peroxidase 27.0 99 0.0021 22.7 3.5 36 59-95 36-76 (171)
95 PRK13125 trpA tryptophan synth 26.9 72 0.0016 23.7 2.9 17 81-99 149-165 (244)
96 COG3592 Uncharacterized conser 26.9 65 0.0014 20.5 2.2 36 14-50 24-64 (74)
97 PF01119 DNA_mis_repair: DNA m 26.9 51 0.0011 21.6 1.9 31 53-83 36-69 (119)
98 PF04014 Antitoxin-MazE: Antid 26.2 93 0.002 17.2 2.7 21 45-65 13-33 (47)
99 PF12436 USP7_ICP0_bdg: ICP0-b 25.9 1.9E+02 0.004 21.8 5.0 37 29-65 191-227 (249)
100 smart00148 PLCXc Phospholipase 25.5 85 0.0018 21.4 2.8 32 36-67 67-98 (135)
101 PF07929 PRiA4_ORF3: Plasmid p 25.5 1.5E+02 0.0032 20.8 4.2 32 29-61 19-50 (179)
102 smart00295 B41 Band 4.1 homolo 24.8 2.3E+02 0.0049 19.4 5.0 51 29-79 15-71 (207)
103 PF13905 Thioredoxin_8: Thiore 24.6 1.2E+02 0.0026 18.2 3.2 21 72-92 21-41 (95)
104 PRK08577 hypothetical protein; 24.5 78 0.0017 21.4 2.5 21 45-65 19-39 (136)
105 PLN02799 Molybdopterin synthas 24.2 59 0.0013 19.8 1.7 44 29-72 20-65 (82)
106 COG2239 MgtE Mg/Co/Ni transpor 24.2 1.2E+02 0.0027 25.2 4.0 34 29-63 140-173 (451)
107 PF13764 E3_UbLigase_R4: E3 ub 23.5 1E+02 0.0022 27.7 3.5 42 40-81 17-62 (802)
108 cd03485 MutL_Trans_hPMS_1_like 22.8 78 0.0017 21.2 2.2 27 56-82 48-78 (132)
109 cd04264 DUF619-NAGS DUF619 dom 22.4 1.8E+02 0.0038 19.1 3.8 53 7-63 18-70 (99)
110 KOG0097 GTPase Rab14, small G 22.4 2.5E+02 0.0054 20.6 4.8 62 31-93 90-154 (215)
111 smart00314 RA Ras association 22.3 2E+02 0.0043 17.6 4.9 39 24-63 13-54 (90)
112 PF14533 USP7_C2: Ubiquitin-sp 22.2 64 0.0014 23.7 1.8 65 29-93 134-207 (213)
113 KOG4147 Uncharacterized conser 22.1 64 0.0014 22.4 1.6 23 36-58 32-54 (127)
114 PF00789 UBX: UBX domain; Int 22.0 1.6E+02 0.0035 17.7 3.4 47 31-77 20-70 (82)
115 PF08469 NPHI_C: Nucleoside tr 21.4 66 0.0014 23.1 1.7 22 68-89 101-122 (148)
116 TIGR01408 Ube1 ubiquitin-activ 21.4 2E+02 0.0044 26.4 5.1 61 31-91 915-985 (1008)
117 PF03568 Peptidase_C50: Peptid 21.2 2.3E+02 0.0049 22.7 4.9 61 19-82 218-287 (383)
118 TIGR01683 thiS thiamine biosyn 21.1 1.9E+02 0.0041 16.8 3.7 34 29-67 5-38 (64)
119 cd03482 MutL_Trans_MutL MutL_T 20.5 86 0.0019 20.9 2.0 27 56-82 43-72 (123)
120 cd08555 PI-PLCc_GDPD_SF Cataly 20.3 3.1E+02 0.0066 19.0 6.2 55 37-92 59-121 (179)
121 PF01650 Peptidase_C13: Peptid 20.2 1.2E+02 0.0026 23.1 3.0 31 35-65 77-115 (256)
122 cd00137 PI-PLCc Catalytic doma 20.2 1.3E+02 0.0027 23.0 3.1 46 37-82 73-121 (274)
123 PF12949 HeH: HeH/LEM domain; 20.1 99 0.0021 16.8 1.8 16 35-50 1-16 (35)
124 PRK13669 hypothetical protein; 20.1 87 0.0019 20.1 1.9 27 57-83 45-74 (78)
No 1
>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=7.4e-47 Score=254.87 Aligned_cols=97 Identities=51% Similarity=0.818 Sum_probs=87.2
Q ss_pred cccccCCCc-eEEEEEecCCCCCCcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhh
Q 034290 2 ETATMGIPF-FLFICMNSHKFYIPTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDE 80 (99)
Q Consensus 2 ~~~~~~~p~-ipVIvE~~~~~~lp~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~ 80 (99)
+.+++|||+ |||||||++++++|+|| |+|||||.++||+||+.+||+||+|++++||||||||++|+++++||+||++
T Consensus 7 ~~ir~kyP~~IPVIvEr~~~s~lp~ld-k~KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~elY~~ 85 (104)
T PF02991_consen 7 ERIREKYPDKIPVIVERYPKSKLPDLD-KKKFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGELYEK 85 (104)
T ss_dssp HHHHHHSTTEEEEEEEE-TTSSS---S-SSEEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHHHHH
T ss_pred HHHHHHCCCccEEEEEEccCCChhhcC-ccEEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHHHHH
Confidence 457899999 99999999999999999 9999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCeEEEEecCcccCC
Q 034290 81 KKDEDGFLYVTYSGENTFG 99 (99)
Q Consensus 81 ~kd~DGfLYl~Ys~~~~fG 99 (99)
|||+||||||+||+|+|||
T Consensus 86 ~kdeDGFLY~~Ys~e~tFG 104 (104)
T PF02991_consen 86 YKDEDGFLYMTYSSEETFG 104 (104)
T ss_dssp HB-TTSSEEEEEESSSSBC
T ss_pred hCCCCCeEEEEeccccccC
Confidence 9999999999999999999
No 2
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=100.00 E-value=1.8e-46 Score=254.42 Aligned_cols=97 Identities=56% Similarity=0.865 Sum_probs=95.0
Q ss_pred cccccCCCc-eEEEEEecCCCCCCcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhh
Q 034290 2 ETATMGIPF-FLFICMNSHKFYIPTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDE 80 (99)
Q Consensus 2 ~~~~~~~p~-ipVIvE~~~~~~lp~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~ 80 (99)
+.+++|||+ ||||||+++++++|.|| |+|||||.++|||||+.+||+||+|++++|+||||||.+|+++++|++||++
T Consensus 19 ~~Ir~kyP~riPVIvEk~~~~~lp~lD-K~KyLVP~dltvgqfi~iIRkRiqL~~~kA~flfVn~~~p~ts~~ms~~Ye~ 97 (116)
T KOG1654|consen 19 RRIREKYPDRIPVIVEKAGKSQLPDLD-KKKYLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFVNNTSPPTSATMSALYEE 97 (116)
T ss_pred HHHHHHCCCCCcEEEEecccccCcccc-cceeeccccccHHHHHHHHHHHhccChhHeEEEEEcCcCCcchhhHHHHHHh
Confidence 358999999 99999999999999999 9999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCeEEEEecCcccCC
Q 034290 81 KKDEDGFLYVTYSGENTFG 99 (99)
Q Consensus 81 ~kd~DGfLYl~Ys~~~~fG 99 (99)
+||+||||||+||+|+|||
T Consensus 98 ~kdeDgFLYm~Ys~e~tfG 116 (116)
T KOG1654|consen 98 EKDEDGFLYMTYSGENTFG 116 (116)
T ss_pred hcccCcEEEEEeccccccC
Confidence 9999999999999999999
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=2.9e-45 Score=249.82 Aligned_cols=97 Identities=57% Similarity=0.885 Sum_probs=95.0
Q ss_pred cccccCCCc-eEEEEEecCCCCCCcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhh
Q 034290 2 ETATMGIPF-FLFICMNSHKFYIPTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDE 80 (99)
Q Consensus 2 ~~~~~~~p~-ipVIvE~~~~~~lp~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~ 80 (99)
+.+++|||+ ||||||+++++++|.|| ++|||||+++||+||+.+||++|+|++++||||||||++|+++++||+||++
T Consensus 15 ~~ir~kyp~~iPVIvE~~~~~~~p~l~-k~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY~~ 93 (112)
T cd01611 15 ERIRAKYPDRIPVIVERYPKSDLPDLD-KKKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLYEE 93 (112)
T ss_pred HHHHHHCCCceEEEEEEcCCCCccccc-CceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHHHH
Confidence 357899999 99999999999999999 9999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCeEEEEecCcccCC
Q 034290 81 KKDEDGFLYVTYSGENTFG 99 (99)
Q Consensus 81 ~kd~DGfLYl~Ys~~~~fG 99 (99)
|||+||||||+||+++|||
T Consensus 94 ~kd~DGfLyl~Ys~~~tfG 112 (112)
T cd01611 94 HKDEDGFLYMTYSSEETFG 112 (112)
T ss_pred hCCCCCEEEEEEeccccCC
Confidence 9999999999999999999
No 4
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=100.00 E-value=1.7e-42 Score=238.93 Aligned_cols=92 Identities=25% Similarity=0.377 Sum_probs=88.7
Q ss_pred cccccCCCc-eEEEEEecCCCCCCcccceeeE-EecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHh
Q 034290 2 ETATMGIPF-FLFICMNSHKFYIPTCLQCCRY-LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYD 79 (99)
Q Consensus 2 ~~~~~~~p~-ipVIvE~~~~~~lp~l~~k~Kf-lvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~ 79 (99)
+.+++|||+ |||||||+++++ + |+|| |||+|+||+||+.+||+||+|++++ +||||||++|+++++||+||+
T Consensus 18 ~~Ir~kyPdrIPVIvEk~~~s~----d-K~KfllVP~d~tV~qF~~iIRkrl~l~~~k-~flfVnn~lp~~s~~mg~lYe 91 (121)
T PTZ00380 18 ARLQAKYPGHVAVVVEAAEKAG----S-KVHFLALPRDATVAELEAAVRQALGTSAKK-VTLAIEGSTPAVTATVGDIAD 91 (121)
T ss_pred HHHHHHCCCccEEEEeecCCCC----C-ceEEEEcCCCCcHHHHHHHHHHHcCCChhH-EEEEECCccCCccchHHHHHH
Confidence 468899999 999999999988 7 9999 6999999999999999999999999 999999999999999999999
Q ss_pred hhcCCCCeEEEEecCcccCC
Q 034290 80 EKKDEDGFLYVTYSGENTFG 99 (99)
Q Consensus 80 ~~kd~DGfLYl~Ys~~~~fG 99 (99)
+|||+||||||+||+|+|||
T Consensus 92 ~~KDeDGFLYi~Ys~e~tFG 111 (121)
T PTZ00380 92 ACKRDDGFLYVSVRTEQAMG 111 (121)
T ss_pred HhcCCCCeEEEEEccccccc
Confidence 99999999999999999999
No 5
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=100.00 E-value=4.2e-34 Score=187.33 Aligned_cols=84 Identities=21% Similarity=0.338 Sum_probs=78.7
Q ss_pred EEEecCCCCCCcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCc-cCCCCchHHHHHhhhcCCCCeEEEEe
Q 034290 14 ICMNSHKFYIPTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-LPPTGAIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 14 IvE~~~~~~lp~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~-lp~~~~~m~~lY~~~kd~DGfLYl~Y 92 (99)
.|---+-+++|.|+ ++||+||+++||++|+.+||+||++++++||||||||+ +|++|++||+||++| |+||||||+|
T Consensus 3 ~i~~~~~g~~p~l~-k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~~dGfLyi~Y 80 (87)
T cd01612 3 TIRFKPIGSAPILK-QKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-GTNGELIVSY 80 (87)
T ss_pred EEEEEECCCCcccc-ccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-CCCCEEEEEE
Confidence 33334668899999 99999999999999999999999999999999999997 899999999999999 8999999999
Q ss_pred cCcccCC
Q 034290 93 SGENTFG 99 (99)
Q Consensus 93 s~~~~fG 99 (99)
|+++|||
T Consensus 81 s~~~afG 87 (87)
T cd01612 81 CKTVAFG 87 (87)
T ss_pred eCccccC
Confidence 9999999
No 6
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=99.89 E-value=1.4e-23 Score=137.68 Aligned_cols=79 Identities=22% Similarity=0.413 Sum_probs=57.9
Q ss_pred CCCCCCcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcC-ccCCCCchHHHHHhhhcCCCCeEEEEecCccc
Q 034290 19 HKFYIPTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN-VLPPTGAIMSTIYDEKKDEDGFLYVTYSGENT 97 (99)
Q Consensus 19 ~~~~lp~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn-~lp~~~~~m~~lY~~~kd~DGfLYl~Ys~~~~ 97 (99)
+-+++|.|+ ++||.|.++.|++.++.+|||+|+++++++||+|||| .+|++|+++|+||+||+ .||-|.++||.++|
T Consensus 8 ~iG~aPilk-~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~-~~~~Liv~Ys~t~A 85 (87)
T PF04110_consen 8 AIGSAPILK-QKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFG-TNGELIVSYSKTPA 85 (87)
T ss_dssp EETT----S---EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH--BTTBEEEEEESSS-
T ss_pred ecCCCcccc-CcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhC-CCCEEEEEEecccc
Confidence 335799999 9999999999999999999999999999999999998 58999999999999997 79999999999999
Q ss_pred CC
Q 034290 98 FG 99 (99)
Q Consensus 98 fG 99 (99)
||
T Consensus 86 ~G 87 (87)
T PF04110_consen 86 WG 87 (87)
T ss_dssp --
T ss_pred cC
Confidence 99
No 7
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=8.6e-23 Score=138.81 Aligned_cols=77 Identities=22% Similarity=0.421 Sum_probs=74.2
Q ss_pred CCCCcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCc-cCCCCchHHHHHhhhcCCCCeEEEEecCcccCC
Q 034290 21 FYIPTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-LPPTGAIMSTIYDEKKDEDGFLYVTYSGENTFG 99 (99)
Q Consensus 21 ~~lp~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~-lp~~~~~m~~lY~~~kd~DGfLYl~Ys~~~~fG 99 (99)
+++|.|+ ++||.|+++.||+.++.+|||+|+|+++++|||||||+ +|++|+.+|+||+||+ .||.|.++||...|||
T Consensus 39 G~~PilK-~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~cf~-~d~~Lvl~Yc~s~A~G 116 (116)
T KOG3439|consen 39 GDAPILK-KSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYECFG-TDGKLVLNYCISVAWG 116 (116)
T ss_pred CCCccee-cceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHhcC-CCCEEEEEEeeecccC
Confidence 6799999 99999999999999999999999999999999999995 8999999999999995 6889999999999999
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=95.92 E-value=0.017 Score=42.51 Aligned_cols=85 Identities=11% Similarity=0.115 Sum_probs=41.9
Q ss_pred cCCCceEEEEEecCCCCCCcccceeeEEec---CCCchHHHHHHHHHhh--ccCccceEEEEEcCccCCCCchHHHHHhh
Q 034290 6 MGIPFFLFICMNSHKFYIPTCLQCCRYLVP---ADLTVGQFVYVIRKRI--KLSAEKAIFIFVDNVLPPTGAIMSTIYDE 80 (99)
Q Consensus 6 ~~~p~ipVIvE~~~~~~lp~l~~k~Kflvp---~~~tv~~f~~~irk~l--~l~~~~slfl~Vnn~lp~~~~~m~~lY~~ 80 (99)
.++-.|||.+-.... .|.+. ..--... ...|+++++..+=--+ .-+......+++++..++.++.|..||+.
T Consensus 106 ~~~r~IPiRiy~~~~--~~~iQ-~~i~~~~~~g~~~TL~d~L~~~lp~~f~s~~~~~~~~~iihGI~ipldtpl~~l~~~ 182 (197)
T PF04106_consen 106 SKFRHIPIRIYLPGS--VPVIQ-PPIPPIKEDGQPQTLGDALSELLPELFPSSDEPELARVIIHGIEIPLDTPLQWLYEN 182 (197)
T ss_dssp SS-SB--EEEEE-SS----EE-----B----TT---BTGGGHHHHHTTT--T------EEEEETTEEE-TTSBHHHHHHH
T ss_pred CCcceeEEEEEeCCC--cceEe-cccccccCCCCcCcHHHHHHHhChhhcccccCccccEEEEeCeeCCCCCcHHHHHHH
Confidence 344459999877544 22232 2211111 2347777655442221 11234556788889888889999999999
Q ss_pred hcCCCCeEEEEec
Q 034290 81 KKDEDGFLYVTYS 93 (99)
Q Consensus 81 ~kd~DGfLYl~Ys 93 (99)
++..||||||.-+
T Consensus 183 l~~~D~FLhivv~ 195 (197)
T PF04106_consen 183 LSYPDGFLHIVVR 195 (197)
T ss_dssp H--TTS-EEEEEE
T ss_pred ccCCCCeEEEEEE
Confidence 9999999999753
No 9
>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.
Probab=95.64 E-value=0.15 Score=40.14 Aligned_cols=87 Identities=16% Similarity=0.185 Sum_probs=70.8
Q ss_pred CCCceEEEEEecCCCCCCccccee-----------------eEEecCCCchHHHHHHHHHhh--------------ccCc
Q 034290 7 GIPFFLFICMNSHKFYIPTCLQCC-----------------RYLVPADLTVGQFVYVIRKRI--------------KLSA 55 (99)
Q Consensus 7 ~~p~ipVIvE~~~~~~lp~l~~k~-----------------Kflvp~~~tv~~f~~~irk~l--------------~l~~ 55 (99)
.+|.|..++..++.+..|.+. .. |.-.|.-+.|.-+...|-.|+ .+.+
T Consensus 211 e~~Ki~F~L~P~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p 289 (331)
T PF11816_consen 211 EPPKISFVLQPWDGSLPPNLK-PDGKSQKKIKLPPLSEGNSRLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKP 289 (331)
T ss_pred CCCeeEEEEeecCCCCccccC-CCccccccccccccccccceecccchhhhHHHHHHHHHHhccCccccCccccccCCCC
Confidence 566789999998855544444 43 888999999999999999999 4578
Q ss_pred cceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEecC
Q 034290 56 EKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYSG 94 (99)
Q Consensus 56 ~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys~ 94 (99)
++.|=|+||+.+.++++||+.|=.-+=-..|-|.|.|..
T Consensus 290 ~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 290 EEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred CceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEe
Confidence 899999999998888999999988843457789999964
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=94.45 E-value=0.13 Score=31.07 Aligned_cols=49 Identities=12% Similarity=0.153 Sum_probs=39.7
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHH
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTI 77 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~l 77 (99)
..+|.|.++.+++.++...+++.++++.+++-|+.++....++.|++++
T Consensus 12 ~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~ 60 (72)
T PF11976_consen 12 EIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDL 60 (72)
T ss_dssp EEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHH
T ss_pred EEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHC
Confidence 6678899999999999999999999996778788887655666777765
No 11
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=91.60 E-value=0.8 Score=29.66 Aligned_cols=53 Identities=21% Similarity=0.325 Sum_probs=40.6
Q ss_pred EecCCCchHHHHHHHHHhhccCccceEEEEEcC-----ccCCCCchHHHHHhhhcCCCCeE
Q 034290 33 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN-----VLPPTGAIMSTIYDEKKDEDGFL 88 (99)
Q Consensus 33 lvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn-----~lp~~~~~m~~lY~~~kd~DGfL 88 (99)
-||.+.+++|+...|++||++++ +.+.|.--. ..|-.++.|...+.+=+ ||-|
T Consensus 16 rvp~~~~y~~L~~ki~~kLkl~~-e~i~LsYkde~s~~~v~l~d~dle~aws~~~--~~~l 73 (80)
T cd06406 16 QVARGLSYATLLQKISSKLELPA-EHITLSYKSEASGEDVILSDTNMEDVWSQAK--DGCL 73 (80)
T ss_pred EcCCCCCHHHHHHHHHHHhCCCc-hhcEEEeccCCCCCccCcChHHHHHHHHhhc--CCeE
Confidence 38999999999999999999984 557775532 23557888999888876 5544
No 12
>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=90.30 E-value=0.71 Score=27.39 Aligned_cols=47 Identities=15% Similarity=0.088 Sum_probs=38.2
Q ss_pred eeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHH
Q 034290 30 CRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTI 77 (99)
Q Consensus 30 ~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~l 77 (99)
-.+-|+.+.||+++...|..+.++++++ +-|+.++.....+.+|+++
T Consensus 8 ~~~~v~~~~tV~~lK~~i~~~~~~~~~~-~~L~~~G~~L~d~~tL~~~ 54 (69)
T PF00240_consen 8 FTLEVDPDDTVADLKQKIAEETGIPPEQ-QRLIYNGKELDDDKTLSDY 54 (69)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTSTGGG-EEEEETTEEESTTSBTGGG
T ss_pred EEEEECCCCCHHHhhhhccccccccccc-ceeeeeeecccCcCcHHHc
Confidence 3456999999999999999999988776 5666677755888888775
No 13
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=90.19 E-value=1.2 Score=25.49 Aligned_cols=47 Identities=11% Similarity=0.049 Sum_probs=35.1
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHH
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMST 76 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~ 76 (99)
...+-|+.+.|++++...|.++.+++++. +=|..++.....+.++++
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 34456999999999999999999998764 445567665555666654
No 14
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=89.63 E-value=0.55 Score=37.59 Aligned_cols=66 Identities=24% Similarity=0.243 Sum_probs=56.4
Q ss_pred eeEE-ecCCCchHHHHHHHHHhhc-cCccceEEEEEcCccCCCCchHHHHHhhhcC--CCCeEEEEecCc
Q 034290 30 CRYL-VPADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLPPTGAIMSTIYDEKKD--EDGFLYVTYSGE 95 (99)
Q Consensus 30 ~Kfl-vp~~~tv~~f~~~irk~l~-l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd--~DGfLYl~Ys~~ 95 (99)
++|+ ++...|+.++..++|+++. ++....+=+++|+.+..-+.||.++.--+.. .||=|-+.|+-.
T Consensus 165 ~~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~i~~~~~~~~r~~pL~l~y~v~ 234 (331)
T KOG2660|consen 165 RRFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKDIAYAYRWRSRDPPLPLRYRVK 234 (331)
T ss_pred cceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhhhhhhhcccccCCcceeEeccc
Confidence 4777 8999999999999999998 7776677788898888999999998887766 499999999843
No 15
>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=87.21 E-value=3 Score=21.94 Aligned_cols=38 Identities=21% Similarity=0.355 Sum_probs=30.1
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCcc
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL 67 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~l 67 (99)
...+.++.+.|++++...|.++.+.++ +...|++|...
T Consensus 9 ~~~~~~~~~~tv~~l~~~i~~~~~~~~-~~~~l~~~~~~ 46 (69)
T cd00196 9 TVELLVPSGTTVADLKEKLAKKLGLPP-EQQRLLVNGKI 46 (69)
T ss_pred EEEEEcCCCCcHHHHHHHHHHHHCcCh-HHeEEEECCeE
Confidence 667888999999999999999988544 44667777643
No 16
>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=86.99 E-value=3.3 Score=26.54 Aligned_cols=59 Identities=12% Similarity=0.112 Sum_probs=44.3
Q ss_pred CcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcC
Q 034290 24 PTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKD 83 (99)
Q Consensus 24 p~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd 83 (99)
|.+- -+.+-||++..+..++.+--...++++.++.-+--++.--.+.++-|+++-+|..
T Consensus 13 p~~p-~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGs 71 (76)
T PF03671_consen 13 PKLP-YKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGS 71 (76)
T ss_dssp STS--EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-S
T ss_pred CCCc-ceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCc
Confidence 4555 7788999999999999999999999999884443334567888999999999964
No 17
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=86.93 E-value=6.8 Score=25.85 Aligned_cols=71 Identities=18% Similarity=0.163 Sum_probs=45.6
Q ss_pred CCCcccceeeEEecCCCchHHHHHHHHHhh-ccCccceEEEEEcCccCCCCchHHHHHhhh---------cCCCC----e
Q 034290 22 YIPTCLQCCRYLVPADLTVGQFVYVIRKRI-KLSAEKAIFIFVDNVLPPTGAIMSTIYDEK---------KDEDG----F 87 (99)
Q Consensus 22 ~lp~l~~k~Kflvp~~~tv~~f~~~irk~l-~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~---------kd~DG----f 87 (99)
.+|+|. =. +--|.+.|+.++...||.++ .-.++..|=|.-++.+.+.++.++..-... |..++ -
T Consensus 10 sipDl~-L~-I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l~~~~~~~~~~~gk~~~~~~~~~ 87 (97)
T PF10302_consen 10 SIPDLP-LD-IPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSELKLPTARSSKGKGKAPERQEAPR 87 (97)
T ss_pred CCCCce-ee-cCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhhccccccCccccCcCccCCCCCe
Confidence 677765 10 01348899999999999998 455667776666776655556555554444 22333 7
Q ss_pred EEEEecC
Q 034290 88 LYVTYSG 94 (99)
Q Consensus 88 LYl~Ys~ 94 (99)
.||+.+.
T Consensus 88 ~yIhCsI 94 (97)
T PF10302_consen 88 IYIHCSI 94 (97)
T ss_pred EEEEEec
Confidence 7777653
No 18
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=86.05 E-value=3.4 Score=30.01 Aligned_cols=63 Identities=16% Similarity=0.382 Sum_probs=48.4
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEc-C-cc-CCCCchHHHHHhhhcCCCCeEEEEe
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD-N-VL-PPTGAIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vn-n-~l-p~~~~~m~~lY~~~kd~DGfLYl~Y 92 (99)
..-+-+|.+.|++++...|..++.......++|+++ | .+ +..+..++.+...-.+. +|+.+..
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 334669999999999999999999988877888886 4 44 56777888888776543 5766654
No 19
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=83.65 E-value=5 Score=25.40 Aligned_cols=48 Identities=13% Similarity=0.147 Sum_probs=38.0
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHH
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTI 77 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~l 77 (99)
...|-|.++.+++.++..+..+.++++++--|+| ++.....+.|++++
T Consensus 23 ~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f-~G~~L~~~~T~~~l 70 (87)
T cd01763 23 EVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLF-DGQRIRDNQTPDDL 70 (87)
T ss_pred EEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEE-CCeECCCCCCHHHc
Confidence 5678899999999999999999999987655655 55545556677766
No 20
>KOG2976 consensus Protein involved in autophagy and nutrient starvation [Posttranslational modification, protein turnover, chaperones]
Probab=82.77 E-value=6.4 Score=30.81 Aligned_cols=32 Identities=19% Similarity=0.375 Sum_probs=26.1
Q ss_pred EEEcCccCCCCchHHHHHhhhcCCCCeEEEEe
Q 034290 61 IFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 61 l~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Y 92 (99)
+.+.+--++..+.+..+|+.....||||||+.
T Consensus 242 viihGIei~l~tpL~~l~~~L~ypD~FLHI~l 273 (278)
T KOG2976|consen 242 VIIHGIEIPLHTPLYWLYSNLSYPDGFLHIVL 273 (278)
T ss_pred eEEecccccccchHHHHHhhccCCCcceEEEE
Confidence 34444457788899999999999999999975
No 21
>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=82.59 E-value=3.1 Score=25.29 Aligned_cols=45 Identities=9% Similarity=0.141 Sum_probs=35.0
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHH
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMST 76 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~ 76 (99)
.+=|+.+.||+++...|..+-++++++ .-|+.++.....+.++++
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 345889999999999999999998754 456677776666677754
No 22
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=82.48 E-value=3.2 Score=24.87 Aligned_cols=45 Identities=13% Similarity=0.147 Sum_probs=36.2
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHH
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMST 76 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~ 76 (99)
.+-|+++.|++++...|-.+.++++++ .-|+.++.....+.++++
T Consensus 12 ~~~v~~~~tV~~lK~~i~~~~gi~~~~-q~Li~~G~~L~d~~~l~~ 56 (70)
T cd01798 12 PVEVDPDTDIKQLKEVVAKRQGVPPDQ-LRVIFAGKELRNTTTIQE 56 (70)
T ss_pred EEEECCCChHHHHHHHHHHHHCCCHHH-eEEEECCeECCCCCcHHH
Confidence 345889999999999999999997754 566677766677788887
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=82.03 E-value=6.1 Score=23.49 Aligned_cols=59 Identities=10% Similarity=0.072 Sum_probs=41.2
Q ss_pred eeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCC-eEEEEec
Q 034290 30 CRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDG-FLYVTYS 93 (99)
Q Consensus 30 ~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DG-fLYl~Ys 93 (99)
..+-|+++.||+++...|..+.++++++--.+ .++.....+.++++. .-.|| .|++...
T Consensus 13 ~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~-~~g~~L~d~~tl~~~----~i~~g~~i~l~~~ 72 (76)
T cd01806 13 IEIDIEPTDKVERIKERVEEKEGIPPQQQRLI-YSGKQMNDDKTAADY----KLEGGSVLHLVLA 72 (76)
T ss_pred EEEEECCCCCHHHHHHHHhHhhCCChhhEEEE-ECCeEccCCCCHHHc----CCCCCCEEEEEEE
Confidence 34568999999999999999999988753333 566555667777663 33344 6776654
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=81.29 E-value=3.3 Score=25.64 Aligned_cols=45 Identities=13% Similarity=0.077 Sum_probs=36.2
Q ss_pred EecCCCchHHHHHHHHHhhccCccceEEEE--EcCccCCCCchHHHH
Q 034290 33 LVPADLTVGQFVYVIRKRIKLSAEKAIFIF--VDNVLPPTGAIMSTI 77 (99)
Q Consensus 33 lvp~~~tv~~f~~~irk~l~l~~~~slfl~--Vnn~lp~~~~~m~~l 77 (99)
=|+.+.|+++|...|..+.+++++.-=.+| +.+.++..+.+++++
T Consensus 15 ~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~ 61 (74)
T cd01813 15 TTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISAL 61 (74)
T ss_pred EECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHc
Confidence 388899999999999999999987555555 456677788888876
No 25
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=79.51 E-value=7.3 Score=23.13 Aligned_cols=61 Identities=11% Similarity=0.140 Sum_probs=41.1
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEec
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
...+-|+++.||+++...|.++.++++++ .=|+.++.....+.++++ |.-. ++.-+++...
T Consensus 12 ~~~~~v~~~~tV~~lK~~i~~~~g~~~~~-q~L~~~g~~L~d~~~L~~-~~i~--~~~~i~l~~~ 72 (76)
T cd01803 12 TITLEVEPSDTIENVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLSD-YNIQ--KESTLHLVLR 72 (76)
T ss_pred EEEEEECCcCcHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCcHHH-cCCC--CCCEEEEEEE
Confidence 33466999999999999999999998654 334457665566677766 3221 2336666543
No 26
>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=78.87 E-value=10 Score=22.92 Aligned_cols=59 Identities=14% Similarity=0.205 Sum_probs=42.3
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEec
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
-+-|.++.||+++...|..+-++++++ .-|..++.....+.++++ |.-. + +-.|+|.-.
T Consensus 12 ~l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~~G~~L~D~~tL~~-~~i~-~-~~tl~l~~~ 70 (74)
T cd01810 12 IYEVQLTQTVATLKQQVSQRERVQADQ-FWLSFEGRPMEDEHPLGE-YGLK-P-GCTVFMNLR 70 (74)
T ss_pred EEEECCcChHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCCHHH-cCCC-C-CCEEEEEEE
Confidence 356889999999999999998987654 455567776667788887 4332 3 337777643
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=77.42 E-value=11 Score=21.51 Aligned_cols=60 Identities=15% Similarity=0.145 Sum_probs=39.9
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEe
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Y 92 (99)
...+-++.+.|++++...|.++.+++++. +=|..++.....+.++++ |.- .++..+++..
T Consensus 9 ~~~~~~~~~~ti~~lK~~i~~~~~~~~~~-~~l~~~g~~l~d~~~l~~-~~v--~~~~~i~v~~ 68 (69)
T cd01769 9 TFELEVSPDDTVAELKAKIAAKEGVPPEQ-QRLIYAGKILKDDKTLSD-YGI--QDGSTLHLVL 68 (69)
T ss_pred EEEEEECCCChHHHHHHHHHHHHCcChHH-EEEEECCcCCCCcCCHHH-CCC--CCCCEEEEEE
Confidence 33467889999999999999999988764 333556655566667755 222 1234566643
No 28
>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=77.06 E-value=6.4 Score=23.69 Aligned_cols=57 Identities=18% Similarity=0.190 Sum_probs=39.2
Q ss_pred eEEecCCCchHHHHHHHHHhhcc--CccceEEEEEcCccCCCCchHHHHHhhhcCCC-CeEEEEe
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKL--SAEKAIFIFVDNVLPPTGAIMSTIYDEKKDED-GFLYVTY 92 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l--~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~D-GfLYl~Y 92 (99)
.+=|+.+.||+++...|..+.++ ++++ .-|..++.....+.++++ | .-.| ..|++.-
T Consensus 14 ~l~v~~~~TV~~lK~~i~~~~~i~~~~~~-q~L~~~G~~L~d~~~L~~-~---~i~~~~~i~~~~ 73 (77)
T cd01805 14 PIEVDPDDTVAELKEKIEEEKGCDYPPEQ-QKLIYSGKILKDDTTLEE-Y---KIDEKDFVVVMV 73 (77)
T ss_pred EEEECCCCcHHHHHHHHHHhhCCCCChhH-eEEEECCEEccCCCCHHH-c---CCCCCCEEEEEE
Confidence 34588999999999999999888 6544 445567765566677776 3 2333 3566643
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=75.59 E-value=18 Score=23.33 Aligned_cols=61 Identities=16% Similarity=0.214 Sum_probs=48.2
Q ss_pred eeeEEecC--CCchHHHHHHHHHhhccCccceEEE-EEcC----ccCCCCchHHHHHhhhcCCCCeEEEEe
Q 034290 29 CCRYLVPA--DLTVGQFVYVIRKRIKLSAEKAIFI-FVDN----VLPPTGAIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 29 k~Kflvp~--~~tv~~f~~~irk~l~l~~~~slfl-~Vnn----~lp~~~~~m~~lY~~~kd~DGfLYl~Y 92 (99)
...|.+++ +.+..++..-|+++.+++ ++-| |++. .+.+.+..+.|.++.+....+.|-|+-
T Consensus 11 ~~rf~~~~~~~~~~~~L~~ev~~rf~l~---~f~lKYlDde~e~v~lssd~eLeE~~rl~~~~~~~l~~~v 78 (81)
T cd06396 11 SQSFLVSDSENTTWASVEAMVKVSFGLN---DIQIKYVDEENEEVSVNSQGEYEEALKSAVRQGNLLQMNV 78 (81)
T ss_pred EEEEEecCCCCCCHHHHHHHHHHHhCCC---cceeEEEcCCCCEEEEEchhhHHHHHHHHHhCCCEEEEEE
Confidence 67899998 889999999999999999 4434 6653 356778889999888877667776654
No 30
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=74.06 E-value=5.2 Score=26.29 Aligned_cols=47 Identities=19% Similarity=0.244 Sum_probs=31.8
Q ss_pred EecCCCchHHHHHHHHHhhccCccceEEEEEc-Cc---cCCCCchHHH--HHh
Q 034290 33 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD-NV---LPPTGAIMST--IYD 79 (99)
Q Consensus 33 lvp~~~tv~~f~~~irk~l~l~~~~slfl~Vn-n~---lp~~~~~m~~--lY~ 79 (99)
..++..||+.+...+|+.+.+..+-.|+-+-+ |+ |..++.|+.+ ||+
T Consensus 19 ~FSk~DTI~~v~~~~rklf~i~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~ 71 (88)
T PF14836_consen 19 QFSKTDTIGFVEKEMRKLFNIQEETRLWNKYSENSYELLNNPEITVEDAGLYD 71 (88)
T ss_dssp EE-TTSBHHHHHHHHHHHCT-TS-EEEEEECTTTCEEEE--TTSBTTTTT--T
T ss_pred hccccChHHHHHHHHHHHhCCCccceehhccCCcchhhhCCCCccHHHccCcC
Confidence 47889999999999999999977778887665 33 4567777765 554
No 31
>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=72.97 E-value=14 Score=22.34 Aligned_cols=59 Identities=15% Similarity=0.061 Sum_probs=42.3
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEE
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVT 91 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~ 91 (99)
...+-|+++.||+++...|..+-++++++ .-|+.+++....+.++++ |.-- ++--|++.
T Consensus 10 ~~~l~v~~~~tV~~lK~~i~~~~gip~~~-q~Li~~Gk~L~D~~tL~~-~~i~--~~~tl~l~ 68 (74)
T cd01793 10 THTLEVTGQETVSDIKAHVAGLEGIDVED-QVLLLAGVPLEDDATLGQ-CGVE--ELCTLEVA 68 (74)
T ss_pred EEEEEECCcCcHHHHHHHHHhhhCCCHHH-EEEEECCeECCCCCCHHH-cCCC--CCCEEEEE
Confidence 45567899999999999999998987765 455667776677788877 4432 23355544
No 32
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=72.41 E-value=16 Score=21.37 Aligned_cols=47 Identities=13% Similarity=0.170 Sum_probs=34.8
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHH
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMST 76 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~ 76 (99)
...+-++.+.|++++...|.++.+++++. .=|..++.....+.++++
T Consensus 12 ~~~~~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~~g~~L~d~~~L~~ 58 (72)
T cd01809 12 THTFTVEEEITVLDLKEKIAEEVGIPVEQ-QRLIYSGRVLKDDETLSE 58 (72)
T ss_pred EEEEEECCCCcHHHHHHHHHHHHCcCHHH-eEEEECCEECCCcCcHHH
Confidence 34566889999999999999999987653 333447766666677765
No 33
>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=71.42 E-value=9.6 Score=22.40 Aligned_cols=44 Identities=5% Similarity=0.073 Sum_probs=31.3
Q ss_pred EEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHH
Q 034290 32 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMST 76 (99)
Q Consensus 32 flvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~ 76 (99)
+-|+.+.|++++...|.++-+++++. .=|+.++.....+.++++
T Consensus 14 i~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~~g~~l~d~~~L~~ 57 (71)
T cd01812 14 LSISSQATFGDLKKMLAPVTGVEPRD-QKLIFKGKERDDAETLDM 57 (71)
T ss_pred EEECCCCcHHHHHHHHHHhhCCChHH-eEEeeCCcccCccCcHHH
Confidence 45889999999999999998998753 334455554444556644
No 34
>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=71.21 E-value=8.3 Score=23.37 Aligned_cols=55 Identities=13% Similarity=0.195 Sum_probs=35.5
Q ss_pred EEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCC-chHHHHHhhhcCCCCeEEE
Q 034290 32 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTG-AIMSTIYDEKKDEDGFLYV 90 (99)
Q Consensus 32 flvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~-~~m~~lY~~~kd~DGfLYl 90 (99)
.-|+++.||+++...|..+-++++++ .-|+.+++....+ .++++ |. -+ ++.+|++
T Consensus 14 l~v~~~~TV~~lK~~I~~~~gip~~~-q~Li~~Gk~L~D~~~~L~~-~g-i~-~~~~l~l 69 (71)
T cd01796 14 LDVDPDLELENFKALCEAESGIPASQ-QQLIYNGRELVDNKRLLAL-YG-VK-DGDLVVL 69 (71)
T ss_pred EEECCcCCHHHHHHHHHHHhCCCHHH-eEEEECCeEccCCcccHHH-cC-CC-CCCEEEE
Confidence 45889999999999999999998765 3444555543444 33433 32 21 3446665
No 35
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=71.03 E-value=24 Score=22.47 Aligned_cols=62 Identities=13% Similarity=0.132 Sum_probs=41.9
Q ss_pred eEEe--cCCCchHHHHHHHHHhhc-cCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEec
Q 034290 31 RYLV--PADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 31 Kflv--p~~~tv~~f~~~irk~l~-l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
-|-| +.+.||+++...|..... ..+-+..=|.-.+++...+.+|++.-+.-+ +.--++|-|+
T Consensus 15 ~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~-~~~tiHLV~~ 79 (79)
T cd01790 15 DQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQD-EYHMVHLVCA 79 (79)
T ss_pred EEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhccc-CCceEEEEeC
Confidence 4666 789999999999998764 332233444445666688899999987743 3335666553
No 36
>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=70.47 E-value=17 Score=22.15 Aligned_cols=47 Identities=15% Similarity=0.060 Sum_probs=35.9
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHH
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMST 76 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~ 76 (99)
...+-|+++.||+++...|..+-++++++ .=|+.++.....+.++++
T Consensus 10 ~~~l~v~~~~TV~~lK~~I~~~~gi~~~~-q~Li~~G~~L~D~~~l~~ 56 (70)
T cd01794 10 DVKLSVSSKDTVGQLKKQLQAAEGVDPCC-QRWFFSGKLLTDKTRLQE 56 (70)
T ss_pred EEEEEECCcChHHHHHHHHHHHhCCCHHH-eEEEECCeECCCCCCHHH
Confidence 34456899999999999999998998754 234456666777788887
No 37
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=70.37 E-value=17 Score=22.57 Aligned_cols=58 Identities=10% Similarity=0.096 Sum_probs=38.2
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCcc-ceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEE
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAE-KAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYV 90 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~-~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl 90 (99)
...+-|+++.||+++...|-.+-+++++ +.| |-+..+-..+.+|++ |.-. +++-.|||
T Consensus 14 t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL--~~G~~L~dD~~tL~~-ygi~-~~g~~~~l 72 (75)
T cd01799 14 TIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW--VIGQRLARDQETLYS-HGIR-TNGDSAFL 72 (75)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE--EcCCeeCCCcCCHHH-cCCC-CCCCEEEE
Confidence 3346689999999999999999999875 444 444455445577765 3322 23335554
No 38
>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=69.82 E-value=21 Score=21.40 Aligned_cols=63 Identities=13% Similarity=0.137 Sum_probs=46.8
Q ss_pred eeeEEec-CCCchHHHHHHHHHhhccCccceEEEEEcC--c--cCCCCchHHHHHhhhcC-CCCeEEEE
Q 034290 29 CCRYLVP-ADLTVGQFVYVIRKRIKLSAEKAIFIFVDN--V--LPPTGAIMSTIYDEKKD-EDGFLYVT 91 (99)
Q Consensus 29 k~Kflvp-~~~tv~~f~~~irk~l~l~~~~slfl~Vnn--~--lp~~~~~m~~lY~~~kd-~DGfLYl~ 91 (99)
...|.++ .+.|+.+|...|++++++....-.+=|.+. - ....+..+.+..+.++. .++.|.+.
T Consensus 11 ~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd~Dl~~a~~~~~~~~~~~l~l~ 79 (81)
T cd05992 11 IRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSDEDLEEAIEEARRSGSKKLRLF 79 (81)
T ss_pred CEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCHHHHHHHHHHHhhcCCccEEEE
Confidence 5567888 999999999999999998764444556653 2 34667888888888865 46666554
No 39
>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=69.53 E-value=12 Score=24.64 Aligned_cols=57 Identities=16% Similarity=0.244 Sum_probs=40.8
Q ss_pred eeEEecCCCchHHHHHHHHHhhccC--ccceEEEEEcCc--cCC----CCchHHHHHhhhcCCCC
Q 034290 30 CRYLVPADLTVGQFVYVIRKRIKLS--AEKAIFIFVDNV--LPP----TGAIMSTIYDEKKDEDG 86 (99)
Q Consensus 30 ~Kflvp~~~tv~~f~~~irk~l~l~--~~~slfl~Vnn~--lp~----~~~~m~~lY~~~kd~DG 86 (99)
+--.|+++.|..++-...-.++++. .+-+||+||++. ..+ +...=++|...-.-.++
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 3457999999999999999999875 467999999974 233 33344666655544454
No 40
>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=68.20 E-value=4.7 Score=25.60 Aligned_cols=59 Identities=17% Similarity=0.212 Sum_probs=31.8
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcC--c--cC-CCCchHHHHHhhhcCCCCeEEEE
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN--V--LP-PTGAIMSTIYDEKKDEDGFLYVT 91 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn--~--lp-~~~~~m~~lY~~~kd~DGfLYl~ 91 (99)
-.+.-++++.|++++...|.+.++++.. +..||.|+ . +. +.+.+++++==+|.| .||+.
T Consensus 15 ~~Rie~~~~~t~~~L~~kI~~~l~~~~~-~~~L~~~~~~~~~l~s~~~~tl~~lglkHGd---mlyL~ 78 (80)
T PF11543_consen 15 MKRIEVSPSSTLSDLKEKISEQLSIPDS-SQSLSKDRNNKEELKSSDSKTLSSLGLKHGD---MLYLK 78 (80)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHS---TT-T---BSSGGGGGCSSS-TT-CCCCT---TT----EEE--
T ss_pred CEEEEcCCcccHHHHHHHHHHHcCCCCc-ceEEEecCCCCcccccCCcCCHHHcCCCCcc---EEEEe
Confidence 4456689999999999999999999865 45666663 2 32 456677766555542 66653
No 41
>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=66.38 E-value=16 Score=23.30 Aligned_cols=54 Identities=24% Similarity=0.314 Sum_probs=39.8
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEE-EEcC----ccCCCCchHHHHHhhhc
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFI-FVDN----VLPPTGAIMSTIYDEKK 82 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl-~Vnn----~lp~~~~~m~~lY~~~k 82 (99)
...|-+|.+.++.++...|++|+++.....+-| |.++ ...+.++-+.+..+-++
T Consensus 11 ~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~~ 69 (82)
T cd06407 11 KIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVYR 69 (82)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHHH
Confidence 667889999999999999999999976455555 6653 24567777766554443
No 42
>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=66.00 E-value=7.7 Score=29.29 Aligned_cols=46 Identities=17% Similarity=0.356 Sum_probs=31.9
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEc---Cc--cCCCCchHHH
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD---NV--LPPTGAIMST 76 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vn---n~--lp~~~~~m~~ 76 (99)
.+.|+++.+++++...|+++++++++..|-||-. +. ...++.++.+
T Consensus 88 h~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~ 138 (249)
T PF12436_consen 88 HVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEK 138 (249)
T ss_dssp EEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHH
T ss_pred EEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhh
Confidence 5779999999999999999999999999988875 22 2356667766
No 43
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=64.79 E-value=29 Score=20.99 Aligned_cols=62 Identities=16% Similarity=0.179 Sum_probs=45.6
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcC--c--cCCCCchHHHHHhhhcCC-CCeEEE
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN--V--LPPTGAIMSTIYDEKKDE-DGFLYV 90 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn--~--lp~~~~~m~~lY~~~kd~-DGfLYl 90 (99)
...|.+|.+.|+.+|...|.+++++..+.-..-|.++ - ..+.+..|....+.++.. .+.|-+
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~~~~~~l~l 78 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDSLGSKKLRL 78 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHHHHHHHHHHcCCceEEE
Confidence 5678899999999999999999998765444557764 1 346777888888887653 334433
No 44
>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=64.04 E-value=19 Score=22.23 Aligned_cols=56 Identities=16% Similarity=0.158 Sum_probs=37.3
Q ss_pred EecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEe
Q 034290 33 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 33 lvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Y 92 (99)
-|+++.||+++...|..+-+++++.-=.+|. +.+...+.++++ |. -+ ++--++|.|
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 4889999999999998888888765444444 555555667776 32 21 233555554
No 45
>PTZ00044 ubiquitin; Provisional
Probab=63.85 E-value=27 Score=20.82 Aligned_cols=46 Identities=11% Similarity=0.106 Sum_probs=33.0
Q ss_pred eeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHH
Q 034290 30 CRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMST 76 (99)
Q Consensus 30 ~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~ 76 (99)
..+-|+++.|++++...|..+.++++++-- |+.++.....+.++++
T Consensus 13 ~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~-L~~~g~~L~d~~~l~~ 58 (76)
T PTZ00044 13 QSFNFEPDNTVQQVKMALQEKEGIDVKQIR-LIYSGKQMSDDLKLSD 58 (76)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHHeE-EEECCEEccCCCcHHH
Confidence 345689999999999999999999875432 3345554456666653
No 46
>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=61.27 E-value=20 Score=21.80 Aligned_cols=58 Identities=7% Similarity=0.084 Sum_probs=39.1
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEe
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Y 92 (99)
.+-|+.+.||+++...|....+++++. .=|..++.....+.++++. ... ++..|.|.-
T Consensus 11 ~l~v~~~~TV~~lK~~i~~~~gip~~~-q~L~~~G~~L~d~~tL~~~-~i~--~g~~l~v~~ 68 (76)
T cd01800 11 NFTLQLSDPVSVLKVKIHEETGMPAGK-QKLQYEGIFIKDSNSLAYY-NLA--NGTIIHLQL 68 (76)
T ss_pred EEEECCCCcHHHHHHHHHHHHCCCHHH-EEEEECCEEcCCCCcHHHc-CCC--CCCEEEEEE
Confidence 355899999999999999999998754 3444566655666777543 221 333666654
No 47
>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=60.44 E-value=22 Score=23.13 Aligned_cols=52 Identities=13% Similarity=0.210 Sum_probs=36.4
Q ss_pred eeeEEecC-----CCchHHHHHHHHHhhccCccceEEE-EEcC--c--cCCCCchHHHHHhh
Q 034290 29 CCRYLVPA-----DLTVGQFVYVIRKRIKLSAEKAIFI-FVDN--V--LPPTGAIMSTIYDE 80 (99)
Q Consensus 29 k~Kflvp~-----~~tv~~f~~~irk~l~l~~~~slfl-~Vnn--~--lp~~~~~m~~lY~~ 80 (99)
..+|-+|. +.++.++...|++++++++...+-| |-+. . ....+..+.+.-+.
T Consensus 11 ~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~ 72 (91)
T cd06398 11 LRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQY 72 (91)
T ss_pred EEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHH
Confidence 56788885 7999999999999999987554444 4442 1 23556666665555
No 48
>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=58.32 E-value=20 Score=22.10 Aligned_cols=58 Identities=10% Similarity=0.111 Sum_probs=38.1
Q ss_pred EecCCCchHHHHHHHHHhhccCcc-ceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEec
Q 034290 33 LVPADLTVGQFVYVIRKRIKLSAE-KAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 33 lvp~~~tv~~f~~~irk~l~l~~~-~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
-|+++.||+++...|.++.+++++ +.|.+..++.....+.++++ |. - .++..|++.-+
T Consensus 18 ~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~-~g-i-~~gs~l~l~~~ 76 (80)
T cd01792 18 SLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVS-QG-L-GPGSTVLLVVQ 76 (80)
T ss_pred EcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHH-cC-C-CCCCEEEEEEE
Confidence 368899999999999999888764 34432235555556667765 22 1 24557887654
No 49
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=58.15 E-value=38 Score=20.15 Aligned_cols=58 Identities=10% Similarity=0.173 Sum_probs=39.1
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEe
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Y 92 (99)
.+-|..+.||+++...|.++.++++. .+-|..++.....+.++++. . - .++..|+|.-
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~~-~~~Li~~Gk~L~d~~tL~~~-~-i-~~~stl~l~~ 70 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQE-QLVLIFAGKILKDTDTLTQH-N-I-KDGLTVHLVI 70 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHH-HEEEEECCeEcCCCCcHHHc-C-C-CCCCEEEEEE
Confidence 45588999999999999988887654 34555566655566677553 1 1 2355777753
No 50
>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=56.78 E-value=32 Score=21.19 Aligned_cols=55 Identities=22% Similarity=0.326 Sum_probs=40.6
Q ss_pred eEEecCCCchHHHHHHHHHhh---ccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEec
Q 034290 31 RYLVPADLTVGQFVYVIRKRI---KLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l---~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
+|.-....|+.++...||+.- -+......|+.-||.- |-=+||+.+||-+..+|.
T Consensus 5 ~~vp~~~~~v~d~K~~Lr~y~~~~I~~d~tGfYIvF~~~~--------Ea~rC~~~~~~~~~f~y~ 62 (66)
T PF11767_consen 5 KFVPVHGVTVEDFKKRLRKYRWDRIRDDRTGFYIVFNDSK--------EAERCFRAEDGTLFFTYR 62 (66)
T ss_pred ccCCCCCccHHHHHHHHhcCCcceEEecCCEEEEEECChH--------HHHHHHHhcCCCEEEEEE
Confidence 444555678889887777553 1456678888887743 888899999999988885
No 51
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=56.03 E-value=11 Score=27.74 Aligned_cols=49 Identities=20% Similarity=0.344 Sum_probs=29.7
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCcc--ceEEEE-E-cCc---cCCCCchHHHH
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAE--KAIFIF-V-DNV---LPPTGAIMSTI 77 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~--~slfl~-V-nn~---lp~~~~~m~~l 77 (99)
.-.++||++-||++++..++++++++++ ..|=++ | |++ ..+.+..+++|
T Consensus 35 ~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 35 EYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 6679999999999999999999998754 344333 3 333 46788888888
No 52
>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=54.68 E-value=24 Score=23.60 Aligned_cols=27 Identities=15% Similarity=0.493 Sum_probs=23.2
Q ss_pred chHHHHHHHHHhhccCc-cceEEEEEcC
Q 034290 39 TVGQFVYVIRKRIKLSA-EKAIFIFVDN 65 (99)
Q Consensus 39 tv~~f~~~irk~l~l~~-~~slfl~Vnn 65 (99)
.+.-+...++..++++| +.++|+|+|.
T Consensus 16 g~dgL~~lV~~~~~~dp~~g~~fvF~nr 43 (107)
T PF05717_consen 16 GIDGLAALVREELGLDPFSGDLFVFCNR 43 (107)
T ss_pred ChhHHHHHHHHhhcCCCCcceEEEEEec
Confidence 57778899999999875 6789999996
No 53
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=54.42 E-value=24 Score=21.96 Aligned_cols=32 Identities=13% Similarity=0.189 Sum_probs=26.3
Q ss_pred eEEecCCCchHHHHHHHHHhhccCc-cceEEEE
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSA-EKAIFIF 62 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~-~~slfl~ 62 (99)
.--+|.++||+++...|-+..++++ ...|+++
T Consensus 17 ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 17 EKRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 3468999999999999999999986 5677776
No 54
>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=54.21 E-value=31 Score=23.47 Aligned_cols=30 Identities=20% Similarity=0.243 Sum_probs=24.6
Q ss_pred EEecCCCchHHHHHHHHHhhccCcc-ceEEE
Q 034290 32 YLVPADLTVGQFVYVIRKRIKLSAE-KAIFI 61 (99)
Q Consensus 32 flvp~~~tv~~f~~~irk~l~l~~~-~slfl 61 (99)
-.|+++.||+++...|.++++++|. +-|.+
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 55
>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=52.55 E-value=13 Score=25.45 Aligned_cols=53 Identities=13% Similarity=0.169 Sum_probs=34.2
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccc----eEEEEEcCcc----CCCCchHHHHHhhh
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEK----AIFIFVDNVL----PPTGAIMSTIYDEK 81 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~----slfl~Vnn~l----p~~~~~m~~lY~~~ 81 (99)
..+|-|+.++|+++|+..++++.++..+- .-.||..-.. =..+++|.+|+++-
T Consensus 34 WDr~~v~~~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~f~~~~~~~rl~~~i~elv~~v 94 (125)
T PF09358_consen 34 WDRIEVNGDMTLQELIDYFKEKYGLEVTMLSQGVSLLYSSFPPPKHKERLKMPISELVEEV 94 (125)
T ss_dssp T-EEEEES--BHHHHHHHHHHTTS-EEEEEEETTEEEEETT-HHHHHHHTTSBHHHHHHHH
T ss_pred eeEEEEcCCCCHHHHHHHHHHHhCceEEEEEeCCEEEEecCChhhhHHHhCCcHHHHHHHh
Confidence 45889999999999999999999876431 1233432201 13677999999954
No 56
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=50.19 E-value=24 Score=21.60 Aligned_cols=41 Identities=17% Similarity=0.260 Sum_probs=28.7
Q ss_pred eEEecCC-CchHHHHHHHHHhhc-c-CccceEEEEEcCccCCCC
Q 034290 31 RYLVPAD-LTVGQFVYVIRKRIK-L-SAEKAIFIFVDNVLPPTG 71 (99)
Q Consensus 31 Kflvp~~-~tv~~f~~~irk~l~-l-~~~~slfl~Vnn~lp~~~ 71 (99)
.+-++.+ .|+.++...|..+.. + .....+.+.||+.....+
T Consensus 19 ~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~~ 62 (80)
T TIGR01682 19 TLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTDD 62 (80)
T ss_pred EEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCCC
Confidence 4457777 899999999988864 2 223567899998643333
No 57
>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=49.60 E-value=45 Score=21.12 Aligned_cols=44 Identities=11% Similarity=0.119 Sum_probs=29.5
Q ss_pred EecCCCchHHHHHHHHHhhc--cCccceEEEEEcCccCCCCchHHH
Q 034290 33 LVPADLTVGQFVYVIRKRIK--LSAEKAIFIFVDNVLPPTGAIMST 76 (99)
Q Consensus 33 lvp~~~tv~~f~~~irk~l~--l~~~~slfl~Vnn~lp~~~~~m~~ 76 (99)
.-|.+.||+++...|..+.+ ..+.+..=|.-+++....+.+|++
T Consensus 16 ~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~d 61 (75)
T cd01815 16 VSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDF 61 (75)
T ss_pred cCCccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHH
Confidence 34889999999999999964 542222334345555567777765
No 58
>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=49.09 E-value=41 Score=22.10 Aligned_cols=59 Identities=14% Similarity=0.064 Sum_probs=39.6
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEec
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
.+=|.++.||+++...|..+-++++++ .=|+.++.....+.++++ |.- .++.-|++.-.
T Consensus 41 ~leV~~~~TV~~lK~kI~~~~gip~~~-QrLi~~Gk~L~D~~tL~d-y~I--~~~stL~l~~~ 99 (103)
T cd01802 41 ELRVSPFETVISVKAKIQRLEGIPVAQ-QHLIWNNMELEDEYCLND-YNI--SEGCTLKLVLA 99 (103)
T ss_pred EEEeCCCCcHHHHHHHHHHHhCCChHH-EEEEECCEECCCCCcHHH-cCC--CCCCEEEEEEe
Confidence 345899999999999999999988764 233456665666677755 321 23446666543
No 59
>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=46.98 E-value=41 Score=21.09 Aligned_cols=33 Identities=12% Similarity=0.156 Sum_probs=27.1
Q ss_pred EecCCCchHHHHHHHHHhhccCc-cceEEEEEcC
Q 034290 33 LVPADLTVGQFVYVIRKRIKLSA-EKAIFIFVDN 65 (99)
Q Consensus 33 lvp~~~tv~~f~~~irk~l~l~~-~~slfl~Vnn 65 (99)
-+|.++|++++...|.+..++++ .+.|.+|.+.
T Consensus 18 r~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 18 KYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred ecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 48999999999999999999976 5666666664
No 60
>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=46.65 E-value=61 Score=19.43 Aligned_cols=41 Identities=7% Similarity=0.120 Sum_probs=32.7
Q ss_pred cccceeeEEecCCCchHHHHHHHHHhh-ccCccceEEEEEcCc
Q 034290 25 TCLQCCRYLVPADLTVGQFVYVIRKRI-KLSAEKAIFIFVDNV 66 (99)
Q Consensus 25 ~l~~k~Kflvp~~~tv~~f~~~irk~l-~l~~~~slfl~Vnn~ 66 (99)
... ..-+.||.+.|..++...+.+-| ........=++||+.
T Consensus 14 ~~~-~~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~ 55 (65)
T PF08154_consen 14 EVP-GTPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGE 55 (65)
T ss_pred cCC-CCCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCE
Confidence 344 67799999999999999999988 566666666778875
No 61
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=46.47 E-value=46 Score=20.57 Aligned_cols=56 Identities=11% Similarity=0.109 Sum_probs=38.8
Q ss_pred ecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEec
Q 034290 34 VPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 34 vp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
+..+.||+++...|..+.++++++- =|+.+++....+.++++ |.-. ++.++++.-.
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~Q-rLi~~Gk~L~D~~tL~~-y~i~--~~~~i~l~~~ 74 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQ-RLFYRGKQMEDGHTLFD-YNVG--LNDIIQLLVR 74 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHe-EEEeCCEECCCCCCHHH-cCCC--CCCEEEEEEe
Confidence 6789999999999999988886532 23346666677788866 3222 3447777543
No 62
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=44.10 E-value=69 Score=19.08 Aligned_cols=35 Identities=9% Similarity=0.047 Sum_probs=30.2
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEE
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFV 63 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~V 63 (99)
...|-|+++.|+.+++..|-++|+|...+-.=|.+
T Consensus 8 ~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 8 TKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred cEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 56688999999999999999999999877665666
No 63
>PRK06437 hypothetical protein; Provisional
Probab=43.99 E-value=42 Score=20.27 Aligned_cols=39 Identities=13% Similarity=0.181 Sum_probs=26.7
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchH
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIM 74 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m 74 (99)
.+=++...|+++++. +|++++ +.+-+.+|+...+.+..+
T Consensus 14 ~~~i~~~~tv~dLL~----~Lgi~~-~~vaV~vNg~iv~~~~~L 52 (67)
T PRK06437 14 TIEIDHELTVNDIIK----DLGLDE-EEYVVIVNGSPVLEDHNV 52 (67)
T ss_pred EEEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCceEc
Confidence 345788899999774 567865 567888998754444433
No 64
>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=43.87 E-value=72 Score=19.25 Aligned_cols=63 Identities=6% Similarity=0.001 Sum_probs=44.2
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCc-cceEEEE--EcC----ccCCCCchHHHHHhhhcCC--CCeEEEE
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSA-EKAIFIF--VDN----VLPPTGAIMSTIYDEKKDE--DGFLYVT 91 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~-~~slfl~--Vnn----~lp~~~~~m~~lY~~~kd~--DGfLYl~ 91 (99)
-+-+.|+.+.|..+++..+-+++++.. .+...|+ ... ....++...-.+...+... ++-+++.
T Consensus 18 ~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~~~~~~~~~f~lr 89 (93)
T PF00788_consen 18 YKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQWPKDSQNSRFVLR 89 (93)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTTSSGTTTEEEEEE
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhCccccCceEEEEE
Confidence 677899999999999999999999933 3334442 322 1456677777777777653 6666664
No 65
>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=43.81 E-value=75 Score=19.42 Aligned_cols=58 Identities=19% Similarity=0.216 Sum_probs=38.9
Q ss_pred EEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEecC
Q 034290 32 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYSG 94 (99)
Q Consensus 32 flvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys~ 94 (99)
.-|+.+.||+++...|.++.+++++. +-|..++.....+ ++++ .--.++..+||.-+-
T Consensus 16 l~v~~~~TV~~LK~~I~~~~~~~~~~-qrL~~~Gk~L~d~-~L~~---~gi~~~~~i~l~~~~ 73 (78)
T cd01804 16 LSVPPDETVEGLKKRISQRLKVPKER-LALLHRETRLSSG-KLQD---LGLGDGSKLTLVPTV 73 (78)
T ss_pred EEECCcCHHHHHHHHHHHHhCCChHH-EEEEECCcCCCCC-cHHH---cCCCCCCEEEEEeec
Confidence 45899999999999999888887754 3444455443334 5554 222245688887654
No 66
>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=42.50 E-value=22 Score=21.12 Aligned_cols=41 Identities=20% Similarity=0.263 Sum_probs=30.5
Q ss_pred eeeEEecCCCchHHHHHHHHHhhc-cCccceEEEEEcCccCC
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLPP 69 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~-l~~~~slfl~Vnn~lp~ 69 (99)
.....++...|+++++..|..+.. +...+.+-+.||+....
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~ 54 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVP 54 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEG
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcC
Confidence 345678999999999999987752 22347788999986433
No 67
>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=42.33 E-value=45 Score=21.55 Aligned_cols=55 Identities=11% Similarity=0.105 Sum_probs=42.8
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcC
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKD 83 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd 83 (99)
.+..-||++-.+.-++.+--...++++..|--+--++.=..++++-|+++-+|.+
T Consensus 17 fkvlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgs 71 (82)
T cd01766 17 FKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGS 71 (82)
T ss_pred ceEEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCC
Confidence 5666799999999999999999999988874333234456778888999988854
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=41.31 E-value=96 Score=19.91 Aligned_cols=58 Identities=10% Similarity=0.201 Sum_probs=42.1
Q ss_pred EecCCCchHHHHHHHHHhhccCccceEEEEEc---C-c-cCCC-CchHHHHHhhhcCCCCeEEE
Q 034290 33 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD---N-V-LPPT-GAIMSTIYDEKKDEDGFLYV 90 (99)
Q Consensus 33 lvp~~~tv~~f~~~irk~l~l~~~~slfl~Vn---n-~-lp~~-~~~m~~lY~~~kd~DGfLYl 90 (99)
.+|+..+++++...|+++|.+.++..-.=|-. + . .|-. ++.|.+.+.+=++.=.-|.+
T Consensus 12 ~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~~~~ltLwc 75 (78)
T cd06411 12 RAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAWQDVADGPRGLQL 75 (78)
T ss_pred EccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHHHhccCCceEEEE
Confidence 37888999999999999999998864444443 2 2 3544 88999999887754444443
No 69
>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=41.02 E-value=37 Score=22.13 Aligned_cols=28 Identities=18% Similarity=0.332 Sum_probs=24.0
Q ss_pred EEecCCCchHHHHHHHHHhhccCccceEEE
Q 034290 32 YLVPADLTVGQFVYVIRKRIKLSAEKAIFI 61 (99)
Q Consensus 32 flvp~~~tv~~f~~~irk~l~l~~~~slfl 61 (99)
..||.+.++.+|..-||.+++++ +.+-+
T Consensus 16 i~v~~~i~f~dL~~kIrdkf~~~--~~~~i 43 (86)
T cd06408 16 IMIGPDTGFADFEDKIRDKFGFK--RRLKI 43 (86)
T ss_pred EEcCCCCCHHHHHHHHHHHhCCC--CceEE
Confidence 45999999999999999999996 45555
No 70
>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=40.51 E-value=86 Score=19.15 Aligned_cols=37 Identities=16% Similarity=0.096 Sum_probs=25.7
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCc
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV 66 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~ 66 (99)
+.+..|.++.++.|++..--++.++++++ -.|.-|++
T Consensus 8 r~~vkvtp~~~l~~VL~eac~k~~l~~~~-~~L~h~~k 44 (65)
T PF11470_consen 8 RFKVKVTPNTTLNQVLEEACKKFGLDPSS-YDLKHNNK 44 (65)
T ss_dssp EEEE---TTSBHHHHHHHHHHHTT--GGG--EEEETTE
T ss_pred EEEEEECCCCCHHHHHHHHHHHcCCCccc-eEEEECCE
Confidence 78899999999999999999999999884 44555554
No 71
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=40.15 E-value=40 Score=20.39 Aligned_cols=37 Identities=5% Similarity=0.082 Sum_probs=25.3
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCc
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGA 72 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~ 72 (99)
.+-+++..|+++++. .|++++ +.+-+.+|+...+.+.
T Consensus 17 ~~~~~~~~tv~~ll~----~l~~~~-~~v~v~vNg~iv~~~~ 53 (70)
T PRK08364 17 EIEWRKGMKVADILR----AVGFNT-ESAIAKVNGKVALEDD 53 (70)
T ss_pred EEEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCCc
Confidence 344688889998764 556765 5688889987544443
No 72
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=39.63 E-value=1.7e+02 Score=23.79 Aligned_cols=59 Identities=15% Similarity=0.137 Sum_probs=42.2
Q ss_pred EEecCCCchHHHHHHHHHhhc---cCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEecC
Q 034290 32 YLVPADLTVGQFVYVIRKRIK---LSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYSG 94 (99)
Q Consensus 32 flvp~~~tv~~f~~~irk~l~---l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys~ 94 (99)
.-|..+.||+++...|...-+ ++.++ +=|..+++....+.+|++ |. - .++.+|++.-+.
T Consensus 15 IeV~~~~TV~dLK~kI~~~~g~~~ip~~~-QkLIy~GkiL~Dd~tL~d-y~-I-~e~~~Ivvmv~k 76 (378)
T TIGR00601 15 IDMEPDETVKELKEKIEAEQGKDAYPVAQ-QKLIYSGKILSDDKTVRE-YK-I-KEKDFVVVMVSK 76 (378)
T ss_pred EEeCCcChHHHHHHHHHHhhCCCCCChhH-eEEEECCEECCCCCcHHH-cC-C-CCCCEEEEEecc
Confidence 348899999999999998876 66544 455667777777788877 32 2 245688877654
No 73
>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=39.35 E-value=15 Score=23.10 Aligned_cols=16 Identities=38% Similarity=0.580 Sum_probs=13.9
Q ss_pred hcCCCCeEEEEecCcc
Q 034290 81 KKDEDGFLYVTYSGEN 96 (99)
Q Consensus 81 ~kd~DGfLYl~Ys~~~ 96 (99)
+-|+||-+|+.|+.++
T Consensus 42 wiDe~G~vYi~~s~ee 57 (76)
T PF06970_consen 42 WIDENGNVYIIFSIEE 57 (76)
T ss_pred cCCCCCCEEEEeeHHH
Confidence 5799999999998775
No 74
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=38.62 E-value=45 Score=24.58 Aligned_cols=47 Identities=23% Similarity=0.525 Sum_probs=35.4
Q ss_pred CCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCC-eEEEEecCcccCC
Q 034290 37 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDG-FLYVTYSGENTFG 99 (99)
Q Consensus 37 ~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DG-fLYl~Ys~~~~fG 99 (99)
.++++.++.-|++.++++..+ ....++++|... ..|| |++| +.+.||
T Consensus 30 ~~~F~dii~EI~~~~~~s~~e------------i~~~i~~FYTdl-n~DgrFi~L---Gdn~Wg 77 (175)
T COG3343 30 PFNFSDIINEIQKLLGVSKEE------------IRSRIGQFYTDL-NIDGRFISL---GDNKWG 77 (175)
T ss_pred CccHHHHHHHHHHHhCcCHHH------------HHHHHHHHHHHh-ccCCceeec---cccccc
Confidence 688999999999999887654 235789999988 4555 7766 456665
No 75
>cd03483 MutL_Trans_MLH1 MutL_Trans_MLH1: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH1 (MutL homologue 1). This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking hMLH1 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot syndrome (HNPCC variant). Mutation in hMLH1 accounts for a large fraction of HNPCC families.
Probab=38.05 E-value=45 Score=22.41 Aligned_cols=26 Identities=15% Similarity=0.396 Sum_probs=19.5
Q ss_pred cceEEEEEcCcc---CCCCchHHHHHhhh
Q 034290 56 EKAIFIFVDNVL---PPTGAIMSTIYDEK 81 (99)
Q Consensus 56 ~~slfl~Vnn~l---p~~~~~m~~lY~~~ 81 (99)
.+..|+|||+.. +.....+.+.|+.+
T Consensus 47 ~~~q~~fVNgR~V~~~~l~~aI~~~Y~~~ 75 (127)
T cd03483 47 KIIFILFINNRLVECSALRRAIENVYANY 75 (127)
T ss_pred CceEEEEEcCCEecCHHHHHHHHHHHHHh
Confidence 466899999963 45666778888876
No 76
>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=37.71 E-value=91 Score=18.66 Aligned_cols=52 Identities=17% Similarity=0.291 Sum_probs=42.3
Q ss_pred EEecCCCchHHHHHHHHHhhccCccceEEEEEcC----ccCCCCchHHHHHhhhcC
Q 034290 32 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN----VLPPTGAIMSTIYDEKKD 83 (99)
Q Consensus 32 flvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn----~lp~~~~~m~~lY~~~kd 83 (99)
+-++.+.++.+|...|++++++.+..--.-|.+. ...+.+..+.+..+.++.
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 6799999999999999999999866666778863 135778888888888765
No 77
>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=36.93 E-value=44 Score=19.91 Aligned_cols=42 Identities=17% Similarity=0.137 Sum_probs=28.2
Q ss_pred eeEEecCCCchHHHHHHHHHhhcc---CccceEEEEEcCccCCCC
Q 034290 30 CRYLVPADLTVGQFVYVIRKRIKL---SAEKAIFIFVDNVLPPTG 71 (99)
Q Consensus 30 ~Kflvp~~~tv~~f~~~irk~l~l---~~~~slfl~Vnn~lp~~~ 71 (99)
..+-+|+..|+++++..|..+..- .....+-++||+...+.+
T Consensus 18 ~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~ 62 (80)
T cd00754 18 EELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLD 62 (80)
T ss_pred EEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCC
Confidence 344577789999999988876431 123567788998644433
No 78
>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=36.68 E-value=81 Score=21.09 Aligned_cols=37 Identities=14% Similarity=0.200 Sum_probs=30.4
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCcc--ceEEEEEcC
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAE--KAIFIFVDN 65 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~--~slfl~Vnn 65 (99)
..-+.+|-+.||+|++..|.++..++++ -.|++.+++
T Consensus 14 f~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~ 52 (97)
T cd01775 14 FTTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHD 52 (97)
T ss_pred EEEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECC
Confidence 3456789999999999999999998764 457777776
No 79
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=35.93 E-value=63 Score=27.42 Aligned_cols=53 Identities=15% Similarity=0.188 Sum_probs=40.3
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCC
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDG 86 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DG 86 (99)
|.-|-|+.+.||.||...|-++.+.++++ +-|.-.+++.+.+.|+. .|+-.||
T Consensus 26 k~~~~V~~~ssV~qlKE~I~~~f~a~~dq-lvLIfaGrILKD~dTL~----~~gI~Dg 78 (493)
T KOG0010|consen 26 KYEVNVASDSSVLQLKELIAQRFGAPPDQ-LVLIYAGRILKDDDTLK----QYGIQDG 78 (493)
T ss_pred ceeEecccchHHHHHHHHHHHhcCCChhH-eeeeecCccccChhhHH----HcCCCCC
Confidence 66788999999999999999999888776 44444556666776764 3555677
No 80
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.45 E-value=71 Score=20.83 Aligned_cols=61 Identities=13% Similarity=0.115 Sum_probs=45.0
Q ss_pred CCcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCC
Q 034290 23 IPTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDE 84 (99)
Q Consensus 23 lp~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~ 84 (99)
=|.|- .+.+-||....+..++.+--...+.++..|--+--++.=..+.++-|++|=+|.+|
T Consensus 23 dpklp-fkv~svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agnvflkhgse 83 (94)
T KOG3483|consen 23 DPKLP-FKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSE 83 (94)
T ss_pred CCCCc-cceecCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccceeeccCCE
Confidence 46666 78888999999999999988999998877644332233456677788888777543
No 81
>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=33.79 E-value=55 Score=20.18 Aligned_cols=21 Identities=5% Similarity=0.196 Sum_probs=17.7
Q ss_pred HHHHHhhccCccceEEEEEcC
Q 034290 45 YVIRKRIKLSAEKAIFIFVDN 65 (99)
Q Consensus 45 ~~irk~l~l~~~~slfl~Vnn 65 (99)
.-+++.|+|.+++.+++.+.+
T Consensus 16 k~i~~~lgl~~Gd~v~v~~~~ 36 (74)
T TIGR02609 16 KEVLESLGLKEGDTLYVDEEE 36 (74)
T ss_pred HHHHHHcCcCCCCEEEEEEEC
Confidence 457899999999999998764
No 82
>COG1218 CysQ 3'-Phosphoadenosine 5'-phosphosulfate (PAPS) 3'-phosphatase [Inorganic ion transport and metabolism]
Probab=33.76 E-value=42 Score=26.23 Aligned_cols=44 Identities=11% Similarity=-0.059 Sum_probs=30.6
Q ss_pred cccccCCCceEEEEEecCCCC-CCcccceeeEEecCCCchHHHHH
Q 034290 2 ETATMGIPFFLFICMNSHKFY-IPTCLQCCRYLVPADLTVGQFVY 45 (99)
Q Consensus 2 ~~~~~~~p~ipVIvE~~~~~~-lp~l~~k~Kflvp~~~tv~~f~~ 45 (99)
+..++-+|++||+.|...... .|....+.-|||.+=.=-.+|+.
T Consensus 56 ~~L~a~~P~ipvv~EE~~~~~~~~~~~~~rfWLiDPLDGTkeFi~ 100 (276)
T COG1218 56 EGLRALFPDIPVVSEEEEAIDWEERLHWDRFWLVDPLDGTKEFIK 100 (276)
T ss_pred HHHHHhCCCCCEEEeccccCCCCCcccCceEEEECCCcCcHHHhc
Confidence 345677999999999976543 55554366788888765556543
No 83
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=33.55 E-value=49 Score=22.96 Aligned_cols=50 Identities=22% Similarity=0.347 Sum_probs=33.3
Q ss_pred cCCCchHHHHHHHHHhhccCccceEEEEEcCccCCCCchHHHHHhhhcCCCCeEEEEecCcccCC
Q 034290 35 PADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSTIYDEKKDEDGFLYVTYSGENTFG 99 (99)
Q Consensus 35 p~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~~~~~m~~lY~~~kd~DGfLYl~Ys~~~~fG 99 (99)
...+++.+++.-|.+.++++.++- ...++++|..- .-|| -..+.+++.||
T Consensus 17 ~~~m~f~dL~~ev~~~~~~s~e~~------------~~~iaq~YtdL-n~DG--RFi~lG~n~Wg 66 (129)
T PRK02363 17 KEPMSFYDLVNEIQKYLGKSDEEI------------RERIAQFYTDL-NLDG--RFISLGDNKWG 66 (129)
T ss_pred CCcccHHHHHHHHHHHhCCCHHHH------------HHHHHHHHHHH-hccC--CeeEcCCCcee
Confidence 356788888888888877654431 26788888877 5566 23345666665
No 84
>KOG1209 consensus 1-Acyl dihydroxyacetone phosphate reductase and related dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=33.14 E-value=1.1e+02 Score=24.09 Aligned_cols=51 Identities=14% Similarity=0.103 Sum_probs=41.1
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCc-----cCCCCchHHHHHhhhcC
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-----LPPTGAIMSTIYDEKKD 83 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~-----lp~~~~~m~~lY~~~kd 83 (99)
-.|.=|.++..|.++...+|+. +.-.|=+++||. .|..|.+++.+=++|+-
T Consensus 56 ~~kLDV~~~~~V~~v~~evr~~----~~Gkld~L~NNAG~~C~~Pa~d~~i~ave~~f~v 111 (289)
T KOG1209|consen 56 PYKLDVSKPEEVVTVSGEVRAN----PDGKLDLLYNNAGQSCTFPALDATIAAVEQCFKV 111 (289)
T ss_pred eEEeccCChHHHHHHHHHHhhC----CCCceEEEEcCCCCCcccccccCCHHHHHhhhcc
Confidence 4455599999999999999875 455688888872 68899999999999863
No 85
>PF06395 CDC24: CDC24 Calponin; InterPro: IPR010481 This is a calponin homology domain.
Probab=32.28 E-value=31 Score=22.63 Aligned_cols=22 Identities=14% Similarity=0.448 Sum_probs=17.9
Q ss_pred CchHHHHHHHHHhhccCccceEE
Q 034290 38 LTVGQFVYVIRKRIKLSAEKAIF 60 (99)
Q Consensus 38 ~tv~~f~~~irk~l~l~~~~slf 60 (99)
..+..|+...+++|+++.++ +|
T Consensus 44 ~ai~~Fi~ack~~L~~~~~e-~F 65 (89)
T PF06395_consen 44 KAIYKFIQACKQELGFPDEE-LF 65 (89)
T ss_pred HHHHHHHHHHHHhcCCCccc-ee
Confidence 46899999999999997665 45
No 86
>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=32.14 E-value=47 Score=22.18 Aligned_cols=37 Identities=14% Similarity=0.369 Sum_probs=25.2
Q ss_pred EEEEEcC--c--cCCCCchHHHHHhhhcCCCCeEEEEecCcc
Q 034290 59 IFIFVDN--V--LPPTGAIMSTIYDEKKDEDGFLYVTYSGEN 96 (99)
Q Consensus 59 lfl~Vnn--~--lp~~~~~m~~lY~~~kd~DGfLYl~Ys~~~ 96 (99)
+-|.||= . .-..=..|.+||++|++ +|+..|.+-..+
T Consensus 23 v~LIVNvAs~Cg~t~qy~~L~~L~~ky~~-~gl~ILaFPcnq 63 (108)
T PF00255_consen 23 VLLIVNVASKCGYTKQYKQLNELYEKYKD-KGLEILAFPCNQ 63 (108)
T ss_dssp EEEEEEEESSSTTHHHHHHHHHHHHHHGG-GTEEEEEEEBST
T ss_pred EEEEEecccccCCccccHHHHHHHHHHhc-CCeEEEeeehHH
Confidence 4566662 1 11144589999999985 789999887543
No 87
>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=31.87 E-value=1.3e+02 Score=20.62 Aligned_cols=36 Identities=8% Similarity=0.265 Sum_probs=28.6
Q ss_pred eeEE-ecCCCchHHHHHHHHHhhccC------ccceEEEEEcC
Q 034290 30 CRYL-VPADLTVGQFVYVIRKRIKLS------AEKAIFIFVDN 65 (99)
Q Consensus 30 ~Kfl-vp~~~tv~~f~~~irk~l~l~------~~~slfl~Vnn 65 (99)
.|.+ |++++|..|++..|-++...+ ++-|||....|
T Consensus 37 tK~VrVsS~~tt~eVI~~LLeKFk~d~~~~s~p~FALYevh~n 79 (112)
T cd01782 37 TKCIRVSSTATTRDVIDTLSEKFRPDMRMLSNPTYSLYEVHEN 79 (112)
T ss_pred EEEEEEecCCCHHHHHHHHHHHhcccccccCCcceEEEEEecC
Confidence 3444 999999999999999888732 57788887754
No 88
>PF10336 DUF2420: Protein of unknown function (DUF2420); InterPro: IPR018822 This entry represents a family of proteins conserved in fungi. Their function is not known.
Probab=30.58 E-value=1.7e+02 Score=19.58 Aligned_cols=62 Identities=21% Similarity=0.327 Sum_probs=40.9
Q ss_pred CCchHHHHHHHHHhhc------cCccceEEEEEcC--------ccCCCCchHHHH---HhhhcCCC---------CeEEE
Q 034290 37 DLTVGQFVYVIRKRIK------LSAEKAIFIFVDN--------VLPPTGAIMSTI---YDEKKDED---------GFLYV 90 (99)
Q Consensus 37 ~~tv~~f~~~irk~l~------l~~~~slfl~Vnn--------~lp~~~~~m~~l---Y~~~kd~D---------GfLYl 90 (99)
+.++++|+..+|+.+. +..++-|.|-+.. .+-..+-|+.++ |+..+..| +-||+
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 5566777776643 123445566655 44443222 38999
Q ss_pred EecCcccC
Q 034290 91 TYSGENTF 98 (99)
Q Consensus 91 ~Ys~~~~f 98 (99)
+-+.++.|
T Consensus 90 ~LstrPRF 97 (113)
T PF10336_consen 90 TLSTRPRF 97 (113)
T ss_pred EEecCccH
Confidence 99988766
No 89
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=29.84 E-value=78 Score=19.46 Aligned_cols=35 Identities=14% Similarity=0.096 Sum_probs=23.7
Q ss_pred CCchHHHHHHHHHhhc-----cCccceEEEEEcCccCCCCc
Q 034290 37 DLTVGQFVYVIRKRIK-----LSAEKAIFIFVDNVLPPTGA 72 (99)
Q Consensus 37 ~~tv~~f~~~irk~l~-----l~~~~slfl~Vnn~lp~~~~ 72 (99)
..|++++...|.++.. +. ...+-++||...-+.++
T Consensus 25 ~~tv~~l~~~L~~~~~~~~~~~~-~~~~~~aVN~~~~~~~~ 64 (81)
T PRK11130 25 FPTVEALRQHLAQKGDRWALALE-DGKLLAAVNQTLVSFDH 64 (81)
T ss_pred CCCHHHHHHHHHHhCccHHhhhc-CCCEEEEECCEEcCCCC
Confidence 5799999999987742 22 33456889986544444
No 90
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=28.70 E-value=66 Score=20.42 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=18.5
Q ss_pred HHHHHhhccCccceEEEEEcC
Q 034290 45 YVIRKRIKLSAEKAIFIFVDN 65 (99)
Q Consensus 45 ~~irk~l~l~~~~slfl~Vnn 65 (99)
.-+|++|++++.+.|-++++.
T Consensus 20 keiR~~lgi~~Gd~lei~~~~ 40 (89)
T COG2002 20 KEIREALGIKEGDVLEIIVDG 40 (89)
T ss_pred HHHHHHhCCCCCCEEEEEEeC
Confidence 458999999999999999974
No 91
>PF14060 DUF4252: Domain of unknown function (DUF4252)
Probab=28.69 E-value=71 Score=21.65 Aligned_cols=24 Identities=21% Similarity=0.404 Sum_probs=20.6
Q ss_pred CCchHHHHHhhhcCCCCeEEEEec
Q 034290 70 TGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 70 ~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
..+.+..+|++|++.+|+.+++-+
T Consensus 20 ~~~~~~~~~~~~~~~~~~~~v~i~ 43 (155)
T PF14060_consen 20 QGQSLQKYFDKYSENKGVTSVNIS 43 (155)
T ss_pred cchhHHHHHHHhCCCCCeEEEEEC
Confidence 357889999999999999998765
No 92
>PF06490 FleQ: Flagellar regulatory protein FleQ; InterPro: IPR010518 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators that are involved in regulation of flagellar motility e.g. FleQ in Pseudomonas aeruginosa. It is clearly related to IPR001789 from INTERPRO, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (IPR001789 from INTERPRO).
Probab=28.03 E-value=96 Score=20.29 Aligned_cols=46 Identities=9% Similarity=-0.026 Sum_probs=31.0
Q ss_pred ccccCCCceEEEEEecCCCCCCcccceeeEEecCCCchHHHHHHHHHh
Q 034290 3 TATMGIPFFLFICMNSHKFYIPTCLQCCRYLVPADLTVGQFVYVIRKR 50 (99)
Q Consensus 3 ~~~~~~p~ipVIvE~~~~~~lp~l~~k~Kflvp~~~tv~~f~~~irk~ 50 (99)
+...++|.+||++=-..... ..+. +----+..-.+..|+...||+.
T Consensus 62 ~l~~~~~~~Pvlllg~~~~~-~~~~-nvvg~Le~Pl~Y~qLt~~L~~c 107 (109)
T PF06490_consen 62 ELLKWAPHIPVLLLGEHDSP-EELP-NVVGELEEPLNYPQLTDALHRC 107 (109)
T ss_pred HHHhhCCCCCEEEECCCCcc-cccc-CeeEecCCCCCHHHHHHHHHHh
Confidence 45678899998886544333 3444 4333477778888888888864
No 93
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=27.19 E-value=80 Score=23.01 Aligned_cols=37 Identities=19% Similarity=0.471 Sum_probs=27.1
Q ss_pred EEEEEcC--c--cCCCCchHHHHHhhhcCCCCeEEEEecCcc
Q 034290 59 IFIFVDN--V--LPPTGAIMSTIYDEKKDEDGFLYVTYSGEN 96 (99)
Q Consensus 59 lfl~Vnn--~--lp~~~~~m~~lY~~~kd~DGfLYl~Ys~~~ 96 (99)
+-|.||- + +-+.=+.|..||++|+| .||-.|.+-..+
T Consensus 27 VlLIVNtASkCGfTpQYegLe~Ly~ky~~-~Gf~VLgFPcNQ 67 (162)
T COG0386 27 VLLIVNTASKCGFTPQYEGLEALYKKYKD-KGFEVLGFPCNQ 67 (162)
T ss_pred EEEEEEcccccCCcHhHHHHHHHHHHHhh-CCcEEEeccccc
Confidence 5677873 1 44456689999999986 789998875543
No 94
>KOG1651 consensus Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=27.04 E-value=99 Score=22.73 Aligned_cols=36 Identities=14% Similarity=0.354 Sum_probs=26.0
Q ss_pred EEEEEcC--c---cCCCCchHHHHHhhhcCCCCeEEEEecCc
Q 034290 59 IFIFVDN--V---LPPTGAIMSTIYDEKKDEDGFLYVTYSGE 95 (99)
Q Consensus 59 lfl~Vnn--~---lp~~~~~m~~lY~~~kd~DGfLYl~Ys~~ 95 (99)
+-|+||= . .++.=..|.+||++|++ .||..+.+--.
T Consensus 36 V~LiVNVAS~Cg~T~~~Y~~l~~L~~ky~~-~Gl~ILaFPCN 76 (171)
T KOG1651|consen 36 VVLIVNVASQCGLTESQYTELNELYEKYKD-QGLEILAFPCN 76 (171)
T ss_pred EEEEEEcccccccchhcchhHHHHHHHHhh-CCeEEEEeccc
Confidence 4566762 1 35566689999999975 78999987543
No 95
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=26.94 E-value=72 Score=23.70 Aligned_cols=17 Identities=24% Similarity=0.225 Sum_probs=11.7
Q ss_pred hcCCCCeEEEEecCcccCC
Q 034290 81 KKDEDGFLYVTYSGENTFG 99 (99)
Q Consensus 81 ~kd~DGfLYl~Ys~~~~fG 99 (99)
-+..|||||| +..+.||
T Consensus 149 ~~~~~~~l~m--sv~~~~g 165 (244)
T PRK13125 149 SKLSPLFIYY--GLRPATG 165 (244)
T ss_pred HHhCCCEEEE--EeCCCCC
Confidence 3457999999 5565555
No 96
>COG3592 Uncharacterized conserved protein [Function unknown]
Probab=26.94 E-value=65 Score=20.49 Aligned_cols=36 Identities=22% Similarity=0.294 Sum_probs=27.4
Q ss_pred EEEecCCC-----CCCcccceeeEEecCCCchHHHHHHHHHh
Q 034290 14 ICMNSHKF-----YIPTCLQCCRYLVPADLTVGQFVYVIRKR 50 (99)
Q Consensus 14 IvE~~~~~-----~lp~l~~k~Kflvp~~~tv~~f~~~irk~ 50 (99)
||+.+.++ .+-.++ ++-|+.|..-.+++.+.+|+..
T Consensus 24 iC~Hs~nCV~Gn~~vF~~~-rkPWI~Pd~~~ve~i~~vi~sC 64 (74)
T COG3592 24 ICAHSGNCVRGNPKVFNLG-RKPWIMPDAVDVEEIVKVIDTC 64 (74)
T ss_pred eeecccceecCCHhhcccC-CCCccCCCCCCHHHHHHHHHhC
Confidence 56665542 344566 8889999999999999999864
No 97
>PF01119 DNA_mis_repair: DNA mismatch repair protein, C-terminal domain; InterPro: IPR013507 This entry represents the C-terminal domain of DNA mismatch repair proteins, such as MutL. This domain functions in promoting dimerisation []. The dimeric MutL protein has a key function in communicating mismatch recognition by MutS to downstream repair processes. Mismatch repair contributes to the overall fidelity of DNA replication by targeting mispaired bases that arise through replication errors during homologous recombination and as a result of DNA damage. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 1B62_A 1NHJ_A 1BKN_B 1NHH_A 1B63_A 1NHI_A 3NA3_A 1EA6_A 1H7U_A 1H7S_B ....
Probab=26.86 E-value=51 Score=21.65 Aligned_cols=31 Identities=23% Similarity=0.327 Sum_probs=20.6
Q ss_pred cCccceEEEEEcCcc---CCCCchHHHHHhhhcC
Q 034290 53 LSAEKAIFIFVDNVL---PPTGAIMSTIYDEKKD 83 (99)
Q Consensus 53 l~~~~slfl~Vnn~l---p~~~~~m~~lY~~~kd 83 (99)
....+..|+|||+.. +.....+.++|+..-.
T Consensus 36 ~~~~~~q~ifVN~R~V~~~~l~~~I~~~y~~~~~ 69 (119)
T PF01119_consen 36 RSSRDRQFIFVNGRPVENKALSKAINEAYRERLP 69 (119)
T ss_dssp BSSCTCEEEEETTEEE--HHHHHHHHHHHHCTTC
T ss_pred cCCCCcEEEEeCCCeEeChHHHHHHHHHHhhccc
Confidence 344578899999964 4455566777774433
No 98
>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=26.20 E-value=93 Score=17.16 Aligned_cols=21 Identities=24% Similarity=0.322 Sum_probs=17.6
Q ss_pred HHHHHhhccCccceEEEEEcC
Q 034290 45 YVIRKRIKLSAEKAIFIFVDN 65 (99)
Q Consensus 45 ~~irk~l~l~~~~slfl~Vnn 65 (99)
.-+|+.+++.+++.+.+.+++
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~~ 33 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVEG 33 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEET
T ss_pred HHHHHHcCCCCCCEEEEEEeC
Confidence 457899999999999988864
No 99
>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=25.87 E-value=1.9e+02 Score=21.78 Aligned_cols=37 Identities=14% Similarity=0.217 Sum_probs=25.7
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcC
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN 65 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn 65 (99)
.-..-++..+|..|+...|-++|+++|..=-|.-+|+
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 3445699999999999999999999998766777764
No 100
>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=25.54 E-value=85 Score=21.36 Aligned_cols=32 Identities=6% Similarity=0.159 Sum_probs=28.1
Q ss_pred CCCchHHHHHHHHHhhccCccceEEEEEcCcc
Q 034290 36 ADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL 67 (99)
Q Consensus 36 ~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~l 67 (99)
...++.+++..|++.+.-.+++.|.|-+++..
T Consensus 67 ~~~~~~dvL~~i~~fl~~~p~e~VIl~l~~~~ 98 (135)
T smart00148 67 LPIKLSEVLEAIKDFAFVTSPYPVILSLENHC 98 (135)
T ss_pred ccEEHHHHHHHHHHHHHhCCCCcEEEeehhhC
Confidence 45689999999999999999999999998753
No 101
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=25.51 E-value=1.5e+02 Score=20.81 Aligned_cols=32 Identities=25% Similarity=0.394 Sum_probs=22.6
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEE
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFI 61 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl 61 (99)
...+.||.+.|+++|-.+|+.-++..... ||-
T Consensus 19 wRri~Vp~~~tl~~Lh~~Iq~afgw~~~H-L~~ 50 (179)
T PF07929_consen 19 WRRIEVPADITLADLHEVIQAAFGWDDDH-LYE 50 (179)
T ss_dssp EEEEEEETT-BHHHHHHHHHHHTT----S--EE
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCcCCCE-eEE
Confidence 56789999999999999999999987554 443
No 102
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=24.83 E-value=2.3e+02 Score=19.45 Aligned_cols=51 Identities=4% Similarity=0.027 Sum_probs=36.0
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccc--eEEEEEcC----ccCCCCchHHHHHh
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEK--AIFIFVDN----VLPPTGAIMSTIYD 79 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~--slfl~Vnn----~lp~~~~~m~~lY~ 79 (99)
...+-+....|+.++...+.++++|...+ +||....+ ..+.++.+|.+.-.
T Consensus 15 ~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~ 71 (207)
T smart00295 15 TLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDV 71 (207)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcC
Confidence 56788999999999999999999996543 44444433 23556666665543
No 103
>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=24.62 E-value=1.2e+02 Score=18.18 Aligned_cols=21 Identities=19% Similarity=0.373 Sum_probs=13.0
Q ss_pred chHHHHHhhhcCCCCeEEEEe
Q 034290 72 AIMSTIYDEKKDEDGFLYVTY 92 (99)
Q Consensus 72 ~~m~~lY~~~kd~DGfLYl~Y 92 (99)
..|.++|++|++.+++=.+.-
T Consensus 21 ~~l~~l~~~~~~~~~v~~v~V 41 (95)
T PF13905_consen 21 PKLKELYKKYKKKDDVEFVFV 41 (95)
T ss_dssp HHHHHHHHHHTTTTTEEEEEE
T ss_pred HHHHHHHHHhCCCCCEEEEEE
Confidence 367788888875555444333
No 104
>PRK08577 hypothetical protein; Provisional
Probab=24.49 E-value=78 Score=21.35 Aligned_cols=21 Identities=14% Similarity=0.343 Sum_probs=18.1
Q ss_pred HHHHHhhccCccceEEEEEcC
Q 034290 45 YVIRKRIKLSAEKAIFIFVDN 65 (99)
Q Consensus 45 ~~irk~l~l~~~~slfl~Vnn 65 (99)
.-+|++|++.+++.+-+++++
T Consensus 19 ~~~r~~l~~~~g~~~~~~~~~ 39 (136)
T PRK08577 19 LEIREALGIREGMYVLLIADT 39 (136)
T ss_pred HHHHHHcCcCCCCEEEEEEEC
Confidence 347999999999999999874
No 105
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=24.22 E-value=59 Score=19.82 Aligned_cols=44 Identities=11% Similarity=0.141 Sum_probs=27.6
Q ss_pred eeeEEecCCCchHHHHHHHHHhh-ccCc-cceEEEEEcCccCCCCc
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRI-KLSA-EKAIFIFVDNVLPPTGA 72 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l-~l~~-~~slfl~Vnn~lp~~~~ 72 (99)
...+-++...|++++...|..+. .+.. ...+-+.||+...+.+.
T Consensus 20 ~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~~~~ 65 (82)
T PLN02799 20 DMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTTESA 65 (82)
T ss_pred eEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcCCCc
Confidence 34455788999999999886553 1221 12356789986544443
No 106
>COG2239 MgtE Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]
Probab=24.18 E-value=1.2e+02 Score=25.22 Aligned_cols=34 Identities=29% Similarity=0.449 Sum_probs=25.5
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEE
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFV 63 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~V 63 (99)
..-.-++.+.||+|.+..||++-+ .++..-++||
T Consensus 140 ~e~v~l~~~~Tv~~al~~ir~~~~-~~e~~~~lyV 173 (451)
T COG2239 140 TEFVTLPEDVTVDEALDRIRERAE-DAETIYYLYV 173 (451)
T ss_pred eeeEEeccCcCHHHHHHHHHHhcc-cccccceEEE
Confidence 444459999999999999999877 3344445666
No 107
>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4
Probab=23.50 E-value=1e+02 Score=27.66 Aligned_cols=42 Identities=10% Similarity=0.263 Sum_probs=32.8
Q ss_pred hHHHHHHHHHhhcc----CccceEEEEEcCccCCCCchHHHHHhhh
Q 034290 40 VGQFVYVIRKRIKL----SAEKAIFIFVDNVLPPTGAIMSTIYDEK 81 (99)
Q Consensus 40 v~~f~~~irk~l~l----~~~~slfl~Vnn~lp~~~~~m~~lY~~~ 81 (99)
+.++.+.|-+-+.+ .+...+=|.|||++.+.|-.+.++|++-
T Consensus 17 mrdvknkIc~d~~m~~lleDd~gmELlV~~~IisldL~v~~Vy~~v 62 (802)
T PF13764_consen 17 MRDVKNKICRDLEMIALLEDDNGMELLVNNKIISLDLPVRDVYEKV 62 (802)
T ss_pred HHHHHHHHhhhcccchhccCCcccceeecCeeecCCCcHHHHHHHH
Confidence 45556666666665 4577889999999999999999999963
No 108
>cd03485 MutL_Trans_hPMS_1_like MutL_Trans_hPMS1_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM1 (hPSM1) and yeast MLH2. hPSM1 and yMLH2 are members of the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. PMS1 forms a heterodimer with MLH1. The MLH1-PMS1 complex functions in meiosis. Loss of yMLH2 results in a small but significant decrease in spore viability and a significant increase in gene conversion frequencies. A role for hMLH1-hPMS1 in DNA mismatch repair has not been established. Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families, however there is no convincing evidence to support hPMS1 having a role in HNPCC predisposition.
Probab=22.84 E-value=78 Score=21.24 Aligned_cols=27 Identities=19% Similarity=0.303 Sum_probs=18.8
Q ss_pred cceEEEEEcCccCC----CCchHHHHHhhhc
Q 034290 56 EKAIFIFVDNVLPP----TGAIMSTIYDEKK 82 (99)
Q Consensus 56 ~~slfl~Vnn~lp~----~~~~m~~lY~~~k 82 (99)
.+..|+|||+.... ....+.+.|..+-
T Consensus 48 ~~~q~~fVN~R~v~~~~~l~k~i~~~y~~~~ 78 (132)
T cd03485 48 SDGKFISVNSRPVSLGKDIGKLLRQYYSSAY 78 (132)
T ss_pred CCcEEEEECCeecccchHHHHHHHHHHHHHh
Confidence 56679999997443 3556777777653
No 109
>cd04264 DUF619-NAGS DUF619 domain of various N-acetylglutamate Synthases of the fungal arginine-biosynthetic pathway and urea cycle found in humans and fish. DUF619-NAGS: This family includes the DUF619 domain of various N-acetylglutamate synthases (NAGS) of the urea cycle found in humans and fish, the DUF619 domain of the NAGS of the fungal arginine-biosynthetic pathway (FABP), as well as the DUF619 domain present in C-terminal of a NAG kinase-like domain in a limited number of predicted NAGSs found in bacteria and Dictyostelium. Ureogenic NAGS is a mitochondrial enzyme catalyzing the formation of NAG from acetylcoenzyme A and L-glutamate. NAGS is an essential allosteric activator of carbamylphosphate synthase I, the first and rate limiting enzyme of the urea cycle. Domain architecture of ureogenic and fungal NAGS consists of an N-terminal NAG kinase-like domain and a C-terminal DUF619 domain. The DUF619 domain function has yet to be characterized.
Probab=22.40 E-value=1.8e+02 Score=19.10 Aligned_cols=53 Identities=9% Similarity=0.065 Sum_probs=30.9
Q ss_pred CCCceEEEEEecCCCCCCcccceeeEEecCCCchHHHHHHHHHhhccCccceEEEEE
Q 034290 7 GIPFFLFICMNSHKFYIPTCLQCCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFV 63 (99)
Q Consensus 7 ~~p~ipVIvE~~~~~~lp~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~V 63 (99)
-|..++|+-...+.+..|.|+ ||.|.++..-..+...|=+.|.=+ ...||=-+
T Consensus 18 ~y~~~aIvt~~~~~~~~~yLd---KfaV~~~~~g~gvad~vf~~i~~d-~~~L~Wrs 70 (99)
T cd04264 18 GYNAAAIVTYEGVNNGVPYLD---KFAVSSSAQGEGTSDALWRRLRRD-FPKLFWRS 70 (99)
T ss_pred CceEEEEEeccCCCCCceEEE---EEEEchhhhhcChHHHHHHHHHhh-CCceEEEe
Confidence 344455554444456889999 889988775555555554554433 34455444
No 110
>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.36 E-value=2.5e+02 Score=20.61 Aligned_cols=62 Identities=16% Similarity=0.259 Sum_probs=39.4
Q ss_pred eEEecCCCchHHHHHHHHHhhcc-CccceEEEEEcCc-cC-CCCchHHHHHhhhcCCCCeEEEEec
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKL-SAEKAIFIFVDNV-LP-PTGAIMSTIYDEKKDEDGFLYVTYS 93 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l-~~~~slfl~Vnn~-lp-~~~~~m~~lY~~~kd~DGfLYl~Ys 93 (99)
.|-+.+..|..++..+|-.--+| +|+..|||.-|.. +- .-|.+- +=-.+|..++|.+++.-|
T Consensus 90 vyditrrstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~y-eeak~faeengl~fle~s 154 (215)
T KOG0097|consen 90 VYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTY-EEAKEFAEENGLMFLEAS 154 (215)
T ss_pred EEEehhhhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcH-HHHHHHHhhcCeEEEEec
Confidence 35566777888888888776676 5777777766643 33 233332 233456678888887655
No 111
>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=22.31 E-value=2e+02 Score=17.59 Aligned_cols=39 Identities=13% Similarity=0.158 Sum_probs=30.9
Q ss_pred CcccceeeEEecCCCchHHHHHHHHHhhccCc---cceEEEEE
Q 034290 24 PTCLQCCRYLVPADLTVGQFVYVIRKRIKLSA---EKAIFIFV 63 (99)
Q Consensus 24 p~l~~k~Kflvp~~~tv~~f~~~irk~l~l~~---~~slfl~V 63 (99)
|.-. -+-..|+.+.|.++++..+-++++++. +=+||..+
T Consensus 13 ~~~~-~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~ 54 (90)
T smart00314 13 PGGT-YKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVL 54 (90)
T ss_pred CCCc-EEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEe
Confidence 4344 666789999999999999999999975 35566666
No 112
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=22.19 E-value=64 Score=23.70 Aligned_cols=65 Identities=17% Similarity=0.147 Sum_probs=31.7
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCcc----ceEEEEEcCcc--CCCCchHH--HHHhhhcCCCC-eEEEEec
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAE----KAIFIFVDNVL--PPTGAIMS--TIYDEKKDEDG-FLYVTYS 93 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~----~slfl~Vnn~l--p~~~~~m~--~lY~~~kd~DG-fLYl~Ys 93 (99)
--.|.|.++-+++++..-||+|++++.. =-+.+..++.. |.--..-. .||+.-...|. +|.|-..
T Consensus 134 PF~f~v~~gE~f~~tK~Rl~~rlgv~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~~~~~~~~~LgLdH~ 207 (213)
T PF14533_consen 134 PFLFVVKPGETFSDTKERLQKRLGVSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDEIFNPDDPWLGLDHP 207 (213)
T ss_dssp EEEEEEETT--HHHHHHHHHHHH---HHHHTT-EEEEEETTEE---EE--TT-T----GGGTS-S--EEEEE--
T ss_pred CEEEEeeCCCcHHHHHHHHHHHhCCChhhheeEEEEEEecCCcccceeccccchhhhhhhhcCccCCEEEEeCC
Confidence 3467899999999999999999999864 22444445543 32111122 45666555453 6776543
No 113
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.07 E-value=64 Score=22.36 Aligned_cols=23 Identities=30% Similarity=0.524 Sum_probs=19.5
Q ss_pred CCCchHHHHHHHHHhhccCccce
Q 034290 36 ADLTVGQFVYVIRKRIKLSAEKA 58 (99)
Q Consensus 36 ~~~tv~~f~~~irk~l~l~~~~s 58 (99)
++.||-+|..+|.++++++++=.
T Consensus 32 ad~Tvk~f~~~~~~~Iq~~~sl~ 54 (127)
T KOG4147|consen 32 ADQTVKEFIVFLKQDIQLRTSLP 54 (127)
T ss_pred hHhhHHHHHHHHHHhcccCCCCC
Confidence 47899999999999999887633
No 114
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=22.04 E-value=1.6e+02 Score=17.67 Aligned_cols=47 Identities=9% Similarity=0.074 Sum_probs=31.7
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccceEEEEEcC---ccCCCC-chHHHH
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN---VLPPTG-AIMSTI 77 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn---~lp~~~-~~m~~l 77 (99)
.--.+.+.|++.+..+|+..+........-|..+- .+...+ ++|+++
T Consensus 20 ~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~ 70 (82)
T PF00789_consen 20 QRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEA 70 (82)
T ss_dssp EEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCC
T ss_pred EEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHh
Confidence 33456899999999999999887765445555442 244444 677665
No 115
>PF08469 NPHI_C: Nucleoside triphosphatase I C-terminal; InterPro: IPR013676 This viral domain is found to the C terminus of Poxvirus nucleoside triphosphatase phosphohydrolase I (NPH I) [] together with the helicase conserved C-terminal domain (IPR001650 from INTERPRO). ; GO: 0005524 ATP binding, 0017111 nucleoside-triphosphatase activity, 0006351 transcription, DNA-dependent
Probab=21.39 E-value=66 Score=23.11 Aligned_cols=22 Identities=27% Similarity=0.301 Sum_probs=19.6
Q ss_pred CCCCchHHHHHhhhcCCCCeEE
Q 034290 68 PPTGAIMSTIYDEKKDEDGFLY 89 (99)
Q Consensus 68 p~~~~~m~~lY~~~kd~DGfLY 89 (99)
=+.+..|..++.-||+.||-+|
T Consensus 101 Ys~s~~l~tI~kGfk~~dg~iy 122 (148)
T PF08469_consen 101 YSFSSRLVTIHKGFKTKDGRIY 122 (148)
T ss_pred EEccchhHHHHhcccCCCCcEe
Confidence 4678899999999999999887
No 116
>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=21.35 E-value=2e+02 Score=26.38 Aligned_cols=61 Identities=15% Similarity=0.254 Sum_probs=37.9
Q ss_pred eEEecCCCchHHHHHHHHHhhccCccc---eEEEEEcCccC----CCCchHHHHHhhhcC---CCCeEEEE
Q 034290 31 RYLVPADLTVGQFVYVIRKRIKLSAEK---AIFIFVDNVLP----PTGAIMSTIYDEKKD---EDGFLYVT 91 (99)
Q Consensus 31 Kflvp~~~tv~~f~~~irk~l~l~~~~---slfl~Vnn~lp----~~~~~m~~lY~~~kd---~DGfLYl~ 91 (99)
+|-|+.++|+.+|+..++++.++...- ..-+.-+..++ ..+.+|.+|+++=.. .++..|+.
T Consensus 915 r~~i~~~~Tl~~~i~~~~~~~~~~v~~is~g~~~lY~~~~~~~~erl~~~l~el~~~~~k~~~~~~~~~l~ 985 (1008)
T TIGR01408 915 RWTLHGDFTLLEFINAVKEKYGLEPTMVSQGVKLLYVPVMPGHAERLKLKMHKLVKPTTKKKLPPYRVHLT 985 (1008)
T ss_pred EEEecCCCcHHHHHHHHHHHhCCeeEEEEcCceEEEeccchhhHHhcCCCHHHHHHHhccCCCCCCceEEE
Confidence 467899999999999999998765321 00111122222 245578999887622 45555543
No 117
>PF03568 Peptidase_C50: Peptidase family C50; InterPro: IPR005314 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C50 (separase family, clan CD). The active site residues for members of this family and family C14 occur in the same order in the sequence: H,C. The separases are caspase-like proteases, which plays a central role in the chromosome segregation. In yeast they cleave the rad21 subunit of the cohesin complex at the onset of anaphase. During most of the cell cycle, separase is inactivated by the securin/cut2 protein, which probably covers its active site. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0005634 nucleus
Probab=21.18 E-value=2.3e+02 Score=22.67 Aligned_cols=61 Identities=13% Similarity=0.051 Sum_probs=41.1
Q ss_pred CCCCCCcccceeeEEecCCCchHHHHHHHHHhhc-cC------ccceEEEEEcC--ccCCCCchHHHHHhhhc
Q 034290 19 HKFYIPTCLQCCRYLVPADLTVGQFVYVIRKRIK-LS------AEKAIFIFVDN--VLPPTGAIMSTIYDEKK 82 (99)
Q Consensus 19 ~~~~lp~l~~k~Kflvp~~~tv~~f~~~irk~l~-l~------~~~slfl~Vnn--~lp~~~~~m~~lY~~~k 82 (99)
|-+.+|.+. ... |.+--+++.+...+.++-. .. ..+..|..+|- -|+.+..++..+++..+
T Consensus 218 PwEsl~~l~-~~~--VsR~pSl~~l~~~~~~~~~~~~~~~~~~~~~~~~yvlNP~gDL~~T~~~~~~~~~~~~ 287 (383)
T PF03568_consen 218 PWESLPCLR-GQS--VSRMPSLHFLRDLLKRHSNSRSPGYESKDPKRGFYVLNPSGDLKRTEKRFEPFFKSWK 287 (383)
T ss_pred chhhCcccc-CCe--eEecChHHHHHHHHHHhhhhcccccccccccceEEEECCCCCHHHHHHHHHHHHhccc
Confidence 446788888 554 6666677777776665432 11 22347888883 48888888888888876
No 118
>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=21.05 E-value=1.9e+02 Score=16.83 Aligned_cols=34 Identities=15% Similarity=0.193 Sum_probs=24.4
Q ss_pred eeeEEecCCCchHHHHHHHHHhhccCccceEEEEEcCcc
Q 034290 29 CCRYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL 67 (99)
Q Consensus 29 k~Kflvp~~~tv~~f~~~irk~l~l~~~~slfl~Vnn~l 67 (99)
-+.+-+++..|+.+++. .+++++ +.+-+-+|+..
T Consensus 5 g~~~~~~~~~tv~~ll~----~l~~~~-~~v~v~vN~~i 38 (64)
T TIGR01683 5 GEPVEVEDGLTLAALLE----SLGLDP-RRVAVAVNGEI 38 (64)
T ss_pred CeEEEcCCCCcHHHHHH----HcCCCC-CeEEEEECCEE
Confidence 45566788899888766 445665 66778899864
No 119
>cd03482 MutL_Trans_MutL MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from the ATP-binding site to the DNA breakage/reunion regions of the enzymes. It has been suggested that during initiation of DNA mismatch repair in E. coli, the mismatch recognition protein MutS recruits MutL in the presence of ATP. The MutS(ATP)-MutL ternary complex formed, then recruits the latent endonuclease MutH. Prokaryotic MutS and MutL are homodimers.
Probab=20.54 E-value=86 Score=20.89 Aligned_cols=27 Identities=7% Similarity=0.235 Sum_probs=18.7
Q ss_pred cceEEEEEcCcc---CCCCchHHHHHhhhc
Q 034290 56 EKAIFIFVDNVL---PPTGAIMSTIYDEKK 82 (99)
Q Consensus 56 ~~slfl~Vnn~l---p~~~~~m~~lY~~~k 82 (99)
.+..|+|||+.. +.....+.+.|+.+-
T Consensus 43 ~~~q~ifVN~R~V~~~~l~~ai~~~y~~~~ 72 (123)
T cd03482 43 ADIQYFYVNGRMVRDKLISHAVRQAYSDVL 72 (123)
T ss_pred CCcEEEEEcCcEECChHHHHHHHHHHHHhc
Confidence 456799999963 345556777777653
No 120
>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=20.31 E-value=3.1e+02 Score=19.00 Aligned_cols=55 Identities=9% Similarity=0.019 Sum_probs=37.9
Q ss_pred CCchHHHHHHHHHhhccCccceEEEEEcCccCC-----CCchHHHHHhhhc---CCCCeEEEEe
Q 034290 37 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP-----TGAIMSTIYDEKK---DEDGFLYVTY 92 (99)
Q Consensus 37 ~~tv~~f~~~irk~l~l~~~~slfl~Vnn~lp~-----~~~~m~~lY~~~k---d~DGfLYl~Y 92 (99)
..|+.+++..++..+. .++..+.|.+.-+-++ ....+.++++++. -.|..++.++
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 3578899999998877 7777888888865332 3346777777776 3455555553
No 121
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=20.22 E-value=1.2e+02 Score=23.06 Aligned_cols=31 Identities=19% Similarity=0.427 Sum_probs=24.9
Q ss_pred cCCCchHHHHHHHHH--------hhccCccceEEEEEcC
Q 034290 35 PADLTVGQFVYVIRK--------RIKLSAEKAIFIFVDN 65 (99)
Q Consensus 35 p~~~tv~~f~~~irk--------~l~l~~~~slfl~Vnn 65 (99)
..+.|..+|+.+|+. .|...+++.||+|..+
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 347899999999994 4467889999999863
No 122
>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=20.22 E-value=1.3e+02 Score=23.03 Aligned_cols=46 Identities=15% Similarity=0.171 Sum_probs=37.3
Q ss_pred CCchHHHHHHHHHhhccCccceEEEEEcCcc-C--CCCchHHHHHhhhc
Q 034290 37 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL-P--PTGAIMSTIYDEKK 82 (99)
Q Consensus 37 ~~tv~~f~~~irk~l~l~~~~slfl~Vnn~l-p--~~~~~m~~lY~~~k 82 (99)
..++.+++..|++.+.-.+++.|.|-+++.- + .....|.+.+.+..
T Consensus 73 ~~~f~dvl~~i~~fl~~~p~e~vIlsl~~~~~~~~~~q~~~~~~~~~~~ 121 (274)
T cd00137 73 DIFLKEVIEAIAQFLKKNPPETIIMSLKNEVDSMDSFQAKMAEYCRTIF 121 (274)
T ss_pred CcCHHHHHHHHHHHHHHCCCCeEEEEEEecCCCcHHHHHHHHHHHHHhh
Confidence 6789999999999999999999999998743 2 45567777777664
No 123
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=20.13 E-value=99 Score=16.77 Aligned_cols=16 Identities=31% Similarity=0.557 Sum_probs=10.4
Q ss_pred cCCCchHHHHHHHHHh
Q 034290 35 PADLTVGQFVYVIRKR 50 (99)
Q Consensus 35 p~~~tv~~f~~~irk~ 50 (99)
|.++||+|+..++-.+
T Consensus 1 p~sltV~~Lk~iL~~~ 16 (35)
T PF12949_consen 1 PKSLTVAQLKRILDEH 16 (35)
T ss_dssp STT--SHHHHHHHHHH
T ss_pred CCcCcHHHHHHHHHHc
Confidence 5788999988877544
No 124
>PRK13669 hypothetical protein; Provisional
Probab=20.07 E-value=87 Score=20.10 Aligned_cols=27 Identities=15% Similarity=0.373 Sum_probs=22.3
Q ss_pred ceEEEEEcCc---cCCCCchHHHHHhhhcC
Q 034290 57 KAIFIFVDNV---LPPTGAIMSTIYDEKKD 83 (99)
Q Consensus 57 ~slfl~Vnn~---lp~~~~~m~~lY~~~kd 83 (99)
...|-+||+. .+.+++.+..||+.=+.
T Consensus 45 ~~~FAlVng~~V~a~t~eeL~~kI~~~i~e 74 (78)
T PRK13669 45 EGLFALVNGEVVEGETPEELVENIYAHLEE 74 (78)
T ss_pred cCceEEECCeEeecCCHHHHHHHHHHHHhh
Confidence 5689999984 57899999999987654
Done!