Query 033114
Match_columns 127
No_of_seqs 115 out of 375
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 09:58:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033114.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033114hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1654 Microtubule-associated 100.0 3.3E-53 7.1E-58 299.9 12.6 116 7-122 1-116 (116)
2 cd01611 GABARAP Ubiquitin doma 100.0 1.1E-51 2.3E-56 294.9 13.8 112 11-122 1-112 (112)
3 PTZ00380 microtubule-associate 100.0 2.3E-49 5E-54 285.7 12.5 111 9-124 2-113 (121)
4 PF02991 Atg8: Autophagy prote 100.0 1.1E-48 2.3E-53 276.2 11.8 104 19-122 1-104 (104)
5 cd01612 APG12_C Ubiquitin-like 100.0 3E-33 6.4E-38 191.9 10.4 85 37-122 2-87 (87)
6 PF04110 APG12: Ubiquitin-like 99.9 4.4E-25 9.6E-30 151.5 6.6 84 38-122 3-87 (87)
7 KOG3439 Protein conjugation fa 99.9 1.5E-23 3.2E-28 148.8 9.7 85 37-122 31-116 (116)
8 PF04106 APG5: Autophagy prote 96.6 0.0043 9.3E-08 48.0 5.2 100 15-116 88-195 (197)
9 PF11816 DUF3337: Domain of un 95.5 0.13 2.8E-06 42.6 9.1 87 31-117 211-328 (331)
10 PF11976 Rad60-SLD: Ubiquitin- 91.2 0.53 1.2E-05 29.7 4.4 49 52-100 12-60 (72)
11 PF13019 Telomere_Sde2: Telome 90.5 2.2 4.8E-05 32.5 7.8 79 35-116 1-82 (162)
12 cd06406 PB1_P67 A PB1 domain i 89.5 2 4.3E-05 29.1 6.2 55 56-113 16-75 (80)
13 KOG2976 Protein involved in au 84.0 15 0.00032 30.2 9.5 92 16-115 161-273 (278)
14 smart00213 UBQ Ubiquitin homol 83.8 4 8.6E-05 24.4 4.9 46 53-99 12-57 (64)
15 KOG2660 Locus-specific chromos 83.5 2.7 5.8E-05 35.4 5.2 73 46-119 159-235 (331)
16 cd00196 UBQ Ubiquitin-like pro 83.4 5.7 0.00012 21.9 5.5 40 50-90 7-46 (69)
17 PF00240 ubiquitin: Ubiquitin 81.6 2.1 4.5E-05 26.6 3.1 46 54-100 9-54 (69)
18 cd06398 PB1_Joka2 The PB1 doma 77.9 6.5 0.00014 26.9 4.8 52 52-103 11-72 (91)
19 PF10302 DUF2407: DUF2407 ubiq 76.4 15 0.00033 25.4 6.4 71 46-117 10-94 (97)
20 cd01813 UBP_N UBP ubiquitin pr 74.9 6.2 0.00013 25.6 3.9 45 56-100 15-61 (74)
21 cd01763 Sumo Small ubiquitin-r 71.9 13 0.00028 24.6 5.1 62 32-100 9-70 (87)
22 cd01769 UBL Ubiquitin-like dom 70.5 18 0.0004 21.6 5.2 57 54-115 11-68 (69)
23 PF12752 SUZ: SUZ domain; Int 70.2 7.5 0.00016 24.3 3.3 22 9-30 32-53 (59)
24 cd01806 Nedd8 Nebb8-like ubiq 70.0 16 0.00035 22.7 4.9 58 54-116 14-72 (76)
25 PF03671 Ufm1: Ubiquitin fold 68.6 22 0.00047 23.9 5.3 58 48-106 13-71 (76)
26 cd01790 Herp_N Homocysteine-re 66.0 37 0.0008 22.7 7.1 62 54-116 15-79 (79)
27 cd01807 GDX_N ubiquitin-like d 65.6 13 0.00028 23.6 3.8 44 55-99 15-58 (74)
28 PF00837 T4_deiodinase: Iodoth 65.0 11 0.00023 30.4 4.0 34 9-43 158-191 (237)
29 cd01798 parkin_N amino-termina 64.7 15 0.00032 23.0 4.0 44 55-99 13-56 (70)
30 COG3343 RpoE DNA-directed RNA 63.7 10 0.00022 29.2 3.5 47 60-122 30-77 (175)
31 PF08154 NLE: NLE (NUC135) dom 63.4 35 0.00076 21.5 6.4 42 49-90 14-56 (65)
32 cd05992 PB1 The PB1 domain is 62.2 37 0.0008 21.4 7.3 63 52-114 11-79 (81)
33 cd01805 RAD23_N Ubiquitin-like 61.0 20 0.00043 22.6 4.1 56 54-114 14-72 (77)
34 cd01803 Ubiquitin Ubiquitin. U 58.8 27 0.00058 21.6 4.4 58 54-116 14-72 (76)
35 cd01776 Rin1_RA Ubiquitin doma 58.0 24 0.00052 24.2 4.2 37 53-89 16-54 (87)
36 cd01796 DDI1_N DNA damage indu 57.1 20 0.00042 22.8 3.5 55 55-113 14-69 (71)
37 cd01809 Scythe_N Ubiquitin-lik 57.1 34 0.00073 20.9 4.6 45 54-99 14-58 (72)
38 cd06396 PB1_NBR1 The PB1 domai 57.0 56 0.0012 22.0 5.9 62 51-115 10-78 (81)
39 cd01810 ISG15_repeat2 ISG15 ub 56.5 48 0.001 20.9 5.4 57 55-115 13-69 (74)
40 PF12436 USP7_ICP0_bdg: ICP0-b 55.7 15 0.00033 29.1 3.4 59 54-116 88-152 (249)
41 cd06407 PB1_NLP A PB1 domain i 55.5 27 0.00059 23.3 4.1 54 51-104 10-68 (82)
42 PF14836 Ubiquitin_3: Ubiquiti 55.5 14 0.00031 25.3 2.8 44 56-99 19-66 (88)
43 smart00666 PB1 PB1 domain. Pho 54.3 54 0.0012 20.8 6.9 63 51-113 11-78 (81)
44 cd01812 BAG1_N Ubiquitin-like 54.3 30 0.00064 21.3 4.0 45 54-99 13-57 (71)
45 cd01791 Ubl5 UBL5 ubiquitin-li 51.5 38 0.00083 21.8 4.3 43 56-99 17-59 (73)
46 cd01795 USP48_C USP ubiquitin- 50.2 37 0.0008 24.2 4.2 44 55-98 19-62 (107)
47 cd01793 Fubi Fubi ubiquitin-li 48.7 55 0.0012 20.6 4.7 59 52-114 10-68 (74)
48 cd01794 DC_UbP_C dendritic cel 48.4 51 0.0011 21.0 4.5 45 54-99 12-56 (70)
49 PF00788 RA: Ras association ( 46.6 75 0.0016 20.2 7.8 64 51-114 17-89 (93)
50 cd01808 hPLIC_N Ubiquitin-like 46.5 45 0.00097 20.8 4.0 58 54-115 13-70 (71)
51 PF14533 USP7_C2: Ubiquitin-sp 44.6 18 0.0004 28.0 2.2 50 51-100 34-90 (213)
52 PTZ00044 ubiquitin; Provisiona 42.3 60 0.0013 20.3 4.1 45 54-99 14-58 (76)
53 cd01792 ISG15_repeat1 ISG15 ub 41.7 47 0.001 21.4 3.5 58 56-116 18-76 (80)
54 cd01804 midnolin_N Ubiquitin-l 40.7 64 0.0014 20.8 4.1 59 54-117 15-73 (78)
55 PF09358 UBA_e1_C: Ubiquitin-a 39.3 28 0.00061 25.0 2.4 53 52-104 34-94 (125)
56 cd01800 SF3a120_C Ubiquitin-li 38.9 64 0.0014 20.5 3.9 58 55-116 12-69 (76)
57 KOG1209 1-Acyl dihydroxyaceton 38.2 64 0.0014 26.4 4.4 52 50-105 54-110 (289)
58 cd01768 RA RA (Ras-associating 37.0 93 0.002 19.9 4.5 54 51-104 13-73 (87)
59 PF14560 Ubiquitin_2: Ubiquiti 36.8 68 0.0015 20.9 3.8 33 53-85 16-49 (87)
60 TIGR01682 moaD molybdopterin c 36.6 39 0.00084 21.7 2.5 41 54-94 19-62 (80)
61 PF05717 TnpB_IS66: IS66 Orf2 35.5 55 0.0012 22.9 3.3 27 62-88 16-43 (107)
62 PF11543 UN_NPL4: Nuclear pore 35.1 32 0.00068 22.8 1.9 57 53-113 16-77 (80)
63 PF00564 PB1: PB1 domain; Int 35.1 1.2E+02 0.0025 19.1 4.8 52 55-106 16-71 (84)
64 cd01815 BMSC_UbP_N Ubiquitin-l 34.5 98 0.0021 20.5 4.2 42 57-99 17-61 (75)
65 cd06408 PB1_NoxR The PB1 domai 32.4 75 0.0016 21.7 3.5 50 54-105 15-68 (86)
66 cd06411 PB1_p51 The PB1 domain 32.2 1.6E+02 0.0034 19.8 5.9 57 56-112 12-74 (78)
67 TIGR00601 rad23 UV excision re 31.9 1.4E+02 0.0031 25.4 5.8 59 56-118 16-77 (378)
68 PF06970 RepA_N: Replication i 30.3 24 0.00052 23.3 0.7 17 104-120 42-58 (76)
69 PF08825 E2_bind: E2 binding d 30.2 62 0.0013 21.8 2.7 44 57-100 3-59 (84)
70 PRK06437 hypothetical protein; 29.6 75 0.0016 20.1 3.0 39 54-97 14-52 (67)
71 PF09379 FERM_N: FERM N-termin 29.6 1.3E+02 0.0029 18.7 4.2 35 52-86 8-42 (80)
72 cd00754 MoaD Ubiquitin domain 29.5 52 0.0011 20.6 2.2 41 54-94 19-62 (80)
73 PF10336 DUF2420: Protein of u 28.8 2E+02 0.0044 20.1 5.4 63 60-122 10-98 (113)
74 PF01886 DUF61: Protein of unk 28.5 1.4E+02 0.003 21.8 4.6 56 21-85 46-111 (132)
75 cd01799 Hoil1_N Ubiquitin-like 28.2 1.7E+02 0.0037 18.8 6.9 45 54-99 16-60 (75)
76 PF12436 USP7_ICP0_bdg: ICP0-b 28.2 1.3E+02 0.0028 23.8 4.7 53 33-88 175-227 (249)
77 PRK04115 hypothetical protein; 27.7 2.3E+02 0.005 21.0 5.6 54 23-85 51-113 (137)
78 cd00952 CHBPH_aldolase Trans-o 27.7 77 0.0017 25.8 3.4 100 14-117 57-172 (309)
79 smart00148 PLCXc Phospholipase 27.5 73 0.0016 22.8 2.9 42 59-100 67-109 (135)
80 cd01775 CYR1_RA Ubiquitin doma 27.3 1.4E+02 0.0031 20.9 4.2 36 53-88 15-52 (97)
81 cd06401 PB1_TFG The PB1 domain 26.9 1.6E+02 0.0036 19.9 4.3 22 54-75 13-35 (81)
82 PF03568 Peptidase_C50: Peptid 26.9 3.3E+02 0.0072 22.8 7.2 71 33-105 204-287 (383)
83 PRK02363 DNA-directed RNA poly 26.8 83 0.0018 22.9 3.1 49 59-122 18-66 (129)
84 PRK10953 cysJ sulfite reductas 26.8 4.7E+02 0.01 23.6 8.9 88 31-119 432-523 (600)
85 COG3698 Predicted periplasmic 26.8 60 0.0013 26.3 2.5 41 53-104 189-230 (250)
86 PF05990 DUF900: Alpha/beta hy 26.7 1.3E+02 0.0028 23.4 4.4 51 64-116 2-55 (233)
87 PRK13964 coaD phosphopantethei 26.0 2.4E+02 0.0053 20.5 5.5 83 14-101 44-136 (140)
88 PF00255 GSHPx: Glutathione pe 25.7 79 0.0017 22.1 2.8 39 82-122 23-65 (108)
89 cd01802 AN1_N ubiquitin-like d 25.5 1.4E+02 0.0031 20.4 4.0 75 32-116 25-99 (103)
90 PF01704 UDPGP: UTP--glucose-1 25.1 1.4E+02 0.0031 25.8 4.7 61 12-91 82-143 (420)
91 PF02645 DegV: Uncharacterised 24.8 1E+02 0.0022 24.5 3.5 58 51-118 32-91 (280)
92 PF11767 SET_assoc: Histone ly 24.5 1.8E+02 0.0039 18.7 4.1 54 55-116 6-62 (66)
93 cd00951 KDGDH 5-dehydro-4-deox 24.5 94 0.002 24.9 3.4 101 14-118 49-161 (289)
94 cd01766 Ufm1 Urm1-like ubiquit 24.4 1.3E+02 0.0028 20.3 3.4 58 48-106 13-71 (82)
95 PRK00805 putative deoxyhypusin 24.4 1.5E+02 0.0032 25.0 4.5 104 17-126 156-273 (329)
96 cd00408 DHDPS-like Dihydrodipi 24.2 98 0.0021 24.3 3.4 99 14-117 46-160 (281)
97 PF02597 ThiS: ThiS family; I 23.7 59 0.0013 20.1 1.7 40 52-91 13-53 (77)
98 PRK08364 sulfur carrier protei 23.4 80 0.0017 20.0 2.3 38 54-96 17-54 (70)
99 COG1019 Predicted nucleotidylt 23.1 3.4E+02 0.0074 20.6 7.5 66 15-80 54-122 (158)
100 PRK11347 antitoxin ChpS; Provi 23.0 2.1E+02 0.0046 19.1 4.3 52 68-123 18-74 (83)
101 PF11470 TUG-UBL1: GLUT4 regul 22.9 1.7E+02 0.0038 18.6 3.8 40 49-89 5-44 (65)
102 TIGR00683 nanA N-acetylneurami 22.8 1.1E+02 0.0023 24.7 3.4 101 14-118 50-166 (290)
103 smart00537 DCX Domain in the D 22.7 2.4E+02 0.0052 18.7 5.8 70 41-122 10-84 (89)
104 PRK13125 trpA tryptophan synth 22.1 99 0.0021 24.2 3.0 16 106-123 151-166 (244)
105 cd01797 NIRF_N amino-terminal 22.0 1.7E+02 0.0036 18.9 3.6 57 57-117 19-75 (78)
106 PF07929 PRiA4_ORF3: Plasmid p 21.8 1.8E+02 0.0039 21.5 4.2 29 52-80 19-47 (179)
107 COG2002 AbrB Regulators of sta 21.8 1E+02 0.0023 20.5 2.7 21 68-88 20-40 (89)
108 TIGR01683 thiS thiamine biosyn 21.6 1.9E+02 0.004 17.7 3.7 35 51-90 4-38 (64)
109 PF08216 CTNNBL: Catenin-beta- 21.6 88 0.0019 22.3 2.3 20 15-34 33-52 (108)
110 cd00137 PI-PLCc Catalytic doma 21.3 1.3E+02 0.0027 24.2 3.5 52 60-113 73-127 (274)
111 PF05768 DUF836: Glutaredoxin- 21.3 89 0.0019 20.0 2.2 18 25-42 40-57 (81)
112 cd08555 PI-PLCc_GDPD_SF Cataly 21.2 3.3E+02 0.0073 19.8 5.8 55 60-115 59-121 (179)
113 PRK03170 dihydrodipicolinate s 21.2 1.2E+02 0.0026 24.1 3.3 100 14-118 50-165 (292)
114 PRK03620 5-dehydro-4-deoxygluc 21.2 1.2E+02 0.0026 24.5 3.4 29 14-42 56-84 (303)
115 PF14060 DUF4252: Domain of un 21.2 1.2E+02 0.0025 21.6 3.0 25 93-117 20-44 (155)
116 cd08586 PI-PLCc_BcPLC_like Cat 21.2 2.1E+02 0.0046 23.0 4.8 62 61-122 73-137 (279)
117 PRK04147 N-acetylneuraminate l 21.0 1.2E+02 0.0026 24.3 3.3 100 14-118 53-168 (293)
118 PF00701 DHDPS: Dihydrodipicol 21.0 99 0.0021 24.5 2.8 100 14-118 50-165 (289)
119 PRK11130 moaD molybdopterin sy 20.7 1.1E+02 0.0023 19.8 2.5 36 59-95 24-64 (81)
120 COG0669 CoaD Phosphopantethein 20.7 2.1E+02 0.0045 21.8 4.3 96 12-111 43-146 (159)
121 smart00314 RA Ras association 20.4 2.5E+02 0.0054 18.0 5.9 39 48-86 13-54 (90)
122 smart00295 B41 Band 4.1 homolo 20.3 2.8E+02 0.0061 20.0 5.0 51 52-102 15-71 (207)
123 cd03483 MutL_Trans_MLH1 MutL_T 20.3 1E+02 0.0022 21.7 2.5 26 79-104 47-75 (127)
No 1
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=100.00 E-value=3.3e-53 Score=299.92 Aligned_cols=116 Identities=73% Similarity=1.169 Sum_probs=113.8
Q ss_pred CcccccccCCHHHHHHHHHHHHhhCCCcccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEE
Q 033114 7 AKSYFKQEHDLEKRRAEAARIREKYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFV 86 (127)
Q Consensus 7 ~~~~fK~~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyV 86 (127)
|+.+||++|+||+|++|+.+||+|||+|||||||+.+++++|+|||+|||||+++|||||+.+|||||+|+|++|+||||
T Consensus 1 ~~~~FK~~~~fe~R~~E~~~Ir~kyP~riPVIvEk~~~~~lp~lDK~KyLVP~dltvgqfi~iIRkRiqL~~~kA~flfV 80 (116)
T KOG1654|consen 1 MKSSFKERHPFEKRKAEVRRIREKYPDRIPVIVEKAGKSQLPDLDKKKYLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFV 80 (116)
T ss_pred CcchhhccCCHHHHHHHHHHHHHHCCCCCcEEEEecccccCcccccceeeccccccHHHHHHHHHHHhccChhHeEEEEE
Confidence 46889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCccchHHHHHhhhcCCCCeEEEEecCCcccC
Q 033114 87 DNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122 (127)
Q Consensus 87 n~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~~~~fG 122 (127)
||.+|+.+++|++||+++||+||||||+||+|+|||
T Consensus 81 n~~~p~ts~~ms~~Ye~~kdeDgFLYm~Ys~e~tfG 116 (116)
T KOG1654|consen 81 NNTSPPTSATMSALYEEEKDEDGFLYMTYSGENTFG 116 (116)
T ss_pred cCcCCcchhhHHHHHHhhcccCcEEEEEeccccccC
Confidence 999998899999999999999999999999999999
No 2
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=100.00 E-value=1.1e-51 Score=294.87 Aligned_cols=112 Identities=71% Similarity=1.202 Sum_probs=111.1
Q ss_pred ccccCCHHHHHHHHHHHHhhCCCcccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCC
Q 033114 11 FKQEHDLEKRRAEAARIREKYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL 90 (127)
Q Consensus 11 fK~~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l 90 (127)
||++||||+|++|+++||+|||++||||||+++++++|.|+++||+||+++||+||+.+||++|+|++++||||||||++
T Consensus 1 fk~~~s~e~R~~e~~~ir~kyp~~iPVIvE~~~~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~ 80 (112)
T cd01611 1 FKERHPFEKRKAEVERIRAKYPDRIPVIVERYPKSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSL 80 (112)
T ss_pred CccccCHHHHHHHHHHHHHHCCCceEEEEEEcCCCCcccccCceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCcc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccchHHHHHhhhcCCCCeEEEEecCCcccC
Q 033114 91 PPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122 (127)
Q Consensus 91 p~~~~~m~~lY~~~kd~DGfLYi~Ys~~~~fG 122 (127)
|++|++||+||++|||+||||||+||+++|||
T Consensus 81 p~~~~~~~~lY~~~kd~DGfLyl~Ys~~~tfG 112 (112)
T cd01611 81 PPTSATMSQLYEEHKDEDGFLYMTYSSEETFG 112 (112)
T ss_pred CCchhHHHHHHHHhCCCCCEEEEEEeccccCC
Confidence 99999999999999999999999999999999
No 3
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=100.00 E-value=2.3e-49 Score=285.66 Aligned_cols=111 Identities=33% Similarity=0.593 Sum_probs=107.4
Q ss_pred ccccccCCHHHHHHHHHHHHhhCCCcccEEEEccCCCCCCCCccceE-EecCCCchHHHHHHHHHhhCCCCCceEEEEEc
Q 033114 9 SYFKQEHDLEKRRAEAARIREKYPDRIPVIVEKAERSDIPNIDKKKY-LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD 87 (127)
Q Consensus 9 ~~fK~~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~~p~L~k~Kf-lVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn 87 (127)
++||++||||+|++|+++||+|||++||||||++++++ +|+|| |||+|+||+||+++||+||+|++++ +|||||
T Consensus 2 ~~fK~~~s~e~R~~e~~~Ir~kyPdrIPVIvEk~~~s~----dK~KfllVP~d~tV~qF~~iIRkrl~l~~~k-~flfVn 76 (121)
T PTZ00380 2 SAYHSSNPVEARRAECARLQAKYPGHVAVVVEAAEKAG----SKVHFLALPRDATVAELEAAVRQALGTSAKK-VTLAIE 76 (121)
T ss_pred cchhhcCCHHHHHHHHHHHHHHCCCccEEEEeecCCCC----CceEEEEcCCCCcHHHHHHHHHHHcCCChhH-EEEEEC
Confidence 57999999999999999999999999999999998887 89999 6999999999999999999999999 999999
Q ss_pred CCCCCccchHHHHHhhhcCCCCeEEEEecCCcccCCC
Q 033114 88 NVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFGSH 124 (127)
Q Consensus 88 ~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~~~~fG~~ 124 (127)
|.+|+++++||+||++|||+||||||+||+|+|||.+
T Consensus 77 n~lp~~s~~mg~lYe~~KDeDGFLYi~Ys~e~tFG~~ 113 (121)
T PTZ00380 77 GSTPAVTATVGDIADACKRDDGFLYVSVRTEQAMGAF 113 (121)
T ss_pred CccCCccchHHHHHHHhcCCCCeEEEEEccccccccc
Confidence 9999999999999999999999999999999999963
No 4
>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....
Probab=100.00 E-value=1.1e-48 Score=276.22 Aligned_cols=104 Identities=64% Similarity=1.141 Sum_probs=95.1
Q ss_pred HHHHHHHHHHhhCCCcccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHH
Q 033114 19 KRRAEAARIREKYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMS 98 (127)
Q Consensus 19 ~R~~e~~~ir~kyP~~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~ 98 (127)
+|++|+++||+|||++||||||+++++++|.||++|||||.++||+||+.+||+||++++++||||||||.+|+++++||
T Consensus 1 ~R~~e~~~ir~kyP~~IPVIvEr~~~s~lp~ldk~KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~ 80 (104)
T PF02991_consen 1 ERKEESERIREKYPDKIPVIVERYPKSKLPDLDKKKFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMG 80 (104)
T ss_dssp HHHHHHHHHHHHSTTEEEEEEEE-TTSSS---SSSEEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHH
T ss_pred CcHHHHHHHHHHCCCccEEEEEEccCCChhhcCccEEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhcCCCCeEEEEecCCcccC
Q 033114 99 AIYEEKKDEDGFLYVTYSGENTFG 122 (127)
Q Consensus 99 ~lY~~~kd~DGfLYi~Ys~~~~fG 122 (127)
+||++|||+||||||+||+++|||
T Consensus 81 elY~~~kdeDGFLY~~Ys~e~tFG 104 (104)
T PF02991_consen 81 ELYEKYKDEDGFLYMTYSSEETFG 104 (104)
T ss_dssp HHHHHHB-TTSSEEEEEESSSSBC
T ss_pred HHHHHhCCCCCeEEEEeccccccC
Confidence 999999999999999999999999
No 5
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=100.00 E-value=3e-33 Score=191.88 Aligned_cols=85 Identities=24% Similarity=0.460 Sum_probs=79.8
Q ss_pred EEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCC-CCCccchHHHHHhhhcCCCCeEEEEe
Q 033114 37 VIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-LPPTGAIMSAIYEEKKDEDGFLYVTY 115 (127)
Q Consensus 37 VIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~-lp~~~~~m~~lY~~~kd~DGfLYi~Y 115 (127)
|.|.-.+.+++|.|+++||+||+++||++|+.+||+||++++++||||||||+ .|++|++||+||++| |+||||||+|
T Consensus 2 v~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~-~~dGfLyi~Y 80 (87)
T cd01612 2 VTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCF-GTNGELIVSY 80 (87)
T ss_pred eEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhc-CCCCEEEEEE
Confidence 44545566899999999999999999999999999999999999999999997 589999999999999 8999999999
Q ss_pred cCCcccC
Q 033114 116 SGENTFG 122 (127)
Q Consensus 116 s~~~~fG 122 (127)
|+++|||
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=99.91 E-value=4.4e-25 Score=151.47 Aligned_cols=84 Identities=24% Similarity=0.490 Sum_probs=61.2
Q ss_pred EEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCC-CCccchHHHHHhhhcCCCCeEEEEec
Q 033114 38 IVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL-PPTGAIMSAIYEEKKDEDGFLYVTYS 116 (127)
Q Consensus 38 IvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l-p~~~~~m~~lY~~~kd~DGfLYi~Ys 116 (127)
.|.-.+-+++|.|+++||.|.++.|++.++.+|||+|+++++++||+|||+++ |++|+++|+||+||+ .||.|.|+||
T Consensus 3 ~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~-~~~~Liv~Ys 81 (87)
T PF04110_consen 3 TVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFG-TNGELIVSYS 81 (87)
T ss_dssp EEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH--BTTBEEEEEE
T ss_pred EEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhC-CCCEEEEEEe
Confidence 33333447899999999999999999999999999999999999999999965 999999999999998 8999999999
Q ss_pred CCcccC
Q 033114 117 GENTFG 122 (127)
Q Consensus 117 ~~~~fG 122 (127)
.++|||
T Consensus 82 ~t~A~G 87 (87)
T PF04110_consen 82 KTPAWG 87 (87)
T ss_dssp SSS---
T ss_pred cccccC
Confidence 999999
No 7
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=99.90 E-value=1.5e-23 Score=148.82 Aligned_cols=85 Identities=26% Similarity=0.489 Sum_probs=78.6
Q ss_pred EEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCC-CCccchHHHHHhhhcCCCCeEEEEe
Q 033114 37 VIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL-PPTGAIMSAIYEEKKDEDGFLYVTY 115 (127)
Q Consensus 37 VIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l-p~~~~~m~~lY~~~kd~DGfLYi~Y 115 (127)
|.|.-.+-+++|.|+++||.|+.+.||+.++.+|||+|+|.+.++|||||||++ |++|+.+|+||+||+ .||.|.++|
T Consensus 31 V~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~cf~-~d~~Lvl~Y 109 (116)
T KOG3439|consen 31 VQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYECFG-TDGKLVLNY 109 (116)
T ss_pred EEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHhcC-CCCEEEEEE
Confidence 333334458999999999999999999999999999999999999999999977 999999999999996 899999999
Q ss_pred cCCcccC
Q 033114 116 SGENTFG 122 (127)
Q Consensus 116 s~~~~fG 122 (127)
|...|||
T Consensus 110 c~s~A~G 116 (116)
T KOG3439|consen 110 CISVAWG 116 (116)
T ss_pred eeecccC
Confidence 9999999
No 8
>PF04106 APG5: Autophagy protein Apg5 ; InterPro: IPR007239 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents autophagy protein 5 (Apg5).; GO: 0006914 autophagy, 0005737 cytoplasm; PDB: 2DYM_G 2DYO_A.
Probab=96.62 E-value=0.0043 Score=48.00 Aligned_cols=100 Identities=15% Similarity=0.234 Sum_probs=48.8
Q ss_pred CCHHHHHHHHHHHH---hhCCCcccEEEEccCCCCCCCCccceEEec---CCCchHHHHHHHHHhh--CCCCCceEEEEE
Q 033114 15 HDLEKRRAEAARIR---EKYPDRIPVIVEKAERSDIPNIDKKKYLVP---ADLTVGQFVYVIRKRI--KLSAEKAIFIFV 86 (127)
Q Consensus 15 ~s~e~R~~e~~~ir---~kyP~~ipVIvE~~~~~~~p~L~k~KflVp---~~~tv~~~~~~lRk~L--~l~~~~slFlyV 86 (127)
+.|++=..=..++. ..-..+|||.|-.... .|.+...--... ...|++++...+=--+ .-+......+++
T Consensus 88 ~~~~~f~~i~~kl~~~~~~~~r~IPiRiy~~~~--~~~iQ~~i~~~~~~g~~~TL~d~L~~~lp~~f~s~~~~~~~~~ii 165 (197)
T PF04106_consen 88 HDFDQFWSINSKLMPPDPSKFRHIPIRIYLPGS--VPVIQPPIPPIKEDGQPQTLGDALSELLPELFPSSDEPELARVII 165 (197)
T ss_dssp T-HHHHHHHHHHHS----SS-SB--EEEEE-SS----EE----B----TT---BTGGGHHHHHTTT--T------EEEEE
T ss_pred hCHHHHHHHHHHHHhhcCCCcceeEEEEEeCCC--cceEecccccccCCCCcCcHHHHHHHhChhhcccccCccccEEEE
Confidence 44444444455555 5667899999977533 233332221111 2346666554432221 112344567788
Q ss_pred cCCCCCccchHHHHHhhhcCCCCeEEEEec
Q 033114 87 DNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 116 (127)
Q Consensus 87 n~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys 116 (127)
++.-++.|+.|..||+.+.-.||||||.-.
T Consensus 166 hGI~ipldtpl~~l~~~l~~~D~FLhivv~ 195 (197)
T PF04106_consen 166 HGIEIPLDTPLQWLYENLSYPDGFLHIVVR 195 (197)
T ss_dssp TTEEE-TTSBHHHHHHHH--TTS-EEEEEE
T ss_pred eCeeCCCCCcHHHHHHHccCCCCeEEEEEE
Confidence 887788899999999999999999999753
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=95.48 E-value=0.13 Score=42.60 Aligned_cols=87 Identities=16% Similarity=0.286 Sum_probs=71.3
Q ss_pred CCCcccEEEEccCCCCCCCCccc-----------------eEEecCCCchHHHHHHHHHhh--------------CCCCC
Q 033114 31 YPDRIPVIVEKAERSDIPNIDKK-----------------KYLVPADLTVGQFVYVIRKRI--------------KLSAE 79 (127)
Q Consensus 31 yP~~ipVIvE~~~~~~~p~L~k~-----------------KflVp~~~tv~~~~~~lRk~L--------------~l~~~ 79 (127)
-+.||+-++.++..+..|.+... |.-.++-+.|..+..+|-.|+ .+.++
T Consensus 211 e~~Ki~F~L~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~ 290 (331)
T PF11816_consen 211 EPPKISFVLQPWDGSLPPNLKPDGKSQKKIKLPPLSEGNSRLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPE 290 (331)
T ss_pred CCCeeEEEEeecCCCCccccCCCccccccccccccccccceecccchhhhHHHHHHHHHHhccCccccCccccccCCCCC
Confidence 34677788888875555555555 888999999999999999999 45788
Q ss_pred ceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEecC
Q 033114 80 KAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSG 117 (127)
Q Consensus 80 ~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~ 117 (127)
+.|=|+||+.+.++++||+.|=..+=-..|-|.+.|..
T Consensus 291 e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 291 EWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred ceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEe
Confidence 99999999999888999999988854468899999964
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=91.17 E-value=0.53 Score=29.74 Aligned_cols=49 Identities=14% Similarity=0.176 Sum_probs=37.9
Q ss_pred cceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHH
Q 033114 52 KKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAI 100 (127)
Q Consensus 52 k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~l 100 (127)
...|.|..+.+++.++..++++.++++.+++-|+.++.-..++.|++++
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 5678999999999999999999999985667666776554555677664
No 11
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=90.45 E-value=2.2 Score=32.48 Aligned_cols=79 Identities=19% Similarity=0.397 Sum_probs=56.8
Q ss_pred ccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEc-C-CC-CCccchHHHHHhhhcCCCCeE
Q 033114 35 IPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD-N-VL-PPTGAIMSAIYEEKKDEDGFL 111 (127)
Q Consensus 35 ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn-~-~l-p~~~~~m~~lY~~~kd~DGfL 111 (127)
|-|+|...++-.+| ....+-+|.+.|++++...|..++.......++|+++ | .+ +..+..++.+...-.+. +|+
T Consensus 1 i~Vlvss~~g~~lp--~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~-~~~ 77 (162)
T PF13019_consen 1 INVLVSSFDGLTLP--PTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDS-DFI 77 (162)
T ss_pred CeEEEecCCCCCCC--CeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCC-Cce
Confidence 34677555432222 3445679999999999999999999988877888886 4 45 57777889888877543 676
Q ss_pred EEEec
Q 033114 112 YVTYS 116 (127)
Q Consensus 112 Yi~Ys 116 (127)
.+...
T Consensus 78 ~l~l~ 82 (162)
T PF13019_consen 78 TLRLS 82 (162)
T ss_pred EEEEE
Confidence 66543
No 12
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=89.54 E-value=2 Score=29.13 Aligned_cols=55 Identities=20% Similarity=0.312 Sum_probs=42.2
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCceEEEEEc----CC-CCCccchHHHHHhhhcCCCCeEEE
Q 033114 56 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD----NV-LPPTGAIMSAIYEEKKDEDGFLYV 113 (127)
Q Consensus 56 lVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn----~~-lp~~~~~m~~lY~~~kd~DGfLYi 113 (127)
-||.+++++++...|++||++.+ +.+.|.-- +. .|-.|+.|.+...+=+ ||-|-+
T Consensus 16 rvp~~~~y~~L~~ki~~kLkl~~-e~i~LsYkde~s~~~v~l~d~dle~aws~~~--~~~lTL 75 (80)
T cd06406 16 QVARGLSYATLLQKISSKLELPA-EHITLSYKSEASGEDVILSDTNMEDVWSQAK--DGCLTL 75 (80)
T ss_pred EcCCCCCHHHHHHHHHHHhCCCc-hhcEEEeccCCCCCccCcChHHHHHHHHhhc--CCeEEE
Confidence 48999999999999999999985 45666553 22 3567888999998876 666544
No 13
>KOG2976 consensus Protein involved in autophagy and nutrient starvation [Posttranslational modification, protein turnover, chaperones]
Probab=84.04 E-value=15 Score=30.16 Aligned_cols=92 Identities=14% Similarity=0.300 Sum_probs=55.7
Q ss_pred CHHHHHHHHHHHHhh----CCCcccEEEEcc--C-------CCCCCCCccceEEecCCCchHHHHHHHHHhhC--CC---
Q 033114 16 DLEKRRAEAARIREK----YPDRIPVIVEKA--E-------RSDIPNIDKKKYLVPADLTVGQFVYVIRKRIK--LS--- 77 (127)
Q Consensus 16 s~e~R~~e~~~ir~k----yP~~ipVIvE~~--~-------~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~--l~--- 77 (127)
.|.+=..-+.++..- .+-+||+.+.-. + +...|. .-.++-..+.+-.+|.+++. ++
T Consensus 161 ~fd~F~~Is~Kl~~s~e~n~~r~IPL~iy~sq~~t~r~f~~~~~~P~------~~~~d~~~stlge~l~d~~~~s~~s~d 234 (278)
T KOG2976|consen 161 NFDDFWEISNKLMESVEDNRSRHIPLRIYTSQVKTARDFRTSLTFPC------ISQPDGSLSTLGEFLKDRLPDSLDSKD 234 (278)
T ss_pred cHHHHHHHHHHHHhhccccccccceeEeeccccccccchhhccccce------eecCchhhhhhhHHHHhhcccccCccc
Confidence 344444445555544 889999999733 1 122331 11223344445556667764 12
Q ss_pred ---CCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEe
Q 033114 78 ---AEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 115 (127)
Q Consensus 78 ---~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Y 115 (127)
..+. +.+.+--++....+..||......||||||+.
T Consensus 235 ~~~~~~~--viihGIei~l~tpL~~l~~~L~ypD~FLHI~l 273 (278)
T KOG2976|consen 235 DINGNDP--VIIHGIEIPLHTPLYWLYSNLSYPDGFLHIVL 273 (278)
T ss_pred cccccCc--eEEecccccccchHHHHHhhccCCCcceEEEE
Confidence 1222 33444447888999999999999999999975
No 14
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=83.79 E-value=4 Score=24.38 Aligned_cols=46 Identities=11% Similarity=0.047 Sum_probs=34.3
Q ss_pred ceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 53 KKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 53 ~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
..+-|+.+.|++++...|.++.+++++. +=|+.++.....+.+|++
T Consensus 12 ~~~~v~~~~tv~~lk~~i~~~~~~~~~~-~~L~~~g~~L~d~~tL~~ 57 (64)
T smart00213 12 ITLEVKPSDTVSELKEKIAELTGIPVEQ-QRLIYKGKVLEDDRTLAD 57 (64)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHH-EEEEECCEECCCCCCHHH
Confidence 4567999999999999999999997764 444556655555666654
No 15
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=83.47 E-value=2.7 Score=35.40 Aligned_cols=73 Identities=21% Similarity=0.248 Sum_probs=59.4
Q ss_pred CCCCCccceEE-ecCCCchHHHHHHHHHhhC-CCCCceEEEEEcCCCCCccchHHHHHhhhcC--CCCeEEEEecCCc
Q 033114 46 DIPNIDKKKYL-VPADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLPPTGAIMSAIYEEKKD--EDGFLYVTYSGEN 119 (127)
Q Consensus 46 ~~p~L~k~Kfl-Vp~~~tv~~~~~~lRk~L~-l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd--~DGfLYi~Ys~~~ 119 (127)
.++.|. ++|+ ++...|+.++..++++++. ++..-.+=+++|+-+..-+.||.++.-.+.. .||-|-+.|.-.+
T Consensus 159 ~~k~l~-~~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~l~~~~TLk~i~~~~~~~~r~~pL~l~y~v~p 235 (331)
T KOG2660|consen 159 TLKDLV-RRFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEELLGDYYTLKDIAYAYRWRSRDPPLPLRYRVKP 235 (331)
T ss_pred cccccc-cceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCccccchhhhhhhhhhhcccccCCcceeEecccc
Confidence 455555 5665 8999999999999999998 7766667788888888999999988877766 4999999998443
No 16
>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=83.40 E-value=5.7 Score=21.88 Aligned_cols=40 Identities=20% Similarity=0.295 Sum_probs=30.8
Q ss_pred CccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCC
Q 033114 50 IDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL 90 (127)
Q Consensus 50 L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l 90 (127)
.....+.++.+.|++++...|..+.+.. .+...|++|...
T Consensus 7 ~~~~~~~~~~~~tv~~l~~~i~~~~~~~-~~~~~l~~~~~~ 46 (69)
T cd00196 7 GKTVELLVPSGTTVADLKEKLAKKLGLP-PEQQRLLVNGKI 46 (69)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHHCcC-hHHeEEEECCeE
Confidence 3456778889999999999999998854 445677777644
No 17
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=81.60 E-value=2.1 Score=26.60 Aligned_cols=46 Identities=15% Similarity=0.096 Sum_probs=37.0
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHH
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAI 100 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~l 100 (127)
.+-|+.+.||+++...|-.+.++++++ +-|+.++.....+.+|+++
T Consensus 9 ~~~v~~~~tV~~lK~~i~~~~~~~~~~-~~L~~~G~~L~d~~tL~~~ 54 (69)
T PF00240_consen 9 TLEVDPDDTVADLKQKIAEETGIPPEQ-QRLIYNGKELDDDKTLSDY 54 (69)
T ss_dssp EEEEETTSBHHHHHHHHHHHHTSTGGG-EEEEETTEEESTTSBTGGG
T ss_pred EEEECCCCCHHHhhhhccccccccccc-ceeeeeeecccCcCcHHHc
Confidence 456999999999999999999988775 4555577655788888765
No 18
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=77.91 E-value=6.5 Score=26.90 Aligned_cols=52 Identities=12% Similarity=0.247 Sum_probs=35.7
Q ss_pred cceEEecC-----CCchHHHHHHHHHhhCCCCCceEEE-EEcC--C-C-CCccchHHHHHhh
Q 033114 52 KKKYLVPA-----DLTVGQFVYVIRKRIKLSAEKAIFI-FVDN--V-L-PPTGAIMSAIYEE 103 (127)
Q Consensus 52 k~KflVp~-----~~tv~~~~~~lRk~L~l~~~~slFl-yVn~--~-l-p~~~~~m~~lY~~ 103 (127)
...|.+|. +.++.++..-|++++++.+...+-| |-.. . + ...|..+.+.-+.
T Consensus 11 ~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V~l~~D~DL~~a~~~ 72 (91)
T cd06398 11 LRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVVTLVDDNDLTDAIQY 72 (91)
T ss_pred EEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEEEEccHHHHHHHHHH
Confidence 45677885 7999999999999999987544444 4442 2 2 3555556555555
No 19
>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=76.39 E-value=15 Score=25.36 Aligned_cols=71 Identities=18% Similarity=0.228 Sum_probs=45.1
Q ss_pred CCCCCccceEEecCCCchHHHHHHHHHhh-CCCCCceEEEEEcCCCCCccchHHHHHhhh---------cCCCC----eE
Q 033114 46 DIPNIDKKKYLVPADLTVGQFVYVIRKRI-KLSAEKAIFIFVDNVLPPTGAIMSAIYEEK---------KDEDG----FL 111 (127)
Q Consensus 46 ~~p~L~k~KflVp~~~tv~~~~~~lRk~L-~l~~~~slFlyVn~~lp~~~~~m~~lY~~~---------kd~DG----fL 111 (127)
.+|+|.=. +--|.+.|+.++...||.++ .-..+..|=|.-++.+.+.++.++..-... |..++ -.
T Consensus 10 sipDl~L~-I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l~~~~~~~~~~~gk~~~~~~~~~~ 88 (97)
T PF10302_consen 10 SIPDLPLD-IPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSELKLPTARSSKGKGKAPERQEAPRI 88 (97)
T ss_pred CCCCceee-cCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhhccccccCccccCcCccCCCCCeE
Confidence 67774311 01448899999999999999 445566775555666655555555544444 22333 78
Q ss_pred EEEecC
Q 033114 112 YVTYSG 117 (127)
Q Consensus 112 Yi~Ys~ 117 (127)
||+.+.
T Consensus 89 yIhCsI 94 (97)
T PF10302_consen 89 YIHCSI 94 (97)
T ss_pred EEEEec
Confidence 888764
No 20
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=74.89 E-value=6.2 Score=25.58 Aligned_cols=45 Identities=16% Similarity=0.090 Sum_probs=37.1
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCceEEEE--EcCCCCCccchHHHH
Q 033114 56 LVPADLTVGQFVYVIRKRIKLSAEKAIFIF--VDNVLPPTGAIMSAI 100 (127)
Q Consensus 56 lVp~~~tv~~~~~~lRk~L~l~~~~slFly--Vn~~lp~~~~~m~~l 100 (127)
=|+.+.|+++|...|-.+.+++++.-=.+| +.+..+..+.+++++
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 488999999999999999999988666666 456677778888876
No 21
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=71.92 E-value=13 Score=24.60 Aligned_cols=62 Identities=11% Similarity=0.177 Sum_probs=43.9
Q ss_pred CCcccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHH
Q 033114 32 PDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAI 100 (127)
Q Consensus 32 P~~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~l 100 (127)
+.+|.|-|.-. .-+...|.|..+.+++.++..+..+.++++++--|+|-+..+ ..+.|+.++
T Consensus 9 ~~~i~I~v~~~------~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L-~~~~T~~~l 70 (87)
T cd01763 9 SEHINLKVKGQ------DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRI-RDNQTPDDL 70 (87)
T ss_pred CCeEEEEEECC------CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeEC-CCCCCHHHc
Confidence 35566666222 123456899999999999999999999998876676654444 445677765
No 22
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=70.55 E-value=18 Score=21.62 Aligned_cols=57 Identities=14% Similarity=0.097 Sum_probs=39.0
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcC-CCCeEEEEe
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKD-EDGFLYVTY 115 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd-~DGfLYi~Y 115 (127)
.+-++.+.|++++...|.++.+++++.--+ ..++.....+.++++ +.- .+..+|+..
T Consensus 11 ~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l-~~~g~~l~d~~~l~~----~~v~~~~~i~v~~ 68 (69)
T cd01769 11 ELEVSPDDTVAELKAKIAAKEGVPPEQQRL-IYAGKILKDDKTLSD----YGIQDGSTLHLVL 68 (69)
T ss_pred EEEECCCChHHHHHHHHHHHHCcChHHEEE-EECCcCCCCcCCHHH----CCCCCCCEEEEEE
Confidence 467888999999999999999987765333 456655556667755 222 234566643
No 23
>PF12752 SUZ: SUZ domain; InterPro: IPR024771 The SUZ domain is a conserved RNA-binding domain found in eukaryotes and enriched in positively charged amino acids. It was first characterised in the Caenorhabditis elegans protein SZY-20 where it has been shown to bind RNA and allow their localization to the centrosome [].
Probab=70.20 E-value=7.5 Score=24.35 Aligned_cols=22 Identities=32% Similarity=0.385 Sum_probs=18.7
Q ss_pred ccccccCCHHHHHHHHHHHHhh
Q 033114 9 SYFKQEHDLEKRRAEAARIREK 30 (127)
Q Consensus 9 ~~fK~~~s~e~R~~e~~~ir~k 30 (127)
..=+...|||+|.++++..|++
T Consensus 32 ~~~~~~kSlEERE~eY~~AR~R 53 (59)
T PF12752_consen 32 RKKRPSKSLEEREAEYAEARAR 53 (59)
T ss_pred ccccccCCHHHHHHHHHHHHHH
Confidence 4556788999999999999975
No 24
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=69.99 E-value=16 Score=22.72 Aligned_cols=58 Identities=10% Similarity=0.082 Sum_probs=41.0
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCC-eEEEEec
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDG-FLYVTYS 116 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DG-fLYi~Ys 116 (127)
.+-|+.+.|++++...|..+.+++++.--++ .++.....+.++++. .-.|| .|++...
T Consensus 14 ~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~-~~g~~L~d~~tl~~~----~i~~g~~i~l~~~ 72 (76)
T cd01806 14 EIDIEPTDKVERIKERVEEKEGIPPQQQRLI-YSGKQMNDDKTAADY----KLEGGSVLHLVLA 72 (76)
T ss_pred EEEECCCCCHHHHHHHHhHhhCCChhhEEEE-ECCeEccCCCCHHHc----CCCCCCEEEEEEE
Confidence 3568999999999999999999988764444 555555566777663 33344 6776654
No 25
>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=68.59 E-value=22 Score=23.87 Aligned_cols=58 Identities=9% Similarity=0.182 Sum_probs=43.2
Q ss_pred CCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCC-CCccchHHHHHhhhcC
Q 033114 48 PNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL-PPTGAIMSAIYEEKKD 106 (127)
Q Consensus 48 p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l-p~~~~~m~~lY~~~kd 106 (127)
|.+.-+.+-||++..+.-++.+--...++++..+.- .-|+-. -.+.++.|+++-+|+.
T Consensus 13 p~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsai-ItndG~GInP~QTag~vflKhGs 71 (76)
T PF03671_consen 13 PKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAI-ITNDGVGINPQQTAGNVFLKHGS 71 (76)
T ss_dssp STS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEE-EESSS-EE-TTSBHHHHHHHT-S
T ss_pred CCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEE-EecCCcccccchhhhhhHhhcCc
Confidence 556677889999999999999999999999988833 334333 6778899999999964
No 26
>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=65.98 E-value=37 Score=22.66 Aligned_cols=62 Identities=13% Similarity=0.138 Sum_probs=41.4
Q ss_pred eEEe--cCCCchHHHHHHHHHhhC-CCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEec
Q 033114 54 KYLV--PADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 116 (127)
Q Consensus 54 KflV--p~~~tv~~~~~~lRk~L~-l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys 116 (127)
-|-| +.+.||+++...|..... ..+.+..=|.-.+.+...+.+|+++.+.-+ ..--+++.|+
T Consensus 15 ~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~-~~~tiHLV~~ 79 (79)
T cd01790 15 DQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQD-EYHMVHLVCA 79 (79)
T ss_pred EEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhccc-CCceEEEEeC
Confidence 3666 789999999999998774 232233333344556688899999987753 3335666553
No 27
>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=65.59 E-value=13 Score=23.61 Aligned_cols=44 Identities=9% Similarity=0.143 Sum_probs=33.7
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 55 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 55 flVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
+=|+.+.||+++...|..+-++++++ .-|+.++.....+.++++
T Consensus 15 l~v~~~~tV~~lK~~i~~~~gi~~~~-q~L~~~G~~L~d~~~L~~ 58 (74)
T cd01807 15 LQVSEKESVSTLKKLVSEHLNVPEEQ-QRLLFKGKALADDKRLSD 58 (74)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHH-eEEEECCEECCCCCCHHH
Confidence 45889999999999999999998764 455566665556677754
No 28
>PF00837 T4_deiodinase: Iodothyronine deiodinase; InterPro: IPR000643 Iodothyronine deiodinase (1.97.1.10 from EC) (DI) [] is the vertebrate enzyme responsible for the deiodination of the prohormone thyroxine (T4 or 3,5,3',5'-tetraiodothyronine) into the biologically active hormone T3 (3,5,3'-triiodothyronine) and of T3 into the inactive metabolite T2 (3,3'-diiodothyronine). All known DI are proteins of about 250 residues that contain a selenocysteine at their active site. Three types of DI are known, type II is essential for providing the brain with the appropriate levels of T3 during the critical period of development, and type III is essential for the regulation of thyroid hormone inactivation during embryological development.; GO: 0004800 thyroxine 5'-deiodinase activity, 0055114 oxidation-reduction process
Probab=65.05 E-value=11 Score=30.43 Aligned_cols=34 Identities=26% Similarity=0.542 Sum_probs=30.2
Q ss_pred ccccccCCHHHHHHHHHHHHhhCCCcccEEEEccC
Q 033114 9 SYFKQEHDLEKRRAEAARIREKYPDRIPVIVEKAE 43 (127)
Q Consensus 9 ~~fK~~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~ 43 (127)
..+++..|+|+|..-++.+++++| .+||+|..-.
T Consensus 158 ~~i~qh~sledR~~aA~~l~~~~~-~~pi~vD~md 191 (237)
T PF00837_consen 158 YEIPQHRSLEDRLRAAKLLKEEFP-QCPIVVDTMD 191 (237)
T ss_pred eeecCCCCHHHHHHHHHHHHhhCC-CCCEEEEccC
Confidence 678999999999999999999997 6899997754
No 29
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=64.72 E-value=15 Score=23.00 Aligned_cols=44 Identities=14% Similarity=0.158 Sum_probs=34.9
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 55 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 55 flVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
+-|.++.|++++...|-.+.++++++ .-|+.++.....+.++++
T Consensus 13 ~~v~~~~tV~~lK~~i~~~~gi~~~~-q~Li~~G~~L~d~~~l~~ 56 (70)
T cd01798 13 VEVDPDTDIKQLKEVVAKRQGVPPDQ-LRVIFAGKELRNTTTIQE 56 (70)
T ss_pred EEECCCChHHHHHHHHHHHHCCCHHH-eEEEECCeECCCCCcHHH
Confidence 45789999999999999999997764 555666665567788887
No 30
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=63.68 E-value=10 Score=29.23 Aligned_cols=47 Identities=23% Similarity=0.523 Sum_probs=37.6
Q ss_pred CCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCC-eEEEEecCCcccC
Q 033114 60 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDG-FLYVTYSGENTFG 122 (127)
Q Consensus 60 ~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DG-fLYi~Ys~~~~fG 122 (127)
.++++.++.-|++.++++..+ .-..++.+|... ..|| |+++ +.+.||
T Consensus 30 ~~~F~dii~EI~~~~~~s~~e------------i~~~i~~FYTdl-n~DgrFi~L---Gdn~Wg 77 (175)
T COG3343 30 PFNFSDIINEIQKLLGVSKEE------------IRSRIGQFYTDL-NIDGRFISL---GDNKWG 77 (175)
T ss_pred CccHHHHHHHHHHHhCcCHHH------------HHHHHHHHHHHh-ccCCceeec---cccccc
Confidence 688999999999999887554 235799999999 5777 6665 688888
No 31
>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=63.38 E-value=35 Score=21.54 Aligned_cols=42 Identities=7% Similarity=0.154 Sum_probs=34.5
Q ss_pred CCccceEEecCCCchHHHHHHHHHhh-CCCCCceEEEEEcCCC
Q 033114 49 NIDKKKYLVPADLTVGQFVYVIRKRI-KLSAEKAIFIFVDNVL 90 (127)
Q Consensus 49 ~L~k~KflVp~~~tv~~~~~~lRk~L-~l~~~~slFlyVn~~l 90 (127)
.+...-+.||.+.|..++...+.+-| ........=++||+..
T Consensus 14 ~~~~~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~~ 56 (65)
T PF08154_consen 14 EVPGTPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGEE 56 (65)
T ss_pred cCCCCCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCEE
Confidence 55668899999999999999999999 6666666767888753
No 32
>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=62.18 E-value=37 Score=21.38 Aligned_cols=63 Identities=13% Similarity=0.169 Sum_probs=46.8
Q ss_pred cceEEec-CCCchHHHHHHHHHhhCCCCCceEEEEEcC--C-C-CCccchHHHHHhhhcC-CCCeEEEE
Q 033114 52 KKKYLVP-ADLTVGQFVYVIRKRIKLSAEKAIFIFVDN--V-L-PPTGAIMSAIYEEKKD-EDGFLYVT 114 (127)
Q Consensus 52 k~KflVp-~~~tv~~~~~~lRk~L~l~~~~slFlyVn~--~-l-p~~~~~m~~lY~~~kd-~DGfLYi~ 114 (127)
...|.++ .+.++.+|...|++++++....-.+=|.++ - + .+.++.+.+.++.++. .++.|.|.
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 4567788 999999999999999998764444556653 2 2 4777889988888864 46666554
No 33
>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=60.99 E-value=20 Score=22.57 Aligned_cols=56 Identities=18% Similarity=0.195 Sum_probs=38.2
Q ss_pred eEEecCCCchHHHHHHHHHhhCC--CCCceEEEEEcCCCCCccchHHHHHhhhcCCCC-eEEEE
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKL--SAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDG-FLYVT 114 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l--~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DG-fLYi~ 114 (127)
.+=|+.+.||++|...|..+.++ ++++ .-|..++.....+.++++ | +-.|| .|++.
T Consensus 14 ~l~v~~~~TV~~lK~~i~~~~~i~~~~~~-q~L~~~G~~L~d~~~L~~-~---~i~~~~~i~~~ 72 (77)
T cd01805 14 PIEVDPDDTVAELKEKIEEEKGCDYPPEQ-QKLIYSGKILKDDTTLEE-Y---KIDEKDFVVVM 72 (77)
T ss_pred EEEECCCCcHHHHHHHHHHhhCCCCChhH-eEEEECCEEccCCCCHHH-c---CCCCCCEEEEE
Confidence 35588999999999999999888 6554 444456655556677766 3 33333 56654
No 34
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=58.76 E-value=27 Score=21.64 Aligned_cols=58 Identities=12% Similarity=0.136 Sum_probs=39.7
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCC-CCeEEEEec
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDE-DGFLYVTYS 116 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~-DGfLYi~Ys 116 (127)
.+-|+.+.||+++...|.++.++++++ .=|+.++.....+.++++ | +-. +.-+++...
T Consensus 14 ~~~v~~~~tV~~lK~~i~~~~g~~~~~-q~L~~~g~~L~d~~~L~~-~---~i~~~~~i~l~~~ 72 (76)
T cd01803 14 TLEVEPSDTIENVKAKIQDKEGIPPDQ-QRLIFAGKQLEDGRTLSD-Y---NIQKESTLHLVLR 72 (76)
T ss_pred EEEECCcCcHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCcHHH-c---CCCCCCEEEEEEE
Confidence 467899999999999999999987654 333456655556667766 3 333 335666543
No 35
>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=58.01 E-value=24 Score=24.24 Aligned_cols=37 Identities=24% Similarity=0.468 Sum_probs=31.3
Q ss_pred ceEEecCCCchHHHHHHHHHhhCCC--CCceEEEEEcCC
Q 033114 53 KKYLVPADLTVGQFVYVIRKRIKLS--AEKAIFIFVDNV 89 (127)
Q Consensus 53 ~KflVp~~~tv~~~~~~lRk~L~l~--~~~slFlyVn~~ 89 (127)
+...|+.+.|..++....-.+..+. .+-+||+||++.
T Consensus 16 KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~ 54 (87)
T cd01776 16 KTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEET 54 (87)
T ss_pred eeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCc
Confidence 4467999999999999999999875 456899999974
No 36
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=57.09 E-value=20 Score=22.77 Aligned_cols=55 Identities=13% Similarity=0.200 Sum_probs=34.7
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCcc-chHHHHHhhhcCCCCeEEE
Q 033114 55 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTG-AIMSAIYEEKKDEDGFLYV 113 (127)
Q Consensus 55 flVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~-~~m~~lY~~~kd~DGfLYi 113 (127)
.-|+++.||+++...|..+-++++++- -|+.++.....+ .++.+ |. -+ ++.+|++
T Consensus 14 l~v~~~~TV~~lK~~I~~~~gip~~~q-~Li~~Gk~L~D~~~~L~~-~g-i~-~~~~l~l 69 (71)
T cd01796 14 LDVDPDLELENFKALCEAESGIPASQQ-QLIYNGRELVDNKRLLAL-YG-VK-DGDLVVL 69 (71)
T ss_pred EEECCcCCHHHHHHHHHHHhCCCHHHe-EEEECCeEccCCcccHHH-cC-CC-CCCEEEE
Confidence 568899999999999999999987653 344444433333 33433 32 22 3446665
No 37
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=57.09 E-value=34 Score=20.94 Aligned_cols=45 Identities=13% Similarity=0.206 Sum_probs=33.4
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
.+-|+.+.|++++...|.++.+++++.- =|+.++.....+.++++
T Consensus 14 ~~~v~~~~tv~~lK~~i~~~~gi~~~~q-~L~~~g~~L~d~~~L~~ 58 (72)
T cd01809 14 TFTVEEEITVLDLKEKIAEEVGIPVEQQ-RLIYSGRVLKDDETLSE 58 (72)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHHe-EEEECCEECCCcCcHHH
Confidence 4678899999999999999999876643 33346665556667765
No 38
>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=56.98 E-value=56 Score=22.05 Aligned_cols=62 Identities=16% Similarity=0.252 Sum_probs=46.5
Q ss_pred ccceEEecC--CCchHHHHHHHHHhhCCCCCceEEE-EEcC----CCCCccchHHHHHhhhcCCCCeEEEEe
Q 033114 51 DKKKYLVPA--DLTVGQFVYVIRKRIKLSAEKAIFI-FVDN----VLPPTGAIMSAIYEEKKDEDGFLYVTY 115 (127)
Q Consensus 51 ~k~KflVp~--~~tv~~~~~~lRk~L~l~~~~slFl-yVn~----~lp~~~~~m~~lY~~~kd~DGfLYi~Y 115 (127)
+...|.++. +.++.++..-|+++.+++ ++=| |+++ .+.+.++.+.+.++.+......|-|+-
T Consensus 10 d~~rf~~~~~~~~~~~~L~~ev~~rf~l~---~f~lKYlDde~e~v~lssd~eLeE~~rl~~~~~~~l~~~v 78 (81)
T cd06396 10 ESQSFLVSDSENTTWASVEAMVKVSFGLN---DIQIKYVDEENEEVSVNSQGEYEEALKSAVRQGNLLQMNV 78 (81)
T ss_pred eEEEEEecCCCCCCHHHHHHHHHHHhCCC---cceeEEEcCCCCEEEEEchhhHHHHHHHHHhCCCEEEEEE
Confidence 356789988 779999999999999999 4433 6653 246778888888888865566666653
No 39
>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=56.51 E-value=48 Score=20.90 Aligned_cols=57 Identities=14% Similarity=0.223 Sum_probs=41.0
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEe
Q 033114 55 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 115 (127)
Q Consensus 55 flVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Y 115 (127)
+-|..+.||+++...|..+-++++++ .-|+.++.....+.++++ |.-. + +-.|++.-
T Consensus 13 l~v~~~~tV~~lK~~I~~~~gi~~~~-q~L~~~G~~L~D~~tL~~-~~i~-~-~~tl~l~~ 69 (74)
T cd01810 13 YEVQLTQTVATLKQQVSQRERVQADQ-FWLSFEGRPMEDEHPLGE-YGLK-P-GCTVFMNL 69 (74)
T ss_pred EEECCcChHHHHHHHHHHHhCCCHHH-eEEEECCEECCCCCCHHH-cCCC-C-CCEEEEEE
Confidence 56889999999999999998887654 445566666667788887 4332 2 44777764
No 40
>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=55.71 E-value=15 Score=29.14 Aligned_cols=59 Identities=19% Similarity=0.401 Sum_probs=36.5
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEc---CCC--CCccchHHHHHhhhcCCCC-eEEEEec
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD---NVL--PPTGAIMSAIYEEKKDEDG-FLYVTYS 116 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn---~~l--p~~~~~m~~lY~~~kd~DG-fLYi~Ys 116 (127)
.+.|+.+.+++++...|+++++++++..|-||-. +.+ ..++.++.+ .+- .|| .|+.+-.
T Consensus 88 h~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~--~el--~~GdIi~fQ~~ 152 (249)
T PF12436_consen 88 HVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEK--AEL--QDGDIICFQRA 152 (249)
T ss_dssp EEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHH--TT----TTEEEEEEE-
T ss_pred EEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhh--ccc--CCCCEEEEEec
Confidence 5689999999999999999999999999988875 222 256666666 222 344 5555543
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=55.54 E-value=27 Score=23.29 Aligned_cols=54 Identities=20% Similarity=0.289 Sum_probs=38.6
Q ss_pred ccceEEecCCCchHHHHHHHHHhhCCCCCceEEE-EEcC--C--CCCccchHHHHHhhh
Q 033114 51 DKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFI-FVDN--V--LPPTGAIMSAIYEEK 104 (127)
Q Consensus 51 ~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFl-yVn~--~--lp~~~~~m~~lY~~~ 104 (127)
+.-.|-+|.+.++.++...|++++++.....+-| |..+ - ..+.|+-|.+..+-+
T Consensus 10 d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~eai~i~ 68 (82)
T cd06407 10 EKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEECIDVY 68 (82)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHHHHHHH
Confidence 3456889999999999999999999976445555 6653 2 346676676644433
No 42
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=55.52 E-value=14 Score=25.31 Aligned_cols=44 Identities=16% Similarity=0.142 Sum_probs=30.5
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCceEEEEEc-CC---CCCccchHHH
Q 033114 56 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD-NV---LPPTGAIMSA 99 (127)
Q Consensus 56 lVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn-~~---lp~~~~~m~~ 99 (127)
..++..||+.+...+|+.+.++.+-.|+-+-+ +. |..++.|+.+
T Consensus 19 ~FSk~DTI~~v~~~~rklf~i~~E~RLW~~~~~~~~e~L~~~~~Tv~d 66 (88)
T PF14836_consen 19 QFSKTDTIGFVEKEMRKLFNIQEETRLWNKYSENSYELLNNPEITVED 66 (88)
T ss_dssp EE-TTSBHHHHHHHHHHHCT-TS-EEEEEECTTTCEEEE--TTSBTTT
T ss_pred hccccChHHHHHHHHHHHhCCCccceehhccCCcchhhhCCCCccHHH
Confidence 57889999999999999999977778887665 33 3456666654
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=54.31 E-value=54 Score=20.76 Aligned_cols=63 Identities=16% Similarity=0.259 Sum_probs=46.1
Q ss_pred ccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcC---CC-CCccchHHHHHhhhcCC-CCeEEE
Q 033114 51 DKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN---VL-PPTGAIMSAIYEEKKDE-DGFLYV 113 (127)
Q Consensus 51 ~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~---~l-p~~~~~m~~lY~~~kd~-DGfLYi 113 (127)
+...|.+|.+.|+.+|...|.+++++..+.-..-|.++ .+ .+.++.|....+.++.. .+.|-|
T Consensus 11 ~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~~~~~~l~l 78 (81)
T smart00666 11 ETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDSLGSKKLRL 78 (81)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHHHHHHHHHHcCCceEEE
Confidence 34567899999999999999999998765555567763 23 57788888888888643 334433
No 44
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=54.31 E-value=30 Score=21.26 Aligned_cols=45 Identities=4% Similarity=0.074 Sum_probs=31.3
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
.+-|+.+.|++++...|...-+++++. .=|+.++.....+.++++
T Consensus 13 ~i~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~~g~~l~d~~~L~~ 57 (71)
T cd01812 13 DLSISSQATFGDLKKMLAPVTGVEPRD-QKLIFKGKERDDAETLDM 57 (71)
T ss_pred EEEECCCCcHHHHHHHHHHhhCCChHH-eEEeeCCcccCccCcHHH
Confidence 345889999999999999998988764 333445543344555544
No 45
>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=51.53 E-value=38 Score=21.83 Aligned_cols=43 Identities=14% Similarity=0.093 Sum_probs=32.2
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 56 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 56 lVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
-|+++.||+++...|-.+-+++++.-=.+|. +.....+.+|++
T Consensus 17 ~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~-Gk~L~D~~tL~~ 59 (73)
T cd01791 17 KCNPDDTIGDLKKLIAAQTGTRPEKIVLKKW-YTIFKDHISLGD 59 (73)
T ss_pred EeCCCCcHHHHHHHHHHHhCCChHHEEEEeC-CcCCCCCCCHHH
Confidence 4889999999999998888888776555554 444455667776
No 46
>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=50.19 E-value=37 Score=24.20 Aligned_cols=44 Identities=16% Similarity=0.176 Sum_probs=29.3
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHH
Q 033114 55 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMS 98 (127)
Q Consensus 55 flVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~ 98 (127)
-.|+.+.||+++...|..++++.|.+.=-++.+..+--.+.+|+
T Consensus 19 L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLs 62 (107)
T cd01795 19 LLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLG 62 (107)
T ss_pred EEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHH
Confidence 45899999999999999999988764322333443333334444
No 47
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=48.69 E-value=55 Score=20.60 Aligned_cols=59 Identities=15% Similarity=0.071 Sum_probs=41.1
Q ss_pred cceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEE
Q 033114 52 KKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVT 114 (127)
Q Consensus 52 k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~ 114 (127)
...+-|..+.||+++...|..+-++++++ .-|+.++.....+.++++ |.-- ++--|++.
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 44567889999999999999998887765 445556666667788877 4432 23345544
No 48
>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=48.38 E-value=51 Score=20.95 Aligned_cols=45 Identities=18% Similarity=0.149 Sum_probs=34.1
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
.+-|+.+.||+++...|..+-++++++--. +.++.....+.++++
T Consensus 12 ~l~v~~~~TV~~lK~~I~~~~gi~~~~q~L-i~~G~~L~D~~~l~~ 56 (70)
T cd01794 12 KLSVSSKDTVGQLKKQLQAAEGVDPCCQRW-FFSGKLLTDKTRLQE 56 (70)
T ss_pred EEEECCcChHHHHHHHHHHHhCCCHHHeEE-EECCeECCCCCCHHH
Confidence 456889999999999999998888765333 345556667788877
No 49
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=46.55 E-value=75 Score=20.20 Aligned_cols=64 Identities=8% Similarity=0.047 Sum_probs=43.5
Q ss_pred ccceEEecCCCchHHHHHHHHHhhCCCCC-ceEEEE--EcC----CCCCccchHHHHHhhhcCC--CCeEEEE
Q 033114 51 DKKKYLVPADLTVGQFVYVIRKRIKLSAE-KAIFIF--VDN----VLPPTGAIMSAIYEEKKDE--DGFLYVT 114 (127)
Q Consensus 51 ~k~KflVp~~~tv~~~~~~lRk~L~l~~~-~slFly--Vn~----~lp~~~~~m~~lY~~~kd~--DGfLYi~ 114 (127)
.-+.+.|+.+.|+.+++..+-+++++..+ +...|+ ... .....++..-.+....... ++.+++.
T Consensus 17 ~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~~~~~~~~~f~lr 89 (93)
T PF00788_consen 17 TYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQWPKDSQNSRFVLR 89 (93)
T ss_dssp SEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTTSSGTTTEEEEEE
T ss_pred cEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhCccccCceEEEEE
Confidence 46778999999999999999999999333 334442 322 1245666666666666543 6666664
No 50
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=46.55 E-value=45 Score=20.83 Aligned_cols=58 Identities=12% Similarity=0.185 Sum_probs=38.5
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEe
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 115 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Y 115 (127)
.+-|..+.||+++...|..+.++++. .+-|.-++.....+.++++. . -+ ++..|+|.-
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~~-~~~Li~~Gk~L~d~~tL~~~-~-i~-~~stl~l~~ 70 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQE-QLVLIFAGKILKDTDTLTQH-N-IK-DGLTVHLVI 70 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHH-HEEEEECCeEcCCCCcHHHc-C-CC-CCCEEEEEE
Confidence 46688999999999999988887654 44444455554556677553 1 21 355777753
No 51
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=44.58 E-value=18 Score=27.97 Aligned_cols=50 Identities=20% Similarity=0.363 Sum_probs=29.0
Q ss_pred ccceEEecCCCchHHHHHHHHHhhCCCCC--ceEEEE-E-cCC---CCCccchHHHH
Q 033114 51 DKKKYLVPADLTVGQFVYVIRKRIKLSAE--KAIFIF-V-DNV---LPPTGAIMSAI 100 (127)
Q Consensus 51 ~k~KflVp~~~tv~~~~~~lRk~L~l~~~--~slFly-V-n~~---lp~~~~~m~~l 100 (127)
+.-.++||++-||+++...++++++++.+ ..|-++ | |+. ..+.+..+++|
T Consensus 34 ~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 34 QEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp -EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred eEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 45678999999999999999999998654 334332 3 333 35688888877
No 52
>PTZ00044 ubiquitin; Provisional
Probab=42.33 E-value=60 Score=20.25 Aligned_cols=45 Identities=13% Similarity=0.189 Sum_probs=32.7
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
.+-|+.+.|++++...|..+.++++++--.+| ++.....+.++++
T Consensus 14 ~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~-~g~~L~d~~~l~~ 58 (76)
T PTZ00044 14 SFNFEPDNTVQQVKMALQEKEGIDVKQIRLIY-SGKQMSDDLKLSD 58 (76)
T ss_pred EEEECCCCcHHHHHHHHHHHHCCCHHHeEEEE-CCEEccCCCcHHH
Confidence 46788999999999999999999876533334 5544455666643
No 53
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=41.68 E-value=47 Score=21.39 Aligned_cols=58 Identities=10% Similarity=0.096 Sum_probs=37.3
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCc-eEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEec
Q 033114 56 LVPADLTVGQFVYVIRKRIKLSAEK-AIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 116 (127)
Q Consensus 56 lVp~~~tv~~~~~~lRk~L~l~~~~-slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys 116 (127)
-|+.+.||+++...|-++.+++++. .|.+..++.....+.++++ |. -+ ++..|++.-.
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-LG-PGSTVLLVVQ 76 (80)
T ss_pred EcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHH-cC-CC-CCCEEEEEEE
Confidence 3678999999999999988887653 3321224455555667765 22 22 4557887654
No 54
>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=40.66 E-value=64 Score=20.76 Aligned_cols=59 Identities=19% Similarity=0.202 Sum_probs=38.9
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEecC
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSG 117 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~ 117 (127)
..-|+.+.||+++...|.++.+++++.- -|..++.....+ ++++ | .-+ ++.+|||.-+-
T Consensus 15 ~l~v~~~~TV~~LK~~I~~~~~~~~~~q-rL~~~Gk~L~d~-~L~~-~-gi~-~~~~i~l~~~~ 73 (78)
T cd01804 15 DLSVPPDETVEGLKKRISQRLKVPKERL-ALLHRETRLSSG-KLQD-L-GLG-DGSKLTLVPTV 73 (78)
T ss_pred EEEECCcCHHHHHHHHHHHHhCCChHHE-EEEECCcCCCCC-cHHH-c-CCC-CCCEEEEEeec
Confidence 3568999999999999998888877643 343444433333 6554 2 222 45588887655
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=39.32 E-value=28 Score=24.95 Aligned_cols=53 Identities=15% Similarity=0.223 Sum_probs=33.7
Q ss_pred cceEEecCCCchHHHHHHHHHhhCCCCC----ceEEEEEcCCCC----CccchHHHHHhhh
Q 033114 52 KKKYLVPADLTVGQFVYVIRKRIKLSAE----KAIFIFVDNVLP----PTGAIMSAIYEEK 104 (127)
Q Consensus 52 k~KflVp~~~tv~~~~~~lRk~L~l~~~----~slFlyVn~~lp----~~~~~m~~lY~~~ 104 (127)
+.+|-|+.++|+++|+..++++.++..+ ..-.||..-..+ ..+++|.+|++.-
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 4578999999999999999999988743 122233322011 3567899999964
No 56
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=38.94 E-value=64 Score=20.50 Aligned_cols=58 Identities=7% Similarity=0.074 Sum_probs=38.7
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEec
Q 033114 55 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 116 (127)
Q Consensus 55 flVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys 116 (127)
+-|+.+.||++|...|....+++++. .=|..++.....+.++++. .- + ++..|+|.-.
T Consensus 12 l~v~~~~TV~~lK~~i~~~~gip~~~-q~L~~~G~~L~d~~tL~~~-~i-~-~g~~l~v~~~ 69 (76)
T cd01800 12 FTLQLSDPVSVLKVKIHEETGMPAGK-QKLQYEGIFIKDSNSLAYY-NL-A-NGTIIHLQLK 69 (76)
T ss_pred EEECCCCcHHHHHHHHHHHHCCCHHH-EEEEECCEEcCCCCcHHHc-CC-C-CCCEEEEEEe
Confidence 45889999999999999999987764 3444555555566677542 22 1 3346666544
No 57
>KOG1209 consensus 1-Acyl dihydroxyacetone phosphate reductase and related dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=38.23 E-value=64 Score=26.41 Aligned_cols=52 Identities=17% Similarity=0.167 Sum_probs=41.7
Q ss_pred CccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCC-----CCCccchHHHHHhhhc
Q 033114 50 IDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV-----LPPTGAIMSAIYEEKK 105 (127)
Q Consensus 50 L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~-----lp~~~~~m~~lY~~~k 105 (127)
|.-.|.=|.++..|.+|...+|+. +...|=+++||. .|..|.+++++=++|+
T Consensus 54 l~~~kLDV~~~~~V~~v~~evr~~----~~Gkld~L~NNAG~~C~~Pa~d~~i~ave~~f~ 110 (289)
T KOG1209|consen 54 LKPYKLDVSKPEEVVTVSGEVRAN----PDGKLDLLYNNAGQSCTFPALDATIAAVEQCFK 110 (289)
T ss_pred CeeEEeccCChHHHHHHHHHHhhC----CCCceEEEEcCCCCCcccccccCCHHHHHhhhc
Confidence 344566688999999999999985 455687888872 5999999999999995
No 58
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=37.02 E-value=93 Score=19.93 Aligned_cols=54 Identities=17% Similarity=0.137 Sum_probs=35.7
Q ss_pred ccceEEecCCCchHHHHHHHHHhhCCC-C--CceEEEEEcC--C--CCCccchHHHHHhhh
Q 033114 51 DKKKYLVPADLTVGQFVYVIRKRIKLS-A--EKAIFIFVDN--V--LPPTGAIMSAIYEEK 104 (127)
Q Consensus 51 ~k~KflVp~~~tv~~~~~~lRk~L~l~-~--~~slFlyVn~--~--lp~~~~~m~~lY~~~ 104 (127)
.-+...|+++.|.++++..+-++.++. . +=+||..+++ . ...+++..-++....
T Consensus 13 ~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~~~~er~L~~~e~pl~~~~~~ 73 (87)
T cd01768 13 TYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGDGGLERLLLPDECPLQIQLNA 73 (87)
T ss_pred cEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECCceEEEEeCCCCChHHHHHhc
Confidence 345678999999999999999999998 2 3344444554 2 234455444444333
No 59
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=36.82 E-value=68 Score=20.89 Aligned_cols=33 Identities=12% Similarity=0.149 Sum_probs=26.3
Q ss_pred ceEEecCCCchHHHHHHHHHhhCCCCC-ceEEEE
Q 033114 53 KKYLVPADLTVGQFVYVIRKRIKLSAE-KAIFIF 85 (127)
Q Consensus 53 ~KflVp~~~tv~~~~~~lRk~L~l~~~-~slFly 85 (127)
..-.+|.++||+++...|-+..+++++ ..|+++
T Consensus 16 ~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 16 VEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 345799999999999999999999875 556665
No 60
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=36.57 E-value=39 Score=21.68 Aligned_cols=41 Identities=17% Similarity=0.263 Sum_probs=28.1
Q ss_pred eEEecCC-CchHHHHHHHHHhhC-C-CCCceEEEEEcCCCCCcc
Q 033114 54 KYLVPAD-LTVGQFVYVIRKRIK-L-SAEKAIFIFVDNVLPPTG 94 (127)
Q Consensus 54 KflVp~~-~tv~~~~~~lRk~L~-l-~~~~slFlyVn~~lp~~~ 94 (127)
.+-++.+ .|+.++...|..+.. + .....+.+.||+.....+
T Consensus 19 ~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~~ 62 (80)
T TIGR01682 19 TLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTDD 62 (80)
T ss_pred EEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCCC
Confidence 4456766 899999999988763 2 223567889998654333
No 61
>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=35.50 E-value=55 Score=22.88 Aligned_cols=27 Identities=15% Similarity=0.493 Sum_probs=22.7
Q ss_pred chHHHHHHHHHhhCCCC-CceEEEEEcC
Q 033114 62 TVGQFVYVIRKRIKLSA-EKAIFIFVDN 88 (127)
Q Consensus 62 tv~~~~~~lRk~L~l~~-~~slFlyVn~ 88 (127)
.+.-+..+++..++.+| +.++|+|+|.
T Consensus 16 g~dgL~~lV~~~~~~dp~~g~~fvF~nr 43 (107)
T PF05717_consen 16 GIDGLAALVREELGLDPFSGDLFVFCNR 43 (107)
T ss_pred ChhHHHHHHHHhhcCCCCcceEEEEEec
Confidence 46788899999999874 5789999995
No 62
>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=35.11 E-value=32 Score=22.79 Aligned_cols=57 Identities=18% Similarity=0.249 Sum_probs=30.2
Q ss_pred ceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCC----CC-CccchHHHHHhhhcCCCCeEEE
Q 033114 53 KKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV----LP-PTGAIMSAIYEEKKDEDGFLYV 113 (127)
Q Consensus 53 ~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~----lp-~~~~~m~~lY~~~kd~DGfLYi 113 (127)
...-++.+.|++++...|...++++.. ++.||.+.. +. +.+.+++++==+|+| .||+
T Consensus 16 ~Rie~~~~~t~~~L~~kI~~~l~~~~~-~~~L~~~~~~~~~l~s~~~~tl~~lglkHGd---mlyL 77 (80)
T PF11543_consen 16 KRIEVSPSSTLSDLKEKISEQLSIPDS-SQSLSKDRNNKEELKSSDSKTLSSLGLKHGD---MLYL 77 (80)
T ss_dssp EEEEE-TTSBHHHHHHHHHHHS---TT-T---BSSGGGGGCSSS-TT-CCCCT---TT----EEE-
T ss_pred EEEEcCCcccHHHHHHHHHHHcCCCCc-ceEEEecCCCCcccccCCcCCHHHcCCCCcc---EEEE
Confidence 345688999999999999999998865 566666631 32 455666665555542 5554
No 63
>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=35.05 E-value=1.2e+02 Score=19.11 Aligned_cols=52 Identities=17% Similarity=0.307 Sum_probs=42.5
Q ss_pred EEecCCCchHHHHHHHHHhhCCCCCceEEEEEcC---CC-CCccchHHHHHhhhcC
Q 033114 55 YLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN---VL-PPTGAIMSAIYEEKKD 106 (127)
Q Consensus 55 flVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~---~l-p~~~~~m~~lY~~~kd 106 (127)
+-++.+.++.+|...|++++++.+..-..-|.+. .+ .+.+..+.+..+.++.
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 6789999999999999999999867666778863 23 5788888888888764
No 64
>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=34.54 E-value=98 Score=20.48 Aligned_cols=42 Identities=14% Similarity=0.155 Sum_probs=28.2
Q ss_pred ecCCCchHHHHHHHHHhhC--CC-CCceEEEEEcCCCCCccchHHH
Q 033114 57 VPADLTVGQFVYVIRKRIK--LS-AEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 57 Vp~~~tv~~~~~~lRk~L~--l~-~~~slFlyVn~~lp~~~~~m~~ 99 (127)
-|.+.||+++...|..+.+ .. +++---+|. +.....+.+|++
T Consensus 17 ~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~-GKiL~D~~TL~d 61 (75)
T cd01815 17 SPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHC-GRKLKDDQTLDF 61 (75)
T ss_pred CCccCcHHHHHHHHHHhhccCCCChHHeEEEeC-CcCCCCCCcHHH
Confidence 4789999999999999964 43 443333344 444566667765
No 65
>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=32.41 E-value=75 Score=21.66 Aligned_cols=50 Identities=12% Similarity=0.197 Sum_probs=33.7
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEE-EEcC-CC--CCccchHHHHHhhhc
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFI-FVDN-VL--PPTGAIMSAIYEEKK 105 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFl-yVn~-~l--p~~~~~m~~lY~~~k 105 (127)
-..||.++++.+|..-||.+++++ +.+-+ |.+. -. .+.+..|....+..+
T Consensus 15 ~i~v~~~i~f~dL~~kIrdkf~~~--~~~~iKykDEGD~iti~sq~DLd~Ai~~a~ 68 (86)
T cd06408 15 YIMIGPDTGFADFEDKIRDKFGFK--RRLKIKMKDDGDMITMGDQDDLDMAIDTAR 68 (86)
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCC--CceEEEEEcCCCCccccCHHHHHHHHHHHH
Confidence 346999999999999999999996 45555 3332 22 345555555554444
No 66
>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=32.20 E-value=1.6e+02 Score=19.78 Aligned_cols=57 Identities=11% Similarity=0.182 Sum_probs=41.9
Q ss_pred EecCCCchHHHHHHHHHhhCCCCCceEEEEEc---C-CC-CCc-cchHHHHHhhhcCCCCeEE
Q 033114 56 LVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD---N-VL-PPT-GAIMSAIYEEKKDEDGFLY 112 (127)
Q Consensus 56 lVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn---~-~l-p~~-~~~m~~lY~~~kd~DGfLY 112 (127)
.||....++++...|+++|.+.++..-.=|-. + .+ |-. ++.|.+.+.+=++.=.-|.
T Consensus 12 ~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~~~~ltLw 74 (78)
T cd06411 12 RAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAWQDVADGPRGLQ 74 (78)
T ss_pred EccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHHHhccCCceEEE
Confidence 47888999999999999999998865544543 2 33 544 8899999988864433333
No 67
>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=31.86 E-value=1.4e+02 Score=25.42 Aligned_cols=59 Identities=17% Similarity=0.157 Sum_probs=42.0
Q ss_pred EecCCCchHHHHHHHHHhhC---CCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEecCC
Q 033114 56 LVPADLTVGQFVYVIRKRIK---LSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGE 118 (127)
Q Consensus 56 lVp~~~tv~~~~~~lRk~L~---l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~~ 118 (127)
-|..+.||.+|...|...-+ +..++ +=|+.++.+...+.+|++ |. -+ ++.+|++.-+..
T Consensus 16 eV~~~~TV~dLK~kI~~~~g~~~ip~~~-QkLIy~GkiL~Dd~tL~d-y~-I~-e~~~Ivvmv~k~ 77 (378)
T TIGR00601 16 DMEPDETVKELKEKIEAEQGKDAYPVAQ-QKLIYSGKILSDDKTVRE-YK-IK-EKDFVVVMVSKP 77 (378)
T ss_pred EeCCcChHHHHHHHHHHhhCCCCCChhH-eEEEECCEECCCCCcHHH-cC-CC-CCCEEEEEeccC
Confidence 47789999999999998876 65554 445566766677778877 32 22 566888877653
No 68
>PF06970 RepA_N: Replication initiator protein A (RepA) N-terminus; InterPro: IPR010724 This entry represents the N terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids []. Most proteins in this entry are bacterial, but archaeal and eukaryotic members are also included.
Probab=30.27 E-value=24 Score=23.27 Aligned_cols=17 Identities=35% Similarity=0.521 Sum_probs=14.4
Q ss_pred hcCCCCeEEEEecCCcc
Q 033114 104 KKDEDGFLYVTYSGENT 120 (127)
Q Consensus 104 ~kd~DGfLYi~Ys~~~~ 120 (127)
+-|+||-+|+.|+.++.
T Consensus 42 wiDe~G~vYi~~s~eel 58 (76)
T PF06970_consen 42 WIDENGNVYIIFSIEEL 58 (76)
T ss_pred cCCCCCCEEEEeeHHHH
Confidence 56999999999998763
No 69
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=30.16 E-value=62 Score=21.76 Aligned_cols=44 Identities=14% Similarity=0.332 Sum_probs=30.3
Q ss_pred ecCCCchHHHHHHHHHh--hCCC------CCceEEEEE-----cCCCCCccchHHHH
Q 033114 57 VPADLTVGQFVYVIRKR--IKLS------AEKAIFIFV-----DNVLPPTGAIMSAI 100 (127)
Q Consensus 57 Vp~~~tv~~~~~~lRk~--L~l~------~~~slFlyV-----n~~lp~~~~~m~~l 100 (127)
|+++.|+++|+..|..+ +++. .+++||+=. ...-|..+.+|.+|
T Consensus 3 v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL 59 (84)
T PF08825_consen 3 VSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL 59 (84)
T ss_dssp ESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT
T ss_pred cCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH
Confidence 78999999999999988 6654 246666511 11237788888888
No 70
>PRK06437 hypothetical protein; Provisional
Probab=29.64 E-value=75 Score=20.08 Aligned_cols=39 Identities=13% Similarity=0.184 Sum_probs=26.5
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchH
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIM 97 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m 97 (127)
.+-+++..|++++.. .|++++ +.+.+.+|+...+.+..|
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 345788889998775 457865 467888998764444433
No 71
>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=29.57 E-value=1.3e+02 Score=18.70 Aligned_cols=35 Identities=11% Similarity=0.113 Sum_probs=29.7
Q ss_pred cceEEecCCCchHHHHHHHHHhhCCCCCceEEEEE
Q 033114 52 KKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFV 86 (127)
Q Consensus 52 k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyV 86 (127)
...|-|..+.|+.++...|-++|+|...+-+=|.+
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 34688999999999999999999999777665666
No 72
>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=29.55 E-value=52 Score=20.61 Aligned_cols=41 Identities=17% Similarity=0.171 Sum_probs=27.8
Q ss_pred eEEecCCCchHHHHHHHHHhhCC---CCCceEEEEEcCCCCCcc
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKL---SAEKAIFIFVDNVLPPTG 94 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l---~~~~slFlyVn~~lp~~~ 94 (127)
.+-+++..|+++++..|..+..- .....+-++||+...+.+
T Consensus 19 ~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~~~ 62 (80)
T cd00754 19 ELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVRLD 62 (80)
T ss_pred EEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcCCC
Confidence 44567789999999998876421 123567788998654444
No 73
>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=28.80 E-value=2e+02 Score=20.15 Aligned_cols=63 Identities=17% Similarity=0.257 Sum_probs=41.0
Q ss_pred CCchHHHHHHHHHhhC------CCCCceEEEEEcC--------CCCCccchHHHH---HhhhcCC---------CCeEEE
Q 033114 60 DLTVGQFVYVIRKRIK------LSAEKAIFIFVDN--------VLPPTGAIMSAI---YEEKKDE---------DGFLYV 113 (127)
Q Consensus 60 ~~tv~~~~~~lRk~L~------l~~~~slFlyVn~--------~lp~~~~~m~~l---Y~~~kd~---------DGfLYi 113 (127)
+.++++|...+|+.+. +..++-|.|-+.. .+-..+-++.+| |...+.. =+-||+
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 3568999999999984 4455666665532 233455666555 4444222 238999
Q ss_pred EecCCcccC
Q 033114 114 TYSGENTFG 122 (127)
Q Consensus 114 ~Ys~~~~fG 122 (127)
+-+.++.|-
T Consensus 90 ~LstrPRFi 98 (113)
T PF10336_consen 90 TLSTRPRFI 98 (113)
T ss_pred EEecCccHH
Confidence 999998873
No 74
>PF01886 DUF61: Protein of unknown function DUF61; InterPro: IPR002746 The proteins in this entry are functionally uncharacterised.
Probab=28.51 E-value=1.4e+02 Score=21.75 Aligned_cols=56 Identities=27% Similarity=0.500 Sum_probs=35.4
Q ss_pred HHHHHHHHhhCCC------cccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCC----CceEEEE
Q 033114 21 RAEAARIREKYPD------RIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSA----EKAIFIF 85 (127)
Q Consensus 21 ~~e~~~ir~kyP~------~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~----~~slFly 85 (127)
+.|.+.+.+.-|. ++|+|+|..+. +....|.|....-+ .+|++=|++.. ++.+++|
T Consensus 46 k~ELe~L~~~lp~~~~~~lrLPIile~~~~-----~~~g~~~V~g~~e~----k~i~~ilg~~~~~~~~~~l~i~ 111 (132)
T PF01886_consen 46 KEELERLAEILPEYEWSKLRLPIILEIDPT-----LGEGSYRVRGKEEV----KAISKILGKEREFEEEDELYIY 111 (132)
T ss_pred HHHHHHHHHhCCHHHHhceeccEEEEEecc-----CCCceEEEeCHHHH----HHHHHHhCCCcccccCCeEEEc
Confidence 4577788877774 59999998642 34556777777633 34445555443 4556654
No 75
>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=28.16 E-value=1.7e+02 Score=18.83 Aligned_cols=45 Identities=13% Similarity=0.047 Sum_probs=32.5
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHH
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSA 99 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~ 99 (127)
.+-|+.+.||+++...|-.+-+++++. .-||-+..+-..+.+|++
T Consensus 16 ~l~v~~~~TV~~lK~kI~~~~gip~~~-QrL~~G~~L~dD~~tL~~ 60 (75)
T cd01799 16 WLTVRPDMTVAQLKDKVFLDYGFPPAV-QRWVIGQRLARDQETLYS 60 (75)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHH-EEEEcCCeeCCCcCCHHH
Confidence 466899999999999999999998763 233444454445567765
No 76
>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=28.16 E-value=1.3e+02 Score=23.80 Aligned_cols=53 Identities=15% Similarity=0.290 Sum_probs=34.4
Q ss_pred CcccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcC
Q 033114 33 DRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDN 88 (127)
Q Consensus 33 ~~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~ 88 (127)
+||-|.+......+-+ ....-++..+|..|+...|-++|+++|..=-|.-+|+
T Consensus 175 nrv~V~f~~~~~~~~~---~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~~~~~ 227 (249)
T PF12436_consen 175 NRVEVEFKPKDNPNDP---EFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFFTVNP 227 (249)
T ss_dssp HEEEEEEEETTSTT------EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE---T
T ss_pred CeEEEEEEECCCCCCC---CEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEEecc
Confidence 5677777664333322 5566799999999999999999999998766776764
No 77
>PRK04115 hypothetical protein; Provisional
Probab=27.74 E-value=2.3e+02 Score=21.01 Aligned_cols=54 Identities=22% Similarity=0.337 Sum_probs=31.8
Q ss_pred HHHHHHhhCC-----CcccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCC----CCceEEEE
Q 033114 23 EAARIREKYP-----DRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLS----AEKAIFIF 85 (127)
Q Consensus 23 e~~~ir~kyP-----~~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~----~~~slFly 85 (127)
|.+.+.+--| =++|+|+|..+.. ..-.|.|....-| .+|++=|+.+ .++.+++|
T Consensus 51 ELe~L~~~l~~~~~~lrLPIile~~~~~-----~~g~~~VrG~~ev----k~IskiLg~~~~~~e~~~l~ly 113 (137)
T PRK04115 51 ELEFLKELLDEDACRLRLPIILEIDSSL-----GEGAIVVRGKEEV----KVISKILGKEDIFSEEDILYLY 113 (137)
T ss_pred HHHHHHHhccchhhheeeeEEEEEecCC-----CceEEEEcCHHHH----HHHHHHhCccccccCCCEEEEe
Confidence 5555555555 3699999997532 2345677776633 4455555433 45556654
No 78
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=27.71 E-value=77 Score=25.77 Aligned_cols=100 Identities=20% Similarity=0.220 Sum_probs=54.0
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEccCCCC---------CCCCccceE-EecCC---CchHHHHHHHHHhhCCCCCc
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKAERSD---------IPNIDKKKY-LVPAD---LTVGQFVYVIRKRIKLSAEK 80 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~---------~p~L~k~Kf-lVp~~---~tv~~~~~~lRk~L~l~~~~ 80 (127)
.-|.|||.+-.+...+.-.+++|||+--...+- +-.+.=.-. ++|.. .+-.++..+.+.=..-.+.-
T Consensus 57 ~Lt~eEr~~v~~~~~~~~~grvpvi~Gv~~~~t~~ai~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~~l 136 (309)
T cd00952 57 TLTWEEKQAFVATVVETVAGRVPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVPEM 136 (309)
T ss_pred hCCHHHHHHHHHHHHHHhCCCCCEEEEeccCCHHHHHHHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCCCC
Confidence 346799999999999999999999997754211 001100111 12111 12345555554433322234
Q ss_pred eEEEEEcC-C--CCCccchHHHHHhhhcCCCCeEEEEecC
Q 033114 81 AIFIFVDN-V--LPPTGAIMSAIYEEKKDEDGFLYVTYSG 117 (127)
Q Consensus 81 slFlyVn~-~--lp~~~~~m~~lY~~~kd~DGfLYi~Ys~ 117 (127)
.+++|=+- . .+-+-+++.+|- + .+++.-|.+++
T Consensus 137 Pv~iYn~P~~tg~~l~~~~l~~L~-~---~pnivgiKdss 172 (309)
T cd00952 137 AIAIYANPEAFKFDFPRAAWAELA-Q---IPQVVAAKYLG 172 (309)
T ss_pred cEEEEcCchhcCCCCCHHHHHHHh-c---CCCEEEEEecC
Confidence 68888552 1 233344666663 2 24566666665
No 79
>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=27.51 E-value=73 Score=22.80 Aligned_cols=42 Identities=12% Similarity=0.232 Sum_probs=32.3
Q ss_pred CCCchHHHHHHHHHhhCCCCCceEEEEEcCCC-CCccchHHHH
Q 033114 59 ADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL-PPTGAIMSAI 100 (127)
Q Consensus 59 ~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l-p~~~~~m~~l 100 (127)
...++.++...|++-|.-.+++.+.|-+++.. +.....|.++
T Consensus 67 ~~~~~~dvL~~i~~fl~~~p~e~VIl~l~~~~~~~~~~~l~~~ 109 (135)
T smart00148 67 LPIKLSEVLEAIKDFAFVTSPYPVILSLENHCSPDQQAKMAQM 109 (135)
T ss_pred ccEEHHHHHHHHHHHHHhCCCCcEEEeehhhCCHHHHHHHHHH
Confidence 45689999999999999999999999998754 3333344433
No 80
>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=27.28 E-value=1.4e+02 Score=20.88 Aligned_cols=36 Identities=14% Similarity=0.221 Sum_probs=29.2
Q ss_pred ceEEecCCCchHHHHHHHHHhhCCCCC--ceEEEEEcC
Q 033114 53 KKYLVPADLTVGQFVYVIRKRIKLSAE--KAIFIFVDN 88 (127)
Q Consensus 53 ~KflVp~~~tv~~~~~~lRk~L~l~~~--~slFlyVn~ 88 (127)
..+..|-+.||+|++..|.++..+.++ -.|++.+++
T Consensus 15 ~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~ 52 (97)
T cd01775 15 TTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHD 52 (97)
T ss_pred EEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECC
Confidence 356788999999999999999988764 456777776
No 81
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=26.87 E-value=1.6e+02 Score=19.87 Aligned_cols=22 Identities=9% Similarity=0.394 Sum_probs=16.6
Q ss_pred eEEecC-CCchHHHHHHHHHhhC
Q 033114 54 KYLVPA-DLTVGQFVYVIRKRIK 75 (127)
Q Consensus 54 KflVp~-~~tv~~~~~~lRk~L~ 75 (127)
.+-+|. +.|+.++...+++..+
T Consensus 13 ~~~~~~~~~t~~~L~~~v~~~F~ 35 (81)
T cd06401 13 RIPIHNEDITYDELLLMMQRVFR 35 (81)
T ss_pred EEeccCccccHHHHHHHHHHHhc
Confidence 366675 4799999999976655
No 82
>PF03568 Peptidase_C50: Peptidase family C50; InterPro: IPR005314 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C50 (separase family, clan CD). The active site residues for members of this family and family C14 occur in the same order in the sequence: H,C. The separases are caspase-like proteases, which plays a central role in the chromosome segregation. In yeast they cleave the rad21 subunit of the cohesin complex at the onset of anaphase. During most of the cell cycle, separase is inactivated by the securin/cut2 protein, which probably covers its active site. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0005634 nucleus
Probab=26.86 E-value=3.3e+02 Score=22.83 Aligned_cols=71 Identities=13% Similarity=0.203 Sum_probs=45.5
Q ss_pred CcccEEEEcc----CCCCCCCCccceEEecCCCchHHHHHHHHHhhC-CC------CCceEEEEEc--CCCCCccchHHH
Q 033114 33 DRIPVIVEKA----ERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIK-LS------AEKAIFIFVD--NVLPPTGAIMSA 99 (127)
Q Consensus 33 ~~ipVIvE~~----~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~-l~------~~~slFlyVn--~~lp~~~~~m~~ 99 (127)
..+=+|+.+. |-+.+|.|.... |.+--++..+...+.++-. .. ..+.+|..+| +-++.+..++..
T Consensus 204 ~~~iLVlD~~l~~~PwEsl~~l~~~~--VsR~pSl~~l~~~~~~~~~~~~~~~~~~~~~~~~yvlNP~gDL~~T~~~~~~ 281 (383)
T PF03568_consen 204 EHTILVLDKELQSFPWESLPCLRGQS--VSRMPSLHFLRDLLKRHSNSRSPGYESKDPKRGFYVLNPSGDLKRTEKRFEP 281 (383)
T ss_pred CCEEEEECcccccCchhhCccccCCe--eEecChHHHHHHHHHHhhhhcccccccccccceEEEECCCCCHHHHHHHHHH
Confidence 4444555443 346788998875 6666677777776665432 11 2234787888 357888888888
Q ss_pred HHhhhc
Q 033114 100 IYEEKK 105 (127)
Q Consensus 100 lY~~~k 105 (127)
+++..+
T Consensus 282 ~~~~~~ 287 (383)
T PF03568_consen 282 FFKSWK 287 (383)
T ss_pred HHhccc
Confidence 888876
No 83
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=26.82 E-value=83 Score=22.89 Aligned_cols=49 Identities=22% Similarity=0.348 Sum_probs=37.1
Q ss_pred CCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEecCCcccC
Q 033114 59 ADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122 (127)
Q Consensus 59 ~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~~~~fG 122 (127)
..+++.+++..+.+.++++..+ ....++++|..- ..||- ..+.+++.||
T Consensus 18 ~~m~f~dL~~ev~~~~~~s~e~------------~~~~iaq~YtdL-n~DGR--Fi~lG~n~Wg 66 (129)
T PRK02363 18 EPMSFYDLVNEIQKYLGKSDEE------------IRERIAQFYTDL-NLDGR--FISLGDNKWG 66 (129)
T ss_pred CcccHHHHHHHHHHHhCCCHHH------------HHHHHHHHHHHH-hccCC--eeEcCCCcee
Confidence 5678889999988888765433 136789999998 68883 3467899998
No 84
>PRK10953 cysJ sulfite reductase subunit alpha; Provisional
Probab=26.82 E-value=4.7e+02 Score=23.55 Aligned_cols=88 Identities=11% Similarity=0.243 Sum_probs=57.7
Q ss_pred CCCcccEEEEccCCCCCCC-CccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCC
Q 033114 31 YPDRIPVIVEKAERSDIPN-IDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDG 109 (127)
Q Consensus 31 yP~~ipVIvE~~~~~~~p~-L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DG 109 (127)
-.+.|+|-+.+.+.=.+|. -++.-.+|-...=++-|..+|+.+........+.||.+..-...|-.-.+=.+.+. .+|
T Consensus 432 ~Gd~v~v~~~~~~~F~lp~~~~~piImIg~GTGIAPfrsflq~r~~~~~~~~~~LffG~R~~~~D~lY~~El~~~~-~~g 510 (600)
T PRK10953 432 EEGEVRVFIEHNDNFRLPANPETPVIMIGPGTGIAPFRAFMQQRAADGAPGKNWLFFGNPHFTEDFLYQVEWQRYV-KEG 510 (600)
T ss_pred CCCEEEEEeccCCcccCCCCCCCCEEEEecCcCcHHHHHHHHHHHHcCCCCCeEEEeeccCCccchhHHHHHHHHH-HcC
Confidence 3577888776543335663 34556778888889999999999987655556777777766555555555555553 345
Q ss_pred e---EEEEecCCc
Q 033114 110 F---LYVTYSGEN 119 (127)
Q Consensus 110 f---LYi~Ys~~~ 119 (127)
. |.+.||.++
T Consensus 511 ~l~~l~~afSRd~ 523 (600)
T PRK10953 511 LLTRIDLAWSRDQ 523 (600)
T ss_pred CcceEEEEECCCC
Confidence 3 567777543
No 85
>COG3698 Predicted periplasmic protein [Function unknown]
Probab=26.76 E-value=60 Score=26.29 Aligned_cols=41 Identities=12% Similarity=0.370 Sum_probs=31.0
Q ss_pred ceEEecCCC-chHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhh
Q 033114 53 KKYLVPADL-TVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEK 104 (127)
Q Consensus 53 ~KflVp~~~-tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~ 104 (127)
-.|.|+.+- .+.+|-.+.|.+|+++ ++||| |-+++.+|..-
T Consensus 189 ~~FaiS~~~vnFydFA~~fRd~L~cp--naLyL---------DGtIS~ly~pa 230 (250)
T COG3698 189 AVFAISQGAVNFYDFATLFRDKLGCP--NALYL---------DGTISSLYMPA 230 (250)
T ss_pred EEEEEecCcchhhhHHHHHHHhcCCC--ceeEE---------cCccceeeccc
Confidence 468888765 7899999999999887 67887 55566666553
No 86
>PF05990 DUF900: Alpha/beta hydrolase of unknown function (DUF900); InterPro: IPR010297 This domain is associated with proteins of unknown function, which are hydrolase-like.
Probab=26.67 E-value=1.3e+02 Score=23.39 Aligned_cols=51 Identities=16% Similarity=0.262 Sum_probs=34.9
Q ss_pred HHHHHHHHHhhCCCCCceEEEEEcCCC---CCccchHHHHHhhhcCCCCeEEEEec
Q 033114 64 GQFVYVIRKRIKLSAEKAIFIFVDNVL---PPTGAIMSAIYEEKKDEDGFLYVTYS 116 (127)
Q Consensus 64 ~~~~~~lRk~L~l~~~~slFlyVn~~l---p~~~~~m~~lY~~~kd~DGfLYi~Ys 116 (127)
+.|...+++.|.-.+.+.+.+||.+.- ...-...++|....+ -+| ..|.|+
T Consensus 2 ~~~~~~~~~~l~~~~~~~vlvfVHGyn~~f~~a~~r~aql~~~~~-~~~-~~i~Fs 55 (233)
T PF05990_consen 2 AAFQAQLNQRLAKSPDKEVLVFVHGYNNSFEDALRRAAQLAHDLG-FPG-VVILFS 55 (233)
T ss_pred hHHHHHHHHHHhhCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhC-CCc-eEEEEE
Confidence 357788889998888899999997533 233345777777775 344 555554
No 87
>PRK13964 coaD phosphopantetheine adenylyltransferase; Provisional
Probab=25.96 E-value=2.4e+02 Score=20.54 Aligned_cols=83 Identities=18% Similarity=0.259 Sum_probs=49.6
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEccCCCCCCCCc---cceEEecCCCchHHHHHHHH-----HhhCCCC-CceEEE
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKAERSDIPNID---KKKYLVPADLTVGQFVYVIR-----KRIKLSA-EKAIFI 84 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~~p~L~---k~KflVp~~~tv~~~~~~lR-----k~L~l~~-~~slFl 84 (127)
..++++|.+..+...+.+|+ |-|+. ...+-+-++. ...++|..=-.+++|-+.+. ++ |++ =+++||
T Consensus 44 ~~s~e~R~~~l~~~~~~~~~-v~v~~--~~~~l~v~~~~~~~a~~ivrGlR~~~DfeyE~~~a~~n~~--l~~~ietvfl 118 (140)
T PRK13964 44 ASDLDSRFKNVKNKLKDFKN-VEVLI--NENKLTAEIAKKLGANFLIRSARNNIDFQYEIVLAAGNKS--LNNDLETILI 118 (140)
T ss_pred CCCHHHHHHHHHHHHcCCCC-cEEec--CcCCcHHHHHHHCCCeEEEEecCCCccHHHHHHHHHHHHh--hcCCCeEEEe
Confidence 36899999999999998886 43332 1111111111 24677777666666655443 44 433 478999
Q ss_pred EEcCCC-CCccchHHHHH
Q 033114 85 FVDNVL-PPTGAIMSAIY 101 (127)
Q Consensus 85 yVn~~l-p~~~~~m~~lY 101 (127)
...... .=.|+.+.+|-
T Consensus 119 ~~~~~~~~iSSs~vre~~ 136 (140)
T PRK13964 119 IPDYDKIEYSSTLLRHKK 136 (140)
T ss_pred ecCCCCCEEeHHHHHHHH
Confidence 887543 44445566654
No 88
>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=25.73 E-value=79 Score=22.14 Aligned_cols=39 Identities=18% Similarity=0.456 Sum_probs=26.8
Q ss_pred EEEEEc--CCCC--CccchHHHHHhhhcCCCCeEEEEecCCcccC
Q 033114 82 IFIFVD--NVLP--PTGAIMSAIYEEKKDEDGFLYVTYSGENTFG 122 (127)
Q Consensus 82 lFlyVn--~~lp--~~~~~m~~lY~~~kd~DGfLYi~Ys~~~~fG 122 (127)
+-|.|| .... ..=..|.+||++|+ ++||..|.+-..+ ||
T Consensus 23 v~LIVNvAs~Cg~t~qy~~L~~L~~ky~-~~gl~ILaFPcnq-Fg 65 (108)
T PF00255_consen 23 VLLIVNVASKCGYTKQYKQLNELYEKYK-DKGLEILAFPCNQ-FG 65 (108)
T ss_dssp EEEEEEEESSSTTHHHHHHHHHHHHHHG-GGTEEEEEEEBST-TT
T ss_pred EEEEEecccccCCccccHHHHHHHHHHh-cCCeEEEeeehHH-hc
Confidence 456666 2221 13457999999998 5899999998644 55
No 89
>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=25.49 E-value=1.4e+02 Score=20.44 Aligned_cols=75 Identities=13% Similarity=0.074 Sum_probs=45.9
Q ss_pred CCcccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeE
Q 033114 32 PDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFL 111 (127)
Q Consensus 32 P~~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfL 111 (127)
++.+-|.|.-..+. ...+-|..+.||+++...|..+-++++++-- |+.++.....+.++++ |. -+ ++.-|
T Consensus 25 ~~~M~I~Vk~l~G~------~~~leV~~~~TV~~lK~kI~~~~gip~~~Qr-Li~~Gk~L~D~~tL~d-y~-I~-~~stL 94 (103)
T cd01802 25 YDTMELFIETLTGT------CFELRVSPFETVISVKAKIQRLEGIPVAQQH-LIWNNMELEDEYCLND-YN-IS-EGCTL 94 (103)
T ss_pred CCCEEEEEEcCCCC------EEEEEeCCCCcHHHHHHHHHHHhCCChHHEE-EEECCEECCCCCcHHH-cC-CC-CCCEE
Confidence 45555666433211 2335689999999999999999888876433 3345555555667755 32 11 34467
Q ss_pred EEEec
Q 033114 112 YVTYS 116 (127)
Q Consensus 112 Yi~Ys 116 (127)
++.-.
T Consensus 95 ~l~~~ 99 (103)
T cd01802 95 KLVLA 99 (103)
T ss_pred EEEEe
Confidence 66543
No 90
>PF01704 UDPGP: UTP--glucose-1-phosphate uridylyltransferase; InterPro: IPR002618 This family consists of UTP--glucose-1-phosphate uridylyltransferases (2.7.7.9 from EC). Also known as UDP-glucose pyrophosphorylase (UDPGP) and Glucose-1-phosphate uridylyltransferase. UTP--glucose-1-phosphate uridylyltransferase catalyses the interconversion of MgUTP + glucose-1-phosphate and UDP-glucose + MgPPi []. UDP-glucose is an important intermediate in mammalian carbohydrate interconversion involved in various metabolic roles depending on tissue type []. In Dictyostelium discoideum (Slime mold), mutants in this enzyme abort the development cycle []. Also within this family is UDP-N-acetylglucosamine pyrophosphorylase (Q16222 from SWISSPROT) [] and two hypothetical proteins from Borrelia burgdorferi, the Lyme disease spirochaete (O51893 from SWISSPROT and O51036 from SWISSPROT).; GO: 0016779 nucleotidyltransferase activity, 0008152 metabolic process; PDB: 2OEG_A 2OEF_A 2YQS_A 2YQJ_A 2YQH_B 2YQC_A 3OH4_A 3OGZ_A 3OH3_A 3OH1_A ....
Probab=25.09 E-value=1.4e+02 Score=25.76 Aligned_cols=61 Identities=20% Similarity=0.332 Sum_probs=41.1
Q ss_pred cccCC-HHHHHHHHHHHHhhCCCcccEEEEccCCCCCCCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCC
Q 033114 12 KQEHD-LEKRRAEAARIREKYPDRIPVIVEKAERSDIPNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL 90 (127)
Q Consensus 12 K~~~s-~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~~p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l 90 (127)
+...| |+-..+..+.++++|.-.||+++ ..+..|-.+...++++.-+++.+ +++|..+.+
T Consensus 82 ~~~~t~ldl~~~qi~~l~~~~~~~iPl~i-----------------MtS~~T~~~T~~~l~kyfg~~~~--v~~F~Q~~~ 142 (420)
T PF01704_consen 82 REGKTFLDLIVEQIEALNKKYGVDIPLYI-----------------MTSFNTHEDTRKFLEKYFGLDVD--VFFFKQSKL 142 (420)
T ss_dssp ETTEEHHHHHHHHHHHHHHHHTTT-EEEE-----------------EEETTTHHHHHHHHHHGCGSSCC--EEEEEE-EE
T ss_pred CCcccHHHHHHHHHHHHhccccccceEEE-----------------ecCcccHHHHHHHHHHhcCCCcc--eEEEeecCc
Confidence 33444 45666777888888888888775 44567788899999996667655 766665544
Q ss_pred C
Q 033114 91 P 91 (127)
Q Consensus 91 p 91 (127)
|
T Consensus 143 P 143 (420)
T PF01704_consen 143 P 143 (420)
T ss_dssp E
T ss_pred c
Confidence 3
No 91
>PF02645 DegV: Uncharacterised protein, DegV family COG1307; InterPro: IPR003797 This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each other than to most homologs from other species. This suggests both recent paralogy and diversity of function.; PDB: 2DT8_A 3LUP_A 3NYI_B 3PL5_A 1PZX_B 1MGP_A 1VPV_B 3FYS_A 3EGL_C 3JR7_A ....
Probab=24.77 E-value=1e+02 Score=24.50 Aligned_cols=58 Identities=19% Similarity=0.297 Sum_probs=35.7
Q ss_pred ccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcC--CCCeEEEEecCC
Q 033114 51 DKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKD--EDGFLYVTYSGE 118 (127)
Q Consensus 51 ~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd--~DGfLYi~Ys~~ 118 (127)
+.+-|.-..+++..+|...+++.=.++ + +.++.-..+.++|+++.+ -|..|+++.|+.
T Consensus 32 ~~~~y~D~~~i~~~efy~~l~~~~~~p-~---------TS~ps~~~~~~~f~~~~~~gyd~ii~i~iSs~ 91 (280)
T PF02645_consen 32 DGKEYRDGVDISPEEFYEKLRESGEIP-K---------TSQPSPGEFEEAFEKLLEEGYDEIIVITISSG 91 (280)
T ss_dssp TTEEEETTTTSCHHHHHHHHHHTTSEE-E---------EE---HHHHHHHHHHHHHTTTSEEEEEES-TT
T ss_pred CCeEEecCCCCCHHHHHHHHHhcCCCc-e---------ecCCCHHHHHHHHHHHHHCCCCeEEEEeCCcc
Confidence 445555556999999999987652222 1 123444567888887322 466999998874
No 92
>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=24.55 E-value=1.8e+02 Score=18.67 Aligned_cols=54 Identities=22% Similarity=0.320 Sum_probs=37.6
Q ss_pred EEecCCCchHHHHHHHHHhh---CCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEec
Q 033114 55 YLVPADLTVGQFVYVIRKRI---KLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYS 116 (127)
Q Consensus 55 flVp~~~tv~~~~~~lRk~L---~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys 116 (127)
|.-....|+.++..-||+.- -+.....+|+.-||.- +-=.||..+||-+..+|.
T Consensus 6 ~vp~~~~~v~d~K~~Lr~y~~~~I~~d~tGfYIvF~~~~--------Ea~rC~~~~~~~~~f~y~ 62 (66)
T PF11767_consen 6 FVPVHGVTVEDFKKRLRKYRWDRIRDDRTGFYIVFNDSK--------EAERCFRAEDGTLFFTYR 62 (66)
T ss_pred cCCCCCccHHHHHHHHhcCCcceEEecCCEEEEEECChH--------HHHHHHHhcCCCEEEEEE
Confidence 34445667888777777542 1345567787777643 777899889999988885
No 93
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=24.55 E-value=94 Score=24.87 Aligned_cols=101 Identities=10% Similarity=0.080 Sum_probs=54.2
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEccCCCC-C-------CCCccc-eEEecCCC---chHHHHHHHHHhhCCCCCce
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKAERSD-I-------PNIDKK-KYLVPADL---TVGQFVYVIRKRIKLSAEKA 81 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~-~-------p~L~k~-KflVp~~~---tv~~~~~~lRk~L~l~~~~s 81 (127)
.-|.|||.+-.+...+.-.+++|||+--..... + -.+.=. -.++|.-. +-.++..+.+.=..-. +-.
T Consensus 49 ~Ls~eEr~~l~~~~~~~~~~~~pvi~gv~~~t~~~i~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~-~~p 127 (289)
T cd00951 49 SLTPDEYAQVVRAAVEETAGRVPVLAGAGYGTATAIAYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKST-DLG 127 (289)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCCEEEecCCCHHHHHHHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcC-CCC
Confidence 457799999999999888899999996543100 0 000001 12222221 2244555554433322 346
Q ss_pred EEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEecCC
Q 033114 82 IFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSGE 118 (127)
Q Consensus 82 lFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~~ 118 (127)
+++|=+....-+.+.+.+|-+++ +.+..|.+++.
T Consensus 128 i~lYn~~g~~l~~~~l~~L~~~~---pnivgiKds~~ 161 (289)
T cd00951 128 VIVYNRANAVLTADSLARLAERC---PNLVGFKDGVG 161 (289)
T ss_pred EEEEeCCCCCCCHHHHHHHHhcC---CCEEEEEeCCC
Confidence 88884322222244666665333 45777777643
No 94
>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=24.42 E-value=1.3e+02 Score=20.31 Aligned_cols=58 Identities=12% Similarity=0.201 Sum_probs=45.3
Q ss_pred CCCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCC-CCccchHHHHHhhhcC
Q 033114 48 PNIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL-PPTGAIMSAIYEEKKD 106 (127)
Q Consensus 48 p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l-p~~~~~m~~lY~~~kd 106 (127)
|.|.-+..-||++.-+.-++.+--...++++..+ -+.-|+-+ -.+.++-|++|=+|..
T Consensus 13 p~lpfkvlsVpE~aPftAvlkfaAEeFkv~~~Ts-AiiTndGvGINP~qtAGnvflkhgs 71 (82)
T cd01766 13 PKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATS-AIITNDGIGINPAQTAGNVFLKHGS 71 (82)
T ss_pred CCCcceEEeccccCchHHHHHHHHHhcCCCccce-eEEecCccccChhhcccceeeecCC
Confidence 4444566789999999999999999999998877 44556554 6778889999988863
No 95
>PRK00805 putative deoxyhypusine synthase; Provisional
Probab=24.41 E-value=1.5e+02 Score=25.03 Aligned_cols=104 Identities=13% Similarity=0.155 Sum_probs=58.0
Q ss_pred HHHHHHH---HHHHHhhCCCcccEEEEccCCCCCCCC------ccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEc
Q 033114 17 LEKRRAE---AARIREKYPDRIPVIVEKAERSDIPNI------DKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVD 87 (127)
Q Consensus 17 ~e~R~~e---~~~ir~kyP~~ipVIvE~~~~~~~p~L------~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn 87 (127)
+-++..+ ..-++.-|-+.|||.|.-...+.+-.. ...++.|.. +.++...- .+...++++=.+.++
T Consensus 156 lGk~i~~~~~~Sil~~Ayk~~VPVf~Pa~~DssiG~~l~~~~~~~~~~~iD~---~~D~~~l~--~~~~~a~~~G~iilG 230 (329)
T PRK00805 156 LGKWLNEKDIDSIVAAAYRANVPIFVPALCDSSIGIGLVIARRRGHRVVIDQ---IKDVDEIT--EIVEKSKKTGVIYIG 230 (329)
T ss_pred HHHhhcccCcchHHHHHHHcCCCEEcCCcchhhhhHHHHHHhccCCceeeeH---HHHHHHHH--HHHhccCceeEEEEC
Confidence 3455554 567778888999999977655554320 111232211 22222211 234555667788888
Q ss_pred CCCCCccchHHHHHhh----hcC-CCCeEEEEecCCcccCCCCC
Q 033114 88 NVLPPTGAIMSAIYEE----KKD-EDGFLYVTYSGENTFGSHIP 126 (127)
Q Consensus 88 ~~lp~~~~~m~~lY~~----~kd-~DGfLYi~Ys~~~~fG~~~~ 126 (127)
.-+|.....-..++.. .+. -|-+.||+=+ ++.+|+.+|
T Consensus 231 GGvpKh~~~~~~l~~~~~~~~~~G~dYaVqItta-~~~dGslSG 273 (329)
T PRK00805 231 GGVPKNFIQQTEVIASILGEDVEGHEYAIQYTTD-APHWGGLSG 273 (329)
T ss_pred CchhHhHHHHHHHHHHhhccCCCCCcEEEEEeCC-CCCcccccC
Confidence 8888765544444433 332 5667777644 455787554
No 96
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=24.18 E-value=98 Score=24.25 Aligned_cols=99 Identities=13% Similarity=0.154 Sum_probs=54.7
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEccCCCC--C-------CCCcc-ceEEecCCC---chHHHHHHHHHhhCCCCCc
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKAERSD--I-------PNIDK-KKYLVPADL---TVGQFVYVIRKRIKLSAEK 80 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~--~-------p~L~k-~KflVp~~~---tv~~~~~~lRk~L~l~~~~ 80 (127)
.-|.+||++-.+..++.-.+++|||+--...+. + -.+.= --.++|... +-.++..+.+.=..- ..-
T Consensus 46 ~ls~~Er~~l~~~~~~~~~~~~~vi~gv~~~~~~~~i~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~-~~~ 124 (281)
T cd00408 46 TLTDEERKEVIEAVVEAVAGRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADA-SDL 124 (281)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhc-CCC
Confidence 456799999999999988899999997654321 0 00000 012222211 224444444443322 245
Q ss_pred eEEEEEcCC---CCCccchHHHHHhhhcCCCCeEEEEecC
Q 033114 81 AIFIFVDNV---LPPTGAIMSAIYEEKKDEDGFLYVTYSG 117 (127)
Q Consensus 81 slFlyVn~~---lp~~~~~m~~lY~~~kd~DGfLYi~Ys~ 117 (127)
.+++|=+-. .+-..+.+.+|-+ .+.+..+.+++
T Consensus 125 pi~iYn~P~~tg~~l~~~~~~~L~~----~~~v~giK~s~ 160 (281)
T cd00408 125 PVILYNIPGRTGVDLSPETIARLAE----HPNIVGIKDSS 160 (281)
T ss_pred CEEEEECccccCCCCCHHHHHHHhc----CCCEEEEEeCC
Confidence 688885432 2223345666653 35677787776
No 97
>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=23.72 E-value=59 Score=20.14 Aligned_cols=40 Identities=18% Similarity=0.283 Sum_probs=30.1
Q ss_pred cceEEecCCCchHHHHHHHHHhhC-CCCCceEEEEEcCCCC
Q 033114 52 KKKYLVPADLTVGQFVYVIRKRIK-LSAEKAIFIFVDNVLP 91 (127)
Q Consensus 52 k~KflVp~~~tv~~~~~~lRk~L~-l~~~~slFlyVn~~lp 91 (127)
.....++...|++++...|..+.. +...+.+-+.||+...
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v 53 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIV 53 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEE
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEc
Confidence 356678999999999999987752 2233678899998653
No 98
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=23.38 E-value=80 Score=19.95 Aligned_cols=38 Identities=5% Similarity=0.065 Sum_probs=25.6
Q ss_pred eEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccch
Q 033114 54 KYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAI 96 (127)
Q Consensus 54 KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~ 96 (127)
.+-+++..|++++.. .|++++ +.+.+.+|+.+.+.+..
T Consensus 17 ~~~~~~~~tv~~ll~----~l~~~~-~~v~v~vNg~iv~~~~~ 54 (70)
T PRK08364 17 EIEWRKGMKVADILR----AVGFNT-ESAIAKVNGKVALEDDP 54 (70)
T ss_pred EEEcCCCCcHHHHHH----HcCCCC-ccEEEEECCEECCCCcC
Confidence 444678889988765 446665 56888899876444433
No 99
>COG1019 Predicted nucleotidyltransferase [General function prediction only]
Probab=23.10 E-value=3.4e+02 Score=20.62 Aligned_cols=66 Identities=15% Similarity=0.056 Sum_probs=46.0
Q ss_pred CCHHHHHHHHHHHHhhCCCcccEEEEcc-CCCCCCCCccceEEe--cCCCchHHHHHHHHHhhCCCCCc
Q 033114 15 HDLEKRRAEAARIREKYPDRIPVIVEKA-ERSDIPNIDKKKYLV--PADLTVGQFVYVIRKRIKLSAEK 80 (127)
Q Consensus 15 ~s~e~R~~e~~~ir~kyP~~ipVIvE~~-~~~~~p~L~k~KflV--p~~~tv~~~~~~lRk~L~l~~~~ 80 (127)
.+|+.|.+...+....--....+|+... +.+.++.-..--.+| |++.+.+.-++-+|.+.+++|=+
T Consensus 54 ~p~~~R~~~l~~fl~~~~~~~~~iv~i~Dp~G~t~~~~~~e~iVVS~ET~~~Al~IN~~R~~~Gl~pL~ 122 (158)
T COG1019 54 EPYEVRLRNLRNFLESIKADYEEIVPIDDPYGPTVEDPDFEAIVVSPETYPGALKINEIREKRGLPPLE 122 (158)
T ss_pred CcHHHHHHHHHHHHHHhcCCcceEEEecCCCCCCCCcCceeEEEEccccchhHHHHHHHHHHCCCCCeE
Confidence 4689999999888776666666676664 444554443333444 45567788899999999999754
No 100
>PRK11347 antitoxin ChpS; Provisional
Probab=23.04 E-value=2.1e+02 Score=19.06 Aligned_cols=52 Identities=15% Similarity=0.289 Sum_probs=35.8
Q ss_pred HHHHHhhCCCCCceEEEEEcC-CC---C-CccchHHHHHhhhcCCCCeEEEEecCCcccCC
Q 033114 68 YVIRKRIKLSAEKAIFIFVDN-VL---P-PTGAIMSAIYEEKKDEDGFLYVTYSGENTFGS 123 (127)
Q Consensus 68 ~~lRk~L~l~~~~slFlyVn~-~l---p-~~~~~m~~lY~~~kd~DGfLYi~Ys~~~~fG~ 123 (127)
..+.++|++..++.+.+-|.+ .+ | ...-++.+|.+.+. .+.. .-..+..||.
T Consensus 18 k~il~~l~l~~G~~v~i~v~~~~iii~p~~~~~tL~eLla~~~-~~~~---~~~~~~~wg~ 74 (83)
T PRK11347 18 NIVMKELNLQPGQSVEAQVSNNQLILTPISRRYSLDELLAQCD-MNAA---ELSEQDVWGK 74 (83)
T ss_pred HHHHHHcCCCCCCEEEEEEECCEEEEEECCCCCCHHHHHhcCC-cccc---Cccchhhccc
Confidence 457799999999999998875 32 4 34468999999984 3431 1133345775
No 101
>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=22.87 E-value=1.7e+02 Score=18.62 Aligned_cols=40 Identities=20% Similarity=0.150 Sum_probs=25.9
Q ss_pred CCccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCC
Q 033114 49 NIDKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNV 89 (127)
Q Consensus 49 ~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~ 89 (127)
...+.++.|.++.++.|+...--++.++++++ --|.-|+.
T Consensus 5 ~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~-~~L~h~~k 44 (65)
T PF11470_consen 5 NFRRFKVKVTPNTTLNQVLEEACKKFGLDPSS-YDLKHNNK 44 (65)
T ss_dssp TS-EEEE---TTSBHHHHHHHHHHHTT--GGG--EEEETTE
T ss_pred CCcEEEEEECCCCCHHHHHHHHHHHcCCCccc-eEEEECCE
Confidence 34678899999999999999999999999883 34444443
No 102
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=22.82 E-value=1.1e+02 Score=24.67 Aligned_cols=101 Identities=10% Similarity=0.078 Sum_probs=55.2
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEccCCCC--C-------CCCcc-ceEEecCC---CchHHHHHHHHHhhCCCCCc
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKAERSD--I-------PNIDK-KKYLVPAD---LTVGQFVYVIRKRIKLSAEK 80 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~--~-------p~L~k-~KflVp~~---~tv~~~~~~lRk~L~l~~~~ 80 (127)
.-|.|||++-.+...+.-.+++|||+--...+- + -.+.= --.++|.. .+-.+++.+.+.=..-.++-
T Consensus 50 ~Lt~eEr~~~~~~~~~~~~~~~pvi~gv~~~~t~~~i~la~~a~~~Gad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~~l 129 (290)
T TIGR00683 50 MLSTEEKKEIFRIAKDEAKDQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFYYKFSFPEIKHYYDTIIAETGGL 129 (290)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCcEEEecCCCCHHHHHHHHHHHHHhCCCEEEEeCCcCCCCCHHHHHHHHHHHHhhCCCC
Confidence 347899999999999988999999997643211 0 00000 01122321 13356666665443323345
Q ss_pred eEEEEEcCCC---CCccchHHHHHhhhcCCCCeEEEEecCC
Q 033114 81 AIFIFVDNVL---PPTGAIMSAIYEEKKDEDGFLYVTYSGE 118 (127)
Q Consensus 81 slFlyVn~~l---p~~~~~m~~lY~~~kd~DGfLYi~Ys~~ 118 (127)
.+++|=+... +-..+++.+|-+ .+.+..|.+|+.
T Consensus 130 pv~lYn~P~~tg~~l~~~~i~~L~~----~pnv~giK~s~~ 166 (290)
T TIGR00683 130 NMIVYSIPFLTGVNMGIEQFGELYK----NPKVLGVKFTAG 166 (290)
T ss_pred CEEEEeCccccccCcCHHHHHHHhc----CCCEEEEEeCCC
Confidence 7888854321 222334555542 245777777643
No 103
>smart00537 DCX Domain in the Doublecortin (DCX) gene product. Tandemly-repeated domain in doublin, the Doublecortin gene product. Proposed to bind tubulin. Doublecortin (DCX) is mutated in human X-linked neuronal migration defects.
Probab=22.73 E-value=2.4e+02 Score=18.72 Aligned_cols=70 Identities=16% Similarity=0.199 Sum_probs=40.7
Q ss_pred ccCCCCCCCCccceEEecC--CCchHHHHHHHHH--hhCCC-CCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEe
Q 033114 41 KAERSDIPNIDKKKYLVPA--DLTVGQFVYVIRK--RIKLS-AEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTY 115 (127)
Q Consensus 41 ~~~~~~~p~L~k~KflVp~--~~tv~~~~~~lRk--~L~l~-~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Y 115 (127)
-+.+++.. -...+++|+. -.|+.+|...|.+ .|.+. +-..|| - |.. ..+.+|=+ . +||-.||+.
T Consensus 10 ~~rNGD~~-~~g~~~~v~~~~~~s~d~lL~~lt~~v~l~~~~~Vr~ly--t----~~G-~~v~~l~~-l--~~g~~yVa~ 78 (89)
T smart00537 10 FYRNGDRF-FKGVRLVVNRKRFKSFEALLQDLTEVVKLDLPHGVRKLY--T----LDG-KKVTSLDE-L--EDGGSYVAS 78 (89)
T ss_pred EEeCCCCC-CCCEEEEEChhhcCCHHHHHHHHhhhcccCCCCCeeEEE--c----CCC-CEECCHHH-h--CcCCEEEEE
Confidence 44455532 2567888886 4589999999999 55444 223333 1 221 12222211 2 478899998
Q ss_pred cCCcccC
Q 033114 116 SGENTFG 122 (127)
Q Consensus 116 s~~~~fG 122 (127)
+.+ .|.
T Consensus 79 g~e-~fk 84 (89)
T smart00537 79 GTE-AFK 84 (89)
T ss_pred cCC-cce
Confidence 877 554
No 104
>PRK13125 trpA tryptophan synthase subunit alpha; Provisional
Probab=22.11 E-value=99 Score=24.15 Aligned_cols=16 Identities=19% Similarity=0.150 Sum_probs=13.1
Q ss_pred CCCCeEEEEecCCcccCC
Q 033114 106 DEDGFLYVTYSGENTFGS 123 (127)
Q Consensus 106 d~DGfLYi~Ys~~~~fG~ 123 (127)
..|||||| +..+.+|.
T Consensus 151 ~~~~~l~m--sv~~~~g~ 166 (244)
T PRK13125 151 LSPLFIYY--GLRPATGV 166 (244)
T ss_pred hCCCEEEE--EeCCCCCC
Confidence 47999999 67888885
No 105
>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=22.00 E-value=1.7e+02 Score=18.91 Aligned_cols=57 Identities=11% Similarity=0.096 Sum_probs=38.9
Q ss_pred ecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCCCCccchHHHHHhhhcCCCCeEEEEecC
Q 033114 57 VPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPPTGAIMSAIYEEKKDEDGFLYVTYSG 117 (127)
Q Consensus 57 Vp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~ 117 (127)
+..+.||+++...|..+.++++++-= |+.++.....+.++++ |.-. ++.++++.-..
T Consensus 19 v~~~~TV~~lK~~i~~~~gi~~~~Qr-Li~~Gk~L~D~~tL~~-y~i~--~~~~i~l~~~~ 75 (78)
T cd01797 19 LSRLTKVEELREKIQELFNVEPECQR-LFYRGKQMEDGHTLFD-YNVG--LNDIIQLLVRQ 75 (78)
T ss_pred cCCcCcHHHHHHHHHHHhCCCHHHeE-EEeCCEECCCCCCHHH-cCCC--CCCEEEEEEec
Confidence 57789999999999999888775432 3345666667778866 3222 35577776543
No 106
>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=21.82 E-value=1.8e+02 Score=21.46 Aligned_cols=29 Identities=24% Similarity=0.380 Sum_probs=21.9
Q ss_pred cceEEecCCCchHHHHHHHHHhhCCCCCc
Q 033114 52 KKKYLVPADLTVGQFVYVIRKRIKLSAEK 80 (127)
Q Consensus 52 k~KflVp~~~tv~~~~~~lRk~L~l~~~~ 80 (127)
...+.||.+.|+++|-.+|+.-++.....
T Consensus 19 wRri~Vp~~~tl~~Lh~~Iq~afgw~~~H 47 (179)
T PF07929_consen 19 WRRIEVPADITLADLHEVIQAAFGWDDDH 47 (179)
T ss_dssp EEEEEEETT-BHHHHHHHHHHHTT----S
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCcCCCE
Confidence 56789999999999999999999987654
No 107
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=21.78 E-value=1e+02 Score=20.45 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=18.7
Q ss_pred HHHHHhhCCCCCceEEEEEcC
Q 033114 68 YVIRKRIKLSAEKAIFIFVDN 88 (127)
Q Consensus 68 ~~lRk~L~l~~~~slFlyVn~ 88 (127)
.-+|++|++++.+.|-+++..
T Consensus 20 keiR~~lgi~~Gd~lei~~~~ 40 (89)
T COG2002 20 KEIREALGIKEGDVLEIIVDG 40 (89)
T ss_pred HHHHHHhCCCCCCEEEEEEeC
Confidence 568999999999999999974
No 108
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=21.60 E-value=1.9e+02 Score=17.71 Aligned_cols=35 Identities=14% Similarity=0.252 Sum_probs=24.9
Q ss_pred ccceEEecCCCchHHHHHHHHHhhCCCCCceEEEEEcCCC
Q 033114 51 DKKKYLVPADLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL 90 (127)
Q Consensus 51 ~k~KflVp~~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l 90 (127)
..+.+-+++..|+.++... |++++ +.+-+-+|+.+
T Consensus 4 Ng~~~~~~~~~tv~~ll~~----l~~~~-~~v~v~vN~~i 38 (64)
T TIGR01683 4 NGEPVEVEDGLTLAALLES----LGLDP-RRVAVAVNGEI 38 (64)
T ss_pred CCeEEEcCCCCcHHHHHHH----cCCCC-CeEEEEECCEE
Confidence 3456677888898887664 45665 56778899865
No 109
>PF08216 CTNNBL: Catenin-beta-like, Arm-motif containing nuclear; InterPro: IPR013180 This domain is found in eukaryotic proteins. A human nuclear protein with this domain (Q8WYA6 from SWISSPROT) is thought to have a role in apoptosis [].
Probab=21.59 E-value=88 Score=22.26 Aligned_cols=20 Identities=40% Similarity=0.634 Sum_probs=17.6
Q ss_pred CCHHHHHHHHHHHHhhCCCc
Q 033114 15 HDLEKRRAEAARIREKYPDR 34 (127)
Q Consensus 15 ~s~e~R~~e~~~ir~kyP~~ 34 (127)
..||.|...-+..|.|||+.
T Consensus 33 l~fek~i~kN~e~R~K~~dd 52 (108)
T PF08216_consen 33 LSFEKRINKNQEMRIKYPDD 52 (108)
T ss_pred HHHHHHHHHhHHHHHhCCCC
Confidence 46899999999999999974
No 110
>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=21.28 E-value=1.3e+02 Score=24.23 Aligned_cols=52 Identities=15% Similarity=0.193 Sum_probs=40.9
Q ss_pred CCchHHHHHHHHHhhCCCCCceEEEEEcCCC-C--CccchHHHHHhhhcCCCCeEEE
Q 033114 60 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNVL-P--PTGAIMSAIYEEKKDEDGFLYV 113 (127)
Q Consensus 60 ~~tv~~~~~~lRk~L~l~~~~slFlyVn~~l-p--~~~~~m~~lY~~~kd~DGfLYi 113 (127)
..++.+++..|++-|.-.+++.|.|-+++.. + .....|.+.+.... +.+||.
T Consensus 73 ~~~f~dvl~~i~~fl~~~p~e~vIlsl~~~~~~~~~~q~~~~~~~~~~~--g~~l~~ 127 (274)
T cd00137 73 DIFLKEVIEAIAQFLKKNPPETIIMSLKNEVDSMDSFQAKMAEYCRTIF--GDMLLT 127 (274)
T ss_pred CcCHHHHHHHHHHHHHHCCCCeEEEEEEecCCCcHHHHHHHHHHHHHhh--hhhhcc
Confidence 6789999999999999999999999998743 3 56667887777764 335554
No 111
>PF05768 DUF836: Glutaredoxin-like domain (DUF836); InterPro: IPR008554 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This family contains several viral glutaredoxins, and many related bacterial and eukaryotic proteins of unknown function. The best characterised member of this family is G4L (P68460 from SWISSPROT) from Vaccinia virus (strain Western Reserve/WR) (VACV), which is necessary for virion morphogenesis and virus replication []. This is a cytomplasmic protein which functions as a shuttle in a redox pathway between membrane-associated E10R and L1R or F9L []. ; PDB: 1TTZ_A 1XPV_A 2FGX_A 2G2Q_C 1WJK_A.
Probab=21.27 E-value=89 Score=20.04 Aligned_cols=18 Identities=39% Similarity=0.543 Sum_probs=14.3
Q ss_pred HHHHhhCCCcccEEEEcc
Q 033114 25 ARIREKYPDRIPVIVEKA 42 (127)
Q Consensus 25 ~~ir~kyP~~ipVIvE~~ 42 (127)
..+.++|..+|||+.-..
T Consensus 40 ~~l~~~Y~~~IPVl~~~~ 57 (81)
T PF05768_consen 40 PELFEKYGYRIPVLHIDG 57 (81)
T ss_dssp HHHHHHSCTSTSEEEETT
T ss_pred HHHHHHhcCCCCEEEEcC
Confidence 347889999999987544
No 112
>cd08555 PI-PLCc_GDPD_SF Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily. The PI-PLC-like phosphodiesterases superfamily represents the catalytic domains of bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11), glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria, as well as their uncharacterized homologs found in organisms ranging from bacteria and archaea to metazoans, plants, and fungi. PI-PLCs are ubiquitous enzymes hydrolyzing the membrane lipid phosphoinositides to yield two important second messengers, inositol phosphates and diacylglycerol (DAG). GP-GDEs play essential roles in glycerol metabolism and catalyze the hydrolysis of glycerophosph
Probab=21.21 E-value=3.3e+02 Score=19.80 Aligned_cols=55 Identities=9% Similarity=0.015 Sum_probs=39.3
Q ss_pred CCchHHHHHHHHHhhCCCCCceEEEEEcCCCC-----CccchHHHHHhhhc---CCCCeEEEEe
Q 033114 60 DLTVGQFVYVIRKRIKLSAEKAIFIFVDNVLP-----PTGAIMSAIYEEKK---DEDGFLYVTY 115 (127)
Q Consensus 60 ~~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp-----~~~~~m~~lY~~~k---d~DGfLYi~Y 115 (127)
..|+.++...++..+. .+...+.|++.-+-+ .....+.++++++. -.|..++.++
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 4589999999998877 777778888875433 33356778888886 3455666665
No 113
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=21.19 E-value=1.2e+02 Score=24.11 Aligned_cols=100 Identities=11% Similarity=0.106 Sum_probs=55.3
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEccCCCC---------CCCCccc-eEEecCCC---chHHHHHHHHHhhCCCCCc
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKAERSD---------IPNIDKK-KYLVPADL---TVGQFVYVIRKRIKLSAEK 80 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~---------~p~L~k~-KflVp~~~---tv~~~~~~lRk~L~l~~~~ 80 (127)
.-|.+||++-.+..++..++++|||+--...+- +-.+.=. -.++|... +-.++..+.+.=..-. .-
T Consensus 50 ~ls~~Er~~~~~~~~~~~~~~~~vi~gv~~~~~~~~i~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~-~~ 128 (292)
T PRK03170 50 TLTHEEHEELIRAVVEAVNGRVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEAT-DL 128 (292)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCcEEeecCCchHHHHHHHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcC-CC
Confidence 567899999999999999999999986654210 0011111 12233322 2245555554433222 35
Q ss_pred eEEEEEcCC---CCCccchHHHHHhhhcCCCCeEEEEecCC
Q 033114 81 AIFIFVDNV---LPPTGAIMSAIYEEKKDEDGFLYVTYSGE 118 (127)
Q Consensus 81 slFlyVn~~---lp~~~~~m~~lY~~~kd~DGfLYi~Ys~~ 118 (127)
.+++|=+-. ..-+.+.+.+| .++ ..+..+.+++.
T Consensus 129 pv~lYn~P~~~g~~l~~~~~~~L-~~~---p~v~giK~s~~ 165 (292)
T PRK03170 129 PIILYNVPGRTGVDILPETVARL-AEH---PNIVGIKEATG 165 (292)
T ss_pred CEEEEECccccCCCCCHHHHHHH-HcC---CCEEEEEECCC
Confidence 688884321 12223466666 333 45777777654
No 114
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=21.18 E-value=1.2e+02 Score=24.47 Aligned_cols=29 Identities=17% Similarity=0.189 Sum_probs=24.5
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEcc
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKA 42 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~ 42 (127)
.-|.|||++-.+...+.-.+++|||+--.
T Consensus 56 ~Lt~eEr~~~~~~~~~~~~~~~pvi~gv~ 84 (303)
T PRK03620 56 SLTPDEYSQVVRAAVETTAGRVPVIAGAG 84 (303)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCcEEEecC
Confidence 35679999999999988899999998554
No 115
>PF14060 DUF4252: Domain of unknown function (DUF4252)
Probab=21.17 E-value=1.2e+02 Score=21.64 Aligned_cols=25 Identities=16% Similarity=0.340 Sum_probs=20.9
Q ss_pred ccchHHHHHhhhcCCCCeEEEEecC
Q 033114 93 TGAIMSAIYEEKKDEDGFLYVTYSG 117 (127)
Q Consensus 93 ~~~~m~~lY~~~kd~DGfLYi~Ys~ 117 (127)
....+..+|++|++.+|+.+++-+.
T Consensus 20 ~~~~~~~~~~~~~~~~~~~~v~i~~ 44 (155)
T PF14060_consen 20 QGQSLQKYFDKYSENKGVTSVNISK 44 (155)
T ss_pred cchhHHHHHHHhCCCCCeEEEEECH
Confidence 3567889999999999999988653
No 116
>cd08586 PI-PLCc_BcPLC_like Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins. This subfamily corresponds to the catalytic domain present in Bacillus cereus phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13) and its sequence homologs found in bacteria and eukaryota. Bacterial PI-PLCs participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG). Although their precise physiological function remains unclear, bacterial PI-PLCs may function as virulence factors in some pathogenic bacteria. Bacterial PI-PLCs contain a single TIM-barrel type catalytic domain. Their catalytic mechanism is based on general base and acid catalysis utilizing two well conserved histidines, and consists of two steps, a phosphotransfer and a phosphodiesterase reaction. This family also includes some uncharacterized eukaryotic homologs, which
Probab=21.16 E-value=2.1e+02 Score=23.03 Aligned_cols=62 Identities=19% Similarity=0.256 Sum_probs=42.9
Q ss_pred CchHHHHHHHHHhhCCCCCceEEEEEcCCCCC--ccchHHHHHhhhcCCC-CeEEEEecCCcccC
Q 033114 61 LTVGQFVYVIRKRIKLSAEKAIFIFVDNVLPP--TGAIMSAIYEEKKDED-GFLYVTYSGENTFG 122 (127)
Q Consensus 61 ~tv~~~~~~lRk~L~l~~~~slFlyVn~~lp~--~~~~m~~lY~~~kd~D-GfLYi~Ys~~~~fG 122 (127)
.++.++..-+..-|.-.|+|.+.+-+++.-+. .+...+++..++-..+ ...+..-..-++.|
T Consensus 73 ~~~~dvL~~i~~FL~~nP~E~Vil~l~~e~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~PtLg 137 (279)
T cd08586 73 LTFGDVLNECYSFLDANPSETIIMSLKQEGSGDGNTDSFAEIFKEYLDNYPSYFYYTESKIPTLG 137 (279)
T ss_pred CcHHHHHHHHHHHHHhCCCcEEEEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCCCchH
Confidence 57899999999999999999999999875433 5667888877665533 23332333444444
No 117
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=21.05 E-value=1.2e+02 Score=24.26 Aligned_cols=100 Identities=7% Similarity=0.085 Sum_probs=53.3
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEccCCCC---------CCCCcc-ceEEecCCC---chHHHHHHHHHhhCCCCCc
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKAERSD---------IPNIDK-KKYLVPADL---TVGQFVYVIRKRIKLSAEK 80 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~---------~p~L~k-~KflVp~~~---tv~~~~~~lRk~L~l~~~~ 80 (127)
.-|.|||.+-.+..++.-++++|||+--...+- +-.+.= --.++|.-. +-.++..+.+.=..-. .-
T Consensus 53 ~Ls~eEr~~~~~~~~~~~~~~~~viagvg~~~t~~ai~~a~~a~~~Gad~v~v~~P~y~~~~~~~l~~~f~~va~a~-~l 131 (293)
T PRK04147 53 LLSTEEKKQVLEIVAEEAKGKVKLIAQVGSVNTAEAQELAKYATELGYDAISAVTPFYYPFSFEEICDYYREIIDSA-DN 131 (293)
T ss_pred cCCHHHHHHHHHHHHHHhCCCCCEEecCCCCCHHHHHHHHHHHHHcCCCEEEEeCCcCCCCCHHHHHHHHHHHHHhC-CC
Confidence 346799999999999999999999996643210 000000 011222211 2234444444333221 24
Q ss_pred eEEEEEcCC---CCCccchHHHHHhhhcCCCCeEEEEecCC
Q 033114 81 AIFIFVDNV---LPPTGAIMSAIYEEKKDEDGFLYVTYSGE 118 (127)
Q Consensus 81 slFlyVn~~---lp~~~~~m~~lY~~~kd~DGfLYi~Ys~~ 118 (127)
.+++|=+-. ..-..+++.+|-+ .+++..+.+++-
T Consensus 132 Pv~iYn~P~~tg~~l~~~~l~~L~~----~pnvvgiK~s~~ 168 (293)
T PRK04147 132 PMIVYNIPALTGVNLSLDQFNELFT----LPKVIGVKQTAG 168 (293)
T ss_pred CEEEEeCchhhccCCCHHHHHHHhc----CCCEEEEEeCCC
Confidence 688884321 1222346666652 356777887753
No 118
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=21.01 E-value=99 Score=24.48 Aligned_cols=100 Identities=13% Similarity=0.137 Sum_probs=55.9
Q ss_pred cCCHHHHHHHHHHHHhhCCCcccEEEEccCCCC---------CCCCcc-ceEEecCC---CchHHHHHHHHHhhCCCCCc
Q 033114 14 EHDLEKRRAEAARIREKYPDRIPVIVEKAERSD---------IPNIDK-KKYLVPAD---LTVGQFVYVIRKRIKLSAEK 80 (127)
Q Consensus 14 ~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~~---------~p~L~k-~KflVp~~---~tv~~~~~~lRk~L~l~~~~ 80 (127)
.-|.+||++-.+...+.-+.++|||+--...+- +..+.= --.++|.- .+-.++..+.+.=. -..+-
T Consensus 50 ~Lt~~Er~~l~~~~~~~~~~~~~vi~gv~~~st~~~i~~a~~a~~~Gad~v~v~~P~~~~~s~~~l~~y~~~ia-~~~~~ 128 (289)
T PF00701_consen 50 SLTDEERKELLEIVVEAAAGRVPVIAGVGANSTEEAIELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIA-DATDL 128 (289)
T ss_dssp GS-HHHHHHHHHHHHHHHTTSSEEEEEEESSSHHHHHHHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHH-HHSSS
T ss_pred cCCHHHHHHHHHHHHHHccCceEEEecCcchhHHHHHHHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHH-hhcCC
Confidence 457799999999999988999999997654221 001111 12233332 24455555555444 22345
Q ss_pred eEEEEEcC---CCCCccchHHHHHhhhcCCCCeEEEEecCC
Q 033114 81 AIFIFVDN---VLPPTGAIMSAIYEEKKDEDGFLYVTYSGE 118 (127)
Q Consensus 81 slFlyVn~---~lp~~~~~m~~lY~~~kd~DGfLYi~Ys~~ 118 (127)
.+++|-+. ...-...++.+|.+ + +.+-.+.+++-
T Consensus 129 pi~iYn~P~~tg~~ls~~~l~~L~~-~---~nv~giK~s~~ 165 (289)
T PF00701_consen 129 PIIIYNNPARTGNDLSPETLARLAK-I---PNVVGIKDSSG 165 (289)
T ss_dssp EEEEEEBHHHHSSTSHHHHHHHHHT-S---TTEEEEEESSS
T ss_pred CEEEEECCCccccCCCHHHHHHHhc-C---CcEEEEEcCch
Confidence 68888764 22333345566655 3 44666666553
No 119
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=20.75 E-value=1.1e+02 Score=19.77 Aligned_cols=36 Identities=14% Similarity=0.091 Sum_probs=23.7
Q ss_pred CCCchHHHHHHHHHhhC-----CCCCceEEEEEcCCCCCccc
Q 033114 59 ADLTVGQFVYVIRKRIK-----LSAEKAIFIFVDNVLPPTGA 95 (127)
Q Consensus 59 ~~~tv~~~~~~lRk~L~-----l~~~~slFlyVn~~lp~~~~ 95 (127)
...|++++...|..+.. +. ...+-++||..+-+.+.
T Consensus 24 ~~~tv~~l~~~L~~~~~~~~~~~~-~~~~~~aVN~~~~~~~~ 64 (81)
T PRK11130 24 DFPTVEALRQHLAQKGDRWALALE-DGKLLAAVNQTLVSFDH 64 (81)
T ss_pred CCCCHHHHHHHHHHhCccHHhhhc-CCCEEEEECCEEcCCCC
Confidence 34799999999987741 22 33466888876544443
No 120
>COG0669 CoaD Phosphopantetheine adenylyltransferase [Coenzyme metabolism]
Probab=20.74 E-value=2.1e+02 Score=21.82 Aligned_cols=96 Identities=17% Similarity=0.179 Sum_probs=62.0
Q ss_pred cccCCHHHHHHHHHHHHhhCCCcccEEEEccCCC--CCCCCccceEEecCCCchHHHHHHHH-----HhhCCCCCceEEE
Q 033114 12 KQEHDLEKRRAEAARIREKYPDRIPVIVEKAERS--DIPNIDKKKYLVPADLTVGQFVYVIR-----KRIKLSAEKAIFI 84 (127)
Q Consensus 12 K~~~s~e~R~~e~~~ir~kyP~~ipVIvE~~~~~--~~p~L~k~KflVp~~~tv~~~~~~lR-----k~L~l~~~~slFl 84 (127)
+--.|+|||.+-.++.....|+- -|....+= +.-.-...+++|..=-++++|-+-+. ++|.- .=+++||
T Consensus 43 ~plFsleER~~l~~~~~~~l~nV---~V~~f~~Llvd~ak~~~a~~ivRGLR~~sDfeYE~qma~~N~~L~~-eveTvFl 118 (159)
T COG0669 43 KPLFSLEERVELIREATKHLPNV---EVVGFSGLLVDYAKKLGATVLVRGLRAVSDFEYELQMAHMNRKLAP-EVETVFL 118 (159)
T ss_pred CCCcCHHHHHHHHHHHhcCCCce---EEEecccHHHHHHHHcCCCEEEEeccccchHHHHHHHHHHHHhhcc-cccEEEe
Confidence 44578999999999998777663 34343220 11111345789999889988866654 44322 3579999
Q ss_pred EEcCCC-CCccchHHHHHhhhcCCCCeE
Q 033114 85 FVDNVL-PPTGAIMSAIYEEKKDEDGFL 111 (127)
Q Consensus 85 yVn~~l-p~~~~~m~~lY~~~kd~DGfL 111 (127)
.-.... .=.++.+.+|..--+|-++|+
T Consensus 119 ~~s~~~~~iSSs~Vreia~~ggdvs~~V 146 (159)
T COG0669 119 MPSPEYSFISSSLVREIAAFGGDVSEFV 146 (159)
T ss_pred cCCcceehhhHHHHHHHHHhCCCchhhC
Confidence 877543 455666788877776666553
No 121
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=20.40 E-value=2.5e+02 Score=18.02 Aligned_cols=39 Identities=13% Similarity=0.193 Sum_probs=30.6
Q ss_pred CCCccceEEecCCCchHHHHHHHHHhhCCCCC---ceEEEEE
Q 033114 48 PNIDKKKYLVPADLTVGQFVYVIRKRIKLSAE---KAIFIFV 86 (127)
Q Consensus 48 p~L~k~KflVp~~~tv~~~~~~lRk~L~l~~~---~slFlyV 86 (127)
|.-.-+-..|+.+.|..+++..+-++.+++.+ =+||..+
T Consensus 13 ~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~ 54 (90)
T smart00314 13 PGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVL 54 (90)
T ss_pred CCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEe
Confidence 44455667899999999999999999999763 4555555
No 122
>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=20.32 E-value=2.8e+02 Score=20.00 Aligned_cols=51 Identities=4% Similarity=0.036 Sum_probs=35.4
Q ss_pred cceEEecCCCchHHHHHHHHHhhCCCCCc--eEEEEEcC----CCCCccchHHHHHh
Q 033114 52 KKKYLVPADLTVGQFVYVIRKRIKLSAEK--AIFIFVDN----VLPPTGAIMSAIYE 102 (127)
Q Consensus 52 k~KflVp~~~tv~~~~~~lRk~L~l~~~~--slFlyVn~----~lp~~~~~m~~lY~ 102 (127)
...+.+....|+.++...+.+++++...+ +||....+ ..+.++.+|.+.-.
T Consensus 15 ~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~ 71 (207)
T smart00295 15 TLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDV 71 (207)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcC
Confidence 45688999999999999999999996544 33443332 23556666665543
No 123
>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=20.28 E-value=1e+02 Score=21.69 Aligned_cols=26 Identities=15% Similarity=0.390 Sum_probs=19.1
Q ss_pred CceEEEEEcCCC---CCccchHHHHHhhh
Q 033114 79 EKAIFIFVDNVL---PPTGAIMSAIYEEK 104 (127)
Q Consensus 79 ~~slFlyVn~~l---p~~~~~m~~lY~~~ 104 (127)
.+..|+|||+.. +.....+.+.|..+
T Consensus 47 ~~~q~~fVNgR~V~~~~l~~aI~~~Y~~~ 75 (127)
T cd03483 47 KIIFILFINNRLVECSALRRAIENVYANY 75 (127)
T ss_pred CceEEEEEcCCEecCHHHHHHHHHHHHHh
Confidence 467899999964 45566677777776
Done!