Query psy7717
Match_columns 113
No_of_seqs 102 out of 427
Neff 6.0
Searched_HMMs 46136
Date Fri Aug 16 17:00:02 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7717.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7717hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01611 GABARAP Ubiquitin doma 100.0 3.2E-40 7E-45 229.9 10.0 97 16-113 13-112 (112)
2 PF02991 Atg8: Autophagy prote 100.0 1.1E-39 2.4E-44 224.8 8.1 96 17-113 6-104 (104)
3 KOG1654|consensus 100.0 1.1E-38 2.3E-43 220.6 7.5 97 16-113 17-116 (116)
4 cd01612 APG12_C Ubiquitin-like 100.0 3.1E-37 6.7E-42 206.5 11.1 87 27-113 1-87 (87)
5 PTZ00380 microtubule-associate 100.0 8.8E-36 1.9E-40 209.8 8.3 94 16-113 16-111 (121)
6 KOG3439|consensus 100.0 3.8E-33 8.3E-38 193.0 11.4 111 3-113 4-116 (116)
7 PF04110 APG12: Ubiquitin-like 100.0 1.8E-33 3.9E-38 188.4 8.1 87 27-113 1-87 (87)
8 PF04106 APG5: Autophagy prote 97.0 0.0011 2.4E-08 49.9 4.3 85 22-107 105-195 (197)
9 PF11816 DUF3337: Domain of un 96.2 0.069 1.5E-06 43.1 9.9 88 20-108 207-328 (331)
10 PF11976 Rad60-SLD: Ubiquitin- 94.6 0.2 4.4E-06 31.0 6.2 50 42-92 11-60 (72)
11 PF13019 Telomere_Sde2: Telome 94.5 0.32 6.9E-06 36.1 7.8 79 28-106 1-81 (162)
12 PF03671 Ufm1: Ubiquitin fold 91.7 2.2 4.8E-05 27.9 7.6 63 36-99 10-72 (76)
13 KOG2660|consensus 87.0 1.2 2.7E-05 36.4 4.7 73 36-110 158-235 (331)
14 cd06406 PB1_P67 A PB1 domain i 86.3 2.6 5.7E-05 27.8 5.1 51 47-98 16-70 (80)
15 cd00196 UBQ Ubiquitin-like pro 85.8 3.9 8.5E-05 22.0 6.0 44 41-85 7-50 (69)
16 cd01763 Sumo Small ubiquitin-r 85.3 6.1 0.00013 25.6 6.6 63 24-92 8-70 (87)
17 PF00240 ubiquitin: Ubiquitin 82.5 1.8 4E-05 26.2 3.0 47 44-92 8-54 (69)
18 KOG1209|consensus 80.8 3.5 7.5E-05 32.8 4.6 57 41-101 54-114 (289)
19 KOG2976|consensus 80.6 9.9 0.00021 30.4 7.1 80 24-106 180-273 (278)
20 cd01766 Ufm1 Urm1-like ubiquit 78.4 8.5 0.00018 25.4 5.2 66 36-102 10-75 (82)
21 smart00213 UBQ Ubiquitin homol 77.4 7.9 0.00017 22.4 4.6 47 43-91 11-57 (64)
22 cd01790 Herp_N Homocysteine-re 73.2 23 0.00049 23.1 7.2 64 43-107 13-79 (79)
23 PF08154 NLE: NLE (NUC135) dom 71.6 21 0.00046 22.0 6.6 53 28-81 2-56 (65)
24 PF09358 UBA_e1_C: Ubiquitin-a 69.2 4.4 9.6E-05 28.4 2.3 52 45-96 36-94 (125)
25 smart00666 PB1 PB1 domain. Pho 68.3 26 0.00056 21.7 6.8 63 42-104 11-78 (81)
26 cd05992 PB1 The PB1 domain is 67.7 26 0.00056 21.5 7.0 63 43-105 11-79 (81)
27 cd01806 Nedd8 Nebb8-like ubiq 66.0 27 0.00058 21.1 6.5 57 45-107 14-72 (76)
28 cd01769 UBL Ubiquitin-like dom 65.9 24 0.00052 20.5 6.8 56 45-106 11-68 (69)
29 cd01813 UBP_N UBP ubiquitin pr 65.6 31 0.00067 21.6 6.7 56 46-104 14-71 (74)
30 cd01796 DDI1_N DNA damage indu 64.0 32 0.00068 21.2 5.6 57 45-104 13-69 (71)
31 cd01808 hPLIC_N Ubiquitin-like 61.8 34 0.00074 20.8 5.9 58 45-106 13-70 (71)
32 cd01798 parkin_N amino-termina 61.4 34 0.00074 20.7 5.9 57 45-105 12-68 (70)
33 cd01810 ISG15_repeat2 ISG15 ub 59.9 38 0.00083 20.8 5.8 59 45-107 12-70 (74)
34 PF10302 DUF2407: DUF2407 ubiq 59.9 50 0.0011 22.2 8.0 77 28-109 3-95 (97)
35 cd06407 PB1_NLP A PB1 domain i 56.7 26 0.00056 22.8 4.1 50 42-91 10-63 (82)
36 PRK06437 hypothetical protein; 56.1 18 0.00039 22.4 3.2 35 44-83 13-47 (67)
37 PF12436 USP7_ICP0_bdg: ICP0-b 55.4 15 0.00032 28.5 3.2 54 25-78 66-121 (249)
38 COG3343 RpoE DNA-directed RNA 53.0 21 0.00045 26.9 3.5 47 51-113 30-77 (175)
39 cd01807 GDX_N ubiquitin-like d 52.8 42 0.00092 20.6 4.5 55 45-105 14-70 (74)
40 PF11543 UN_NPL4: Nuclear pore 52.6 15 0.00033 23.7 2.5 34 45-79 17-50 (80)
41 PF11470 TUG-UBL1: GLUT4 regul 52.2 31 0.00067 21.6 3.8 41 39-80 4-44 (65)
42 cd01799 Hoil1_N Ubiquitin-like 52.1 53 0.0011 20.7 4.9 44 45-91 16-60 (75)
43 PF00564 PB1: PB1 domain; Int 51.0 57 0.0012 20.1 5.2 54 45-98 15-71 (84)
44 cd01776 Rin1_RA Ubiquitin doma 49.3 39 0.00084 22.7 4.0 37 44-80 16-54 (87)
45 cd01803 Ubiquitin Ubiquitin. U 49.0 47 0.001 19.9 4.3 57 45-107 14-72 (76)
46 PF00788 RA: Ras association ( 48.9 63 0.0014 20.0 6.4 76 30-105 5-89 (93)
47 cd06398 PB1_Joka2 The PB1 doma 48.4 43 0.00093 22.2 4.2 53 43-95 11-72 (91)
48 PF00255 GSHPx: Glutathione pe 48.0 21 0.00046 24.4 2.7 24 86-109 39-62 (108)
49 cd01794 DC_UbP_C dendritic cel 46.8 38 0.00083 21.0 3.6 47 43-91 10-56 (70)
50 TIGR01682 moaD molybdopterin c 44.4 35 0.00077 21.3 3.2 40 44-83 18-60 (80)
51 TIGR01683 thiS thiamine biosyn 43.5 56 0.0012 19.6 3.9 39 42-85 4-42 (64)
52 PF09593 Pathogen_betaC1: Beta 43.5 30 0.00064 24.4 2.9 33 20-52 16-49 (117)
53 PF09379 FERM_N: FERM N-termin 43.4 57 0.0012 19.9 4.0 36 42-77 7-42 (80)
54 PF14533 USP7_C2: Ubiquitin-sp 43.0 24 0.00051 26.7 2.6 67 26-92 17-90 (213)
55 cd01812 BAG1_N Ubiquitin-like 41.8 75 0.0016 18.8 5.5 45 45-91 13-57 (71)
56 COG0386 BtuE Glutathione perox 41.7 20 0.00044 26.6 1.9 36 72-108 26-65 (162)
57 cd00754 MoaD Ubiquitin domain 41.4 34 0.00074 20.9 2.8 40 44-83 18-60 (80)
58 PF05990 DUF900: Alpha/beta hy 40.7 79 0.0017 24.0 5.2 50 56-107 3-55 (233)
59 cd01809 Scythe_N Ubiquitin-lik 40.6 78 0.0017 18.7 4.5 46 44-91 13-58 (72)
60 PF10336 DUF2420: Protein of u 40.2 1.1E+02 0.0024 21.0 5.4 61 51-112 10-97 (113)
61 PF05717 TnpB_IS66: IS66 Orf2 39.9 49 0.0011 22.6 3.5 28 53-80 16-44 (107)
62 PTZ00044 ubiquitin; Provisiona 39.5 81 0.0018 19.1 4.3 57 44-106 13-71 (76)
63 PF14560 Ubiquitin_2: Ubiquiti 39.4 65 0.0014 20.5 3.9 34 43-76 15-49 (87)
64 PF02597 ThiS: ThiS family; I 39.0 54 0.0012 19.8 3.4 42 43-84 13-55 (77)
65 cd01793 Fubi Fubi ubiquitin-li 38.2 95 0.0021 19.0 4.7 61 42-106 9-69 (74)
66 cd01804 midnolin_N Ubiquitin-l 37.2 1.1E+02 0.0023 19.2 7.6 60 44-108 14-73 (78)
67 cd01777 SNX27_RA Ubiquitin dom 35.5 77 0.0017 21.2 3.8 40 42-81 12-55 (87)
68 cd01768 RA RA (Ras-associating 35.1 1.1E+02 0.0023 19.2 4.4 41 39-79 10-53 (87)
69 KOG3483|consensus 35.0 66 0.0014 21.4 3.4 62 36-98 21-82 (94)
70 TIGR02609 doc_partner putative 34.0 32 0.0007 21.7 1.8 21 59-79 16-36 (74)
71 PF08825 E2_bind: E2 binding d 33.6 42 0.0009 22.0 2.3 56 47-105 2-69 (84)
72 cd01805 RAD23_N Ubiquitin-like 33.5 1.1E+02 0.0024 18.5 6.5 57 44-106 13-73 (77)
73 cd00565 ThiS ThiaminS ubiquiti 31.7 96 0.0021 18.6 3.6 39 42-85 5-43 (65)
74 PLN02799 Molybdopterin synthas 31.7 27 0.00059 21.9 1.1 43 41-83 18-62 (82)
75 PF12251 zf-SNAP50_C: snRNA-ac 31.6 53 0.0011 24.7 2.9 38 44-81 2-46 (196)
76 cd01791 Ubl5 UBL5 ubiquitin-li 31.5 1.3E+02 0.0029 18.7 6.2 57 46-106 16-72 (73)
77 KOG4147|consensus 31.5 57 0.0012 23.0 2.8 54 50-110 32-86 (127)
78 smart00148 PLCXc Phospholipase 31.4 69 0.0015 22.3 3.3 32 50-81 67-98 (135)
79 COG5227 SMT3 Ubiquitin-like pr 31.3 1.1E+02 0.0024 20.9 4.1 61 26-92 23-83 (103)
80 PRK13669 hypothetical protein; 29.8 57 0.0012 21.4 2.4 28 71-98 45-74 (78)
81 KOG0010|consensus 29.8 1.5E+02 0.0033 25.8 5.6 64 26-100 14-78 (493)
82 PF09138 Urm1: Urm1 (Ubiquitin 29.4 27 0.00059 23.7 0.9 36 30-65 2-44 (96)
83 PF07929 PRiA4_ORF3: Plasmid p 29.2 1.2E+02 0.0026 21.8 4.4 40 35-76 12-51 (179)
84 PF14836 Ubiquitin_3: Ubiquiti 29.0 1.1E+02 0.0024 20.4 3.7 45 47-91 19-66 (88)
85 cd06411 PB1_p51 The PB1 domain 28.9 1.7E+02 0.0037 19.1 6.0 59 47-105 12-76 (78)
86 cd01792 ISG15_repeat1 ISG15 ub 28.5 1.5E+02 0.0033 18.4 6.3 57 46-107 17-76 (80)
87 cd06408 PB1_NoxR The PB1 domai 28.2 95 0.0021 20.6 3.3 29 45-75 15-43 (86)
88 COG2002 AbrB Regulators of sta 27.4 85 0.0018 20.4 3.0 21 59-79 20-40 (89)
89 PRK02363 DNA-directed RNA poly 27.4 77 0.0017 22.5 2.9 50 49-113 17-66 (129)
90 cd01775 CYR1_RA Ubiquitin doma 26.8 1.5E+02 0.0033 20.2 4.2 35 45-79 16-52 (97)
91 PRK04115 hypothetical protein; 26.3 2E+02 0.0042 20.8 4.9 44 26-76 66-113 (137)
92 PLN02768 AMP deaminase 26.2 1.2E+02 0.0026 28.1 4.5 47 47-99 389-435 (835)
93 PF14829 GPAT_N: Glycerol-3-ph 25.9 25 0.00054 23.1 0.2 35 53-98 10-44 (77)
94 smart00314 RA Ras association 25.6 1.8E+02 0.0039 18.2 4.8 39 39-77 13-54 (90)
95 KOG1651|consensus 25.3 73 0.0016 23.9 2.6 36 72-107 35-74 (171)
96 cd01760 RBD Ubiquitin-like dom 25.2 1.9E+02 0.0041 18.3 5.1 55 38-92 6-62 (72)
97 PF00388 PI-PLC-X: Phosphatidy 25.1 57 0.0012 22.6 1.9 32 50-81 65-96 (146)
98 PF04014 Antitoxin-MazE: Antid 24.7 1.2E+02 0.0026 17.1 3.0 21 59-79 13-33 (47)
99 cd08555 PI-PLCc_GDPD_SF Cataly 24.7 2.6E+02 0.0057 19.8 5.8 55 51-106 59-121 (179)
100 cd08590 PI-PLCc_Rv2075c_like C 24.2 1.7E+02 0.0036 23.0 4.6 34 51-84 87-120 (267)
101 TIGR01429 AMP_deaminase AMP de 24.0 1.3E+02 0.0027 26.9 4.2 46 47-98 177-222 (611)
102 PF07293 DUF1450: Protein of u 23.7 80 0.0017 20.5 2.3 27 71-97 45-73 (78)
103 PRK08577 hypothetical protein; 23.3 1E+02 0.0022 21.3 2.9 22 59-80 19-40 (136)
104 cd06396 PB1_NBR1 The PB1 domai 23.3 2.3E+02 0.0049 18.6 6.2 62 42-106 10-78 (81)
105 smart00295 B41 Band 4.1 homolo 23.1 2.8E+02 0.006 19.5 6.8 51 43-93 15-70 (207)
106 PRK05863 sulfur carrier protei 22.5 1.4E+02 0.0031 18.0 3.2 39 44-87 8-46 (65)
107 PF02645 DegV: Uncharacterised 22.4 1E+02 0.0022 23.9 3.0 55 44-109 34-91 (280)
108 PF01650 Peptidase_C13: Peptid 21.9 1.2E+02 0.0025 23.7 3.3 30 50-79 78-115 (256)
109 PF12436 USP7_ICP0_bdg: ICP0-b 21.6 3.4E+02 0.0074 20.8 5.8 50 27-79 176-227 (249)
110 PRK08053 sulfur carrier protei 21.6 1.2E+02 0.0026 18.3 2.8 38 43-85 7-44 (66)
111 cd01789 Alp11_N Ubiquitin-like 21.4 2.3E+02 0.005 18.0 6.2 34 46-79 17-51 (84)
112 cd03483 MutL_Trans_MLH1 MutL_T 21.1 93 0.002 21.4 2.4 28 70-97 47-76 (127)
113 PF14533 USP7_C2: Ubiquitin-sp 20.8 1.1E+02 0.0023 23.1 2.8 64 43-106 134-206 (213)
114 cd01319 AMPD AMP deaminase (AM 20.7 1.5E+02 0.0033 25.6 4.0 47 46-98 65-111 (496)
115 TIGR00601 rad23 UV excision re 20.6 4.6E+02 0.01 21.8 6.7 60 45-108 14-76 (378)
116 PLN03055 AMP deaminase; Provis 20.3 1.7E+02 0.0037 26.0 4.3 47 47-99 156-202 (602)
No 1
>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=3.2e-40 Score=229.94 Aligned_cols=97 Identities=30% Similarity=0.590 Sum_probs=93.1
Q ss_pred CCccccccCCCeeEEEEEec--CCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHH
Q psy7717 16 SSPSIGAEAKVKVPILLRAT--GDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALY 93 (113)
Q Consensus 16 ~~~~i~~k~p~kVpVi~e~~--~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY 93 (113)
.+..||+|||+|||||||+. +++|.|+++||+||+++||++|+.+||++|++++++||||||||. +|++|++||+||
T Consensus 13 e~~~ir~kyp~~iPVIvE~~~~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~-~p~~~~~~~~lY 91 (112)
T cd01611 13 EVERIRAKYPDRIPVIVERYPKSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNS-LPPTSATMSQLY 91 (112)
T ss_pred HHHHHHHHCCCceEEEEEEcCCCCcccccCceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCc-cCCchhHHHHHH
Confidence 35679999999999999975 799999999999999999999999999999999999999999995 799999999999
Q ss_pred HhcCC-CCEEEEEEccccccC
Q psy7717 94 DSFAT-NGSLVLNYCKTQAWG 113 (113)
Q Consensus 94 ~~~kd-DGfLyi~Ys~~~afG 113 (113)
++|+| ||||||+||+++|||
T Consensus 92 ~~~kd~DGfLyl~Ys~~~tfG 112 (112)
T cd01611 92 EEHKDEDGFLYMTYSSEETFG 112 (112)
T ss_pred HHhCCCCCEEEEEEeccccCC
Confidence 99999 999999999999999
No 2
>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....
Probab=100.00 E-value=1.1e-39 Score=224.75 Aligned_cols=96 Identities=29% Similarity=0.591 Sum_probs=84.6
Q ss_pred CccccccCCCeeEEEEEec--CCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHH
Q psy7717 17 SPSIGAEAKVKVPILLRAT--GDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYD 94 (113)
Q Consensus 17 ~~~i~~k~p~kVpVi~e~~--~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~ 94 (113)
+..||+|||+|||||||+. +++|.|+++|||||.++||+||+..||++|+++++++||||||| .+|+++++||+||+
T Consensus 6 ~~~ir~kyP~~IPVIvEr~~~s~lp~ldk~KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~-~lp~~s~tm~elY~ 84 (104)
T PF02991_consen 6 SERIREKYPDKIPVIVERYPKSKLPDLDKKKFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNN-TLPSTSSTMGELYE 84 (104)
T ss_dssp HHHHHHHSTTEEEEEEEE-TTSSS---SSSEEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTT-BESSTTSBHHHHHH
T ss_pred HHHHHHHCCCccEEEEEEccCCChhhcCccEEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcC-cccchhhHHHHHHH
Confidence 4679999999999999986 56999999999999999999999999999999999999999999 57999999999999
Q ss_pred hcCC-CCEEEEEEccccccC
Q psy7717 95 SFAT-NGSLVLNYCKTQAWG 113 (113)
Q Consensus 95 ~~kd-DGfLyi~Ys~~~afG 113 (113)
+||| ||||||+||++++||
T Consensus 85 ~~kdeDGFLY~~Ys~e~tFG 104 (104)
T PF02991_consen 85 KYKDEDGFLYMTYSSEETFG 104 (104)
T ss_dssp HHB-TTSSEEEEEESSSSBC
T ss_pred HhCCCCCeEEEEeccccccC
Confidence 9999 999999999999999
No 3
>KOG1654|consensus
Probab=100.00 E-value=1.1e-38 Score=220.64 Aligned_cols=97 Identities=28% Similarity=0.557 Sum_probs=92.1
Q ss_pred CCccccccCCCeeEEEEEec--CCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHH
Q psy7717 16 SSPSIGAEAKVKVPILLRAT--GDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALY 93 (113)
Q Consensus 16 ~~~~i~~k~p~kVpVi~e~~--~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY 93 (113)
.+..||+|||+|||||+|.. +++|.|+|+|||||.++||+||+..|||||+|++++++||+|||.. |..+++|++||
T Consensus 17 E~~~Ir~kyP~riPVIvEk~~~~~lp~lDK~KyLVP~dltvgqfi~iIRkRiqL~~~kA~flfVn~~~-p~ts~~ms~~Y 95 (116)
T KOG1654|consen 17 EVRRIREKYPDRIPVIVEKAGKSQLPDLDKKKYLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFVNNTS-PPTSATMSALY 95 (116)
T ss_pred HHHHHHHHCCCCCcEEEEecccccCcccccceeeccccccHHHHHHHHHHHhccChhHeEEEEEcCcC-CcchhhHHHHH
Confidence 46779999999999999976 5899999999999999999999999999999999999999999975 66699999999
Q ss_pred HhcCC-CCEEEEEEccccccC
Q psy7717 94 DSFAT-NGSLVLNYCKTQAWG 113 (113)
Q Consensus 94 ~~~kd-DGfLyi~Ys~~~afG 113 (113)
+++|| ||||||+||++++||
T Consensus 96 e~~kdeDgFLYm~Ys~e~tfG 116 (116)
T KOG1654|consen 96 EEEKDEDGFLYMTYSGENTFG 116 (116)
T ss_pred HhhcccCcEEEEEeccccccC
Confidence 99999 999999999999999
No 4
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=100.00 E-value=3.1e-37 Score=206.54 Aligned_cols=87 Identities=46% Similarity=0.877 Sum_probs=85.2
Q ss_pred eeEEEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEE
Q psy7717 27 KVPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNY 106 (113)
Q Consensus 27 kVpVi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Y 106 (113)
||.|.|+++|++|+|+++||+||+++||++|+.+||++|+++++++|||||||+|+|++|++||+||++|++||||||+|
T Consensus 1 kv~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Y 80 (87)
T cd01612 1 KVTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSY 80 (87)
T ss_pred CeEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999995599999999
Q ss_pred ccccccC
Q psy7717 107 CKTQAWG 113 (113)
Q Consensus 107 s~~~afG 113 (113)
|.++|||
T Consensus 81 s~~~afG 87 (87)
T cd01612 81 CKTVAFG 87 (87)
T ss_pred eCccccC
Confidence 9999999
No 5
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=100.00 E-value=8.8e-36 Score=209.84 Aligned_cols=94 Identities=18% Similarity=0.284 Sum_probs=87.5
Q ss_pred CCccccccCCCeeEEEEEecCCCCCcccceE-EecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHH
Q psy7717 16 SSPSIGAEAKVKVPILLRATGDAPILTKKKW-LVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYD 94 (113)
Q Consensus 16 ~~~~i~~k~p~kVpVi~e~~~~~P~L~k~Kf-lV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~ 94 (113)
.+..||+|||+|||||+|+.++.- +|+|| +||.++||+||+..||+||+|++++ +||||||. +|+++++||+||+
T Consensus 16 e~~~Ir~kyPdrIPVIvEk~~~s~--dK~KfllVP~d~tV~qF~~iIRkrl~l~~~k-~flfVnn~-lp~~s~~mg~lYe 91 (121)
T PTZ00380 16 ECARLQAKYPGHVAVVVEAAEKAG--SKVHFLALPRDATVAELEAAVRQALGTSAKK-VTLAIEGS-TPAVTATVGDIAD 91 (121)
T ss_pred HHHHHHHHCCCccEEEEeecCCCC--CceEEEEcCCCCcHHHHHHHHHHHcCCChhH-EEEEECCc-cCCccchHHHHHH
Confidence 356799999999999999976554 78999 6999999999999999999999999 99999995 5999999999999
Q ss_pred hcCC-CCEEEEEEccccccC
Q psy7717 95 SFAT-NGSLVLNYCKTQAWG 113 (113)
Q Consensus 95 ~~kd-DGfLyi~Ys~~~afG 113 (113)
+||| ||||||+||++++||
T Consensus 92 ~~KDeDGFLYi~Ys~e~tFG 111 (121)
T PTZ00380 92 ACKRDDGFLYVSVRTEQAMG 111 (121)
T ss_pred HhcCCCCeEEEEEccccccc
Confidence 9999 999999999999999
No 6
>KOG3439|consensus
Probab=100.00 E-value=3.8e-33 Score=192.98 Aligned_cols=111 Identities=50% Similarity=0.822 Sum_probs=99.0
Q ss_pred cccccCCCCCCCCCCccccccCC--CeeEEEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCc
Q psy7717 3 EEITDNTPEGSAPSSPSIGAEAK--VKVPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQS 80 (113)
Q Consensus 3 ~~~~~~~~~~~~~~~~~i~~k~p--~kVpVi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~ 80 (113)
||-+++.|.+++..-..-++..+ .||.|.++++|++|+|+++||.|++++||+.++.||||.|+|+++++|||||||+
T Consensus 4 ~~~~~~~~t~~~~~~~t~~~~~~~~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~s 83 (116)
T KOG3439|consen 4 EEQIETIPTSAATSKATESASEKNIRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNS 83 (116)
T ss_pred ccccccCCccccccccccccCCCCcceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCc
Confidence 34456666666664333334334 7999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCccchHHHHHHhcCCCCEEEEEEccccccC
Q psy7717 81 FAPSPDTTIRALYDSFATNGSLVLNYCKTQAWG 113 (113)
Q Consensus 81 ~~P~~d~t~~~LY~~~kdDGfLyi~Ys~~~afG 113 (113)
|+|+||+++|+||+||+.||.|.++||..+|||
T Consensus 84 FAPsPDq~v~~Ly~cf~~d~~Lvl~Yc~s~A~G 116 (116)
T KOG3439|consen 84 FAPSPDQIVGNLYECFGTDGKLVLNYCISVAWG 116 (116)
T ss_pred cCCCchhHHHHHHHhcCCCCEEEEEEeeecccC
Confidence 999999999999999999999999999999999
No 7
>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=100.00 E-value=1.8e-33 Score=188.35 Aligned_cols=87 Identities=51% Similarity=0.953 Sum_probs=68.4
Q ss_pred eeEEEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEE
Q psy7717 27 KVPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNY 106 (113)
Q Consensus 27 kVpVi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Y 106 (113)
||.|.|+++|++|+|+++||+|.++.+|+.++.||||+|+++++++||+|||++|+|++|+++|+||+||+.||.|.|+|
T Consensus 1 KV~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~~~~~Liv~Y 80 (87)
T PF04110_consen 1 KVTVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFGTNGELIVSY 80 (87)
T ss_dssp EEEEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH-BTTBEEEEE
T ss_pred CEEEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhCCCCEEEEEE
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccC
Q psy7717 107 CKTQAWG 113 (113)
Q Consensus 107 s~~~afG 113 (113)
|.++|||
T Consensus 81 s~t~A~G 87 (87)
T PF04110_consen 81 SKTPAWG 87 (87)
T ss_dssp ESSS---
T ss_pred ecccccC
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=96.98 E-value=0.0011 Score=49.93 Aligned_cols=85 Identities=18% Similarity=0.246 Sum_probs=42.5
Q ss_pred ccCCCeeEEEEEecCCCCCcccceEEecCC---ccHHhHHHHHHhhh--CCCCCCeEEEEEcCccCCCccchHHHHHHhc
Q psy7717 22 AEAKVKVPILLRATGDAPILTKKKWLVHVD---QNVASIISFTKKSI--KMDPSESLFIYVNQSFAPSPDTTIRALYDSF 96 (113)
Q Consensus 22 ~k~p~kVpVi~e~~~~~P~L~k~KflV~~~---~tv~~~~~~lrk~L--~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~ 96 (113)
.....+|||++--.+..|.++...-....+ .|+++++..+=-.+ .-+...-..++|++ +.++.|+.+..||+++
T Consensus 105 ~~~~r~IPiRiy~~~~~~~iQ~~i~~~~~~g~~~TL~d~L~~~lp~~f~s~~~~~~~~~iihG-I~ipldtpl~~l~~~l 183 (197)
T PF04106_consen 105 PSKFRHIPIRIYLPGSVPVIQPPIPPIKEDGQPQTLGDALSELLPELFPSSDEPELARVIIHG-IEIPLDTPLQWLYENL 183 (197)
T ss_dssp -SS-SB--EEEEE-SS--EE----B----TT---BTGGGHHHHHTTT--T------EEEEETT-EEE-TTSBHHHHHHHH
T ss_pred CCCcceeEEEEEeCCCcceEecccccccCCCCcCcHHHHHHHhChhhcccccCccccEEEEeC-eeCCCCCcHHHHHHHc
Confidence 456678999999877766665544333222 35665554442221 11233457778888 4577899999999999
Q ss_pred CC-CCEEEEEEc
Q psy7717 97 AT-NGSLVLNYC 107 (113)
Q Consensus 97 kd-DGfLyi~Ys 107 (113)
.- ||||||.-+
T Consensus 184 ~~~D~FLhivv~ 195 (197)
T PF04106_consen 184 SYPDGFLHIVVR 195 (197)
T ss_dssp --TTS-EEEEEE
T ss_pred cCCCCeEEEEEE
Confidence 99 999999753
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=96.17 E-value=0.069 Score=43.08 Aligned_cols=88 Identities=23% Similarity=0.399 Sum_probs=71.1
Q ss_pred ccccCCCeeEEEEEec-CCC-CCcccc-----------------eEEecCCccHHhHHHHHHhhh--------------C
Q psy7717 20 IGAEAKVKVPILLRAT-GDA-PILTKK-----------------KWLVHVDQNVASIISFTKKSI--------------K 66 (113)
Q Consensus 20 i~~k~p~kVpVi~e~~-~~~-P~L~k~-----------------KflV~~~~tv~~~~~~lrk~L--------------~ 66 (113)
+-.+.+.||..++.+. +.. |.+++- |.-.+.-+.|..+..+|-.|+ .
T Consensus 207 ~p~ke~~Ki~F~L~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~ 286 (331)
T PF11816_consen 207 IPPKEPPKISFVLQPWDGSLPPNLKPDGKSQKKIKLPPLSEGNSRLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKK 286 (331)
T ss_pred CCCCCCCeeEEEEeecCCCCccccCCCccccccccccccccccceecccchhhhHHHHHHHHHHhccCccccCccccccC
Confidence 3345678999999986 333 445554 888889999999999999999 4
Q ss_pred CCCCCeEEEEEcCccCCCccchHHHHHHh-cCCCCEEEEEEcc
Q psy7717 67 MDPSESLFIYVNQSFAPSPDTTIRALYDS-FATNGSLVLNYCK 108 (113)
Q Consensus 67 l~~~~sLFlyVnn~~~P~~d~t~~~LY~~-~kdDGfLyi~Ys~ 108 (113)
+.+++.|=|+||+..+|+ ++||+.+=.. .|..|-|.|.|..
T Consensus 287 ~~p~e~lEl~C~gqvL~~-~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 287 LKPEEWLELLCNGQVLPP-DMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred CCCCceEEEEeCCeEcCC-cCCHHHHHHhhccCCCeEEEEEEe
Confidence 578899999999987554 9999999888 5569999999964
No 10
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=94.63 E-value=0.2 Score=30.95 Aligned_cols=50 Identities=20% Similarity=0.239 Sum_probs=39.1
Q ss_pred ccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHH
Q psy7717 42 TKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRAL 92 (113)
Q Consensus 42 ~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~L 92 (113)
+.-.|.|..+.+|+.++...+++.++++.+++-|+.++.- -.+++|++++
T Consensus 11 ~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~-L~~~~T~~~~ 60 (72)
T PF11976_consen 11 KEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKR-LDPNDTPEDL 60 (72)
T ss_dssp EEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEE-E-TTSCHHHH
T ss_pred CEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEE-cCCCCCHHHC
Confidence 3667899999999999999999999998567777777754 3446777765
No 11
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=94.48 E-value=0.32 Score=36.10 Aligned_cols=79 Identities=14% Similarity=0.254 Sum_probs=58.3
Q ss_pred eEEEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEc-C-ccCCCccchHHHHHHhcCCCCEEEEE
Q psy7717 28 VPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVN-Q-SFAPSPDTTIRALYDSFATNGSLVLN 105 (113)
Q Consensus 28 VpVi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVn-n-~~~P~~d~t~~~LY~~~kdDGfLyi~ 105 (113)
|.|.|......+.-...-+-+|.+.|++++...|..++.......++|+++ | .+.+..+..+..+.....+.+|+.+.
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~ 80 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLR 80 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEE
Confidence 346666554433335556779999999999999999999888877778875 3 45577788888888777666776665
Q ss_pred E
Q psy7717 106 Y 106 (113)
Q Consensus 106 Y 106 (113)
.
T Consensus 81 l 81 (162)
T PF13019_consen 81 L 81 (162)
T ss_pred E
Confidence 4
No 12
>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=91.74 E-value=2.2 Score=27.88 Aligned_cols=63 Identities=19% Similarity=0.324 Sum_probs=47.9
Q ss_pred CCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCC
Q psy7717 36 GDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATN 99 (113)
Q Consensus 36 ~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdD 99 (113)
+.=|.+--+.+-||++..|..++++--...++++..+.-+ -|+-.-..|.+|.|+++-+|+.+
T Consensus 10 tsDp~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiI-tndG~GInP~QTag~vflKhGse 72 (76)
T PF03671_consen 10 TSDPKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAII-TNDGVGINPQQTAGNVFLKHGSE 72 (76)
T ss_dssp STSSTS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEE-ESSS-EE-TTSBHHHHHHHT-SE
T ss_pred ccCCCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEEE-ecCCcccccchhhhhhHhhcCcE
Confidence 4557778899999999999999999999999999888433 33334567789999999999864
No 13
>KOG2660|consensus
Probab=87.04 E-value=1.2 Score=36.42 Aligned_cols=73 Identities=14% Similarity=0.236 Sum_probs=57.7
Q ss_pred CCCCCcccceEE-ecCCccHHhHHHHHHhhhC-CCCCCeEEEEEcCccCCCccchHHHHHHhcCC---CCEEEEEEcccc
Q psy7717 36 GDAPILTKKKWL-VHVDQNVASIISFTKKSIK-MDPSESLFIYVNQSFAPSPDTTIRALYDSFAT---NGSLVLNYCKTQ 110 (113)
Q Consensus 36 ~~~P~L~k~Kfl-V~~~~tv~~~~~~lrk~L~-l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd---DGfLyi~Ys~~~ 110 (113)
+..+.|. ++|+ +++..|+.++..|+++++. ++.--.+=+++|+-. -.-+.|+.++..-+.. ||-|.+.|...+
T Consensus 158 ~~~k~l~-~~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~~-l~~~~TLk~i~~~~~~~~r~~pL~l~y~v~p 235 (331)
T KOG2660|consen 158 DTLKDLV-RRFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEEL-LGDYYTLKDIAYAYRWRSRDPPLPLRYRVKP 235 (331)
T ss_pred ccccccc-cceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCcc-ccchhhhhhhhhhhcccccCCcceeEecccc
Confidence 3455555 4555 8888999999999999998 666666778888754 6678999999888876 999999998543
No 14
>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=86.30 E-value=2.6 Score=27.83 Aligned_cols=51 Identities=10% Similarity=0.127 Sum_probs=38.9
Q ss_pred EecCCccHHhHHHHHHhhhCCCCCCeEEEEEc----CccCCCccchHHHHHHhcCC
Q psy7717 47 LVHVDQNVASIISFTKKSIKMDPSESLFIYVN----QSFAPSPDTTIRALYDSFAT 98 (113)
Q Consensus 47 lV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVn----n~~~P~~d~t~~~LY~~~kd 98 (113)
-||.+.+++++..-|++||++++ +.+.|.-. +.+.|-.|+.|.+.+.+=++
T Consensus 16 rvp~~~~y~~L~~ki~~kLkl~~-e~i~LsYkde~s~~~v~l~d~dle~aws~~~~ 70 (80)
T cd06406 16 QVARGLSYATLLQKISSKLELPA-EHITLSYKSEASGEDVILSDTNMEDVWSQAKD 70 (80)
T ss_pred EcCCCCCHHHHHHHHHHHhCCCc-hhcEEEeccCCCCCccCcChHHHHHHHHhhcC
Confidence 57899999999999999999984 55666543 24456678888888876543
No 15
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=85.79 E-value=3.9 Score=22.01 Aligned_cols=44 Identities=20% Similarity=0.203 Sum_probs=33.6
Q ss_pred cccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCc
Q psy7717 41 LTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSP 85 (113)
Q Consensus 41 L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~ 85 (113)
-....+.++.+.|++++...|..+.+.. .+...|++++...+..
T Consensus 7 ~~~~~~~~~~~~tv~~l~~~i~~~~~~~-~~~~~l~~~~~~~~~~ 50 (69)
T cd00196 7 GKTVELLVPSGTTVADLKEKLAKKLGLP-PEQQRLLVNGKILPDS 50 (69)
T ss_pred CCEEEEEcCCCCcHHHHHHHHHHHHCcC-hHHeEEEECCeECCCC
Confidence 4556678888999999999999998854 4567777888665543
No 16
>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=85.34 E-value=6.1 Score=25.59 Aligned_cols=63 Identities=6% Similarity=0.062 Sum_probs=47.5
Q ss_pred CCCeeEEEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHH
Q psy7717 24 AKVKVPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRAL 92 (113)
Q Consensus 24 ~p~kVpVi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~L 92 (113)
.+.+|.|.|... .-+...|.|..+.+++.++..+..+.++++++--|+|=+.. -..+.|++++
T Consensus 8 ~~~~i~I~v~~~----~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~--L~~~~T~~~l 70 (87)
T cd01763 8 ISEHINLKVKGQ----DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQR--IRDNQTPDDL 70 (87)
T ss_pred CCCeEEEEEECC----CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeE--CCCCCCHHHc
Confidence 457888888543 22456799999999999999999999999876666665444 3446777776
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=82.51 E-value=1.8 Score=26.16 Aligned_cols=47 Identities=17% Similarity=0.124 Sum_probs=37.3
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHH
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRAL 92 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~L 92 (113)
-.+.|+.+.||+++-..|..+.+++++ .+-|+.++..+ ..+.+++++
T Consensus 8 ~~~~v~~~~tV~~lK~~i~~~~~~~~~-~~~L~~~G~~L-~d~~tL~~~ 54 (69)
T PF00240_consen 8 FTLEVDPDDTVADLKQKIAEETGIPPE-QQRLIYNGKEL-DDDKTLSDY 54 (69)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTSTGG-GEEEEETTEEE-STTSBTGGG
T ss_pred EEEEECCCCCHHHhhhhcccccccccc-cceeeeeeecc-cCcCcHHHc
Confidence 346799999999999999999998775 45666688775 667788764
No 18
>KOG1209|consensus
Probab=80.83 E-value=3.5 Score=32.76 Aligned_cols=57 Identities=25% Similarity=0.255 Sum_probs=47.9
Q ss_pred cccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCc----cCCCccchHHHHHHhcCCCCE
Q psy7717 41 LTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQS----FAPSPDTTIRALYDSFATNGS 101 (113)
Q Consensus 41 L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~----~~P~~d~t~~~LY~~~kdDGf 101 (113)
|+..|.-|.++..|.++..++|+- +..+|-+++||. ..|..|.+++++=++|+.+=|
T Consensus 54 l~~~kLDV~~~~~V~~v~~evr~~----~~Gkld~L~NNAG~~C~~Pa~d~~i~ave~~f~vNvf 114 (289)
T KOG1209|consen 54 LKPYKLDVSKPEEVVTVSGEVRAN----PDGKLDLLYNNAGQSCTFPALDATIAAVEQCFKVNVF 114 (289)
T ss_pred CeeEEeccCChHHHHHHHHHHhhC----CCCceEEEEcCCCCCcccccccCCHHHHHhhhcccee
Confidence 677888899999999999999985 446888999983 458999999999999997433
No 19
>KOG2976|consensus
Probab=80.57 E-value=9.9 Score=30.41 Aligned_cols=80 Identities=13% Similarity=0.249 Sum_probs=48.7
Q ss_pred CCCeeEEEEEe--cCCCCCcccce---EEecCCccHHhHHHHHHhhhC--------CCCCCeEEEEEcCccCCCccchHH
Q psy7717 24 AKVKVPILLRA--TGDAPILTKKK---WLVHVDQNVASIISFTKKSIK--------MDPSESLFIYVNQSFAPSPDTTIR 90 (113)
Q Consensus 24 ~p~kVpVi~e~--~~~~P~L~k~K---flV~~~~tv~~~~~~lrk~L~--------l~~~~sLFlyVnn~~~P~~d~t~~ 90 (113)
.+.+||+++.- ...+...++.- +.-.++-+.+.+=.+|.+++. ...++. +.|.+ +-+...+.+.
T Consensus 180 ~~r~IPL~iy~sq~~t~r~f~~~~~~P~~~~~d~~~stlge~l~d~~~~s~~s~d~~~~~~~--viihG-Iei~l~tpL~ 256 (278)
T KOG2976|consen 180 RSRHIPLRIYTSQVKTARDFRTSLTFPCISQPDGSLSTLGEFLKDRLPDSLDSKDDINGNDP--VIIHG-IEIPLHTPLY 256 (278)
T ss_pred ccccceeEeeccccccccchhhccccceeecCchhhhhhhHHHHhhcccccCccccccccCc--eEEec-ccccccchHH
Confidence 56778888871 11111111100 122234555566667777764 222233 55666 5688899999
Q ss_pred HHHHhcCC-CCEEEEEE
Q psy7717 91 ALYDSFAT-NGSLVLNY 106 (113)
Q Consensus 91 ~LY~~~kd-DGfLyi~Y 106 (113)
.||++..- ||||||+.
T Consensus 257 ~l~~~L~ypD~FLHI~l 273 (278)
T KOG2976|consen 257 WLYSNLSYPDGFLHIVL 273 (278)
T ss_pred HHHhhccCCCcceEEEE
Confidence 99999999 99999975
No 20
>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=78.44 E-value=8.5 Score=25.35 Aligned_cols=66 Identities=18% Similarity=0.244 Sum_probs=52.5
Q ss_pred CCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEE
Q psy7717 36 GDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSL 102 (113)
Q Consensus 36 ~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfL 102 (113)
.+-|.|--+...||++..|..+++|--...+.++..| -+.-|.-+=.++.++-|+++-+|+.|--|
T Consensus 10 tSdp~lpfkvlsVpE~aPftAvlkfaAEeFkv~~~Ts-AiiTndGvGINP~qtAGnvflkhgselrl 75 (82)
T cd01766 10 TSDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATS-AIITNDGIGINPAQTAGNVFLKHGSELRL 75 (82)
T ss_pred cCCCCCcceEEeccccCchHHHHHHHHHhcCCCccce-eEEecCccccChhhcccceeeecCCEeee
Confidence 3445666788899999999999999999999998888 34455555677889999999988875444
No 21
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=77.37 E-value=7.9 Score=22.43 Aligned_cols=47 Identities=9% Similarity=0.003 Sum_probs=34.1
Q ss_pred cceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHH
Q psy7717 43 KKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRA 91 (113)
Q Consensus 43 k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~ 91 (113)
...+.|+.+.|++++...|.++.+++++ .+=|++++.. ...+.++++
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~-~~~L~~~g~~-L~d~~tL~~ 57 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVE-QQRLIYKGKV-LEDDRTLAD 57 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHH-HEEEEECCEE-CCCCCCHHH
Confidence 4457799999999999999999998765 3445566654 333556654
No 22
>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=73.22 E-value=23 Score=23.09 Aligned_cols=64 Identities=6% Similarity=0.019 Sum_probs=42.9
Q ss_pred cceEEe--cCCccHHhHHHHHHhhhC-CCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEEc
Q psy7717 43 KKKWLV--HVDQNVASIISFTKKSIK-MDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNYC 107 (113)
Q Consensus 43 k~KflV--~~~~tv~~~~~~lrk~L~-l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Ys 107 (113)
+.-|.| ..+.||+++-..|....+ ..+-+..=|.-.++++ ..++|+++..+.-+++--+++-|+
T Consensus 13 ~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiL-kD~~tL~~~~~~~~~~~tiHLV~~ 79 (79)
T cd01790 13 YEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLL-PDHLKLRDVLRKQDEYHMVHLVCA 79 (79)
T ss_pred eEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeec-cchhhHHHHhhcccCCceEEEEeC
Confidence 334666 789999999999988764 2222333344455564 678899999877555556776653
No 23
>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=71.60 E-value=21 Score=22.02 Aligned_cols=53 Identities=8% Similarity=0.075 Sum_probs=39.3
Q ss_pred eEEEEEec-CCCCCcccceEEecCCccHHhHHHHHHhhh-CCCCCCeEEEEEcCcc
Q psy7717 28 VPILLRAT-GDAPILTKKKWLVHVDQNVASIISFTKKSI-KMDPSESLFIYVNQSF 81 (113)
Q Consensus 28 VpVi~e~~-~~~P~L~k~KflV~~~~tv~~~~~~lrk~L-~l~~~~sLFlyVnn~~ 81 (113)
|.|.|... ++ ..+...-+.||.+.+..++-..+.+-| ........=+|||+.+
T Consensus 2 v~v~F~t~~~~-~~~~~~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~~ 56 (65)
T PF08154_consen 2 VQVQFVTEDGE-YEVPGTPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGEE 56 (65)
T ss_pred EEEEEEcCCCC-ccCCCCCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCEE
Confidence 55556543 32 355668899999999999999999988 5555566667888865
No 24
>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=69.22 E-value=4.4 Score=28.41 Aligned_cols=52 Identities=13% Similarity=0.231 Sum_probs=32.7
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCC----CeEEEEEcC---ccCCCccchHHHHHHhc
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPS----ESLFIYVNQ---SFAPSPDTTIRALYDSF 96 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~----~sLFlyVnn---~~~P~~d~t~~~LY~~~ 96 (113)
+|.|+.++|+++|++.++++.++... ..-.||..- ...=..+++|.+|++.-
T Consensus 36 r~~v~~~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~f~~~~~~~rl~~~i~elv~~v 94 (125)
T PF09358_consen 36 RIEVNGDMTLQELIDYFKEKYGLEVTMLSQGVSLLYSSFPPPKHKERLKMPISELVEEV 94 (125)
T ss_dssp EEEEES--BHHHHHHHHHHTTS-EEEEEEETTEEEEETT-HHHHHHHTTSBHHHHHHHH
T ss_pred EEEEcCCCCHHHHHHHHHHHhCceEEEEEeCCEEEEecCChhhhHHHhCCcHHHHHHHh
Confidence 57888899999999999999987532 222333322 00112478899999964
No 25
>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=68.26 E-value=26 Score=21.72 Aligned_cols=63 Identities=14% Similarity=0.222 Sum_probs=47.1
Q ss_pred ccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcC---ccCCCccchHHHHHHhcCC--CCEEEE
Q psy7717 42 TKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQ---SFAPSPDTTIRALYDSFAT--NGSLVL 104 (113)
Q Consensus 42 ~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn---~~~P~~d~t~~~LY~~~kd--DGfLyi 104 (113)
+...|.++.+.++.+|..-|.+++++..+.-..-|.++ -+..+.|+-+....+.++. .+.|-|
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 45668899999999999999999998765555567764 3456667788888887775 445544
No 26
>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=67.71 E-value=26 Score=21.55 Aligned_cols=63 Identities=13% Similarity=0.143 Sum_probs=47.0
Q ss_pred cceEEec-CCccHHhHHHHHHhhhCCCCCCeEEEEEcC---ccCCCccchHHHHHHhcCC--CCEEEEE
Q psy7717 43 KKKWLVH-VDQNVASIISFTKKSIKMDPSESLFIYVNQ---SFAPSPDTTIRALYDSFAT--NGSLVLN 105 (113)
Q Consensus 43 k~KflV~-~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn---~~~P~~d~t~~~LY~~~kd--DGfLyi~ 105 (113)
...|.++ .+.++.+|...|++++++....-.+=|.+. -+.-+.|+-+.+.++.+.. .+.|.|.
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 999999999999999998754445556643 2445567888888888874 6666664
No 27
>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=66.03 E-value=27 Score=21.09 Aligned_cols=57 Identities=14% Similarity=0.141 Sum_probs=40.1
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC--CCEEEEEEc
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT--NGSLVLNYC 107 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd--DGfLyi~Ys 107 (113)
.+-|+.+.|++++...|..+.+++++.--++ .++..+ ..+.++++ |+. +-.|++...
T Consensus 14 ~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~-~~g~~L-~d~~tl~~----~~i~~g~~i~l~~~ 72 (76)
T cd01806 14 EIDIEPTDKVERIKERVEEKEGIPPQQQRLI-YSGKQM-NDDKTAAD----YKLEGGSVLHLVLA 72 (76)
T ss_pred EEEECCCCCHHHHHHHHhHhhCCChhhEEEE-ECCeEc-cCCCCHHH----cCCCCCCEEEEEEE
Confidence 3679999999999999999999888754333 456543 44667765 344 447777654
No 28
>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=65.86 E-value=24 Score=20.52 Aligned_cols=56 Identities=16% Similarity=0.197 Sum_probs=38.9
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC--CCEEEEEE
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT--NGSLVLNY 106 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd--DGfLyi~Y 106 (113)
.+.++.+.|++++...|.++.+++++.-- |..+++.+ ..+.++++ |+. +..+++..
T Consensus 11 ~~~~~~~~ti~~lK~~i~~~~~~~~~~~~-l~~~g~~l-~d~~~l~~----~~v~~~~~i~v~~ 68 (69)
T cd01769 11 ELEVSPDDTVAELKAKIAAKEGVPPEQQR-LIYAGKIL-KDDKTLSD----YGIQDGSTLHLVL 68 (69)
T ss_pred EEEECCCChHHHHHHHHHHHHCcChHHEE-EEECCcCC-CCcCCHHH----CCCCCCCEEEEEE
Confidence 46788899999999999999998776433 35577664 44566654 444 55676653
No 29
>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=65.56 E-value=31 Score=21.65 Aligned_cols=56 Identities=18% Similarity=0.226 Sum_probs=39.4
Q ss_pred EEecCCccHHhHHHHHHhhhCCCCCCeEEEE--EcCccCCCccchHHHHHHhcCCCCEEEE
Q psy7717 46 WLVHVDQNVASIISFTKKSIKMDPSESLFIY--VNQSFAPSPDTTIRALYDSFATNGSLVL 104 (113)
Q Consensus 46 flV~~~~tv~~~~~~lrk~L~l~~~~sLFly--Vnn~~~P~~d~t~~~LY~~~kdDGfLyi 104 (113)
.-|+.+.|+++|-..|..+.+++++.-=.+| +.++. +..+.+++++ .-+++.++.|
T Consensus 14 v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~-l~D~~~L~~~--~i~~g~~i~l 71 (74)
T cd01813 14 VTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKP-AEDDVKISAL--KLKPNTKIMM 71 (74)
T ss_pred EEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCc-CCCCcCHHHc--CCCCCCEEEE
Confidence 4588999999999999999998887555555 34543 5567788776 3333445543
No 30
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=64.05 E-value=32 Score=21.22 Aligned_cols=57 Identities=12% Similarity=0.103 Sum_probs=36.3
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEE
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVL 104 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi 104 (113)
..-|+++.||+++...|..+-++++++ .-|+.+++.+--.+.++++ | .-+++.+|+|
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~gip~~~-q~Li~~Gk~L~D~~~~L~~-~-gi~~~~~l~l 69 (71)
T cd01796 13 SLDVDPDLELENFKALCEAESGIPASQ-QQLIYNGRELVDNKRLLAL-Y-GVKDGDLVVL 69 (71)
T ss_pred EEEECCcCCHHHHHHHHHHHhCCCHHH-eEEEECCeEccCCcccHHH-c-CCCCCCEEEE
Confidence 467899999999999999999987754 4455566543211123333 2 2233667665
No 31
>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=61.76 E-value=34 Score=20.83 Aligned_cols=58 Identities=14% Similarity=0.128 Sum_probs=39.5
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEE
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNY 106 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Y 106 (113)
.+-|..+.|++++...|.++.++++ +.+-|..+++.+. .+.++++. .-+++..|+|..
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~-~~~~Li~~Gk~L~-d~~tL~~~--~i~~~stl~l~~ 70 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQ-EQLVLIFAGKILK-DTDTLTQH--NIKDGLTVHLVI 70 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCH-HHEEEEECCeEcC-CCCcHHHc--CCCCCCEEEEEE
Confidence 5778999999999999998888755 4455555776554 35566542 122366887754
No 32
>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=61.38 E-value=34 Score=20.72 Aligned_cols=57 Identities=16% Similarity=0.133 Sum_probs=40.3
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEE
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLN 105 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~ 105 (113)
.+-|.++.|++++-..|..+.+++++ ..-|+.+++.+ ..+.++++ | .-+++-.|++.
T Consensus 12 ~~~v~~~~tV~~lK~~i~~~~gi~~~-~q~Li~~G~~L-~d~~~l~~-~-~i~~~stl~l~ 68 (70)
T cd01798 12 PVEVDPDTDIKQLKEVVAKRQGVPPD-QLRVIFAGKEL-RNTTTIQE-C-DLGQQSILHAV 68 (70)
T ss_pred EEEECCCChHHHHHHHHHHHHCCCHH-HeEEEECCeEC-CCCCcHHH-c-CCCCCCEEEEE
Confidence 35688999999999999999998765 46667777764 44677776 3 11225566653
No 33
>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=59.88 E-value=38 Score=20.82 Aligned_cols=59 Identities=10% Similarity=0.233 Sum_probs=40.7
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEEc
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNYC 107 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Ys 107 (113)
-+-|..+.|++++...|..+.+++++ ..-|+.+++.+ ..+.++++ | .-+++..|+|.-.
T Consensus 12 ~l~v~~~~tV~~lK~~I~~~~gi~~~-~q~L~~~G~~L-~D~~tL~~-~-~i~~~~tl~l~~~ 70 (74)
T cd01810 12 IYEVQLTQTVATLKQQVSQRERVQAD-QFWLSFEGRPM-EDEHPLGE-Y-GLKPGCTVFMNLR 70 (74)
T ss_pred EEEECCcChHHHHHHHHHHHhCCCHH-HeEEEECCEEC-CCCCCHHH-c-CCCCCCEEEEEEE
Confidence 36789999999999999988888665 34445666653 35677766 3 3333667777643
No 34
>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=59.87 E-value=50 Score=22.16 Aligned_cols=77 Identities=9% Similarity=0.048 Sum_probs=49.7
Q ss_pred eEEEEEecCCCCCcccceEEe--cCCccHHhHHHHHHhhh-CCCCCCeEEEEEcCccCCCccchHHHHHHhc--------
Q psy7717 28 VPILLRATGDAPILTKKKWLV--HVDQNVASIISFTKKSI-KMDPSESLFIYVNQSFAPSPDTTIRALYDSF-------- 96 (113)
Q Consensus 28 VpVi~e~~~~~P~L~k~KflV--~~~~tv~~~~~~lrk~L-~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~-------- 96 (113)
|.|.|-. .+|+|. .-| +.+.|+.++...||.++ .-..+..|=|.-++++++.....-.+|...-
T Consensus 3 l~IRFs~--sipDl~---L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t~l~~~l~~~~~~~~~~~g 77 (97)
T PF10302_consen 3 LTIRFSD--SIPDLP---LDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHTDLSSELKLPTARSSKGKG 77 (97)
T ss_pred EEEEECC--CCCCce---eecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccchhhhhhccccccCccccC
Confidence 4455543 577643 223 48899999999999998 5555677877778888765444444444330
Q ss_pred CC-C----CEEEEEEccc
Q psy7717 97 AT-N----GSLVLNYCKT 109 (113)
Q Consensus 97 kd-D----GfLyi~Ys~~ 109 (113)
+. + ...||+++..
T Consensus 78 k~~~~~~~~~~yIhCsIG 95 (97)
T PF10302_consen 78 KAPERQEAPRIYIHCSIG 95 (97)
T ss_pred cCccCCCCCeEEEEEecc
Confidence 11 3 3888888754
No 35
>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=56.73 E-value=26 Score=22.79 Aligned_cols=50 Identities=12% Similarity=0.177 Sum_probs=34.9
Q ss_pred ccceEEecCCccHHhHHHHHHhhhCCCCCCeEEE-EEcC---ccCCCccchHHH
Q psy7717 42 TKKKWLVHVDQNVASIISFTKKSIKMDPSESLFI-YVNQ---SFAPSPDTTIRA 91 (113)
Q Consensus 42 ~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFl-yVnn---~~~P~~d~t~~~ 91 (113)
+...|.++.+.++.++...|++++++...+.+-| |.++ -.+-+.|+-+.+
T Consensus 10 d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v~ltsd~DL~e 63 (82)
T cd06407 10 EKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWVLLTCDADLEE 63 (82)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeEEeecHHHHHH
Confidence 3556889999999999999999999875344444 5654 223444555544
No 36
>PRK06437 hypothetical protein; Provisional
Probab=56.11 E-value=18 Score=22.43 Aligned_cols=35 Identities=26% Similarity=0.253 Sum_probs=26.5
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCC
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAP 83 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P 83 (113)
+.+-+++..|+++++.. |++++ +.+.+.+|+.+.|
T Consensus 13 ~~~~i~~~~tv~dLL~~----Lgi~~-~~vaV~vNg~iv~ 47 (67)
T PRK06437 13 KTIEIDHELTVNDIIKD----LGLDE-EEYVVIVNGSPVL 47 (67)
T ss_pred eEEEcCCCCcHHHHHHH----cCCCC-ccEEEEECCEECC
Confidence 44667888899998854 57754 5678889999877
No 37
>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=55.37 E-value=15 Score=28.45 Aligned_cols=54 Identities=13% Similarity=0.298 Sum_probs=34.2
Q ss_pred CCeeEEEEEec-CCCCCcc-cceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEc
Q psy7717 25 KVKVPILLRAT-GDAPILT-KKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVN 78 (113)
Q Consensus 25 p~kVpVi~e~~-~~~P~L~-k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVn 78 (113)
.+.|.|-++-. .....|. --.+.|+.+.+++++...|+++++++++..|-||=.
T Consensus 66 ~~~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEE 121 (249)
T PF12436_consen 66 SDDILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEE 121 (249)
T ss_dssp TTEEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEE
T ss_pred CCcEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEE
Confidence 34566666543 2222222 234679999999999999999999999999999854
No 38
>COG3343 RpoE DNA-directed RNA polymerase, delta subunit [Transcription]
Probab=53.04 E-value=21 Score=26.89 Aligned_cols=47 Identities=23% Similarity=0.456 Sum_probs=35.2
Q ss_pred CccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCC-EEEEEEccccccC
Q psy7717 51 DQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNG-SLVLNYCKTQAWG 113 (113)
Q Consensus 51 ~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDG-fLyi~Ys~~~afG 113 (113)
.++|+.+++-|++.++.+..+ + -..++.+|.....|| |++| +.+.||
T Consensus 30 ~~~F~dii~EI~~~~~~s~~e---------i----~~~i~~FYTdln~DgrFi~L---Gdn~Wg 77 (175)
T COG3343 30 PFNFSDIINEIQKLLGVSKEE---------I----RSRIGQFYTDLNIDGRFISL---GDNKWG 77 (175)
T ss_pred CccHHHHHHHHHHHhCcCHHH---------H----HHHHHHHHHHhccCCceeec---cccccc
Confidence 689999999999999876433 2 357899999998855 7776 344554
No 39
>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=52.79 E-value=42 Score=20.56 Aligned_cols=55 Identities=11% Similarity=0.195 Sum_probs=38.3
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC--CCEEEEE
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT--NGSLVLN 105 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd--DGfLyi~ 105 (113)
.+-|+.+.||+++.+.|..+.+++++ ..-|+.++..+ ..+.++++ |+. +..|++.
T Consensus 14 ~l~v~~~~tV~~lK~~i~~~~gi~~~-~q~L~~~G~~L-~d~~~L~~----~~i~~~~~l~l~ 70 (74)
T cd01807 14 SLQVSEKESVSTLKKLVSEHLNVPEE-QQRLLFKGKAL-ADDKRLSD----YSIGPNAKLNLV 70 (74)
T ss_pred EEEECCCCcHHHHHHHHHHHHCCCHH-HeEEEECCEEC-CCCCCHHH----CCCCCCCEEEEE
Confidence 46789999999999999999998775 35555777653 34556644 444 4455554
No 40
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=52.59 E-value=15 Score=23.70 Aligned_cols=34 Identities=9% Similarity=0.095 Sum_probs=22.4
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcC
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQ 79 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn 79 (113)
..-++++.|++++..-|...++++.. ++.||.+.
T Consensus 17 Rie~~~~~t~~~L~~kI~~~l~~~~~-~~~L~~~~ 50 (80)
T PF11543_consen 17 RIEVSPSSTLSDLKEKISEQLSIPDS-SQSLSKDR 50 (80)
T ss_dssp EEEE-TTSBHHHHHHHHHHHS---TT-T---BSSG
T ss_pred EEEcCCcccHHHHHHHHHHHcCCCCc-ceEEEecC
Confidence 45689999999999999999998865 56666664
No 41
>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=52.20 E-value=31 Score=21.61 Aligned_cols=41 Identities=20% Similarity=0.173 Sum_probs=27.1
Q ss_pred CCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCc
Q psy7717 39 PILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQS 80 (113)
Q Consensus 39 P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~ 80 (113)
+..++.+++|.++.++.+++..-.++++++++ .-.|.-|++
T Consensus 4 ~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~-~~~L~h~~k 44 (65)
T PF11470_consen 4 YNFRRFKVKVTPNTTLNQVLEEACKKFGLDPS-SYDLKHNNK 44 (65)
T ss_dssp TTS-EEEE---TTSBHHHHHHHHHHHTT--GG-G-EEEETTE
T ss_pred cCCcEEEEEECCCCCHHHHHHHHHHHcCCCcc-ceEEEECCE
Confidence 34578899999999999999999999999987 444545554
No 42
>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=52.09 E-value=53 Score=20.74 Aligned_cols=44 Identities=14% Similarity=0.034 Sum_probs=31.0
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCC-CeEEEEEcCccCCCccchHHH
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPS-ESLFIYVNQSFAPSPDTTIRA 91 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~-~sLFlyVnn~~~P~~d~t~~~ 91 (113)
.+-|+++.||+++-..|..+.+++++ +.| | ++.-+-..+.++++
T Consensus 16 ~l~v~~~~TV~~lK~kI~~~~gip~~~QrL--~-~G~~L~dD~~tL~~ 60 (75)
T cd01799 16 WLTVRPDMTVAQLKDKVFLDYGFPPAVQRW--V-IGQRLARDQETLYS 60 (75)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHHEEE--E-cCCeeCCCcCCHHH
Confidence 36789999999999999999999875 444 4 44333234467754
No 43
>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=51.01 E-value=57 Score=20.10 Aligned_cols=54 Identities=9% Similarity=0.082 Sum_probs=43.1
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcC---ccCCCccchHHHHHHhcCC
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQ---SFAPSPDTTIRALYDSFAT 98 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn---~~~P~~d~t~~~LY~~~kd 98 (113)
-+.++.+.++.+|...|++++++.+.+-.+-|.+. .+..+.|.-+.+..+.++.
T Consensus 15 ~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~~ 71 (84)
T PF00564_consen 15 IISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTISSDEDLQEAIEQAKE 71 (84)
T ss_dssp EEEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEESSHHHHHHHHHHHHH
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeCCHHHHHHHHHHHHh
Confidence 47899999999999999999999866777778753 3556677778888777764
No 44
>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=49.28 E-value=39 Score=22.66 Aligned_cols=37 Identities=22% Similarity=0.374 Sum_probs=30.3
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCCC--CCeEEEEEcCc
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMDP--SESLFIYVNQS 80 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~~--~~sLFlyVnn~ 80 (113)
+-..|+++.|..++-...-.++++.. .-+||+|+++.
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 44679999999999999999987653 35799999983
No 45
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=49.04 E-value=47 Score=19.95 Aligned_cols=57 Identities=9% Similarity=0.106 Sum_probs=39.0
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC--CCEEEEEEc
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT--NGSLVLNYC 107 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd--DGfLyi~Ys 107 (113)
.+-|+.+.|++++...|.++.++++++ .=|+.++..+ ..+.++++ |+. +..+++...
T Consensus 14 ~~~v~~~~tV~~lK~~i~~~~g~~~~~-q~L~~~g~~L-~d~~~L~~----~~i~~~~~i~l~~~ 72 (76)
T cd01803 14 TLEVEPSDTIENVKAKIQDKEGIPPDQ-QRLIFAGKQL-EDGRTLSD----YNIQKESTLHLVLR 72 (76)
T ss_pred EEEECCcCcHHHHHHHHHHHhCCCHHH-eEEEECCEEC-CCCCcHHH----cCCCCCCEEEEEEE
Confidence 478999999999999999999987653 3334566553 34556655 454 456666554
No 46
>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=48.93 E-value=63 Score=20.03 Aligned_cols=76 Identities=13% Similarity=0.116 Sum_probs=47.2
Q ss_pred EEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCe-EEE--EEcC---ccCCCccchHHHHHHhcCC---CC
Q psy7717 30 ILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSES-LFI--YVNQ---SFAPSPDTTIRALYDSFAT---NG 100 (113)
Q Consensus 30 Vi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~s-LFl--yVnn---~~~P~~d~t~~~LY~~~kd---DG 100 (113)
|.|-.....|...-+-+.|+.+.|..+++..+-+++++..+.. ..| +... ...-.+++..-.+...... ++
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~~~~~~~~ 84 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQWPKDSQNS 84 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTTSSGTTTE
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhCccccCce
Confidence 3444433444446778999999999999999999999943333 334 2322 1123346666666666654 55
Q ss_pred EEEEE
Q psy7717 101 SLVLN 105 (113)
Q Consensus 101 fLyi~ 105 (113)
.+++.
T Consensus 85 ~f~lr 89 (93)
T PF00788_consen 85 RFVLR 89 (93)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 55553
No 47
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=48.40 E-value=43 Score=22.24 Aligned_cols=53 Identities=13% Similarity=0.252 Sum_probs=35.0
Q ss_pred cceEEecC-----CccHHhHHHHHHhhhCCCCCCeEE-EEEcC---ccCCCccchHHHHHHh
Q psy7717 43 KKKWLVHV-----DQNVASIISFTKKSIKMDPSESLF-IYVNQ---SFAPSPDTTIRALYDS 95 (113)
Q Consensus 43 k~KflV~~-----~~tv~~~~~~lrk~L~l~~~~sLF-lyVnn---~~~P~~d~t~~~LY~~ 95 (113)
...|.+|. +.++.+|..-|++++++.+...+- -|-+. .+.-..|.-+.+--+.
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 45677774 799999999999999998744433 45543 2334445555554444
No 48
>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=48.04 E-value=21 Score=24.44 Aligned_cols=24 Identities=17% Similarity=0.400 Sum_probs=19.7
Q ss_pred cchHHHHHHhcCCCCEEEEEEccc
Q psy7717 86 DTTIRALYDSFATNGSLVLNYCKT 109 (113)
Q Consensus 86 d~t~~~LY~~~kdDGfLyi~Ys~~ 109 (113)
=..|.+||++|+++|+.+|.+-..
T Consensus 39 y~~L~~L~~ky~~~gl~ILaFPcn 62 (108)
T PF00255_consen 39 YKQLNELYEKYKDKGLEILAFPCN 62 (108)
T ss_dssp HHHHHHHHHHHGGGTEEEEEEEBS
T ss_pred cHHHHHHHHHHhcCCeEEEeeehH
Confidence 357899999999999999987543
No 49
>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=46.77 E-value=38 Score=20.97 Aligned_cols=47 Identities=13% Similarity=0.172 Sum_probs=33.2
Q ss_pred cceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHH
Q psy7717 43 KKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRA 91 (113)
Q Consensus 43 k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~ 91 (113)
...+-|+++.||+++-..|..+-++++++--.+ .++.. -..+.++++
T Consensus 10 ~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li-~~G~~-L~D~~~l~~ 56 (70)
T cd01794 10 DVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWF-FSGKL-LTDKTRLQE 56 (70)
T ss_pred EEEEEECCcChHHHHHHHHHHHhCCCHHHeEEE-ECCeE-CCCCCCHHH
Confidence 344678999999999999999888877643333 44543 345677776
No 50
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=44.41 E-value=35 Score=21.32 Aligned_cols=40 Identities=10% Similarity=0.149 Sum_probs=29.6
Q ss_pred ceEEecCC-ccHHhHHHHHHhhhC--CCCCCeEEEEEcCccCC
Q psy7717 44 KKWLVHVD-QNVASIISFTKKSIK--MDPSESLFIYVNQSFAP 83 (113)
Q Consensus 44 ~KflV~~~-~tv~~~~~~lrk~L~--l~~~~sLFlyVnn~~~P 83 (113)
..+-++.+ .|+.+++..|..+.. ......+.+.||+.++.
T Consensus 18 ~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~ 60 (80)
T TIGR01682 18 ETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVT 60 (80)
T ss_pred EEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcC
Confidence 35667777 899999999988864 22235678999998755
No 51
>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=43.53 E-value=56 Score=19.64 Aligned_cols=39 Identities=18% Similarity=0.270 Sum_probs=28.4
Q ss_pred ccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCc
Q psy7717 42 TKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSP 85 (113)
Q Consensus 42 ~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~ 85 (113)
..+.+-++...|+.+++..+ ++++ +.+-+-+|+.+.|..
T Consensus 4 Ng~~~~~~~~~tv~~ll~~l----~~~~-~~v~v~vN~~iv~~~ 42 (64)
T TIGR01683 4 NGEPVEVEDGLTLAALLESL----GLDP-RRVAVAVNGEIVPRS 42 (64)
T ss_pred CCeEEEcCCCCcHHHHHHHc----CCCC-CeEEEEECCEEcCHH
Confidence 34567788888988877754 4554 577788999887753
No 52
>PF09593 Pathogen_betaC1: Beta-satellite pathogenicity beta C1 protein; InterPro: IPR018583 Cotton leaf-curl disease - CLCuD - is of major economic importance in cotton-growing areas of the far-east. The infectious agent appears to be a single-stranded DNA molecule of approx 1350 nucleotides in length, which, when inoculated with the Begomovirus into cotton, induces symptoms typical of CLCuD. This molecule requires the Begomovirus for replication and encapsidation []. DNA beta encodes a single protein, betaC1. The intracellular distribution of betaC1 is consistent with the hypothesis that it has a role in transporting the DNA A of Begomovirus from the nuclear site of replication to the plasmodesmatal exit sites of the infected cell. The DNA beta-encoded protein, betaC1, is the determinant of both pathogenicity and suppression of gene silencing [].
Probab=43.47 E-value=30 Score=24.38 Aligned_cols=33 Identities=15% Similarity=0.310 Sum_probs=26.9
Q ss_pred ccccCCCeeEEEEEec-CCCCCcccceEEecCCc
Q psy7717 20 IGAEAKVKVPILLRAT-GDAPILTKKKWLVHVDQ 52 (113)
Q Consensus 20 i~~k~p~kVpVi~e~~-~~~P~L~k~KflV~~~~ 52 (113)
+|-+...+|-|.++-. .+.|.|.|++|.||-.-
T Consensus 16 Vrl~~~~~i~V~i~l~ST~sP~l~k~~f~IpY~~ 49 (117)
T PF09593_consen 16 VRLMEDMSIFVHIQLFSTRSPALIKKKFIIPYTH 49 (117)
T ss_pred EEecCCCEEEEEEEEEECCChHHheEEEEEeccC
Confidence 4566678999999864 68999999999999653
No 53
>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=43.40 E-value=57 Score=19.95 Aligned_cols=36 Identities=11% Similarity=0.102 Sum_probs=30.2
Q ss_pred ccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEE
Q psy7717 42 TKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYV 77 (113)
Q Consensus 42 ~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyV 77 (113)
....|.|+++.|+.+++..+.++|+|...+-.=|.+
T Consensus 7 ~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 7 TTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp EEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred CcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 345689999999999999999999998776555555
No 54
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=42.99 E-value=24 Score=26.65 Aligned_cols=67 Identities=18% Similarity=0.172 Sum_probs=35.0
Q ss_pred CeeEEEEEec-CCCCCcccceEEecCCccHHhHHHHHHhhhCCCCC--CeEEEE-E-cCcc--CCCccchHHHH
Q psy7717 26 VKVPILLRAT-GDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPS--ESLFIY-V-NQSF--APSPDTTIRAL 92 (113)
Q Consensus 26 ~kVpVi~e~~-~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~--~sLFly-V-nn~~--~P~~d~t~~~L 92 (113)
.|-++.|.=. .++-.-+.-.++||++-||++++..++++++++.+ ..|-++ + |+++ ..+.+..+++|
T Consensus 17 ~kk~~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 17 NKKQFKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp SB--EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred CceEEEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 4444544433 23333456779999999999999999999998765 344443 3 4444 24467778777
No 55
>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=41.82 E-value=75 Score=18.85 Aligned_cols=45 Identities=4% Similarity=0.077 Sum_probs=30.6
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHH
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRA 91 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~ 91 (113)
.+-|+.+.|+++|...|.++.+++++. .=|+.++..+ ..+.++++
T Consensus 13 ~i~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~~g~~l-~d~~~L~~ 57 (71)
T cd01812 13 DLSISSQATFGDLKKMLAPVTGVEPRD-QKLIFKGKER-DDAETLDM 57 (71)
T ss_pred EEEECCCCcHHHHHHHHHHhhCCChHH-eEEeeCCccc-CccCcHHH
Confidence 456899999999999999998887753 3334455432 23445543
No 56
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=41.66 E-value=20 Score=26.64 Aligned_cols=36 Identities=28% Similarity=0.520 Sum_probs=26.3
Q ss_pred eEEEEEcC----ccCCCccchHHHHHHhcCCCCEEEEEEcc
Q psy7717 72 SLFIYVNQ----SFAPSPDTTIRALYDSFATNGSLVLNYCK 108 (113)
Q Consensus 72 sLFlyVnn----~~~P~~d~t~~~LY~~~kdDGfLyi~Ys~ 108 (113)
.+-|.||- .|+| .=+-+..||++|++.||-++-+-.
T Consensus 26 kVlLIVNtASkCGfTp-QYegLe~Ly~ky~~~Gf~VLgFPc 65 (162)
T COG0386 26 KVLLIVNTASKCGFTP-QYEGLEALYKKYKDKGFEVLGFPC 65 (162)
T ss_pred cEEEEEEcccccCCcH-hHHHHHHHHHHHhhCCcEEEeccc
Confidence 35566663 2455 456899999999999999997643
No 57
>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=41.38 E-value=34 Score=20.94 Aligned_cols=40 Identities=10% Similarity=0.083 Sum_probs=29.1
Q ss_pred ceEEecCCccHHhHHHHHHhhhCC---CCCCeEEEEEcCccCC
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKM---DPSESLFIYVNQSFAP 83 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l---~~~~sLFlyVnn~~~P 83 (113)
..+-++...|+.+++..|..+..- .....+-++||+...+
T Consensus 18 ~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~ 60 (80)
T cd00754 18 EELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR 60 (80)
T ss_pred EEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC
Confidence 455677789999999999877531 1235677889998765
No 58
>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=40.70 E-value=79 Score=23.97 Aligned_cols=50 Identities=12% Similarity=0.258 Sum_probs=33.2
Q ss_pred hHHHHHHhhhCCCCCCeEEEEEcCccCCCccc---hHHHHHHhcCCCCEEEEEEc
Q psy7717 56 SIISFTKKSIKMDPSESLFIYVNQSFAPSPDT---TIRALYDSFATNGSLVLNYC 107 (113)
Q Consensus 56 ~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~---t~~~LY~~~kdDGfLyi~Ys 107 (113)
.|...+++.|.-.+.+.+.+||++-. -+.+. .+++|....+-+| ..|.|+
T Consensus 3 ~~~~~~~~~l~~~~~~~vlvfVHGyn-~~f~~a~~r~aql~~~~~~~~-~~i~Fs 55 (233)
T PF05990_consen 3 AFQAQLNQRLAKSPDKEVLVFVHGYN-NSFEDALRRAAQLAHDLGFPG-VVILFS 55 (233)
T ss_pred HHHHHHHHHHhhCCCCeEEEEEeCCC-CCHHHHHHHHHHHHHHhCCCc-eEEEEE
Confidence 56778888888888899999998843 33344 4455655555565 444443
No 59
>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=40.55 E-value=78 Score=18.71 Aligned_cols=46 Identities=9% Similarity=0.104 Sum_probs=32.6
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHH
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRA 91 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~ 91 (113)
..+-++.+.|++++-..|.++.+++++. .=|+.++..+. .+.++++
T Consensus 13 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~-q~L~~~g~~L~-d~~~L~~ 58 (72)
T cd01809 13 HTFTVEEEITVLDLKEKIAEEVGIPVEQ-QRLIYSGRVLK-DDETLSE 58 (72)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCcCHHH-eEEEECCEECC-CcCcHHH
Confidence 4577889999999999999999987653 23334676543 3556654
No 60
>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=40.24 E-value=1.1e+02 Score=20.97 Aligned_cols=61 Identities=10% Similarity=0.295 Sum_probs=40.4
Q ss_pred CccHHhHHHHHHhhhC------CCCCCeEEEEEcC--------ccCCCccchHHHHHHhcCC----C---------CEEE
Q psy7717 51 DQNVASIISFTKKSIK------MDPSESLFIYVNQ--------SFAPSPDTTIRALYDSFAT----N---------GSLV 103 (113)
Q Consensus 51 ~~tv~~~~~~lrk~L~------l~~~~sLFlyVnn--------~~~P~~d~t~~~LY~~~kd----D---------GfLy 103 (113)
+.++++|+..+|+.+. +..++-|.|-|.. + .-..+-|+.|+-+-|.. | +-||
T Consensus 10 ~~~l~~lf~~lR~~le~~~g~~~~~~~ELvl~i~~L~L~i~EDn-~y~~~iTl~di~~lf~~L~~n~~~~~~~~~p~~L~ 88 (113)
T PF10336_consen 10 NEPLEELFAALRQFLENEEGELFSAEDELVLDIPELGLEISEDN-VYCSDITLSDIVDLFDILCENDGKNEEPDLPEPLY 88 (113)
T ss_pred hCCHHHHHHHHHHHHHhccccccCCCCEEEEEeccCCcEEeccc-cccccCcHHHHHHHHHHHHhccCccccCCCCCcEE
Confidence 3578999999999884 4555666664432 2 23446677666555443 2 2899
Q ss_pred EEEcccccc
Q psy7717 104 LNYCKTQAW 112 (113)
Q Consensus 104 i~Ys~~~af 112 (113)
++-+.++.|
T Consensus 89 i~LstrPRF 97 (113)
T PF10336_consen 89 ITLSTRPRF 97 (113)
T ss_pred EEEecCccH
Confidence 999988876
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=39.91 E-value=49 Score=22.56 Aligned_cols=28 Identities=21% Similarity=0.665 Sum_probs=23.2
Q ss_pred cHHhHHHHHHhhhCCCC-CCeEEEEEcCc
Q psy7717 53 NVASIISFTKKSIKMDP-SESLFIYVNQS 80 (113)
Q Consensus 53 tv~~~~~~lrk~L~l~~-~~sLFlyVnn~ 80 (113)
.+.-+...++..++.+| +.++|+|+|..
T Consensus 16 g~dgL~~lV~~~~~~dp~~g~~fvF~nr~ 44 (107)
T PF05717_consen 16 GIDGLAALVREELGLDPFSGDLFVFCNRR 44 (107)
T ss_pred ChhHHHHHHHHhhcCCCCcceEEEEEecc
Confidence 47788999999999874 46899999974
No 62
>PTZ00044 ubiquitin; Provisional
Probab=39.53 E-value=81 Score=19.13 Aligned_cols=57 Identities=11% Similarity=0.157 Sum_probs=37.8
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC--CCEEEEEE
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT--NGSLVLNY 106 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd--DGfLyi~Y 106 (113)
..+-|.++.|++++-..|..+.++++++--.+ .++..+ ..+.+++ .|+. +-.+++.-
T Consensus 13 ~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~-~~g~~L-~d~~~l~----~~~i~~~~~i~l~~ 71 (76)
T PTZ00044 13 QSFNFEPDNTVQQVKMALQEKEGIDVKQIRLI-YSGKQM-SDDLKLS----DYKVVPGSTIHMVL 71 (76)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE-ECCEEc-cCCCcHH----HcCCCCCCEEEEEE
Confidence 44678999999999999999999877643333 455543 3455654 3443 44665543
No 63
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=39.36 E-value=65 Score=20.46 Aligned_cols=34 Identities=15% Similarity=0.036 Sum_probs=27.4
Q ss_pred cceEEecCCccHHhHHHHHHhhhCCCCC-CeEEEE
Q psy7717 43 KKKWLVHVDQNVASIISFTKKSIKMDPS-ESLFIY 76 (113)
Q Consensus 43 k~KflV~~~~tv~~~~~~lrk~L~l~~~-~sLFly 76 (113)
...-.++.++|+++|-..|.+..+++++ +.|+++
T Consensus 15 ~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~ 49 (87)
T PF14560_consen 15 SVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLK 49 (87)
T ss_dssp EEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEE
Confidence 4445799999999999999999998876 567765
No 64
>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=39.01 E-value=54 Score=19.77 Aligned_cols=42 Identities=12% Similarity=0.188 Sum_probs=32.5
Q ss_pred cceEEecCCccHHhHHHHHHhhhC-CCCCCeEEEEEcCccCCC
Q psy7717 43 KKKWLVHVDQNVASIISFTKKSIK-MDPSESLFIYVNQSFAPS 84 (113)
Q Consensus 43 k~KflV~~~~tv~~~~~~lrk~L~-l~~~~sLFlyVnn~~~P~ 84 (113)
.....++...|+++++..|..+.. +...+.+-++||+.+++.
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~ 55 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD 55 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC
Confidence 456788999999999999988862 213367899999987665
No 65
>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=38.25 E-value=95 Score=18.98 Aligned_cols=61 Identities=11% Similarity=0.051 Sum_probs=41.4
Q ss_pred ccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEE
Q psy7717 42 TKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNY 106 (113)
Q Consensus 42 ~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Y 106 (113)
+...+-|.++.||+++-..|..+-++++++ .-|+.+++. -..+.++++ |. -+++--|++.-
T Consensus 9 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~-q~Li~~Gk~-L~D~~tL~~-~~-i~~~~tl~l~~ 69 (74)
T cd01793 9 NTHTLEVTGQETVSDIKAHVAGLEGIDVED-QVLLLAGVP-LEDDATLGQ-CG-VEELCTLEVAG 69 (74)
T ss_pred CEEEEEECCcCcHHHHHHHHHhhhCCCHHH-EEEEECCeE-CCCCCCHHH-cC-CCCCCEEEEEE
Confidence 455678999999999999999998887654 445566665 345677766 32 12245666543
No 66
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=37.19 E-value=1.1e+02 Score=19.20 Aligned_cols=60 Identities=13% Similarity=0.136 Sum_probs=39.6
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEEcc
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNYCK 108 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Ys~ 108 (113)
..+-|+.+.||+++-..|.++.+++++ .+-|...++.+. |.++++. .-+++.+|||.-+-
T Consensus 14 ~~l~v~~~~TV~~LK~~I~~~~~~~~~-~qrL~~~Gk~L~--d~~L~~~--gi~~~~~i~l~~~~ 73 (78)
T cd01804 14 FDLSVPPDETVEGLKKRISQRLKVPKE-RLALLHRETRLS--SGKLQDL--GLGDGSKLTLVPTV 73 (78)
T ss_pred EEEEECCcCHHHHHHHHHHHHhCCChH-HEEEEECCcCCC--CCcHHHc--CCCCCCEEEEEeec
Confidence 446789999999999999988888765 344445555443 3354431 22337788886554
No 67
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=35.46 E-value=77 Score=21.21 Aligned_cols=40 Identities=20% Similarity=0.196 Sum_probs=31.7
Q ss_pred ccceEEecCCccHHhHHHHHHhhhCCCCC----CeEEEEEcCcc
Q psy7717 42 TKKKWLVHVDQNVASIISFTKKSIKMDPS----ESLFIYVNQSF 81 (113)
Q Consensus 42 ~k~KflV~~~~tv~~~~~~lrk~L~l~~~----~sLFlyVnn~~ 81 (113)
.+-..-|..+.+-+++...+-++|+++.+ -+||+..+..|
T Consensus 12 ~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~YFaLFev~~~~f 55 (87)
T cd01777 12 ATVTVRVRKNATTDQVYQALVAKAGMDSYTQNYFALFEVINHSF 55 (87)
T ss_pred CEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhheeeeEEecceE
Confidence 34445677888899999999999999876 46888887665
No 68
>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=35.06 E-value=1.1e+02 Score=19.17 Aligned_cols=41 Identities=22% Similarity=0.158 Sum_probs=30.1
Q ss_pred CCcccceEEecCCccHHhHHHHHHhhhCCCC-CC--eEEEEEcC
Q psy7717 39 PILTKKKWLVHVDQNVASIISFTKKSIKMDP-SE--SLFIYVNQ 79 (113)
Q Consensus 39 P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~-~~--sLFlyVnn 79 (113)
|.-.-+-..|+.+.|.++++..+-+++++.. .+ +||-.+++
T Consensus 10 ~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~ 53 (87)
T cd01768 10 SGGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGD 53 (87)
T ss_pred CCccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECC
Confidence 3344566789999999999999999999983 23 34444554
No 69
>KOG3483|consensus
Probab=35.05 E-value=66 Score=21.36 Aligned_cols=62 Identities=16% Similarity=0.247 Sum_probs=48.8
Q ss_pred CCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC
Q psy7717 36 GDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT 98 (113)
Q Consensus 36 ~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd 98 (113)
.+-|.|..+.+-||++..|..+++|--...+.++..|-- .-|+-+-..+.++-|++|=+++.
T Consensus 21 tsdpklpfkv~svpestpftavlkfaaeefkvpaatsai-itndgiginpaq~agnvflkhgs 82 (94)
T KOG3483|consen 21 TSDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSAI-ITNDGIGINPAQTAGNVFLKHGS 82 (94)
T ss_pred ccCCCCccceecCCCCCchHHHHHHHHHHccCCccceeE-EecCccccCccccccceeeccCC
Confidence 345677788999999999999999999999988876644 34555656778888888877764
No 70
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=34.04 E-value=32 Score=21.73 Aligned_cols=21 Identities=10% Similarity=0.267 Sum_probs=17.8
Q ss_pred HHHHhhhCCCCCCeEEEEEcC
Q psy7717 59 SFTKKSIKMDPSESLFIYVNQ 79 (113)
Q Consensus 59 ~~lrk~L~l~~~~sLFlyVnn 79 (113)
+-++..|++.+++.|++.+.+
T Consensus 16 k~i~~~lgl~~Gd~v~v~~~~ 36 (74)
T TIGR02609 16 KEVLESLGLKEGDTLYVDEEE 36 (74)
T ss_pred HHHHHHcCcCCCCEEEEEEEC
Confidence 557899999999999998765
No 71
>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=33.59 E-value=42 Score=22.03 Aligned_cols=56 Identities=9% Similarity=0.267 Sum_probs=35.1
Q ss_pred EecCCccHHhHHHHHHhh--hCCC------CCCeEEEEE----cCccCCCccchHHHHHHhcCCCCEEEEE
Q psy7717 47 LVHVDQNVASIISFTKKS--IKMD------PSESLFIYV----NQSFAPSPDTTIRALYDSFATNGSLVLN 105 (113)
Q Consensus 47 lV~~~~tv~~~~~~lrk~--L~l~------~~~sLFlyV----nn~~~P~~d~t~~~LY~~~kdDGfLyi~ 105 (113)
.|+++.|+++|+..|..+ +++. .+++||+=. ....-|+.+.+|.|| .+++..++|+
T Consensus 2 ~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL---~~~g~ei~Vt 69 (84)
T PF08825_consen 2 EVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL---LSDGEEITVT 69 (84)
T ss_dssp EESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT---HHSSEEEEEE
T ss_pred CcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH---hcCCCEEEEE
Confidence 478999999999999988 5544 345666511 112246677788888 2444455553
No 72
>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=33.48 E-value=1.1e+02 Score=18.45 Aligned_cols=57 Identities=16% Similarity=0.142 Sum_probs=38.5
Q ss_pred ceEEecCCccHHhHHHHHHhhhCC--CCCCeEEEEEcCccCCCccchHHHHHHhcCC--CCEEEEEE
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKM--DPSESLFIYVNQSFAPSPDTTIRALYDSFAT--NGSLVLNY 106 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l--~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd--DGfLyi~Y 106 (113)
-.+-|+.+.|+++|-..|..+.++ ++++ .-|+.++..+ ..+.++++ |+. +..|++.-
T Consensus 13 ~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~-q~L~~~G~~L-~d~~~L~~----~~i~~~~~i~~~~ 73 (77)
T cd01805 13 FPIEVDPDDTVAELKEKIEEEKGCDYPPEQ-QKLIYSGKIL-KDDTTLEE----YKIDEKDFVVVMV 73 (77)
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCCCChhH-eEEEECCEEc-cCCCCHHH----cCCCCCCEEEEEE
Confidence 346789999999999999999887 5543 4444567654 34556655 454 44666643
No 73
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=31.72 E-value=96 Score=18.57 Aligned_cols=39 Identities=15% Similarity=0.273 Sum_probs=28.1
Q ss_pred ccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCc
Q psy7717 42 TKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSP 85 (113)
Q Consensus 42 ~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~ 85 (113)
-.+.+-++...|+.+++..|. ++. +.+-+.+|+.+.|..
T Consensus 5 Ng~~~~~~~~~tv~~ll~~l~----~~~-~~i~V~vNg~~v~~~ 43 (65)
T cd00565 5 NGEPREVEEGATLAELLEELG----LDP-RGVAVALNGEIVPRS 43 (65)
T ss_pred CCeEEEcCCCCCHHHHHHHcC----CCC-CcEEEEECCEEcCHH
Confidence 355677888889998877654 443 466778999987764
No 74
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=31.68 E-value=27 Score=21.93 Aligned_cols=43 Identities=5% Similarity=0.140 Sum_probs=28.6
Q ss_pred cccceEEecCCccHHhHHHHHHhhh-CCCC-CCeEEEEEcCccCC
Q psy7717 41 LTKKKWLVHVDQNVASIISFTKKSI-KMDP-SESLFIYVNQSFAP 83 (113)
Q Consensus 41 L~k~KflV~~~~tv~~~~~~lrk~L-~l~~-~~sLFlyVnn~~~P 83 (113)
.+...+-++...|+++++..|..+. .+.. ...+.+.||+.+.+
T Consensus 18 ~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~ 62 (82)
T PLN02799 18 VSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT 62 (82)
T ss_pred CCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC
Confidence 3455667888999999999986553 1111 02456789998753
No 75
>PF12251 zf-SNAP50_C: snRNA-activating protein of 50kDa MW C terminal; InterPro: IPR022042 This domain family is found in eukaryotes, and is typically between 196 and 207 amino acids in length. There is a conserved CEH sequence motif. SNAP50 is part of the snRNA-activating protein complex which activates RNA polymerases II and III. There is a cysteine-histidine cluster which contains two possible zinc finger motifs.
Probab=31.62 E-value=53 Score=24.70 Aligned_cols=38 Identities=16% Similarity=0.263 Sum_probs=26.2
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCC-------CCCeEEEEEcCcc
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMD-------PSESLFIYVNQSF 81 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~-------~~~sLFlyVnn~~ 81 (113)
..|+|-+++|.++|...|...-... ...+=|+||++.|
T Consensus 2 qe~~vLgsQtLteLrD~i~C~~D~~~~~~~~~~~~s~fffIe~tF 46 (196)
T PF12251_consen 2 QEFLVLGSQTLTELRDKISCPSDQQPFGLAKDKYPSSFFFIEGTF 46 (196)
T ss_pred CEEEEecCCCHHHHhhCcCCCCCCccccccccCCCCeEEEECCEe
Confidence 4688999999888666555332222 2466799999987
No 76
>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=31.53 E-value=1.3e+02 Score=18.72 Aligned_cols=57 Identities=11% Similarity=0.158 Sum_probs=37.2
Q ss_pred EEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEE
Q psy7717 46 WLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNY 106 (113)
Q Consensus 46 flV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Y 106 (113)
.-|+++.||+++-..|..+-+++++.-=..|- ++.+. .+.++++ | .-+++.-++|.|
T Consensus 16 ~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~-Gk~L~-D~~tL~~-y-gi~~~stv~l~~ 72 (73)
T cd01791 16 VKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKW-YTIFK-DHISLGD-Y-EIHDGMNLELYY 72 (73)
T ss_pred EEeCCCCcHHHHHHHHHHHhCCChHHEEEEeC-CcCCC-CCCCHHH-c-CCCCCCEEEEEe
Confidence 36889999999999998887888765444444 54434 3456665 2 122355666666
No 77
>KOG4147|consensus
Probab=31.52 E-value=57 Score=23.05 Aligned_cols=54 Identities=26% Similarity=0.407 Sum_probs=35.2
Q ss_pred CCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC-CCEEEEEEcccc
Q psy7717 50 VDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT-NGSLVLNYCKTQ 110 (113)
Q Consensus 50 ~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd-DGfLyi~Ys~~~ 110 (113)
++.|+-+|+.+|..+++++++=. .|=|-+| .++.-.-+.++. -.-|.|+.-...
T Consensus 32 ad~Tvk~f~~~~~~~Iq~~~sl~--pfRn~kf-----DtLKIy~~Ah~sKT~nLvinldhDd 86 (127)
T KOG4147|consen 32 ADQTVKEFIVFLKQDIQLRTSLP--PFRNYKF-----DTLKIYHQAHKSKTNNLVINLDHDD 86 (127)
T ss_pred hHhhHHHHHHHHHHhcccCCCCC--ccccccc-----cceeeehhhhhcccceEEEeccCCc
Confidence 37799999999999999876533 3344444 445544555555 556666665444
No 78
>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=31.41 E-value=69 Score=22.33 Aligned_cols=32 Identities=3% Similarity=0.099 Sum_probs=28.1
Q ss_pred CCccHHhHHHHHHhhhCCCCCCeEEEEEcCcc
Q psy7717 50 VDQNVASIISFTKKSIKMDPSESLFIYVNQSF 81 (113)
Q Consensus 50 ~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~ 81 (113)
...+|.+++..+++-+.-.+++.|.+-+++..
T Consensus 67 ~~~~~~dvL~~i~~fl~~~p~e~VIl~l~~~~ 98 (135)
T smart00148 67 LPIKLSEVLEAIKDFAFVTSPYPVILSLENHC 98 (135)
T ss_pred ccEEHHHHHHHHHHHHHhCCCCcEEEeehhhC
Confidence 34689999999999999999999999998854
No 79
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=31.31 E-value=1.1e+02 Score=20.90 Aligned_cols=61 Identities=11% Similarity=0.058 Sum_probs=40.6
Q ss_pred CeeEEEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHH
Q psy7717 26 VKVPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRAL 92 (113)
Q Consensus 26 ~kVpVi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~L 92 (113)
.+|++.+---++ .--.|+|..+.+|..++....++-+-+.+ +|=+++|+.- ..+|+|-++|
T Consensus 23 ~hinLkvv~qd~----telfFkiKktT~f~klm~af~~rqGK~m~-slRfL~dG~r-I~~dqTP~dl 83 (103)
T COG5227 23 KHINLKVVDQDG----TELFFKIKKTTTFKKLMDAFSRRQGKNMS-SLRFLFDGKR-IDLDQTPGDL 83 (103)
T ss_pred cccceEEecCCC----CEEEEEEeccchHHHHHHHHHHHhCcCcc-eeEEEEccee-cCCCCChhhc
Confidence 466666643222 23468999999999999999888776544 5555566543 4457776665
No 80
>PRK13669 hypothetical protein; Provisional
Probab=29.76 E-value=57 Score=21.40 Aligned_cols=28 Identities=25% Similarity=0.552 Sum_probs=22.2
Q ss_pred CeEEEEEcCcc--CCCccchHHHHHHhcCC
Q psy7717 71 ESLFIYVNQSF--APSPDTTIRALYDSFAT 98 (113)
Q Consensus 71 ~sLFlyVnn~~--~P~~d~t~~~LY~~~kd 98 (113)
...|.+||+.. ++.+|+.+..||+.=+.
T Consensus 45 ~~~FAlVng~~V~a~t~eeL~~kI~~~i~e 74 (78)
T PRK13669 45 EGLFALVNGEVVEGETPEELVENIYAHLEE 74 (78)
T ss_pred cCceEEECCeEeecCCHHHHHHHHHHHHhh
Confidence 67999999953 68889999999886543
No 81
>KOG0010|consensus
Probab=29.76 E-value=1.5e+02 Score=25.78 Aligned_cols=64 Identities=16% Similarity=0.331 Sum_probs=47.6
Q ss_pred CeeEEEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC-CC
Q psy7717 26 VKVPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT-NG 100 (113)
Q Consensus 26 ~kVpVi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd-DG 100 (113)
..|-|+|+..+ +|.-|.|+.+.+|.+|..-|-++.+..+++-.-+|.+. + -..++|+. .|+. ||
T Consensus 14 ~~irV~Vkt~~-----dk~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGr-I-LKD~dTL~----~~gI~Dg 78 (493)
T KOG0010|consen 14 SLIRVTVKTPK-----DKYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGR-I-LKDDDTLK----QYGIQDG 78 (493)
T ss_pred ceeEEEEecCC-----cceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCc-c-ccChhhHH----HcCCCCC
Confidence 45667776544 27789999999999999999999998887666666655 4 34666664 4676 77
No 82
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=29.38 E-value=27 Score=23.67 Aligned_cols=36 Identities=17% Similarity=0.352 Sum_probs=22.4
Q ss_pred EEEEecCCCCCc----ccceEEec---CCccHHhHHHHHHhhh
Q psy7717 30 ILLRATGDAPIL----TKKKWLVH---VDQNVASIISFTKKSI 65 (113)
Q Consensus 30 Vi~e~~~~~P~L----~k~KflV~---~~~tv~~~~~~lrk~L 65 (113)
|.+|=.|++-.| ++.+..+| ...|+++++.+||+.+
T Consensus 2 i~vEF~GGlE~Lf~~~k~h~v~l~~~~~~~ti~~Li~~l~~nl 44 (96)
T PF09138_consen 2 ITVEFSGGLELLFGNQKKHKVSLPSDGEPATIKDLIDYLRDNL 44 (96)
T ss_dssp EEEEEETTCGGGTTT-SEEEEEE-SSCSC-BHHHHHHHHCCCT
T ss_pred EEEEEcCcHHHHhCCceeEEEEcCCCCCCcCHHHHHHHHHHhc
Confidence 344444555433 23346677 7889999999999876
No 83
>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=29.17 E-value=1.2e+02 Score=21.80 Aligned_cols=40 Identities=18% Similarity=0.331 Sum_probs=24.8
Q ss_pred cCCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEE
Q psy7717 35 TGDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIY 76 (113)
Q Consensus 35 ~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFly 76 (113)
.+.-|.+ =+.+.||.+.|+++|-.+|...++.... .||-|
T Consensus 12 ~~~~p~i-wRri~Vp~~~tl~~Lh~~Iq~afgw~~~-HL~~F 51 (179)
T PF07929_consen 12 KGSKPPI-WRRIEVPADITLADLHEVIQAAFGWDDD-HLYEF 51 (179)
T ss_dssp TT-SS-E-EEEEEEETT-BHHHHHHHHHHHTT-----S-EEE
T ss_pred cCCCCCe-EEEEEECCCCCHHHHHHHHHHHhCcCCC-EeEEE
Confidence 3434443 3457899999999999999999998743 45554
No 84
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=29.00 E-value=1.1e+02 Score=20.42 Aligned_cols=45 Identities=11% Similarity=0.208 Sum_probs=29.7
Q ss_pred EecCCccHHhHHHHHHhhhCCCCCCeEEEEEc-Ccc--CCCccchHHH
Q psy7717 47 LVHVDQNVASIISFTKKSIKMDPSESLFIYVN-QSF--APSPDTTIRA 91 (113)
Q Consensus 47 lV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVn-n~~--~P~~d~t~~~ 91 (113)
..++..|++.+...+|+.+.+..+-.|.-+-+ +.+ +..++.|+.+
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 56889999999999999999966666776544 332 3445566655
No 85
>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=28.86 E-value=1.7e+02 Score=19.12 Aligned_cols=59 Identities=12% Similarity=0.267 Sum_probs=43.2
Q ss_pred EecCCccHHhHHHHHHhhhCCCCCCeEEEEEc---C-ccCCCc-cchHHHHHHhcCC-CCEEEEE
Q psy7717 47 LVHVDQNVASIISFTKKSIKMDPSESLFIYVN---Q-SFAPSP-DTTIRALYDSFAT-NGSLVLN 105 (113)
Q Consensus 47 lV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVn---n-~~~P~~-d~t~~~LY~~~kd-DGfLyi~ 105 (113)
.|+...+++++...|.++|.+.++..-.=|-. + ...|-. ++.|.+.+.+=++ -.-|.+.
T Consensus 12 ~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~~~~~~~~~v~l~~e~~me~aW~~v~~~~ltLwcq 76 (78)
T cd06411 12 RAPRGADVSSLRALLSQALPQQAQRGQLSYRAPGEDGHWVPISGEESLQRAWQDVADGPRGLQLQ 76 (78)
T ss_pred EccCCCCHHHHHHHHHHHhcCChhhcEEEecCCCCCccEeecCcchHHHHHHHhccCCceEEEEe
Confidence 46788889999999999999998765555532 1 334665 8899999988776 4455443
No 86
>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=28.45 E-value=1.5e+02 Score=18.40 Aligned_cols=57 Identities=7% Similarity=0.010 Sum_probs=37.6
Q ss_pred EEecCCccHHhHHHHHHhhhCCCCC-CeEEEEEcCccCCCccchHHHHHHhcCC--CCEEEEEEc
Q psy7717 46 WLVHVDQNVASIISFTKKSIKMDPS-ESLFIYVNQSFAPSPDTTIRALYDSFAT--NGSLVLNYC 107 (113)
Q Consensus 46 flV~~~~tv~~~~~~lrk~L~l~~~-~sLFlyVnn~~~P~~d~t~~~LY~~~kd--DGfLyi~Ys 107 (113)
.-|+++.||+++-..|.++.+++++ +.|.+..++..+. .+.++++ |+. +..|++.-+
T Consensus 17 ~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~-D~~tL~~----~gi~~gs~l~l~~~ 76 (80)
T cd01792 17 VSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQ-DGVPLVS----QGLGPGSTVLLVVQ 76 (80)
T ss_pred EEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCC-CCCCHHH----cCCCCCCEEEEEEE
Confidence 3578899999999999988887665 3443223555433 3446654 454 668887654
No 87
>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=28.20 E-value=95 Score=20.62 Aligned_cols=29 Identities=14% Similarity=0.140 Sum_probs=24.2
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCCeEEE
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSESLFI 75 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~sLFl 75 (113)
-..||.+.++.+|..-||.++++. +.+-+
T Consensus 15 ~i~v~~~i~f~dL~~kIrdkf~~~--~~~~i 43 (86)
T cd06408 15 YIMIGPDTGFADFEDKIRDKFGFK--RRLKI 43 (86)
T ss_pred EEEcCCCCCHHHHHHHHHHHhCCC--CceEE
Confidence 456999999999999999999986 45554
No 88
>COG2002 AbrB Regulators of stationary/sporulation gene expression [Transcription]
Probab=27.42 E-value=85 Score=20.37 Aligned_cols=21 Identities=14% Similarity=0.238 Sum_probs=19.0
Q ss_pred HHHHhhhCCCCCCeEEEEEcC
Q psy7717 59 SFTKKSIKMDPSESLFIYVNQ 79 (113)
Q Consensus 59 ~~lrk~L~l~~~~sLFlyVnn 79 (113)
+-+|++|++.+++.|-+++..
T Consensus 20 keiR~~lgi~~Gd~lei~~~~ 40 (89)
T COG2002 20 KEIREALGIKEGDVLEIIVDG 40 (89)
T ss_pred HHHHHHhCCCCCCEEEEEEeC
Confidence 568999999999999999875
No 89
>PRK02363 DNA-directed RNA polymerase subunit delta; Reviewed
Probab=27.41 E-value=77 Score=22.48 Aligned_cols=50 Identities=14% Similarity=0.283 Sum_probs=35.4
Q ss_pred cCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEEccccccC
Q psy7717 49 HVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNYCKTQAWG 113 (113)
Q Consensus 49 ~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Ys~~~afG 113 (113)
...++|.+++..+.+.++++.++ + ...++++|..--.|| -.-+.+.+.||
T Consensus 17 ~~~m~f~dL~~ev~~~~~~s~e~---------~----~~~iaq~YtdLn~DG--RFi~lG~n~Wg 66 (129)
T PRK02363 17 KEPMSFYDLVNEIQKYLGKSDEE---------I----RERIAQFYTDLNLDG--RFISLGDNKWG 66 (129)
T ss_pred CCcccHHHHHHHHHHHhCCCHHH---------H----HHHHHHHHHHHhccC--CeeEcCCCcee
Confidence 46778999999999998864322 1 367899998888777 23345666666
No 90
>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=26.80 E-value=1.5e+02 Score=20.21 Aligned_cols=35 Identities=11% Similarity=0.146 Sum_probs=28.7
Q ss_pred eEEecCCccHHhHHHHHHhhhCCCCCC--eEEEEEcC
Q psy7717 45 KWLVHVDQNVASIISFTKKSIKMDPSE--SLFIYVNQ 79 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~l~~~~--sLFlyVnn 79 (113)
-+.++-+.||++++..|.++..+.++. .|++.+++
T Consensus 16 Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~ 52 (97)
T cd01775 16 TLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHD 52 (97)
T ss_pred EEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECC
Confidence 356788899999999999999887653 47777886
No 91
>PRK04115 hypothetical protein; Provisional
Probab=26.32 E-value=2e+02 Score=20.83 Aligned_cols=44 Identities=18% Similarity=0.395 Sum_probs=27.1
Q ss_pred CeeEEEEEecCCCCCcccceEEecCCccHHhHHHHHHhhhCC----CCCCeEEEE
Q psy7717 26 VKVPILLRATGDAPILTKKKWLVHVDQNVASIISFTKKSIKM----DPSESLFIY 76 (113)
Q Consensus 26 ~kVpVi~e~~~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l----~~~~sLFly 76 (113)
=|+||++|-.... ..-.|.|.+..-+ ++|.+-|+. ..++.+++|
T Consensus 66 lrLPIile~~~~~---~~g~~~VrG~~ev----k~IskiLg~~~~~~e~~~l~ly 113 (137)
T PRK04115 66 LRLPIILEIDSSL---GEGAIVVRGKEEV----KVISKILGKEDIFSEEDILYLY 113 (137)
T ss_pred eeeeEEEEEecCC---CceEEEEcCHHHH----HHHHHHhCccccccCCCEEEEe
Confidence 5899999976433 3345777777743 444555543 355666665
No 92
>PLN02768 AMP deaminase
Probab=26.17 E-value=1.2e+02 Score=28.12 Aligned_cols=47 Identities=15% Similarity=0.337 Sum_probs=36.3
Q ss_pred EecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCC
Q psy7717 47 LVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATN 99 (113)
Q Consensus 47 lV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdD 99 (113)
..++-++=.+++.||+++++..+++-+++ -+++ ..|+.++++.++-+
T Consensus 389 h~sacMnqk~LLrFIk~kl~~epd~vV~~-~dGk-----~~TL~evFe~l~lt 435 (835)
T PLN02768 389 HHSACMNQKHLLRFIKSKLRKEPDEVVIF-RDGT-----YLTLKEVFESLDLT 435 (835)
T ss_pred hhhccCCHHHHHHHHHHHHhcCCCceeec-cCCc-----cccHHHHHHHcCCc
Confidence 34456777899999999999988887763 3333 37999999988763
No 93
>PF14829 GPAT_N: Glycerol-3-phosphate acyltransferase N-terminal; PDB: 1IUQ_A 1K30_A.
Probab=25.88 E-value=25 Score=23.10 Aligned_cols=35 Identities=14% Similarity=0.319 Sum_probs=24.2
Q ss_pred cHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC
Q psy7717 53 NVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT 98 (113)
Q Consensus 53 tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd 98 (113)
+=++|+..|||-.- .+++-+.--.-|.+||+.||+
T Consensus 10 ~Eqells~Ikkeve-----------aGkLP~~va~gmeelY~NYk~ 44 (77)
T PF14829_consen 10 SEQELLSGIKKEVE-----------AGKLPANVAAGMEELYQNYKN 44 (77)
T ss_dssp SHHHHHHHHHHHHH-----------TTSS-HHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHH-----------cCCCChhHHHHHHHHHHHHHH
Confidence 44688888988753 133433356789999999985
No 94
>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=25.60 E-value=1.8e+02 Score=18.24 Aligned_cols=39 Identities=15% Similarity=0.063 Sum_probs=31.1
Q ss_pred CCcccceEEecCCccHHhHHHHHHhhhCCCCC---CeEEEEE
Q psy7717 39 PILTKKKWLVHVDQNVASIISFTKKSIKMDPS---ESLFIYV 77 (113)
Q Consensus 39 P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~---~sLFlyV 77 (113)
|.-.-+-..|+.+.|.++++..+-++++++.+ =+||-.+
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 55566778899999999999999999999763 3455555
No 95
>KOG1651|consensus
Probab=25.28 E-value=73 Score=23.93 Aligned_cols=36 Identities=22% Similarity=0.441 Sum_probs=26.1
Q ss_pred eEEEEEcC----ccCCCccchHHHHHHhcCCCCEEEEEEc
Q psy7717 72 SLFIYVNQ----SFAPSPDTTIRALYDSFATNGSLVLNYC 107 (113)
Q Consensus 72 sLFlyVnn----~~~P~~d~t~~~LY~~~kdDGfLyi~Ys 107 (113)
.+-|+||= .+.++.=..+.+||++|++.|+.++.+-
T Consensus 35 kV~LiVNVAS~Cg~T~~~Y~~l~~L~~ky~~~Gl~ILaFP 74 (171)
T KOG1651|consen 35 KVVLIVNVASQCGLTESQYTELNELYEKYKDQGLEILAFP 74 (171)
T ss_pred eEEEEEEcccccccchhcchhHHHHHHHHhhCCeEEEEec
Confidence 34455553 2446555689999999999999998763
No 96
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=25.16 E-value=1.9e+02 Score=18.32 Aligned_cols=55 Identities=16% Similarity=0.134 Sum_probs=38.2
Q ss_pred CCCcccceEEecCCccHHhHHHHHHhhhCCCCCCe-EEEEEcCc-cCCCccchHHHH
Q psy7717 38 APILTKKKWLVHVDQNVASIISFTKKSIKMDPSES-LFIYVNQS-FAPSPDTTIRAL 92 (113)
Q Consensus 38 ~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~s-LFlyVnn~-~~P~~d~t~~~L 92 (113)
+|.=+.....|.+.+|+.+++.-+-++-+++++.- +|+-.++. -.+..++.++.|
T Consensus 6 LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~~~~~~~~~~~~d~~~L 62 (72)
T cd01760 6 LPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLGLDEKKPLDLDTDSSSL 62 (72)
T ss_pred CcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEecCCCcCCcCchhhhhhh
Confidence 46556778889999999999999999999987632 33333331 335566665554
No 97
>PF00388 PI-PLC-X: Phosphatidylinositol-specific phospholipase C, X domain This entry is for the whole phospholipase C protein; InterPro: IPR000909 Phosphatidylinositol-specific phospholipase C (3.1.4.11 from EC), a eukaryotic intracellular enzyme, plays an important role in signal transduction processes []. It catalyzes the hydrolysis of 1-phosphatidyl-D-myo-inositol-3,4,5-triphosphate into the second messenger molecules diacylglycerol and inositol-1,4,5-triphosphate. This catalytic process is tightly regulated by reversible phosphorylation and binding of regulatory proteins [, , ]. In mammals, there are at least 6 different isoforms of PI-PLC, they differ in their domain structure, their regulation, and their tissue distribution. Lower eukaryotes also possess multiple isoforms of PI-PLC. All eukaryotic PI-PLCs contain two regions of homology, sometimes referred to as the 'X-box' and 'Y-box'. The order of these two regions is always the same (NH2-X-Y-COOH), but the spacing is variable. In most isoforms, the distance between these two regions is only 50-100 residues but in the gamma isoforms one PH domain, two SH2 domains, and one SH3 domain are inserted between the two PLC-specific domains. The two conserved regions have been shown to be important for the catalytic activity. By profile analysis, we could show that sequences with significant similarity to the X-box domain occur also in prokaryotic and trypanosome PI-specific phospholipases C. Apart from this region, the prokaryotic enzymes show no similarity to their eukaryotic counterparts.; GO: 0004629 phospholipase C activity, 0006629 lipid metabolic process, 0035556 intracellular signal transduction; PDB: 2FJU_B 2ZKM_X 3V18_A 3V1H_A 3V16_A 3QR1_D 3EA3_A 3EA1_A 2OR2_A 1T6M_B ....
Probab=25.05 E-value=57 Score=22.61 Aligned_cols=32 Identities=9% Similarity=0.261 Sum_probs=26.8
Q ss_pred CCccHHhHHHHHHhhhCCCCCCeEEEEEcCcc
Q psy7717 50 VDQNVASIISFTKKSIKMDPSESLFIYVNQSF 81 (113)
Q Consensus 50 ~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~ 81 (113)
...+|.+++..+++-|.-.+++.+-|-+++..
T Consensus 65 ~~~~~~dvL~~i~~fl~~~p~E~VIl~~~~~~ 96 (146)
T PF00388_consen 65 SGITFEDVLNDIRDFLFEHPSEPVILSLKHEY 96 (146)
T ss_dssp -EEEHHHHHHHHHHHTTHSTTS-EEEEEEEES
T ss_pred eeEeHHHHHHHHHHHHhcCCCeEEEEEeeccc
Confidence 35689999999999999999999999998754
No 98
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=24.74 E-value=1.2e+02 Score=17.06 Aligned_cols=21 Identities=14% Similarity=0.287 Sum_probs=18.1
Q ss_pred HHHHhhhCCCCCCeEEEEEcC
Q psy7717 59 SFTKKSIKMDPSESLFIYVNQ 79 (113)
Q Consensus 59 ~~lrk~L~l~~~~sLFlyVnn 79 (113)
..+|+.+++.+++.+.+.+++
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~~ 33 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVEG 33 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEET
T ss_pred HHHHHHcCCCCCCEEEEEEeC
Confidence 457899999999999998875
No 99
>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=24.69 E-value=2.6e+02 Score=19.85 Aligned_cols=55 Identities=4% Similarity=0.137 Sum_probs=37.7
Q ss_pred CccHHhHHHHHHhhhCCCCCCeEEEEEcCccCC----CccchHHHHHHhcC---C-CCEEEEEE
Q psy7717 51 DQNVASIISFTKKSIKMDPSESLFIYVNQSFAP----SPDTTIRALYDSFA---T-NGSLVLNY 106 (113)
Q Consensus 51 ~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P----~~d~t~~~LY~~~k---d-DGfLyi~Y 106 (113)
..|+.+++..++..+. .++..+.|+++-+-.+ .....+.++++.+. . +..++.++
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 4589999999988777 6667788888766321 23356777788876 3 55555554
No 100
>cd08590 PI-PLCc_Rv2075c_like Catalytic domain of uncharacterized Mycobacterium tuberculosis Rv2075c-like proteins. This subfamily corresponds to the catalytic domain present in uncharacterized Mycobacterium tuberculosis Rv2075c and its homologs. Members in this family are more closely related to the Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1(SaPLC1)-like proteins rather than the typical bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), which participate in Ca2+-independent PI metabolism, hydrolyzing the membrane lipid phosphatidylinositol (PI) to produce phosphorylated myo-inositol and diacylglycerol (DAG). In contrast, SaPLC1-like proteins have two Ca2+-chelating amino acid substitutions which convert them to metal-dependent bacterial PI-PLC. Rv2075c and its homologs have the same amino acid substitutions as well, which might suggest they have metal-dependent PI-PLC activity.
Probab=24.24 E-value=1.7e+02 Score=23.00 Aligned_cols=34 Identities=12% Similarity=0.210 Sum_probs=28.6
Q ss_pred CccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCC
Q psy7717 51 DQNVASIISFTKKSIKMDPSESLFIYVNQSFAPS 84 (113)
Q Consensus 51 ~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~ 84 (113)
+.++.+++..|++-|.-.+++-|.|++++.+-+.
T Consensus 87 ~~~l~d~L~eI~~fL~~nP~EvViL~~e~~~~~~ 120 (267)
T cd08590 87 DRLFEDGLNEIADWLNANPDEVVILYLEDHGDGG 120 (267)
T ss_pred cchHHHHHHHHHHHHHhCCCCcEEEEEecCCCcc
Confidence 4578899999999999999999999999865443
No 101
>TIGR01429 AMP_deaminase AMP deaminase. This model describes AMP deaminase, a large, well-conserved eukaryotic protein involved in energy metabolism. Most members of the family have an additional, poorly alignable region of 150 amino acids or more N-terminal to the region included in the model.
Probab=23.96 E-value=1.3e+02 Score=26.89 Aligned_cols=46 Identities=22% Similarity=0.421 Sum_probs=35.7
Q ss_pred EecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC
Q psy7717 47 LVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT 98 (113)
Q Consensus 47 lV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd 98 (113)
..++-++-.+++.||+++++..+++-++ +-+++ ..|+.++++..+-
T Consensus 177 h~s~cm~qk~LL~FIk~k~~~~pd~vV~-~~~gk-----~~TL~evf~~l~l 222 (611)
T TIGR01429 177 HAAASMNQKHLLRFIKHKLKTEPDETVI-ERDGK-----KLTLREVFDSLHL 222 (611)
T ss_pred cccccCCHHHHHHHHHHHHHcCCCcEEe-cCCCc-----cccHHHHHHHcCC
Confidence 4455677889999999999999888776 33333 4899999998764
No 102
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=23.73 E-value=80 Score=20.55 Aligned_cols=27 Identities=15% Similarity=0.309 Sum_probs=21.2
Q ss_pred CeEEEEEcCcc--CCCccchHHHHHHhcC
Q psy7717 71 ESLFIYVNQSF--APSPDTTIRALYDSFA 97 (113)
Q Consensus 71 ~sLFlyVnn~~--~P~~d~t~~~LY~~~k 97 (113)
...|.+||+.. ++++++.+..+++.=+
T Consensus 45 ~~pFAlVnG~~V~A~t~eeL~~kI~~~i~ 73 (78)
T PF07293_consen 45 KKPFALVNGEIVAAETAEELLEKIKEKIE 73 (78)
T ss_pred CCccEEECCEEEecCCHHHHHHHHHHHHh
Confidence 67899999964 6888888888887644
No 103
>PRK08577 hypothetical protein; Provisional
Probab=23.33 E-value=1e+02 Score=21.32 Aligned_cols=22 Identities=0% Similarity=0.108 Sum_probs=19.1
Q ss_pred HHHHhhhCCCCCCeEEEEEcCc
Q psy7717 59 SFTKKSIKMDPSESLFIYVNQS 80 (113)
Q Consensus 59 ~~lrk~L~l~~~~sLFlyVnn~ 80 (113)
.-+|++|++.+++.+-+++++.
T Consensus 19 ~~~r~~l~~~~g~~~~~~~~~~ 40 (136)
T PRK08577 19 LEIREALGIREGMYVLLIADTD 40 (136)
T ss_pred HHHHHHcCcCCCCEEEEEEECC
Confidence 5689999999999999998764
No 104
>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=23.29 E-value=2.3e+02 Score=18.60 Aligned_cols=62 Identities=19% Similarity=0.280 Sum_probs=42.6
Q ss_pred ccceEEecC--CccHHhHHHHHHhhhCCCCCCeEEE-EEcC---ccCCCccchHHHHHHhcCC-CCEEEEEE
Q psy7717 42 TKKKWLVHV--DQNVASIISFTKKSIKMDPSESLFI-YVNQ---SFAPSPDTTIRALYDSFAT-NGSLVLNY 106 (113)
Q Consensus 42 ~k~KflV~~--~~tv~~~~~~lrk~L~l~~~~sLFl-yVnn---~~~P~~d~t~~~LY~~~kd-DGfLyi~Y 106 (113)
+...|.++. +.++.++.+-++++++++ .+=+ |++. -.+.+.+.-+.+-++.+.. .+.|-|+-
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 456788988 779999999999999997 3333 5544 2234456666666666665 66666654
No 105
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=23.11 E-value=2.8e+02 Score=19.52 Aligned_cols=51 Identities=12% Similarity=0.083 Sum_probs=35.0
Q ss_pred cceEEecCCccHHhHHHHHHhhhCCCCCCe--EEEEEcCc---cCCCccchHHHHH
Q psy7717 43 KKKWLVHVDQNVASIISFTKKSIKMDPSES--LFIYVNQS---FAPSPDTTIRALY 93 (113)
Q Consensus 43 k~KflV~~~~tv~~~~~~lrk~L~l~~~~s--LFlyVnn~---~~P~~d~t~~~LY 93 (113)
...+.+..+.|+.+++..+.+++++...+- ||....+. .-..++.+|.+.-
T Consensus 15 ~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~ 70 (207)
T smart00295 15 TLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQD 70 (207)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhc
Confidence 557889999999999999999999965433 44444331 2244556665543
No 106
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=22.48 E-value=1.4e+02 Score=18.01 Aligned_cols=39 Identities=18% Similarity=0.220 Sum_probs=28.9
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccc
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDT 87 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~ 87 (113)
..+-++...|+.+++..+ +++ .+.+-+-+|+.+.|..+.
T Consensus 8 ~~~~~~~~~tl~~ll~~l----~~~-~~~vav~~N~~iv~r~~~ 46 (65)
T PRK05863 8 EQVEVDEQTTVAALLDSL----GFP-EKGIAVAVDWSVLPRSDW 46 (65)
T ss_pred EEEEcCCCCcHHHHHHHc----CCC-CCcEEEEECCcCcChhHh
Confidence 456677888888887754 554 358999999999887554
No 107
>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=22.44 E-value=1e+02 Score=23.87 Aligned_cols=55 Identities=13% Similarity=0.189 Sum_probs=33.2
Q ss_pred ceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC---CCEEEEEEccc
Q psy7717 44 KKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT---NGSLVLNYCKT 109 (113)
Q Consensus 44 ~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd---DGfLyi~Ys~~ 109 (113)
+-|.=..+.+..+|...+++.=.++ . .-+|+ -..+.++|+++.. |..|+|+.|+.
T Consensus 34 ~~y~D~~~i~~~efy~~l~~~~~~p-~---------TS~ps-~~~~~~~f~~~~~~gyd~ii~i~iSs~ 91 (280)
T PF02645_consen 34 KEYRDGVDISPEEFYEKLRESGEIP-K---------TSQPS-PGEFEEAFEKLLEEGYDEIIVITISSG 91 (280)
T ss_dssp EEEETTTTSCHHHHHHHHHHTTSEE-E---------EE----HHHHHHHHHHHHHTTTSEEEEEES-TT
T ss_pred eEEecCCCCCHHHHHHHHHhcCCCc-e---------ecCCC-HHHHHHHHHHHHHCCCCeEEEEeCCcc
Confidence 3344444888999999887653221 1 12344 4578888887433 77999998874
No 108
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=21.87 E-value=1.2e+02 Score=23.69 Aligned_cols=30 Identities=17% Similarity=0.369 Sum_probs=24.4
Q ss_pred CCccHHhHHHHHH--------hhhCCCCCCeEEEEEcC
Q psy7717 50 VDQNVASIISFTK--------KSIKMDPSESLFIYVNQ 79 (113)
Q Consensus 50 ~~~tv~~~~~~lr--------k~L~l~~~~sLFlyVnn 79 (113)
.+.+...|+.+|+ +.|+..+++.||+|..+
T Consensus 78 ~~v~~~~fl~vL~G~~~~~~~kvl~s~~~D~vfiy~~~ 115 (256)
T PF01650_consen 78 EDVTPENFLNVLTGDKSVPSGKVLNSTENDNVFIYFTG 115 (256)
T ss_pred cccCHHHHHHHhcCCCCCCccccccCCCCCeEEEEEec
Confidence 3668889999998 45578899999999864
No 109
>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=21.63 E-value=3.4e+02 Score=20.83 Aligned_cols=50 Identities=14% Similarity=0.272 Sum_probs=33.1
Q ss_pred eeEEEEEec--CCCCCcccceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcC
Q psy7717 27 KVPILLRAT--GDAPILTKKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQ 79 (113)
Q Consensus 27 kVpVi~e~~--~~~P~L~k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn 79 (113)
||.|.|.+. ..-+ .-...++..++..++...|-++|+++|..=-|.-+++
T Consensus 176 rv~V~f~~~~~~~~~---~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~~~~~ 227 (249)
T PF12436_consen 176 RVEVEFKPKDNPNDP---EFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFFTVNP 227 (249)
T ss_dssp EEEEEEEETTSTT------EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE---T
T ss_pred eEEEEEEECCCCCCC---CEEEEECCCCCHHHHHHHHHHHHCCChHHEEEEEecc
Confidence 899999875 2223 5566799999999999999999999887555554543
No 110
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=21.58 E-value=1.2e+02 Score=18.28 Aligned_cols=38 Identities=13% Similarity=0.175 Sum_probs=27.3
Q ss_pred cceEEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCc
Q psy7717 43 KKKWLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSP 85 (113)
Q Consensus 43 k~KflV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~ 85 (113)
-+.+-++...|+++++.. |+++. +.+-+-+|+.+.|..
T Consensus 7 g~~~~~~~~~tl~~ll~~----l~~~~-~~vaVavN~~iv~r~ 44 (66)
T PRK08053 7 DQPMQCAAGQTVHELLEQ----LNQLQ-PGAALAINQQIIPRE 44 (66)
T ss_pred CeEEEcCCCCCHHHHHHH----cCCCC-CcEEEEECCEEeChH
Confidence 456677888898888765 44432 467788999998854
No 111
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=21.43 E-value=2.3e+02 Score=17.98 Aligned_cols=34 Identities=9% Similarity=-0.009 Sum_probs=27.3
Q ss_pred EEecCCccHHhHHHHHHhhhCCCCC-CeEEEEEcC
Q psy7717 46 WLVHVDQNVASIISFTKKSIKMDPS-ESLFIYVNQ 79 (113)
Q Consensus 46 flV~~~~tv~~~~~~lrk~L~l~~~-~sLFlyVnn 79 (113)
-.++.++|+++|-.-|.+..+++++ +.|.+|-+.
T Consensus 17 kr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~ 51 (84)
T cd01789 17 KKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGD 51 (84)
T ss_pred EecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCC
Confidence 3589999999999999999998766 556566655
No 112
>cd03483 MutL_Trans_MLH1 MutL_Trans_MLH1: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH1 (MutL homologue 1). This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking hMLH1 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot syndrome (HNPCC variant). Mutation in hMLH1 accounts for a large fraction of HNPCC families.
Probab=21.07 E-value=93 Score=21.36 Aligned_cols=28 Identities=11% Similarity=0.400 Sum_probs=19.4
Q ss_pred CCeEEEEEcCccC--CCccchHHHHHHhcC
Q psy7717 70 SESLFIYVNQSFA--PSPDTTIRALYDSFA 97 (113)
Q Consensus 70 ~~sLFlyVnn~~~--P~~d~t~~~LY~~~k 97 (113)
.+..|+|||+... +.....+.+.|+.+-
T Consensus 47 ~~~q~~fVNgR~V~~~~l~~aI~~~Y~~~l 76 (127)
T cd03483 47 KIIFILFINNRLVECSALRRAIENVYANYL 76 (127)
T ss_pred CceEEEEEcCCEecCHHHHHHHHHHHHHhC
Confidence 4678999999642 334556677787773
No 113
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=20.78 E-value=1.1e+02 Score=23.10 Aligned_cols=64 Identities=14% Similarity=0.134 Sum_probs=32.5
Q ss_pred cceEEecCCccHHhHHHHHHhhhCCCCC----CeEEEEEcCccC-CCccchHH--HHHHhcCC-CC-EEEEEE
Q psy7717 43 KKKWLVHVDQNVASIISFTKKSIKMDPS----ESLFIYVNQSFA-PSPDTTIR--ALYDSFAT-NG-SLVLNY 106 (113)
Q Consensus 43 k~KflV~~~~tv~~~~~~lrk~L~l~~~----~sLFlyVnn~~~-P~~d~t~~--~LY~~~kd-DG-fLyi~Y 106 (113)
.-.|.|....+|+++-.-|++||+++.. =.+.+..++... |..-..-. .||+.... |. +|.|-.
T Consensus 134 PF~f~v~~gE~f~~tK~Rl~~rlgv~~keF~K~Kfaiv~~~~~~~~~yl~d~~~~il~~~~~~~~~~~LgLdH 206 (213)
T PF14533_consen 134 PFLFVVKPGETFSDTKERLQKRLGVSDKEFEKWKFAIVQNSRYSKPRYLEDDDDLILFDEIFNPDDPWLGLDH 206 (213)
T ss_dssp EEEEEEETT--HHHHHHHHHHHH---HHHHTT-EEEEEETTEE---EE--TT-T----GGGTS-S--EEEEE-
T ss_pred CEEEEeeCCCcHHHHHHHHHHHhCCChhhheeEEEEEEecCCcccceeccccchhhhhhhhcCccCCEEEEeC
Confidence 3458899999999999999999998743 235554555431 32211222 56777766 43 676643
No 114
>cd01319 AMPD AMP deaminase (AMPD) catalyzes the hydrolytic deamination of adensosine monophosphate (AMP) at position 6 of the adenine nucleotide ring. AMPD is a diverse and highly regulated eukaryotic key enzyme of the adenylate catabolic pathway.
Probab=20.73 E-value=1.5e+02 Score=25.60 Aligned_cols=47 Identities=19% Similarity=0.398 Sum_probs=36.0
Q ss_pred EEecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCC
Q psy7717 46 WLVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFAT 98 (113)
Q Consensus 46 flV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kd 98 (113)
+..++-++-.+++.||+++++..+++-++ +-+++ ..|+.++++..+-
T Consensus 65 vh~s~cm~~k~Ll~FI~~k~~~~pd~vv~-~~~g~-----~~TL~e~f~~l~~ 111 (496)
T cd01319 65 VHHSACMNQKHLLRFIKKKLRTEPDEVVI-FRDGK-----KLTLKEVFDSLKL 111 (496)
T ss_pred ccccccCCHHHHHHHHHHHHHcCCCcEEE-CCCCc-----cccHHHHHHHcCC
Confidence 45667778889999999999998876654 23332 4799999997774
No 115
>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=20.64 E-value=4.6e+02 Score=21.78 Aligned_cols=60 Identities=17% Similarity=0.154 Sum_probs=40.4
Q ss_pred eEEecCCccHHhHHHHHHhhhC---CCCCCeEEEEEcCccCCCccchHHHHHHhcCCCCEEEEEEcc
Q psy7717 45 KWLVHVDQNVASIISFTKKSIK---MDPSESLFIYVNQSFAPSPDTTIRALYDSFATNGSLVLNYCK 108 (113)
Q Consensus 45 KflV~~~~tv~~~~~~lrk~L~---l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdDGfLyi~Ys~ 108 (113)
.+-|..+.||.+|...|...-+ +..+ .+=|+.+++++ ..+.+|++ | .-+++.+|++--+.
T Consensus 14 ~IeV~~~~TV~dLK~kI~~~~g~~~ip~~-~QkLIy~GkiL-~Dd~tL~d-y-~I~e~~~Ivvmv~k 76 (378)
T TIGR00601 14 KIDMEPDETVKELKEKIEAEQGKDAYPVA-QQKLIYSGKIL-SDDKTVRE-Y-KIKEKDFVVVMVSK 76 (378)
T ss_pred EEEeCCcChHHHHHHHHHHhhCCCCCChh-HeEEEECCEEC-CCCCcHHH-c-CCCCCCEEEEEecc
Confidence 3457899999999999988776 6544 34555677764 45667766 2 12347788876554
No 116
>PLN03055 AMP deaminase; Provisional
Probab=20.29 E-value=1.7e+02 Score=26.03 Aligned_cols=47 Identities=17% Similarity=0.362 Sum_probs=36.3
Q ss_pred EecCCccHHhHHHHHHhhhCCCCCCeEEEEEcCccCCCccchHHHHHHhcCCC
Q psy7717 47 LVHVDQNVASIISFTKKSIKMDPSESLFIYVNQSFAPSPDTTIRALYDSFATN 99 (113)
Q Consensus 47 lV~~~~tv~~~~~~lrk~L~l~~~~sLFlyVnn~~~P~~d~t~~~LY~~~kdD 99 (113)
..++-++-.+++.||+++++..+++-++ +-+++ ..|+.++++..+-+
T Consensus 156 h~s~cm~qk~LL~FIk~k~~~~pd~vV~-~~~gk-----~~TL~evfe~l~~~ 202 (602)
T PLN03055 156 HHSSCMNQKHLLRFIKSKLRKEPDEVVI-FRDGK-----YLTLREVFESLDLT 202 (602)
T ss_pred cccccCCHHHHHHHHHHHHHcCCCcEee-cCCCc-----chhHHHHHHHcCCC
Confidence 3447778889999999999999888774 33332 48999999988763
Done!