Query 015405
Match_columns 407
No_of_seqs 311 out of 818
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:00:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015405.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015405hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2086 Protein tyrosine phosp 100.0 7.1E-79 1.5E-83 605.3 21.7 355 7-407 2-379 (380)
2 smart00553 SEP Domain present 100.0 5.5E-36 1.2E-40 248.2 8.6 89 223-311 2-90 (93)
3 PF08059 SEP: SEP domain; Int 100.0 3.5E-31 7.6E-36 211.9 5.6 75 228-302 1-75 (75)
4 cd01770 p47_UBX p47-like ubiqu 99.9 3.1E-24 6.8E-29 173.4 9.8 76 331-407 2-78 (79)
5 cd01767 UBX UBX (ubiquitin reg 99.8 1.1E-19 2.5E-24 145.4 9.6 74 332-407 1-76 (77)
6 smart00166 UBX Domain present 99.8 3.8E-18 8.2E-23 137.6 9.9 76 331-407 2-80 (80)
7 cd01773 Faf1_like1_UBX Faf1 ik 99.7 9.3E-18 2E-22 136.4 9.9 73 330-404 2-77 (82)
8 cd01774 Faf1_like2_UBX Faf1 ik 99.7 1.3E-17 2.8E-22 136.7 9.2 68 332-401 3-77 (85)
9 cd01771 Faf1_UBX Faf1 UBX doma 99.7 2.3E-17 5E-22 133.8 9.7 74 330-405 1-77 (80)
10 cd01772 SAKS1_UBX SAKS1-like U 99.7 6.5E-17 1.4E-21 130.6 9.1 73 332-406 3-79 (79)
11 PF00789 UBX: UBX domain; Int 99.7 4.6E-17 1E-21 131.2 8.0 78 329-407 2-82 (82)
12 KOG1364 Predicted ubiquitin re 99.6 5.1E-14 1.1E-18 139.9 17.3 74 333-407 277-355 (356)
13 PF14555 UBA_4: UBA-like domai 99.5 1.1E-13 2.3E-18 99.4 5.6 41 10-50 1-41 (43)
14 KOG2689 Predicted ubiquitin re 99.2 2.9E-11 6.2E-16 116.9 9.8 77 330-407 207-286 (290)
15 KOG2507 Ubiquitin regulatory p 98.7 1.5E-08 3.3E-13 103.2 4.7 69 331-400 312-382 (506)
16 KOG1363 Predicted regulator of 98.1 3.9E-06 8.4E-11 88.1 6.9 74 330-405 380-457 (460)
17 PF03943 TAP_C: TAP C-terminal 97.7 2.6E-05 5.7E-10 58.1 2.3 40 10-49 1-40 (51)
18 smart00804 TAP_C C-terminal do 97.6 0.00014 3E-09 56.7 6.1 42 6-47 9-50 (63)
19 cd01796 DDI1_N DNA damage indu 97.1 0.0014 3.1E-08 51.6 6.5 68 336-406 1-70 (71)
20 PF12090 Spt20: Spt20 family; 97.1 0.00041 8.8E-09 64.7 3.5 61 224-285 14-85 (182)
21 cd01794 DC_UbP_C dendritic cel 97.0 0.002 4.3E-08 50.8 6.2 65 336-404 1-65 (70)
22 cd01806 Nedd8 Nebb8-like ubiq 97.0 0.0037 8E-08 48.8 7.6 63 335-401 2-64 (76)
23 cd01807 GDX_N ubiquitin-like d 96.9 0.0035 7.5E-08 49.5 6.9 65 335-403 2-67 (74)
24 cd01804 midnolin_N Ubiquitin-l 96.8 0.0058 1.2E-07 49.0 7.5 65 335-404 3-68 (78)
25 cd01792 ISG15_repeat1 ISG15 ub 96.7 0.0089 1.9E-07 48.0 7.9 68 334-403 3-71 (80)
26 cd01805 RAD23_N Ubiquitin-like 96.6 0.0096 2.1E-07 46.9 7.5 65 335-403 2-69 (77)
27 cd01809 Scythe_N Ubiquitin-lik 96.6 0.0091 2E-07 46.1 7.3 65 335-403 2-67 (72)
28 cd01791 Ubl5 UBL5 ubiquitin-li 96.6 0.013 2.8E-07 46.7 7.8 67 334-404 2-69 (73)
29 cd01803 Ubiquitin Ubiquitin. U 96.5 0.011 2.4E-07 46.1 6.9 62 335-400 2-63 (76)
30 PF00240 ubiquitin: Ubiquitin 96.4 0.0068 1.5E-07 46.6 5.2 62 339-404 1-63 (69)
31 PTZ00044 ubiquitin; Provisiona 96.4 0.014 2.9E-07 46.0 6.8 62 335-400 2-63 (76)
32 PF00627 UBA: UBA/TS-N domain; 96.3 0.011 2.5E-07 40.7 5.2 34 9-43 2-35 (37)
33 cd01798 parkin_N amino-termina 96.2 0.013 2.9E-07 45.5 5.9 64 336-403 1-65 (70)
34 cd01814 NTGP5 Ubiquitin-like N 96.1 0.012 2.6E-07 50.9 5.5 62 332-397 3-72 (113)
35 cd01810 ISG15_repeat2 ISG15 ub 96.1 0.018 3.8E-07 45.5 6.1 64 336-403 1-65 (74)
36 cd01808 hPLIC_N Ubiquitin-like 96.1 0.025 5.5E-07 44.1 6.9 66 335-405 2-68 (71)
37 smart00213 UBQ Ubiquitin homol 95.9 0.029 6.4E-07 41.8 6.2 61 335-400 2-62 (64)
38 cd01812 BAG1_N Ubiquitin-like 95.8 0.042 9.1E-07 42.4 7.2 65 335-404 2-67 (71)
39 PF13881 Rad60-SLD_2: Ubiquiti 95.5 0.051 1.1E-06 46.9 7.0 63 333-399 2-72 (111)
40 cd01769 UBL Ubiquitin-like dom 95.5 0.069 1.5E-06 40.3 7.0 64 338-405 2-66 (69)
41 PF11543 UN_NPL4: Nuclear pore 95.3 0.024 5.3E-07 46.0 4.3 67 334-402 5-73 (80)
42 cd01802 AN1_N ubiquitin-like d 95.2 0.095 2.1E-06 44.5 7.8 68 332-403 26-94 (103)
43 smart00165 UBA Ubiquitin assoc 95.1 0.049 1.1E-06 37.2 4.8 35 10-45 2-36 (37)
44 cd01797 NIRF_N amino-terminal 95.0 0.11 2.4E-06 41.8 7.1 66 335-404 2-70 (78)
45 cd01763 Sumo Small ubiquitin-r 94.9 0.19 4.1E-06 41.1 8.4 67 330-400 8-74 (87)
46 KOG4351 Uncharacterized conser 94.8 0.0046 1E-07 59.3 -1.6 45 6-50 20-67 (244)
47 TIGR00601 rad23 UV excision re 94.7 0.1 2.3E-06 54.0 7.8 66 335-404 2-71 (378)
48 cd00194 UBA Ubiquitin Associat 94.6 0.1 2.2E-06 35.8 5.2 36 10-46 2-37 (38)
49 PF11976 Rad60-SLD: Ubiquitin- 94.2 0.16 3.6E-06 39.3 6.3 62 335-400 2-64 (72)
50 cd01793 Fubi Fubi ubiquitin-li 93.6 0.28 6.1E-06 38.5 6.7 63 335-403 2-65 (74)
51 cd01790 Herp_N Homocysteine-re 93.0 0.38 8.2E-06 39.2 6.5 60 334-397 2-65 (79)
52 cd01800 SF3a120_C Ubiquitin-li 92.8 0.28 6.2E-06 38.8 5.6 58 342-403 6-64 (76)
53 cd01813 UBP_N UBP ubiquitin pr 92.6 0.64 1.4E-05 36.9 7.3 67 335-404 2-70 (74)
54 PRK06369 nac nascent polypepti 91.3 0.37 7.9E-06 42.0 4.8 36 9-44 76-111 (115)
55 TIGR00264 alpha-NAC-related pr 91.2 0.39 8.4E-06 41.9 4.9 36 9-44 78-113 (116)
56 cd00196 UBQ Ubiquitin-like pro 90.4 0.94 2E-05 31.3 5.7 60 337-400 1-60 (69)
57 PF02845 CUE: CUE domain; Int 88.9 1.3 2.9E-05 31.2 5.3 38 10-47 2-40 (42)
58 KOG2756 Predicted Mg2+-depende 88.5 0.43 9.4E-06 47.4 3.4 46 4-49 20-65 (349)
59 smart00546 CUE Domain that may 86.6 2.2 4.8E-05 30.1 5.4 38 10-47 3-41 (43)
60 cd01795 USP48_C USP ubiquitin- 85.3 2.1 4.6E-05 36.5 5.4 55 346-405 17-74 (107)
61 KOG0011 Nucleotide excision re 84.7 2.3 5.1E-05 43.2 6.4 68 335-405 2-71 (340)
62 COG1308 EGD2 Transcription fac 83.9 2 4.3E-05 37.8 4.8 36 9-44 84-119 (122)
63 PLN02560 enoyl-CoA reductase 83.8 5.2 0.00011 40.5 8.5 70 335-406 2-81 (308)
64 cd01799 Hoil1_N Ubiquitin-like 83.7 4.5 9.8E-05 32.2 6.5 58 339-400 8-66 (75)
65 PF14560 Ubiquitin_2: Ubiquiti 83.7 3.3 7.2E-05 33.5 5.9 67 334-402 2-76 (87)
66 cd01801 Tsc13_N Ubiquitin-like 83.6 6.4 0.00014 31.2 7.4 54 351-406 20-75 (77)
67 PF14836 Ubiquitin_3: Ubiquiti 82.3 4.6 0.0001 33.6 6.1 56 345-401 15-72 (88)
68 PF08817 YukD: WXG100 protein 80.2 3.5 7.7E-05 32.9 4.7 67 333-402 2-74 (79)
69 cd01815 BMSC_UbP_N Ubiquitin-l 78.6 6 0.00013 32.0 5.5 45 352-400 19-66 (75)
70 PF09379 FERM_N: FERM N-termin 75.9 3 6.4E-05 32.7 3.1 61 338-399 1-65 (80)
71 KOG3493 Ubiquitin-like protein 73.5 3 6.5E-05 32.9 2.4 24 343-366 11-34 (73)
72 smart00295 B41 Band 4.1 homolo 72.7 10 0.00022 34.4 6.3 65 333-398 3-71 (207)
73 PF11547 E3_UbLigase_EDD: E3 u 71.4 14 0.0003 27.6 5.3 47 4-50 4-51 (53)
74 PF11470 TUG-UBL1: GLUT4 regul 70.9 10 0.00022 29.7 4.9 58 340-401 3-60 (65)
75 CHL00098 tsf elongation factor 68.2 8.7 0.00019 36.6 4.8 38 11-48 3-40 (200)
76 cd01777 SNX27_RA Ubiquitin dom 67.5 9.9 0.00021 31.6 4.4 33 334-366 2-34 (87)
77 PRK12332 tsf elongation factor 66.3 9.9 0.00021 36.1 4.8 39 10-48 5-43 (198)
78 cd01789 Alp11_N Ubiquitin-like 65.6 31 0.00067 27.9 7.0 65 334-400 2-72 (84)
79 TIGR00116 tsf translation elon 64.5 10 0.00023 38.1 4.8 39 10-48 5-43 (290)
80 PRK09377 tsf elongation factor 62.2 12 0.00026 37.6 4.8 40 9-48 5-44 (290)
81 KOG3077 Uncharacterized conser 62.1 3.1 6.7E-05 41.1 0.6 38 9-46 8-45 (260)
82 cd01787 GRB7_RA RA (RAS-associ 60.9 30 0.00065 28.7 6.0 50 334-384 3-53 (85)
83 PRK05441 murQ N-acetylmuramic 54.3 20 0.00044 35.9 4.9 40 9-48 235-274 (299)
84 KOG1071 Mitochondrial translat 52.6 19 0.00041 36.7 4.3 36 8-43 45-80 (340)
85 KOG0010 Ubiquitin-like protein 51.2 32 0.0007 36.9 5.9 63 333-400 15-77 (493)
86 TIGR00274 N-acetylmuramic acid 50.1 27 0.00058 35.0 5.0 40 8-47 229-268 (291)
87 PF03765 CRAL_TRIO_N: CRAL/TRI 49.8 23 0.00051 25.9 3.4 26 21-46 28-53 (55)
88 cd01760 RBD Ubiquitin-like dom 45.3 63 0.0014 25.7 5.4 42 336-377 2-43 (72)
89 PRK12570 N-acetylmuramic acid- 44.8 33 0.00072 34.4 4.7 41 8-48 230-270 (296)
90 PF10302 DUF2407: DUF2407 ubiq 41.3 89 0.0019 26.3 6.1 53 335-390 2-59 (97)
91 COG2103 Predicted sugar phosph 39.3 50 0.0011 33.1 4.8 42 8-49 232-273 (298)
92 COG0264 Tsf Translation elonga 39.2 49 0.0011 33.4 4.8 40 10-49 6-45 (296)
93 PF13019 Telomere_Sde2: Telome 36.4 2E+02 0.0043 26.7 7.9 51 335-387 2-57 (162)
94 KOG0005 Ubiquitin-like protein 33.7 1.1E+02 0.0025 23.9 5.0 67 335-405 2-68 (70)
95 PF02196 RBD: Raf-like Ras-bin 30.5 1.9E+02 0.0041 22.7 6.0 52 335-387 2-53 (71)
96 cd01818 TIAM1_RBD Ubiquitin do 29.8 1.1E+02 0.0024 24.9 4.6 40 338-377 4-43 (77)
97 PF00564 PB1: PB1 domain; Int 28.8 1.2E+02 0.0027 23.5 4.8 45 333-377 1-45 (84)
98 smart00666 PB1 PB1 domain. Pho 27.9 2.1E+02 0.0045 22.2 5.9 43 334-377 2-44 (81)
99 smart00455 RBD Raf-like Ras-bi 27.8 1.6E+02 0.0034 23.1 5.1 42 336-377 2-43 (70)
100 PF15044 CLU_N: Mitochondrial 26.1 1E+02 0.0022 24.6 3.9 40 351-395 2-43 (76)
101 PF09107 SelB-wing_3: Elongati 25.6 84 0.0018 23.3 3.0 21 13-33 13-33 (50)
102 KOG1194 Predicted DNA-binding 24.6 1E+02 0.0023 33.0 4.5 42 4-45 135-180 (534)
103 KOG0625 Phosphoglucomutase [Ca 23.0 31 0.00067 36.6 0.3 35 335-369 485-520 (558)
104 PF06972 DUF1296: Protein of u 22.6 3.1E+02 0.0066 21.4 5.6 39 9-47 5-44 (60)
105 PF10075 PCI_Csn8: COP9 signal 22.3 69 0.0015 28.1 2.4 34 13-46 100-133 (143)
106 PF14327 CSTF2_hinge: Hinge do 21.6 1.1E+02 0.0023 25.0 3.2 34 8-42 30-63 (84)
107 PF12096 DUF3572: Protein of u 21.6 1.4E+02 0.0029 25.0 3.8 41 8-50 19-59 (88)
108 cd01817 RGS12_RBD Ubiquitin do 20.3 1.4E+02 0.0031 24.0 3.6 41 337-377 3-43 (73)
109 cd06536 CIDE_N_ICAD CIDE_N dom 20.1 51 0.0011 27.0 1.0 19 224-242 41-59 (80)
No 1
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=100.00 E-value=7.1e-79 Score=605.29 Aligned_cols=355 Identities=44% Similarity=0.693 Sum_probs=278.3
Q ss_pred hhhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhcccccCCCCcccccccCCCCCCCCCCCCCCCCCCCCCCC
Q 015405 7 EANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNAAAATASPEASQSVATLPAVNSPSLSNSPSTSPSASLS 86 (407)
Q Consensus 7 ~~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (407)
+...+.|++||++||.++.+|++||+.++||++.|...+|.+....... .. + ++...
T Consensus 2 ~~p~~~ls~f~~~t~~se~~~~~~l~s~~~d~~~a~~~~~~~~~~~~~~--~~------s-------q~~~~-------- 58 (380)
T KOG2086|consen 2 AIPLDSLSEFRAVTGPSESRARFYLESIYWDREAAHRSELEAFADEDLW--GS------S-------QGSSS-------- 58 (380)
T ss_pred CCchhHHHHHhccCCCCccccccccccCCCchhhhhhhhcccccccccc--cc------c-------ccccc--------
Confidence 4456889999999999999999999999999999999999876442000 00 0 00000
Q ss_pred CCCCCCCCCCCCCCCCchhhccCCCCCCcccccccCCCCCCCccccccccCCCCCCCCCCCCCCCCCcccccCCccccee
Q 015405 87 RSPSRSRSPSPAAARDPYELRSRSRPGKKEDKKAATGTSRGGIRTLADLNRTPPGGADSDDDDDEPQQYYTGGEKSGMLV 166 (407)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tl~dl~~~~~~~~d~dd~~~~~~~~faGGekSGl~V 166 (407)
.......++ .... .......++|++++|+....+ .+.++|+++.|+||||||+|||+|
T Consensus 59 -~~~~~~~~s--------------~~~~-----~~~~~~~~~~~s~~d~~~~~~--~~~~sddd~~qe~~~gge~~gq~~ 116 (380)
T KOG2086|consen 59 -SDKEPTSPS--------------QSRT-----ALQDQVATGITSFRDLFSDRD--EELESDDDQEQEFYAGGEKSGQMV 116 (380)
T ss_pred -ccccCCCCc--------------cccc-----ccccccccCcCCHHHhccccc--cccccccchhhhhhhccccccccc
Confidence 000000000 0000 012345568999999976432 223345666679999999999777
Q ss_pred eCCCCCCC----HHHHHHHHHHh-cccCCCcccCCCCCceeeeeeecCCCCCCCCCCC------CCCCceEEEEEecCce
Q 015405 167 QDPTKGNQ----VDEIFNQARQS-AVERPDLRASSSSKAFTGTARLLSGETVSSAPAP------PPENVSHNITFWRNGF 235 (407)
Q Consensus 167 ~~P~~~~~----v~~if~~A~~~-a~~~~~~~~~~~~~~F~G~G~~L~~~~~~~~~~~------~~~~~~~~it~w~nGF 235 (407)
..|+++++ |++||++|+++ |..............|.|++.-|+|..++...+. .++.+.|+|+||||||
T Consensus 117 v~~~~k~~~~e~v~~~~~~a~q~~a~~~~~~~~~~~~~~~~gs~~~lsg~~~~~~~q~~~~~~~~~~~v~~~l~lW~nGF 196 (380)
T KOG2086|consen 117 VEPPDKKSSEEDVDEIFGQARQMGAVEGPLAPSESSSGEFLGSGGDLSGEVVPLGTQQQQREAQPPEPVTVTLKLWKNGF 196 (380)
T ss_pred cCCCccccHHHHHHHHHhhhcccCccccCccCccccccccccccccccCccccCCcccCcccccCCCcceeEEEEeeccc
Confidence 77776652 99999999999 5543322222345678999999988877654221 2367999999999999
Q ss_pred eecCCCCCCCCChhhHHHHHHHHcCCCCCcccCCCCCCcEEEEEEccccccccCCCCCCCcccccccccCCCCCCCc--c
Q 015405 236 TVDDGPLRGMDDPANASFLESIMRSECPRELEPADKKTRVHVELINKREEDYSEPPKRRSAFQGVGRTLGGSDSPAS--A 313 (407)
Q Consensus 236 ~VdDGplr~yddP~N~~fL~~I~~G~~P~eL~~~~~~~~V~v~v~D~~~E~y~~p~~~~~~F~G~G~~LGs~~p~~~--~ 313 (407)
+|||||||+|+||+|++||++|++|+||.||+.++++++|+|+|+|||+|+|++|++.+++|+|+||+||++.|... +
T Consensus 197 svdDGplr~ydDP~N~~fL~~I~~Ge~P~eL~~~~~~~~V~v~v~~~r~E~~~~~~~~~~pF~G~Gq~LGs~~p~~~~ss 276 (380)
T KOG2086|consen 197 SVDDGPLRSYDDPANAEFLESIRKGEAPSELLPVDPGQEVDVKVEDHRDEDYLEPKPVFKPFSGEGQRLGSTAPGVSGSS 276 (380)
T ss_pred cccCCCcccccChhHHHHHHHHhccCCCHHHhccccCCccceeccccccccccCCCcccCCCCCcCeecCCcCCCccccC
Confidence 99999999999999999999999999999999999999999999999999999999899999999999999766311 1
Q ss_pred --------cCC-CCCCCCCCcccCCCCCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCC-CCCeEEEecCCCC
Q 015405 314 --------ALN-TAPSPSSGLVVDATLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPP 383 (407)
Q Consensus 314 --------~~~-~~~~~~~~~~vd~~~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~-~~~F~L~tt~FP~ 383 (407)
+.+ ....+...+.+|+.+|+|+|||||+||+|+|++||++|||.|||.||..++|.+ ...|.|+ ++||+
T Consensus 277 ~~~~~~~~p~~~~~~~~~~sl~~d~~~PtTsIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~-~~FPp 355 (380)
T KOG2086|consen 277 SPPLTATVPANTQERSASSSLVIDPAEPTTSIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILM-MAFPP 355 (380)
T ss_pred CCcccccCCccccccccccccccCCCCCcceEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeee-ecCCC
Confidence 011 111234568899999999999999999999999999999999999999999998 6789999 89999
Q ss_pred ccCCCccCchhhcCCCCeeEEeeC
Q 015405 384 KQLTDLDQTVEQAGIANSVVIQKL 407 (407)
Q Consensus 384 k~l~D~s~TL~eagL~navvvqr~ 407 (407)
|+|.|+++||++|||+|+||||||
T Consensus 356 k~l~D~sqTle~AgL~Nsvlvqr~ 379 (380)
T KOG2086|consen 356 KPLSDDSQTLEEAGLLNSVLVQRL 379 (380)
T ss_pred cccCCcchhHHhccchhhhhhhhc
Confidence 999999999999999999999997
No 2
>smart00553 SEP Domain present in Saccharomyces cerevisiae Shp1, Drosophila melanogaster eyes closed gene (eyc), and vertebrate p47.
Probab=100.00 E-value=5.5e-36 Score=248.19 Aligned_cols=89 Identities=51% Similarity=0.856 Sum_probs=85.5
Q ss_pred CceEEEEEecCceeecCCCCCCCCChhhHHHHHHHHcCCCCCcccCCCCCCcEEEEEEccccccccCCCCCCCccccccc
Q 015405 223 NVSHNITFWRNGFTVDDGPLRGMDDPANASFLESIMRSECPRELEPADKKTRVHVELINKREEDYSEPPKRRSAFQGVGR 302 (407)
Q Consensus 223 ~~~~~it~w~nGF~VdDGplr~yddP~N~~fL~~I~~G~~P~eL~~~~~~~~V~v~v~D~~~E~y~~p~~~~~~F~G~G~ 302 (407)
++.|+||||+|||+|||||||+||||+|++||++|++|+||.||++++++++|+|+|+|||+|+|++|++++++|+|+||
T Consensus 2 ~v~~~ltlw~nGFtVdDGplr~yddP~N~~FL~~I~~G~~P~EL~~~~~~~~V~v~l~d~~~E~y~~p~~~~~~F~G~G~ 81 (93)
T smart00553 2 KVIVVLTFWSNGFSVDDGPLRTYDDPENAEFLESIRRGEAPLELLRVDKGQPVNVDVEDHRDEDYVAPPKAFKPFSGSGQ 81 (93)
T ss_pred CeEEEEEEecCCcEecCCCcccCCCHhHHHHHHHHHcCCCCHHHHhhcCCCcEEEEeEeccCccccCCCCCccCCccCCc
Confidence 47899999999999999999999999999999999999999999999999999999999999999999888899999999
Q ss_pred ccCCCCCCC
Q 015405 303 TLGGSDSPA 311 (407)
Q Consensus 303 ~LGs~~p~~ 311 (407)
+||+++|..
T Consensus 82 ~LGs~~p~~ 90 (93)
T smart00553 82 KLGSPGPQS 90 (93)
T ss_pred cCCCCCCCc
Confidence 999998853
No 3
>PF08059 SEP: SEP domain; InterPro: IPR012989 The SEP (after shp1, eyc and p47) domain is an eukaryotic domain, which occurs frequently and mainly in single units. Almost all proteins containing a SEP domain are succeeded closely by a UBX domain (see PDOC50033 from PROSITEDOC). The function of the SEP domain is as yet unknown but it has been proposed to act as a reversible competitive inhibitor of the lysosomal cysteine protease cathepsin L [, ]. The sructure of the SEP domain comprises a beta-sheet composed of four strands, and two alpha-helices. One side of the beta-sheet faces alpha1 and alpha2. The longer helix alpha1 packs against the four- stranded beta-sheet, where as the shorter helix alpha2 is located at one edge of the globular structure formed by alpha1 and the four stranded beta sheet. A number of highly conserved hydrophobic residues are present in the SEP domain, which are predominantly buried and form the hydrophobic core [, ]. Some proteins known to contain a SEP domain are listed below: - Eukaryotic NSFL1 cofactor p37 (or p97 cofactor p37), an adapter protein required for Golgi and endoplasmic reticulum biogenesis. It is involved in Golgi and endoplasmic reticulum maintenance during interphase and in their reassembly at the end of mitosis. - Eukaryotic NSFL1 cofactor p47 (or p97 cofactor p47), a major adaptor molecule of the cytosolic AAA-type ATPase (ATPases associated with various cellular activities) p97. p47 is required for the p97-regulated membrane reassembly of the endoplasmic reticulum (ER), the nuclear envelope and the Golgi apparatus. - Vertebrate UBX domain-containing protein 4 (UBXD4). - Plant UBA and UBX domain-containing protein. - Saccharomyces cerevisiae (Baker's yeast) UBX domain-containing protein 1 or Suppressor of high-copy PP1 protein (shp1), the homologue of p47. - Drosophila melanogaster (Fruit fly) eyes closed (eyc). ; PDB: 1S3S_G 1VAZ_A 1SS6_A.
Probab=99.97 E-value=3.5e-31 Score=211.89 Aligned_cols=75 Identities=53% Similarity=0.903 Sum_probs=67.7
Q ss_pred EEEecCceeecCCCCCCCCChhhHHHHHHHHcCCCCCcccCCCCCCcEEEEEEccccccccCCCCCCCccccccc
Q 015405 228 ITFWRNGFTVDDGPLRGMDDPANASFLESIMRSECPRELEPADKKTRVHVELINKREEDYSEPPKRRSAFQGVGR 302 (407)
Q Consensus 228 it~w~nGF~VdDGplr~yddP~N~~fL~~I~~G~~P~eL~~~~~~~~V~v~v~D~~~E~y~~p~~~~~~F~G~G~ 302 (407)
||||+|||+|||||||+|+||+|++||++|++|++|.||+.++|+++|+|+|+||++|+|++|++++++|+|+||
T Consensus 1 l~~w~nGf~VddGplR~y~dp~n~~Fl~~I~~G~~P~EL~~~~p~~~v~v~l~d~~~e~y~~~~~~~~~F~G~G~ 75 (75)
T PF08059_consen 1 LTFWRNGFTVDDGPLRPYDDPENAQFLEDINRGYFPSELQQRYPGDGVDVNLEDRRDEDYVPPKKKFKPFSGQGH 75 (75)
T ss_dssp EEEETTEEEETTS-EEETTSTTCHHHHHHHHHT--SCHHHCTTSSS-EEEEEEEECTTSS-SSSSSSTTS-SSSS
T ss_pred CEEecCceEecCCCcccCCCHhHHHHHHHHHhcCCCHHHHhccCCCeEEEEEEeCCCCccCCCCccccCCCcCCC
Confidence 899999999999999999999999999999999999999999999999999999999999999989999999997
No 4
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.91 E-value=3.1e-24 Score=173.44 Aligned_cols=76 Identities=45% Similarity=0.767 Sum_probs=72.0
Q ss_pred CCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCC-CCCeEEEecCCCCccCCCccCchhhcCCCCeeEEeeC
Q 015405 331 LPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQLTDLDQTVEQAGIANSVVIQKL 407 (407)
Q Consensus 331 ~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~-~~~F~L~tt~FP~k~l~D~s~TL~eagL~navvvqr~ 407 (407)
+|+|+||||||||+|+++|||.+|||++||+||..+.+.. .++|.|+ ++||+|+|++.++||+||||+|++|||||
T Consensus 2 ~p~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~-t~fP~k~l~~~~~Tl~eagL~~s~v~q~~ 78 (79)
T cd01770 2 EPTTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLM-TAFPVKELSDESLTLKEANLLNAVIVQRL 78 (79)
T ss_pred CCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEe-cCCCCcccCCCCCcHHHCCCcCcEEEEEe
Confidence 6899999999999999999999999999999999987654 6899999 79999999988999999999999999998
No 5
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=99.81 E-value=1.1e-19 Score=145.39 Aligned_cols=74 Identities=42% Similarity=0.795 Sum_probs=68.5
Q ss_pred CceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCC--ccCchhhcCCCCeeEEeeC
Q 015405 332 PTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTD--LDQTVEQAGIANSVVIQKL 407 (407)
Q Consensus 332 p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D--~s~TL~eagL~navvvqr~ 407 (407)
|+|+||||||||+|+++||+.++||+|||+||..+... ..+|.|+ ++||+|.|++ .++||+||||++++|+|+|
T Consensus 1 p~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~-t~~Pr~~~~~~~~~~TL~e~gL~~s~~~~~~ 76 (77)
T cd01767 1 PTTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLM-TSFPRRVLTDLDYELTLQEAGLVNEVVFQRL 76 (77)
T ss_pred CcEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEE-eCCCCccCCCCCccCcHHHcCCccceEEEEe
Confidence 68999999999999999999999999999999987543 6789999 7999999986 8999999999999999887
No 6
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=99.76 E-value=3.8e-18 Score=137.63 Aligned_cols=76 Identities=25% Similarity=0.477 Sum_probs=67.1
Q ss_pred CCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCC--ccCchhhcCCC-CeeEEeeC
Q 015405 331 LPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTD--LDQTVEQAGIA-NSVVIQKL 407 (407)
Q Consensus 331 ~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D--~s~TL~eagL~-navvvqr~ 407 (407)
++.|+||||||||+|++++|+.++||++||+||.........+|.|+ ++||+|.|++ +++||+|+||+ +++|+++|
T Consensus 2 ~~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~-t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v~~ 80 (80)
T smart00166 2 SDQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLN-SPFPRRTFTKDDYSKTLLELALLPSSTLVLEP 80 (80)
T ss_pred CCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEE-eCCCCcCCccccccCCHHHCCCCCceEEEEeC
Confidence 47899999999999999999999999999999966544346799999 7999999984 47899999999 58888887
No 7
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.74 E-value=9.3e-18 Score=136.42 Aligned_cols=73 Identities=23% Similarity=0.443 Sum_probs=65.2
Q ss_pred CCCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC-eeEE
Q 015405 330 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 330 ~~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~--D~s~TL~eagL~n-avvv 404 (407)
++|+|+||||||||+|+.+||+.++||.+||.||.++ .....+|.|+ ++||+|.|+ |.++||+||||++ ++|+
T Consensus 2 ~~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~~-g~~~~~f~L~-t~FPRr~~~~~d~~~TL~e~GL~P~~~Lf 77 (82)
T cd01773 2 NGPKARLMLRYPDGKREQIALPEQAKLLALVRHVQSK-GYPNERFELL-TNFPRRKLSHLDYDITLQEAGLCPQETVF 77 (82)
T ss_pred CCCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEe-cCCCCcccCCcccCCCHHHcCCCCCcEEE
Confidence 6899999999999999999999999999999999984 3346899999 799999997 6689999999997 4443
No 8
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.73 E-value=1.3e-17 Score=136.66 Aligned_cols=68 Identities=29% Similarity=0.514 Sum_probs=61.1
Q ss_pred CceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCC-------CccCchhhcCCCCe
Q 015405 332 PTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT-------DLDQTVEQAGIANS 401 (407)
Q Consensus 332 p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~-------D~s~TL~eagL~na 401 (407)
..|+||||||||+|+++|||.+|||++||+||.+ .+....+|.|+ ++||+|.|+ |.++||+||||.++
T Consensus 3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~-t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s 77 (85)
T cd01774 3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIV-TNFPRRVLPCLPSEGDPPPPTLLEAGLSNS 77 (85)
T ss_pred ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEe-cCCCCccccccccccCcCCCCHHHcCCCCc
Confidence 4789999999999999999999999999999965 34456899999 799999997 56889999999985
No 9
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.72 E-value=2.3e-17 Score=133.76 Aligned_cols=74 Identities=19% Similarity=0.326 Sum_probs=64.6
Q ss_pred CCCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC-eeEEe
Q 015405 330 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN-SVVIQ 405 (407)
Q Consensus 330 ~~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~--D~s~TL~eagL~n-avvvq 405 (407)
++|+|+||||||||+|+++||+.++||++||+||.+.. ....+|.|+ ++||+|+|+ |.++||+|+||.+ ++|++
T Consensus 1 ~~~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~~-~~~~~f~L~-t~fPRk~~~~~d~~~TL~e~gL~p~~~L~V 77 (80)
T cd01771 1 GEPISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASKG-YPIDEYKLL-SSWPRRDLTQLDPNFTLLELKLYPQETLIL 77 (80)
T ss_pred CCCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhcC-CCCCCEEEe-cCCCCCCCcCCCCCCcHHHcCCCCCcEEEE
Confidence 47899999999999999999999999999999998753 225799999 799999997 7788999999996 45543
No 10
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.70 E-value=6.5e-17 Score=130.59 Aligned_cols=73 Identities=25% Similarity=0.539 Sum_probs=63.5
Q ss_pred CceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC-ee-EEee
Q 015405 332 PTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN-SV-VIQK 406 (407)
Q Consensus 332 p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~--D~s~TL~eagL~n-av-vvqr 406 (407)
..|+||||||||+|++.||+.++||.+||+||..+... ..+|.|+ ++||+|.|+ |.++||+|+||.+ ++ +|||
T Consensus 3 ~~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~-~~~f~L~-t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~~ 79 (79)
T cd01772 3 TETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGN-GGPFTLM-TPFPRKVFTEDDMEKPLQELGLVPSAVLIVTK 79 (79)
T ss_pred cEEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCC-CCCEEEE-eCCCCeECCcccccCCHHHCCCCCceEEEEeC
Confidence 36899999999999999999999999999999987543 4789999 799999997 5689999999997 44 4454
No 11
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=99.69 E-value=4.6e-17 Score=131.22 Aligned_cols=78 Identities=29% Similarity=0.572 Sum_probs=67.0
Q ss_pred CCCCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCC-CeEEEecCCCCccCCCcc-CchhhcCCC-CeeEEe
Q 015405 329 ATLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSAR-NYQLQAMGFPPKQLTDLD-QTVEQAGIA-NSVVIQ 405 (407)
Q Consensus 329 ~~~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~-~F~L~tt~FP~k~l~D~s-~TL~eagL~-navvvq 405 (407)
+..+.|+||||||||+|++++|+.++||++||+||......... .|.|+ ++||++.|.+.+ +||+|+||+ +++|++
T Consensus 2 ~~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~-~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 2 EESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELI-TAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp STSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEE-ESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred CCCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEE-eCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 35678999999999999999999999999999999887444333 49999 799999998655 999999999 588888
Q ss_pred eC
Q 015405 406 KL 407 (407)
Q Consensus 406 r~ 407 (407)
+|
T Consensus 81 ~~ 82 (82)
T PF00789_consen 81 EK 82 (82)
T ss_dssp E-
T ss_pred EC
Confidence 87
No 12
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.58 E-value=5.1e-14 Score=139.88 Aligned_cols=74 Identities=27% Similarity=0.456 Sum_probs=63.9
Q ss_pred ceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCC-CCCeEEEecCCCCccCC--CccCchhhcCCCCe--eEEeeC
Q 015405 333 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQLT--DLDQTVEQAGIANS--VVIQKL 407 (407)
Q Consensus 333 ~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~-~~~F~L~tt~FP~k~l~--D~s~TL~eagL~na--vvvqr~ 407 (407)
+|+||||||||+|.++||..++||+-||.|+..+..++ ...|.|+ .+||++.+. +.+.||+|+||+|+ ++.+-|
T Consensus 277 vt~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv-~a~P~~k~l~~~~daT~~eaGL~nS~~~~~~e~ 355 (356)
T KOG1364|consen 277 VTSIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLV-QAIPASKTLDYGADATFKEAGLANSETLLSVEW 355 (356)
T ss_pred eeEEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceee-ecccchhhhhccccchHHHhccCcccccccccc
Confidence 67799999999999999999999999999999886666 7899999 899986654 56789999999998 555443
No 13
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=99.45 E-value=1.1e-13 Score=99.41 Aligned_cols=41 Identities=34% Similarity=0.723 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhccc
Q 015405 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNAA 50 (407)
Q Consensus 10 ~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~~~ 50 (407)
+++|.+||+|||+++++|++||++++|||+.||+.||++++
T Consensus 1 ~e~i~~F~~iTg~~~~~A~~~L~~~~wdle~Av~~y~~~~~ 41 (43)
T PF14555_consen 1 DEKIAQFMSITGADEDVAIQYLEANNWDLEAAVNAYFDDGE 41 (43)
T ss_dssp HHHHHHHHHHH-SSHHHHHHHHHHTTT-HHHHHHHHHHSS-
T ss_pred CHHHHHHHHHHCcCHHHHHHHHHHcCCCHHHHHHHHHhCCC
Confidence 57999999999999999999999999999999999998764
No 14
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=2.9e-11 Score=116.93 Aligned_cols=77 Identities=23% Similarity=0.458 Sum_probs=68.4
Q ss_pred CCCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC-eeEEee
Q 015405 330 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN-SVVIQK 406 (407)
Q Consensus 330 ~~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~--D~s~TL~eagL~n-avvvqr 406 (407)
....|+|||||+||+.+...||...|+.+||.||..++.+...+|.|+ ++||++.|+ |+.++|++++|++ ++|+.+
T Consensus 207 ~ys~crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~-t~fPR~tf~edD~~KpLq~L~L~Psa~lil~ 285 (290)
T KOG2689|consen 207 DYSQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFH-TGFPRVTFTEDDELKPLQELDLVPSAVLILE 285 (290)
T ss_pred cccceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeee-cCCCceecccccccccHHHhccccchheecc
Confidence 456899999999999999999999999999999999877767799999 799999997 7778999999997 566544
Q ss_pred C
Q 015405 407 L 407 (407)
Q Consensus 407 ~ 407 (407)
|
T Consensus 286 ~ 286 (290)
T KOG2689|consen 286 P 286 (290)
T ss_pred c
Confidence 3
No 15
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=98.68 E-value=1.5e-08 Score=103.19 Aligned_cols=69 Identities=19% Similarity=0.425 Sum_probs=62.3
Q ss_pred CCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC
Q 015405 331 LPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN 400 (407)
Q Consensus 331 ~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~--D~s~TL~eagL~n 400 (407)
-..|+||||||||+.++-+|..+.-+..|++||+.......+.|.|. +.||+|+|+ |.++||-|+.|++
T Consensus 312 ~d~~rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~La-tpyPRReft~eDy~KtllEl~L~p 382 (506)
T KOG2507|consen 312 ADDVRLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLA-TPYPRREFTDEDYDKTLLELRLFP 382 (506)
T ss_pred cceeEEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeec-cccccccccchhhhhhHHHhccCC
Confidence 35799999999999999999999999999999997644448999999 799999997 6678999999996
No 16
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=98.14 E-value=3.9e-06 Score=88.12 Aligned_cols=74 Identities=20% Similarity=0.438 Sum_probs=63.1
Q ss_pred CCCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC--eeEEe
Q 015405 330 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN--SVVIQ 405 (407)
Q Consensus 330 ~~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~--D~s~TL~eagL~n--avvvq 405 (407)
..+.++|.||||+|+|+++||..+++|++||+||..+. .....|.|. ++||++.+. ..+.||++.||.+ .+|++
T Consensus 380 ~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~~-~~~~e~~~~-~~fPr~~~~~~~~~~sl~~~~l~p~qe~lfl 457 (460)
T KOG1363|consen 380 EEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSNG-FHPEEYSLN-TSFPRRPLGDYEHSSSLQDIGLTPRQETLFL 457 (460)
T ss_pred cccceeeEEECCCCCeeeeeeecccchhHHHHHHHhcc-CCchhhccc-cCCCcccccccccccccccCCcccccceeee
Confidence 34578999999999999999999999999999999874 346789999 799999997 3467999999986 45554
No 17
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=97.67 E-value=2.6e-05 Score=58.14 Aligned_cols=40 Identities=18% Similarity=0.362 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhcc
Q 015405 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNA 49 (407)
Q Consensus 10 ~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~~ 49 (407)
+++|.+|+..||.+.+-++.+|+.++||++.|+..|-.-.
T Consensus 1 q~mv~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~F~~l~ 40 (51)
T PF03943_consen 1 QEMVQQFSQQTGMNLEWSQKCLEENNWDYERALQNFEELK 40 (51)
T ss_dssp HHHHHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHHHHHCC
T ss_pred CHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 4789999999999999999999999999999999998654
No 18
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=97.64 E-value=0.00014 Score=56.66 Aligned_cols=42 Identities=17% Similarity=0.454 Sum_probs=39.7
Q ss_pred hhhhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHh
Q 015405 6 AEANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLD 47 (407)
Q Consensus 6 ~~~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~ 47 (407)
...+.++|.+|+..||....-++..|+.++||++.|+..|-+
T Consensus 9 ~~~q~~~v~~~~~~Tgmn~~~s~~cLe~~~Wd~~~Al~~F~~ 50 (63)
T smart00804 9 SPEQQEMVQAFSAQTGMNAEYSQMCLEDNNWDYERALKNFTE 50 (63)
T ss_pred CHHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 567889999999999999999999999999999999999976
No 19
>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=97.14 E-value=0.0014 Score=51.57 Aligned_cols=68 Identities=15% Similarity=0.249 Sum_probs=54.9
Q ss_pred EEEEcC-CCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEEee
Q 015405 336 VQLRLA-DGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQK 406 (407)
Q Consensus 336 IqIRL~-dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvvqr 406 (407)
|-||+. +|+.+.+.+..+.||++|...|.....-......|+ |=.|.|.|.+.||+++|+.+ ++|+.|
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li---~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLI---YNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEE---ECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 468999 999999999999999999999987632224456776 66999998778999999985 666654
No 20
>PF12090 Spt20: Spt20 family; InterPro: IPR021950 This presumed domain is found in the Spt20 proteins from both human and yeast. The Spt20 protein is part of the SAGA complex which is a large cmplex mediating histone deacetylation. Yeast Spt20 has been shown to play a role in structural integrity of the SAGA complex as as no intact SAGA could be purified in spt20 deletion strains.
Probab=97.09 E-value=0.00041 Score=64.75 Aligned_cols=61 Identities=23% Similarity=0.257 Sum_probs=52.7
Q ss_pred ceEEEEEecCceee----cCCCCCCCCChhhHHHHHHHHcCCCCCcccCCC-------CCCcEEEEEEccccc
Q 015405 224 VSHNITFWRNGFTV----DDGPLRGMDDPANASFLESIMRSECPRELEPAD-------KKTRVHVELINKREE 285 (407)
Q Consensus 224 ~~~~it~w~nGF~V----dDGplr~yddP~N~~fL~~I~~G~~P~eL~~~~-------~~~~V~v~v~D~~~E 285 (407)
...+|+||-++|.+ .++-..+|+.|. +.||+.|.+|++|..|++.. .++-|-|+|.|+|.-
T Consensus 14 pSl~vhL~p~~f~f~~~~~~~~~~pY~~~~-k~~L~~I~~~~iP~~Lle~l~~~~v~FYdGClIveV~D~R~~ 85 (182)
T PF12090_consen 14 PSLIVHLYPNHFRFSLNDQQDGSFPYNSPM-KEFLEYIDAGEIPHDLLELLDDANVPFYDGCLIVEVRDHRST 85 (182)
T ss_pred CeEEEEECCCCeeEeecCCCCceecCCchH-HHHHHHHHcCCCCHHHHHHHHhCCCeeEcCEEEEEEeccccc
Confidence 58899999999999 577889999999 99999999999999887643 345678999999874
No 21
>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=97.01 E-value=0.002 Score=50.82 Aligned_cols=65 Identities=18% Similarity=0.313 Sum_probs=51.4
Q ss_pred EEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCCeeEE
Q 015405 336 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIANSVVI 404 (407)
Q Consensus 336 IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~navvv 404 (407)
|.||+.+|+.+.+.+..+.||++|...|.....-......|. |=.+.|+| +.||.++++.+..+|
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li---~~G~~L~D-~~~l~~~~i~~~~tv 65 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWF---FSGKLLTD-KTRLQETKIQKDYVV 65 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEE---ECCeECCC-CCCHHHcCCCCCCEE
Confidence 468999999999999999999999999976532113445665 77899998 589999999864333
No 22
>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=96.99 E-value=0.0037 Score=48.81 Aligned_cols=63 Identities=13% Similarity=0.266 Sum_probs=51.4
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCCe
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIANS 401 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~na 401 (407)
.|.||..+|+.+.+++..+.||++|.+.|.....-......|+ |-.+.|.| +.||.+.++.+.
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~---~~g~~L~d-~~tl~~~~i~~g 64 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLI---YSGKQMND-DKTAADYKLEGG 64 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEE---ECCeEccC-CCCHHHcCCCCC
Confidence 5889999999999999999999999999987532223455665 77888987 589999999863
No 23
>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=96.92 E-value=0.0035 Score=49.45 Aligned_cols=65 Identities=12% Similarity=0.249 Sum_probs=53.5
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
.|.||..+|+.+.+.+..++||++|.+-|.....-....+.|+ |=.|.|+|. .||.+.|+.+ ++|
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~---~~G~~L~d~-~~L~~~~i~~~~~l 67 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLL---FKGKALADD-KRLSDYSIGPNAKL 67 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE---ECCEECCCC-CCHHHCCCCCCCEE
Confidence 5889999999999999999999999999987532224567777 778999884 8999999985 554
No 24
>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=96.82 E-value=0.0058 Score=49.03 Aligned_cols=65 Identities=14% Similarity=0.227 Sum_probs=51.1
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 404 (407)
+|.||...|+...+.+..+.||++|++-|.....-......|. |..|.|.|. ||+++|+.+ ++|+
T Consensus 3 ~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~---~~Gk~L~d~--~L~~~gi~~~~~i~ 68 (78)
T cd01804 3 NLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALL---HRETRLSSG--KLQDLGLGDGSKLT 68 (78)
T ss_pred EEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEE---ECCcCCCCC--cHHHcCCCCCCEEE
Confidence 6889999999999999999999999999977532112334454 779999885 899999985 4443
No 25
>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=96.71 E-value=0.0089 Score=48.01 Aligned_cols=68 Identities=15% Similarity=0.176 Sum_probs=54.6
Q ss_pred eEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 334 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 334 t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
..|.||..+|+.+.+.+..+.||++|.+-|.....-....+.|. .-|-.+.|.|. .||.+.|+.+ ++|
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~-~~~~G~~L~D~-~tL~~~gi~~gs~l 71 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLA-HLDSREVLQDG-VPLVSQGLGPGSTV 71 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEE-eccCCCCCCCC-CCHHHcCCCCCCEE
Confidence 47899999999999999999999999999987642224567775 45778889874 7999999985 443
No 26
>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=96.64 E-value=0.0096 Score=46.88 Aligned_cols=65 Identities=17% Similarity=0.297 Sum_probs=51.8
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCC--CCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPG--SARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~--~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
.|.||..+|+.+.+.+..+.||.+|.+.|.....- ......|+ |-.+.|.| +.||.++|+.+ ++|
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~---~~G~~L~d-~~~L~~~~i~~~~~i 69 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLI---YSGKILKD-DTTLEEYKIDEKDFV 69 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEE---ECCEEccC-CCCHHHcCCCCCCEE
Confidence 57899999999999999999999999999875322 23345565 77999987 48999999985 443
No 27
>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=96.63 E-value=0.0091 Score=46.07 Aligned_cols=65 Identities=14% Similarity=0.242 Sum_probs=51.8
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
+|-||..+|+.+.+++..++||++|.+.|.....-......|+ |-.+.|.| +.||.+.|+.+ ++|
T Consensus 2 ~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~---~~g~~L~d-~~~L~~~~i~~~~~l 67 (72)
T cd01809 2 EIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLI---YSGRVLKD-DETLSEYKVEDGHTI 67 (72)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEE---ECCEECCC-cCcHHHCCCCCCCEE
Confidence 5889999999999999999999999999987532223345665 56788887 58999999986 444
No 28
>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=96.56 E-value=0.013 Score=46.66 Aligned_cols=67 Identities=16% Similarity=0.131 Sum_probs=52.3
Q ss_pred eEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015405 334 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 334 t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 404 (407)
.+|.||-..|+.+.+.+..+.||++|.+.|.....-....-.|. |..+.|.| +.||++.||.+ ++|.
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi---~~Gk~L~D-~~tL~~ygi~~~stv~ 69 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLK---KWYTIFKD-HISLGDYEIHDGMNLE 69 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEE---eCCcCCCC-CCCHHHcCCCCCCEEE
Confidence 46888998999999999999999999999987642212333454 77888888 47999999986 5553
No 29
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=96.48 E-value=0.011 Score=46.13 Aligned_cols=62 Identities=19% Similarity=0.281 Sum_probs=50.3
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 400 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n 400 (407)
.|-||..+|+.+.+.++.+.||.+|.+.|.....-......|. |..+.|.| +.||.+.|+.+
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~---~~g~~L~d-~~~L~~~~i~~ 63 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI---FAGKQLED-GRTLSDYNIQK 63 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEE---ECCEECCC-CCcHHHcCCCC
Confidence 4789999999999999999999999999987632213345555 67888987 47999999986
No 30
>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=96.41 E-value=0.0068 Score=46.65 Aligned_cols=62 Identities=21% Similarity=0.344 Sum_probs=50.5
Q ss_pred EcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015405 339 RLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 339 RL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 404 (407)
|..+|+.+.+.++.++||.+|.+.|.....-......|+ |-.+.|.| +.||.+.|+.+ ++|+
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~---~~G~~L~d-~~tL~~~~i~~~~~I~ 63 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLI---YNGKELDD-DKTLSDYGIKDGSTIH 63 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEE---ETTEEEST-TSBTGGGTTSTTEEEE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceee---eeeecccC-cCcHHHcCCCCCCEEE
Confidence 567899999999999999999999988643334566776 78899955 79999999996 5554
No 31
>PTZ00044 ubiquitin; Provisional
Probab=96.37 E-value=0.014 Score=45.97 Aligned_cols=62 Identities=13% Similarity=0.298 Sum_probs=51.1
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 400 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n 400 (407)
.|-||..+|+.+++++..+.||.+|...|.....-......|+ |-.+.|.| +.||.+.++.+
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~---~~g~~L~d-~~~l~~~~i~~ 63 (76)
T PTZ00044 2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLI---YSGKQMSD-DLKLSDYKVVP 63 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE---ECCEEccC-CCcHHHcCCCC
Confidence 4789999999999999999999999999988642223456666 77899986 57899999985
No 32
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=96.27 E-value=0.011 Score=40.73 Aligned_cols=34 Identities=18% Similarity=0.289 Sum_probs=30.7
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHH
Q 015405 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVS 43 (407)
Q Consensus 9 ~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~ 43 (407)
.++.|++-++. |.+.+.|+..|..++||++.||+
T Consensus 2 ~~~~v~~L~~m-Gf~~~~~~~AL~~~~~nve~A~~ 35 (37)
T PF00627_consen 2 DEEKVQQLMEM-GFSREQAREALRACNGNVERAVD 35 (37)
T ss_dssp HHHHHHHHHHH-TS-HHHHHHHHHHTTTSHHHHHH
T ss_pred CHHHHHHHHHc-CCCHHHHHHHHHHcCCCHHHHHH
Confidence 36789999999 99999999999999999999986
No 33
>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=96.22 E-value=0.013 Score=45.54 Aligned_cols=64 Identities=14% Similarity=0.330 Sum_probs=51.9
Q ss_pred EEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 336 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 336 IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
|-||..+|..+.+.+..++||++|.+.|.....-......|+ |=.++|+|. .||.++|+.+ ++|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li---~~G~~L~d~-~~l~~~~i~~~stl 65 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVI---FAGKELRNT-TTIQECDLGQQSIL 65 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEE---ECCeECCCC-CcHHHcCCCCCCEE
Confidence 458999999999999999999999999987632224556776 779999884 9999999985 554
No 34
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=96.10 E-value=0.012 Score=50.89 Aligned_cols=62 Identities=19% Similarity=0.301 Sum_probs=50.1
Q ss_pred CceEEEEEcCCCCEE-EEEcCCCCCHHHHHHHHHhhCCCC-------CCCeEEEecCCCCccCCCccCchhhcC
Q 015405 332 PTTSVQLRLADGTRM-VARFNHHHTIRDIHRFIDASRPGS-------ARNYQLQAMGFPPKQLTDLDQTVEQAG 397 (407)
Q Consensus 332 p~t~IqIRL~dG~Rl-~~rfn~t~TV~dvr~fV~~~~~~~-------~~~F~L~tt~FP~k~l~D~s~TL~eag 397 (407)
....|++||+||+-+ -.+|..++||.+|.+-|....+.. ...-.|+ |=-|.|.| +.||.+.+
T Consensus 3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLI---ysGKiLeD-~~TL~d~~ 72 (113)
T cd01814 3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLI---SAGKILEN-SKTVGECR 72 (113)
T ss_pred ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEE---eCCeecCC-CCcHHHhC
Confidence 356799999999876 799999999999999998776531 1223455 88899998 58999999
No 35
>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=96.08 E-value=0.018 Score=45.47 Aligned_cols=64 Identities=14% Similarity=0.277 Sum_probs=52.1
Q ss_pred EEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 336 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 336 IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
|-||.++|+.+.+.+..++||.+|.+-|.....-....+.|. |=.|.|.|. .||.+.|+.+ ++|
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~---~~G~~L~D~-~tL~~~~i~~~~tl 65 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLS---FEGRPMEDE-HPLGEYGLKPGCTV 65 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEE---ECCEECCCC-CCHHHcCCCCCCEE
Confidence 468999999999999999999999999986532224567776 678999985 8999999985 444
No 36
>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=96.07 E-value=0.025 Score=44.13 Aligned_cols=66 Identities=17% Similarity=0.221 Sum_probs=51.4
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEEe
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQ 405 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvvq 405 (407)
+|-||..+|. ..+.+..+.||++|++-|.....-....+.|. |..|.|.|. .||.++|+.+ ++|..
T Consensus 2 ~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li---~~Gk~L~d~-~tL~~~~i~~~stl~l 68 (71)
T cd01808 2 KVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLI---FAGKILKDT-DTLTQHNIKDGLTVHL 68 (71)
T ss_pred EEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEE---ECCeEcCCC-CcHHHcCCCCCCEEEE
Confidence 5888999996 58899999999999999976532223456776 788999874 7999999985 55543
No 37
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=95.86 E-value=0.029 Score=41.76 Aligned_cols=61 Identities=16% Similarity=0.249 Sum_probs=48.0
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 400 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n 400 (407)
.|.||..+ ....+++..+.||++|...|.....-......|+ |-.+.|.| +.||.++|+.+
T Consensus 2 ~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~---~~g~~L~d-~~tL~~~~i~~ 62 (64)
T smart00213 2 ELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLI---YKGKVLED-DRTLADYNIQD 62 (64)
T ss_pred EEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEE---ECCEECCC-CCCHHHcCCcC
Confidence 58899999 6888999999999999999987532223345666 55788887 58999999875
No 38
>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=95.85 E-value=0.042 Score=42.35 Aligned_cols=65 Identities=20% Similarity=0.361 Sum_probs=50.3
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 404 (407)
+|.||.. |....+++..+.||.+|.+-|.....-......|+ |-.+.|.| +.||.++|+.+ ++|+
T Consensus 2 ~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~---~~g~~l~d-~~~L~~~~i~~g~~l~ 67 (71)
T cd01812 2 RVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLI---FKGKERDD-AETLDMSGVKDGSKVM 67 (71)
T ss_pred EEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEe---eCCcccCc-cCcHHHcCCCCCCEEE
Confidence 6788886 88889999999999999999987532224456776 55788887 58999999986 4443
No 39
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=95.50 E-value=0.051 Score=46.91 Aligned_cols=63 Identities=25% Similarity=0.414 Sum_probs=46.9
Q ss_pred ceEEEEEcCCCC-EEEEEcCCCCCHHHHHHHHHhhCCCC-------CCCeEEEecCCCCccCCCccCchhhcCCC
Q 015405 333 TTSVQLRLADGT-RMVARFNHHHTIRDIHRFIDASRPGS-------ARNYQLQAMGFPPKQLTDLDQTVEQAGIA 399 (407)
Q Consensus 333 ~t~IqIRL~dG~-Rl~~rfn~t~TV~dvr~fV~~~~~~~-------~~~F~L~tt~FP~k~l~D~s~TL~eagL~ 399 (407)
...|++||.||+ +...+|..+.||++|.++|...-|.. .....|+ |=.|.|+| +.||.++++-
T Consensus 2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI---~~GriL~d-~~tL~~~~~~ 72 (111)
T PF13881_consen 2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLI---YAGRILED-NKTLSDCRLP 72 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEE---ETTEEE-S-SSBTGGGT--
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEE---eCCeecCC-cCcHHHhCCC
Confidence 467999999999 88999999999999999999876553 1234555 56677876 6899999876
No 40
>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=95.47 E-value=0.069 Score=40.27 Aligned_cols=64 Identities=20% Similarity=0.297 Sum_probs=48.7
Q ss_pred EEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEEe
Q 015405 338 LRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQ 405 (407)
Q Consensus 338 IRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvvq 405 (407)
||..+|..+.+++..+.||++|...|.....-......|+ |-.+.|.| +.||.++++.+ +.|+.
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~---~~g~~l~d-~~~l~~~~v~~~~~i~v 66 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLI---YAGKILKD-DKTLSDYGIQDGSTLHL 66 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEE---ECCcCCCC-cCCHHHCCCCCCCEEEE
Confidence 6777899999999999999999999987643223445565 55678866 68999999996 44543
No 41
>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=95.34 E-value=0.024 Score=46.03 Aligned_cols=67 Identities=16% Similarity=0.222 Sum_probs=39.5
Q ss_pred eEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCc-cCC-CccCchhhcCCCCee
Q 015405 334 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPK-QLT-DLDQTVEQAGIANSV 402 (407)
Q Consensus 334 t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k-~l~-D~s~TL~eagL~nav 402 (407)
--|+||-+||...+ .+..+.||.+|++-|...-......|.|. .....+ .|. +.++||.++||.+.-
T Consensus 5 milRvrS~dG~~Ri-e~~~~~t~~~L~~kI~~~l~~~~~~~~L~-~~~~~~~~l~s~~~~tl~~lglkHGd 73 (80)
T PF11543_consen 5 MILRVRSKDGMKRI-EVSPSSTLSDLKEKISEQLSIPDSSQSLS-KDRNNKEELKSSDSKTLSSLGLKHGD 73 (80)
T ss_dssp -EEEEE-SSEEEEE-EE-TTSBHHHHHHHHHHHS---TTT---B-SSGGGGGCSSS-TT-CCCCT---TT-
T ss_pred EEEEEECCCCCEEE-EcCCcccHHHHHHHHHHHcCCCCcceEEE-ecCCCCcccccCCcCCHHHcCCCCcc
Confidence 46899999997443 57799999999999988754445688887 344443 453 668999999999743
No 42
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=95.23 E-value=0.095 Score=44.50 Aligned_cols=68 Identities=15% Similarity=0.145 Sum_probs=55.1
Q ss_pred CceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 332 PTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 332 p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
++-.|-||..+|+.+.+.+..++||.+|.+.|.....-......|+ |=.|.|+|. .||.+.+|.+ ++|
T Consensus 26 ~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi---~~Gk~L~D~-~tL~dy~I~~~stL 94 (103)
T cd01802 26 DTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLI---WNNMELEDE-YCLNDYNISEGCTL 94 (103)
T ss_pred CCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEE---ECCEECCCC-CcHHHcCCCCCCEE
Confidence 3568999999999999999999999999999987532224557777 678999884 8999999985 443
No 43
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=95.15 E-value=0.049 Score=37.16 Aligned_cols=35 Identities=23% Similarity=0.338 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHH
Q 015405 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTF 45 (407)
Q Consensus 10 ~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~f 45 (407)
++.|++++++ |.+++.|+.-|+.++||++.|++-.
T Consensus 2 ~~~v~~L~~m-Gf~~~~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 2 EEKIDQLLEM-GFSREEALKALRAANGNVERAAEYL 36 (37)
T ss_pred HHHHHHHHHc-CCCHHHHHHHHHHhCCCHHHHHHHH
Confidence 4568888776 9999999999999999999998754
No 44
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=94.99 E-value=0.11 Score=41.78 Aligned_cols=66 Identities=15% Similarity=0.218 Sum_probs=50.8
Q ss_pred EEEEEcCCCCE-EEE-EcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015405 335 SVQLRLADGTR-MVA-RFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 335 ~IqIRL~dG~R-l~~-rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 404 (407)
.|-||..+|+. ..+ -...++||++|...|.....-......|+ |=.|.|.| +.||.+.||.+ ++|.
T Consensus 2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi---~~Gk~L~D-~~tL~~y~i~~~~~i~ 70 (78)
T cd01797 2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLF---YRGKQMED-GHTLFDYNVGLNDIIQ 70 (78)
T ss_pred EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEE---eCCEECCC-CCCHHHcCCCCCCEEE
Confidence 47899999997 456 47889999999999987532224557787 66899988 58999999995 5543
No 45
>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=94.89 E-value=0.19 Score=41.06 Aligned_cols=67 Identities=12% Similarity=0.255 Sum_probs=55.6
Q ss_pred CCCceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015405 330 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 400 (407)
Q Consensus 330 ~~p~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n 400 (407)
.....+|.|+-.+|+.+.+++..++||..|.+.+.....-....+.|+ |=-+.|.+ ..|+.++++.+
T Consensus 8 ~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~---f~G~~L~~-~~T~~~l~m~d 74 (87)
T cd01763 8 ISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFL---FDGQRIRD-NQTPDDLGMED 74 (87)
T ss_pred CCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEE---ECCeECCC-CCCHHHcCCCC
Confidence 345678899999999999999999999999999887643335677777 77899987 47999999986
No 46
>KOG4351 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.80 E-value=0.0046 Score=59.30 Aligned_cols=45 Identities=27% Similarity=0.468 Sum_probs=39.6
Q ss_pred hhhhHHHHHHHHHHhC--CCH-HHHHHHHHHcCCCHHHHHHHHHhccc
Q 015405 6 AEANSSLINSFVEITS--STK-DEALFFLESHQWNLDAAVSTFLDNAA 50 (407)
Q Consensus 6 ~~~~~e~I~qF~~iTg--as~-~~A~~yLe~~~wdLe~Av~~fy~~~~ 50 (407)
..+++++|.||-.+++ ..+ .-|+|||+..||+|..|++.||+...
T Consensus 20 t~dr~~Li~qf~~lm~~qm~P~~~aaF~Ld~knW~lqna~sv~~d~~t 67 (244)
T KOG4351|consen 20 TTDRPELIHQFQRLMNTQMNPMLSAAFVLDMKNWNLQNAGSVYWDQDT 67 (244)
T ss_pred CCCcHHHHHHHHHHhhhccCcccccceeeeccceeccccccEEEcCCC
Confidence 5688999999999986 455 88999999999999999999998654
No 47
>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=94.67 E-value=0.1 Score=54.01 Aligned_cols=66 Identities=17% Similarity=0.303 Sum_probs=53.3
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCC--CC-CCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRP--GS-ARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~--~~-~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 404 (407)
+|-||..+|+.+.+.+..+.||.+|+..|..... .. .....|+ |-.|.|.|. +||+++||.+ .+||
T Consensus 2 kItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLI---y~GkiL~Dd-~tL~dy~I~e~~~Iv 71 (378)
T TIGR00601 2 TLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLI---YSGKILSDD-KTVREYKIKEKDFVV 71 (378)
T ss_pred EEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEE---ECCEECCCC-CcHHHcCCCCCCEEE
Confidence 5889999999999999999999999999987643 12 3456676 779999884 7999999984 4444
No 48
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=94.60 E-value=0.1 Score=35.77 Aligned_cols=36 Identities=22% Similarity=0.281 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 015405 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFL 46 (407)
Q Consensus 10 ~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy 46 (407)
++.|++.++ .|.+...|+.-|+.++||++.|++-.|
T Consensus 2 ~~~v~~L~~-mGf~~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 2 EEKLEQLLE-MGFSREEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHH-cCCCHHHHHHHHHHhCCCHHHHHHHHh
Confidence 357888877 599999999999999999999998765
No 49
>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=94.22 E-value=0.16 Score=39.31 Aligned_cols=62 Identities=19% Similarity=0.305 Sum_probs=50.3
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCC-CCeEEEecCCCCccCCCccCchhhcCCCC
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSA-RNYQLQAMGFPPKQLTDLDQTVEQAGIAN 400 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~-~~F~L~tt~FP~k~l~D~s~TL~eagL~n 400 (407)
+|.||..+|+.+.++...++||+.|.+.+.....-.. ..+.|. |=.+.|.+ +.|++++||.+
T Consensus 2 ~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~---fdG~~L~~-~~T~~~~~ied 64 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLI---FDGKRLDP-NDTPEDLGIED 64 (72)
T ss_dssp EEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEE---ETTEEE-T-TSCHHHHT-ST
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEE---ECCEEcCC-CCCHHHCCCCC
Confidence 6889999999999999999999999998876543334 678887 88888876 47999999985
No 50
>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=93.64 E-value=0.28 Score=38.54 Aligned_cols=63 Identities=16% Similarity=0.198 Sum_probs=47.2
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
.|-||. ++..++.+..++||++|...|.....-......|+ |=.|.|.|. .||.++|+.+ ++|
T Consensus 2 qi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li---~~Gk~L~D~-~tL~~~~i~~~~tl 65 (74)
T cd01793 2 QLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLL---LAGVPLEDD-ATLGQCGVEELCTL 65 (74)
T ss_pred EEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEE---ECCeECCCC-CCHHHcCCCCCCEE
Confidence 355665 46788899999999999999977532113455666 778999985 8999999985 443
No 51
>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=92.97 E-value=0.38 Score=39.18 Aligned_cols=60 Identities=10% Similarity=0.193 Sum_probs=47.6
Q ss_pred eEEEEEcCCCCE--EEEEcCCCCCHHHHHHHHHhhCCCC--CCCeEEEecCCCCccCCCccCchhhcC
Q 015405 334 TSVQLRLADGTR--MVARFNHHHTIRDIHRFIDASRPGS--ARNYQLQAMGFPPKQLTDLDQTVEQAG 397 (407)
Q Consensus 334 t~IqIRL~dG~R--l~~rfn~t~TV~dvr~fV~~~~~~~--~~~F~L~tt~FP~k~l~D~s~TL~eag 397 (407)
.+|.||-++|+. +.+.+..+.||.+|.+-|....+.. ...-.|+ |-.|.|.| +.||++.+
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLI---y~GKiLkD-~~tL~~~~ 65 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLI---YSGKLLPD-HLKLRDVL 65 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEE---EcCeeccc-hhhHHHHh
Confidence 478999999999 5555689999999999998865422 2445677 88999987 48999985
No 52
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=92.81 E-value=0.28 Score=38.84 Aligned_cols=58 Identities=14% Similarity=0.211 Sum_probs=45.0
Q ss_pred CCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015405 342 DGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 403 (407)
Q Consensus 342 dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avv 403 (407)
+|+.+.+.+..+.||++|.+-|.....-......|+ |-.+.|.| +.||.+.++.+ ++|
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~---~~G~~L~d-~~tL~~~~i~~g~~l 64 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQ---YEGIFIKD-SNSLAYYNLANGTII 64 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEE---ECCEEcCC-CCcHHHcCCCCCCEE
Confidence 688889999999999999999987632224556777 45678887 48999999985 444
No 53
>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=92.57 E-value=0.64 Score=36.95 Aligned_cols=67 Identities=15% Similarity=0.168 Sum_probs=49.1
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecC-CCCccCCCccCchhhcCCCC-eeEE
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMG-FPPKQLTDLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~-FP~k~l~D~s~TL~eagL~n-avvv 404 (407)
+|.|++ .|+.+.+.++.++||++|.+-|.....-....-.|+ .. |=.+.+.| +.||.++++.+ +.|+
T Consensus 2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi-~~~~~Gk~l~D-~~~L~~~~i~~g~~i~ 70 (74)
T cd01813 2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLL-GLKVKGKPAED-DVKISALKLKPNTKIM 70 (74)
T ss_pred EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEE-eecccCCcCCC-CcCHHHcCCCCCCEEE
Confidence 577787 788889999999999999999988632224456777 21 23456666 68999999985 4443
No 54
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=91.28 E-value=0.37 Score=42.00 Aligned_cols=36 Identities=25% Similarity=0.176 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHH
Q 015405 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVST 44 (407)
Q Consensus 9 ~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~ 44 (407)
.++.|+--|+-||+|.+.|+.-|+.+||||-.||-.
T Consensus 76 ~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~ 111 (115)
T PRK06369 76 PEEDIELVAEQTGVSEEEARKALEEANGDLAEAILK 111 (115)
T ss_pred CHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHH
Confidence 467799999999999999999999999999999874
No 55
>TIGR00264 alpha-NAC-related protein. This hypothetical protein is found so far only in the Archaea. Its C-terminal domain of about 40 amino acids is homologous to the C-termini of the nascent polypeptide-associated complex alpha chain (alpha-NAC) and its yeast ortholog Egd2p and to the huntingtin-interacting protein HYPK. It shows weaker similarity, possibly through shared structural constraints rather than through homology, with the amino-terminal domain of elongation factor Ts. Alpha-NAC plays a role in preventing nascent polypeptides from binding inappropriately to membrane-targeting apparatus during translation, but is also active as a transcription regulator.
Probab=91.16 E-value=0.39 Score=41.85 Aligned_cols=36 Identities=22% Similarity=0.166 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHH
Q 015405 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVST 44 (407)
Q Consensus 9 ~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~ 44 (407)
.++.|+--++-||+|.+.|+.-|+.+||||-.||-.
T Consensus 78 ~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~~ 113 (116)
T TIGR00264 78 TEDDIELVMKQCNVSKEEARRALEECGGDLAEAIMK 113 (116)
T ss_pred CHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHHH
Confidence 456788899999999999999999999999999863
No 56
>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=90.45 E-value=0.94 Score=31.34 Aligned_cols=60 Identities=17% Similarity=0.201 Sum_probs=42.8
Q ss_pred EEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015405 337 QLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 400 (407)
Q Consensus 337 qIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n 400 (407)
+|++.+|+....+++...||++|+++|..........|.|. ...+.. .+ ..++.+.++..
T Consensus 1 ~v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~-~~~~~~--~~-~~~~~~~~~~~ 60 (69)
T cd00196 1 KVKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLL-VNGKIL--PD-SLTLEDYGLQD 60 (69)
T ss_pred CeEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEE-ECCeEC--CC-CCcHHHcCCCC
Confidence 36778999999999999999999999987644335678888 455433 22 23445566653
No 57
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=88.86 E-value=1.3 Score=31.19 Aligned_cols=38 Identities=13% Similarity=0.324 Sum_probs=32.4
Q ss_pred HHHHHHHHHHh-CCCHHHHHHHHHHcCCCHHHHHHHHHh
Q 015405 10 SSLINSFVEIT-SSTKDEALFFLESHQWNLDAAVSTFLD 47 (407)
Q Consensus 10 ~e~I~qF~~iT-gas~~~A~~yLe~~~wdLe~Av~~fy~ 47 (407)
++.|.+..++. ..+.+.-+.-|+.++||++.||+..++
T Consensus 2 ~~~v~~L~~mFP~~~~~~I~~~L~~~~~~ve~ai~~LL~ 40 (42)
T PF02845_consen 2 EEMVQQLQEMFPDLDREVIEAVLQANNGDVEAAIDALLE 40 (42)
T ss_dssp HHHHHHHHHHSSSS-HHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 46778888876 799999999999999999999999875
No 58
>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms]
Probab=88.46 E-value=0.43 Score=47.41 Aligned_cols=46 Identities=20% Similarity=0.485 Sum_probs=40.4
Q ss_pred CChhhhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhcc
Q 015405 4 PTAEANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNA 49 (407)
Q Consensus 4 ~~~~~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~~ 49 (407)
|+..+...++-.|..+|.++++.|+.+|..+.|+++.|++.||+.+
T Consensus 20 pe~~k~~~ll~efa~~~s~dea~aq~~l~~~dw~~~ral~~~~~se 65 (349)
T KOG2756|consen 20 PEVKKRRLLCVEFASVASCDAAVAQCFLAENDWEMERALNSYFEPE 65 (349)
T ss_pred chhHHHHHHHHHHHHhhhhHHHhHHHHhhcchhHHHHHHHhhcCce
Confidence 3444556788999999999999999999999999999999999854
No 59
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=86.58 E-value=2.2 Score=30.09 Aligned_cols=38 Identities=13% Similarity=0.301 Sum_probs=31.4
Q ss_pred HHHHHHHHHHh-CCCHHHHHHHHHHcCCCHHHHHHHHHh
Q 015405 10 SSLINSFVEIT-SSTKDEALFFLESHQWNLDAAVSTFLD 47 (407)
Q Consensus 10 ~e~I~qF~~iT-gas~~~A~~yLe~~~wdLe~Av~~fy~ 47 (407)
.+.|.+..++- ..+....+.-|+.+++|++.||+..++
T Consensus 3 ~~~v~~L~~mFP~l~~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 3 DEALHDLKDMFPNLDEEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 34566665554 899999999999999999999999875
No 60
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=85.30 E-value=2.1 Score=36.54 Aligned_cols=55 Identities=18% Similarity=0.240 Sum_probs=43.5
Q ss_pred EEEEcCCCCCHHHHHHHHHhhCCCCCCCe--EEEecCCCCccCCCccCchhhcCCCC-eeEEe
Q 015405 346 MVARFNHHHTIRDIHRFIDASRPGSARNY--QLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQ 405 (407)
Q Consensus 346 l~~rfn~t~TV~dvr~fV~~~~~~~~~~F--~L~tt~FP~k~l~D~s~TL~eagL~n-avvvq 405 (407)
+.+.++.++||++|...|.++-. -.+| .|+ .. -+.|+|++.||.+.||.. ++|..
T Consensus 17 ~~L~V~~~~TVg~LK~lImQ~f~--V~P~dQkL~-~d--G~~L~DDsrTLssyGv~sgSvl~L 74 (107)
T cd01795 17 KALLVSANQTLKELKIQIMHAFS--VAPFDQNLS-ID--GKILSDDCATLGTLGVIPESVILL 74 (107)
T ss_pred ceEEeCccccHHHHHHHHHHHhc--CCcccceee-ec--CceeccCCccHHhcCCCCCCEEEE
Confidence 45679999999999999988632 3566 676 34 779999999999999995 66554
No 61
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=84.72 E-value=2.3 Score=43.18 Aligned_cols=68 Identities=12% Similarity=0.214 Sum_probs=53.6
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCC-CCCCCeEEEecCCCCccCCCccCchhhcCCC-CeeEEe
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRP-GSARNYQLQAMGFPPKQLTDLDQTVEQAGIA-NSVVIQ 405 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~-~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~-navvvq 405 (407)
+|-||.-.|....++++.+|||.+|..-|..... ++...+..+ =|-.|.|.| ++||.+.++. +..||.
T Consensus 2 ~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkL--Iy~GkiL~D-~~tv~Eykv~E~~fiVv 71 (340)
T KOG0011|consen 2 KLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKL--IYSGKILKD-ETTVGEYKVKEKKFIVV 71 (340)
T ss_pred eeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhhee--eecceeccC-CcchhhhccccCceEEE
Confidence 5789999999999999999999999999987532 234444444 288899998 5899999998 454444
No 62
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=83.89 E-value=2 Score=37.77 Aligned_cols=36 Identities=22% Similarity=0.239 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHH
Q 015405 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVST 44 (407)
Q Consensus 9 ~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~ 44 (407)
.++.|.--++=||+|.+.|+.-|+.+|+||-.||..
T Consensus 84 ~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~ 119 (122)
T COG1308 84 SEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMK 119 (122)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHH
Confidence 356688888999999999999999999999999865
No 63
>PLN02560 enoyl-CoA reductase
Probab=83.77 E-value=5.2 Score=40.46 Aligned_cols=70 Identities=16% Similarity=0.284 Sum_probs=47.6
Q ss_pred EEEEEcCCCCEE---EEEcCCCCCHHHHHHHHHhhCCC-CCCCeEEEecCC----CCc-cCCCccCchhhcCCCC-eeEE
Q 015405 335 SVQLRLADGTRM---VARFNHHHTIRDIHRFIDASRPG-SARNYQLQAMGF----PPK-QLTDLDQTVEQAGIAN-SVVI 404 (407)
Q Consensus 335 ~IqIRL~dG~Rl---~~rfn~t~TV~dvr~fV~~~~~~-~~~~F~L~tt~F----P~k-~l~D~s~TL~eagL~n-avvv 404 (407)
+|.|+..+|+.+ .+.+..+.||+||..-|.+.... ....-.|. ..- |.. .|.| +.||++.|+.+ ++|.
T Consensus 2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~-~~~~~gk~~g~~L~d-~ktL~d~gv~~gstLy 79 (308)
T PLN02560 2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLT-LPLPPGKTRPTVLDD-SKSLKDYGLGDGGTVV 79 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEE-EecCCCCcCccccCC-CCCHHhcCCCCCceEE
Confidence 478888889876 68889999999999999876432 12333444 111 222 3444 67999999985 5666
Q ss_pred ee
Q 015405 405 QK 406 (407)
Q Consensus 405 qr 406 (407)
.|
T Consensus 80 ~k 81 (308)
T PLN02560 80 FK 81 (308)
T ss_pred EE
Confidence 54
No 64
>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=83.72 E-value=4.5 Score=32.23 Aligned_cols=58 Identities=10% Similarity=0.023 Sum_probs=42.8
Q ss_pred EcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCC-C
Q 015405 339 RLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIA-N 400 (407)
Q Consensus 339 RL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~-n 400 (407)
++-.|..+++.+..+.||++|...|.....-......| |-.+.|.++..||.+.|+. |
T Consensus 8 ~~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL----~~G~~L~dD~~tL~~ygi~~~ 66 (75)
T cd01799 8 AQSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW----VIGQRLARDQETLYSHGIRTN 66 (75)
T ss_pred cccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE----EcCCeeCCCcCCHHHcCCCCC
Confidence 45567788899999999999999997652211223333 5567787767999999998 5
No 65
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=83.66 E-value=3.3 Score=33.50 Aligned_cols=67 Identities=16% Similarity=0.271 Sum_probs=47.4
Q ss_pred eEEEEEcCCCC--EEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCC------CccCCCccCchhhcCCCCee
Q 015405 334 TSVQLRLADGT--RMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFP------PKQLTDLDQTVEQAGIANSV 402 (407)
Q Consensus 334 t~IqIRL~dG~--Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP------~k~l~D~s~TL~eagL~nav 402 (407)
.+|.|.-..-+ ....||+.+.||++|..-|.....-......|. . ++ ...++|+.++|..-|+.+..
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~-l-~~~~~~~~~~~~~dd~~~L~~y~~~dg~ 76 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQ-L-KSDKDDSKIEELDDDDATLGSYGIKDGM 76 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEE-E-E-TSSSSEEEESSGSSSBCCHHT-STTE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEE-E-EecCCCccccccCCCccEeecCCCCCCC
Confidence 46777776664 789999999999999999988743334555665 2 31 13356778999999999743
No 66
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=83.64 E-value=6.4 Score=31.16 Aligned_cols=54 Identities=22% Similarity=0.327 Sum_probs=38.4
Q ss_pred CCCCCHHHHHHHHHhhCCCC-CCCeEEEecCCCCccCCCccCchhhcCCCC-eeEEee
Q 015405 351 NHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQK 406 (407)
Q Consensus 351 n~t~TV~dvr~fV~~~~~~~-~~~F~L~tt~FP~k~l~D~s~TL~eagL~n-avvvqr 406 (407)
..+.||.||+..|....... .....|. ..+..+.|.|. .||.+.|+.+ ++|..|
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~-~~~~g~~L~d~-~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLR-LEPKGKSLKDD-DTLVDLGVGAGATLYVR 75 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEE-eCCCCcccCCc-ccHhhcCCCCCCEEEEe
Confidence 45689999999998764332 3445565 46778888764 6899999985 556554
No 67
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=82.26 E-value=4.6 Score=33.63 Aligned_cols=56 Identities=18% Similarity=0.141 Sum_probs=33.9
Q ss_pred EEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCc--cCCCccCchhhcCCCCe
Q 015405 345 RMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPK--QLTDLDQTVEQAGIANS 401 (407)
Q Consensus 345 Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k--~l~D~s~TL~eagL~na 401 (407)
-+...|..++||+.|...+.+.-.- ...-.|-....... .|.+..+||+||||..+
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~g 72 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDG 72 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TT
T ss_pred HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCC
Confidence 4688999999999999998875222 33444442223332 34577899999999964
No 68
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=80.16 E-value=3.5 Score=32.86 Aligned_cols=67 Identities=13% Similarity=0.144 Sum_probs=44.1
Q ss_pred ceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCC---C-C--CCeEEEecCCCCccCCCccCchhhcCCCCee
Q 015405 333 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPG---S-A--RNYQLQAMGFPPKQLTDLDQTVEQAGIANSV 402 (407)
Q Consensus 333 ~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~---~-~--~~F~L~tt~FP~k~l~D~s~TL~eagL~nav 402 (407)
.++|-|...+|+++-+.+....||.+|..-|...-.. . . ..|.|. .-..+.|.+ ++||.++|+.+.-
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~--~~~g~~L~~-~~tL~~~gV~dGd 74 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLA--RAGGRPLDP-DQTLADAGVRDGD 74 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG---GGTEEEET-TSBCGGGT--TT-
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEE--ecCCcccCC-cCcHhHcCCCCCC
Confidence 4788999988899999999999999998887664222 1 1 147775 355566665 6899999999743
No 69
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=78.60 E-value=6 Score=31.97 Aligned_cols=45 Identities=24% Similarity=0.343 Sum_probs=35.4
Q ss_pred CCCCHHHHHHHHHhhCCC--C-CCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015405 352 HHHTIRDIHRFIDASRPG--S-ARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 400 (407)
Q Consensus 352 ~t~TV~dvr~fV~~~~~~--~-~~~F~L~tt~FP~k~l~D~s~TL~eagL~n 400 (407)
.++||.+|..-|....++ . ...+.|+ |=.|.|.| +.||.+.|+.+
T Consensus 19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLI---y~GKiL~D-~~TL~dygI~~ 66 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDSLPDPELIDLI---HCGRKLKD-DQTLDFYGIQS 66 (75)
T ss_pred ccCcHHHHHHHHHHhhccCCCChHHeEEE---eCCcCCCC-CCcHHHcCCCC
Confidence 479999999999876322 1 3357777 88999987 48999999994
No 70
>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=75.87 E-value=3 Score=32.73 Aligned_cols=61 Identities=20% Similarity=0.167 Sum_probs=42.7
Q ss_pred EEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCC-CCCeEEEecC-CCC--ccCCCccCchhhcCCC
Q 015405 338 LRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMG-FPP--KQLTDLDQTVEQAGIA 399 (407)
Q Consensus 338 IRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~-~~~F~L~tt~-FP~--k~l~D~s~TL~eagL~ 399 (407)
|+|+||+.+...++.+.|++||.+.|...-.-. ..-|.|. .. -.. ..+-+.+++|.+..-.
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~-~~~~~~~~~~wL~~~k~l~~q~~~ 65 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQ-YQVDKDGEHHWLDLDKKLKKQLKK 65 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEE-E-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEE-EeecCCCcceeccCcccHHHHcCC
Confidence 799999999999999999999999998763222 4568887 41 111 1223667788765544
No 71
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=73.47 E-value=3 Score=32.91 Aligned_cols=24 Identities=29% Similarity=0.555 Sum_probs=22.5
Q ss_pred CCEEEEEcCCCCCHHHHHHHHHhh
Q 015405 343 GTRMVARFNHHHTIRDIHRFIDAS 366 (407)
Q Consensus 343 G~Rl~~rfn~t~TV~dvr~fV~~~ 366 (407)
|+.+.+++|.++||+|+...|...
T Consensus 11 GKKVRvKCn~dDtiGD~KKliaaQ 34 (73)
T KOG3493|consen 11 GKKVRVKCNTDDTIGDLKKLIAAQ 34 (73)
T ss_pred CceEEEEeCCcccccCHHHHHHHh
Confidence 899999999999999999999875
No 72
>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=72.75 E-value=10 Score=34.44 Aligned_cols=65 Identities=17% Similarity=0.217 Sum_probs=46.5
Q ss_pred ceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCC-CCCeEEEecCCCCccC---CCccCchhhcCC
Q 015405 333 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQL---TDLDQTVEQAGI 398 (407)
Q Consensus 333 ~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~-~~~F~L~tt~FP~k~l---~D~s~TL~eagL 398 (407)
...|+|.|+||+.+.++++.+.|+.+|.+.|...-.-. ..-|.|. ..-+...+ -+...+|.+...
T Consensus 3 ~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~-~~~~~~~~~~~l~~~~~l~~~~~ 71 (207)
T smart00295 3 PRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQ-FEDPDEDLSHWLDPAKTLLDQDV 71 (207)
T ss_pred cEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEE-EEcCCCCcCeeCCCccCHHHhcC
Confidence 45799999999999999999999999999998763322 4668887 33333222 234566666554
No 73
>PF11547 E3_UbLigase_EDD: E3 ubiquitin ligase EDD; InterPro: IPR024725 EDD, the ER ubiquitin ligase from the HECT ligases, contains an N-terminal ubiquitin-associated (UBA) domain which binds ubiquitin. Ubiquitin is recognised by helices alpha-1 and -3 in in the UBA domain. EDD is involved in DNA damage repair pathways and binds to mono-ubiquitinated proteins [].; GO: 0043130 ubiquitin binding; PDB: 2QHO_H.
Probab=71.43 E-value=14 Score=27.56 Aligned_cols=47 Identities=17% Similarity=0.303 Sum_probs=36.2
Q ss_pred CChhhhHHHHHHHHHHh-CCCHHHHHHHHHHcCCCHHHHHHHHHhccc
Q 015405 4 PTAEANSSLINSFVEIT-SSTKDEALFFLESHQWNLDAAVSTFLDNAA 50 (407)
Q Consensus 4 ~~~~~~~e~I~qF~~iT-gas~~~A~~yLe~~~wdLe~Av~~fy~~~~ 50 (407)
|.+...+++|.|-..+. |-+..+-.+-|..+|-|++.||+..+.-.+
T Consensus 4 pa~~vPedlI~q~q~VLqgksR~vIirELqrTnLdVN~AvNNlLsRDd 51 (53)
T PF11547_consen 4 PASQVPEDLINQAQVVLQGKSRNVIIRELQRTNLDVNLAVNNLLSRDD 51 (53)
T ss_dssp -GGGS-HHHHHHHHHHSTTS-HHHHHHHHHHTTT-HHHHHHHHHHHH-
T ss_pred ccccCCHHHHHHHHHHHcCCcHHHHHHHHHHhcccHHHHHHHHhcccc
Confidence 55666788999887775 788899999999999999999999886543
No 74
>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=70.93 E-value=10 Score=29.71 Aligned_cols=58 Identities=16% Similarity=0.165 Sum_probs=36.7
Q ss_pred cCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCCe
Q 015405 340 LADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIANS 401 (407)
Q Consensus 340 L~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~na 401 (407)
.++|.|..++...++||.+|.+-+...-.-....|.|. +=+|.| |.++.+.-+||.|.
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~---h~~k~l-dlslp~R~snL~n~ 60 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLK---HNNKPL-DLSLPFRLSNLPNN 60 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEE---ETTEEE-SSS-BHHHH---SS
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEE---ECCEEe-ccccceeecCCCCC
Confidence 46899999999999999999988776533335689998 455777 55899999999963
No 75
>CHL00098 tsf elongation factor Ts
Probab=68.24 E-value=8.7 Score=36.59 Aligned_cols=38 Identities=11% Similarity=0.165 Sum_probs=34.5
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015405 11 SLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (407)
Q Consensus 11 e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (407)
++|.+..+.||+.--.++.-|+.++||++.|+.-.-..
T Consensus 3 ~~ik~LR~~Tgag~~dck~AL~e~~gd~~~A~~~Lr~~ 40 (200)
T CHL00098 3 ELVKELRDKTGAGMMDCKKALQEANGDFEKALESLRQK 40 (200)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 57999999999999999999999999999999766554
No 76
>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=67.48 E-value=9.9 Score=31.64 Aligned_cols=33 Identities=15% Similarity=0.272 Sum_probs=30.1
Q ss_pred eEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhh
Q 015405 334 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDAS 366 (407)
Q Consensus 334 t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~ 366 (407)
..|+|=||||+++.+++..+++..+|++-+...
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~k 34 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAK 34 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHH
Confidence 468999999999999999999999999988664
No 77
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=66.26 E-value=9.9 Score=36.12 Aligned_cols=39 Identities=15% Similarity=0.184 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015405 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (407)
Q Consensus 10 ~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (407)
-++|.+..+.||+.--.++.-|+.++||++.|+.-.-..
T Consensus 5 a~~ik~LR~~tga~~~~ck~AL~~~~gd~~~A~~~lr~~ 43 (198)
T PRK12332 5 AKLVKELREKTGAGMMDCKKALEEANGDMEKAIEWLREK 43 (198)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 468999999999999999999999999999999877654
No 78
>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=65.58 E-value=31 Score=27.87 Aligned_cols=65 Identities=15% Similarity=0.229 Sum_probs=45.4
Q ss_pred eEEEEEcCC-CCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCc-----cCCCccCchhhcCCCC
Q 015405 334 TSVQLRLAD-GTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPK-----QLTDLDQTVEQAGIAN 400 (407)
Q Consensus 334 t~IqIRL~d-G~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k-----~l~D~s~TL~eagL~n 400 (407)
.+|.|.... ......||..+.||++|..=|.....-....-.|. -|..+ .|+++..+|..-|+.+
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~--l~~~~~~~~~~l~~d~~~L~~y~~~d 72 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQ--LFDGDDKLVSKLDDDDALLGSYPVDD 72 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEE--EEcCCCCeEeecCCCccEeeeccCCC
Confidence 356666643 33468899999999999999877632223444553 24554 5777789999999986
No 79
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=64.49 E-value=10 Score=38.07 Aligned_cols=39 Identities=13% Similarity=0.178 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015405 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (407)
Q Consensus 10 ~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (407)
-++|.+..+.||+.--.|+.-|+.++||++.|+.---..
T Consensus 5 a~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~LRkk 43 (290)
T TIGR00116 5 AQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNLRES 43 (290)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 468999999999999999999999999999999877554
No 80
>PRK09377 tsf elongation factor Ts; Provisional
Probab=62.23 E-value=12 Score=37.57 Aligned_cols=40 Identities=13% Similarity=0.142 Sum_probs=35.8
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015405 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (407)
Q Consensus 9 ~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (407)
.-++|.+....||+.--.++.-|+.++||++.|+.---..
T Consensus 5 s~~~IK~LR~~Tgagm~dCKkAL~e~~gD~ekAi~~Lrk~ 44 (290)
T PRK09377 5 TAALVKELRERTGAGMMDCKKALTEADGDIEKAIEWLRKK 44 (290)
T ss_pred CHHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 3468999999999999999999999999999999877653
No 81
>KOG3077 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.10 E-value=3.1 Score=41.09 Aligned_cols=38 Identities=26% Similarity=0.417 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 015405 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFL 46 (407)
Q Consensus 9 ~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy 46 (407)
+.+.+++|+.+|++++.+++.+|..++|++..|.+..|
T Consensus 8 ~~d~~~~~~~~~~~~~~~s~~~~~~~dw~~~~~~~~s~ 45 (260)
T KOG3077|consen 8 QKDKFEQFMSFTASRKKTSLSCLAACDWNLKYAFNDSY 45 (260)
T ss_pred HHHHHHhhcccccccchhhhhhhcccccccchhcccch
Confidence 67889999999999999999999999999999954444
No 82
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=60.95 E-value=30 Score=28.68 Aligned_cols=50 Identities=16% Similarity=0.249 Sum_probs=41.5
Q ss_pred eEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCC-CCCCCeEEEecCCCCc
Q 015405 334 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRP-GSARNYQLQAMGFPPK 384 (407)
Q Consensus 334 t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~-~~~~~F~L~tt~FP~k 384 (407)
.-|+|-+.||+...+-+..++|++||-+.+..... .....|.|+ -..|--
T Consensus 3 ~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~Lv-E~~P~l 53 (85)
T cd01787 3 QVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLV-EHLPHL 53 (85)
T ss_pred eEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEE-Eecchh
Confidence 46899999999999999999999999998865432 337889999 688864
No 83
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=54.34 E-value=20 Score=35.92 Aligned_cols=40 Identities=20% Similarity=0.223 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015405 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (407)
Q Consensus 9 ~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (407)
.+-.+.=.+.+||++.+.|+..|+.++|++-.||-.....
T Consensus 235 ~~ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~a~~~~~~~ 274 (299)
T PRK05441 235 VDRAVRIVMEATGVSREEAEAALEAADGSVKLAIVMILTG 274 (299)
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHHHhCCCcHHHHHHHHhC
Confidence 4445566888999999999999999999999999887653
No 84
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=52.61 E-value=19 Score=36.68 Aligned_cols=36 Identities=19% Similarity=0.110 Sum_probs=33.3
Q ss_pred hhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHH
Q 015405 8 ANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVS 43 (407)
Q Consensus 8 ~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~ 43 (407)
+..++|.+..+-||++-.-++.-|+.+||||..|..
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~ 80 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEE 80 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHH
Confidence 567899999999999999999999999999999854
No 85
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=51.20 E-value=32 Score=36.94 Aligned_cols=63 Identities=16% Similarity=0.285 Sum_probs=51.9
Q ss_pred ceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015405 333 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 400 (407)
Q Consensus 333 ~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~n 400 (407)
.++|.||-++. ...+..-.+.||.++.+-|...-......-+|+ |=-|.|.| ..||...|+..
T Consensus 15 ~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLI---faGrILKD-~dTL~~~gI~D 77 (493)
T KOG0010|consen 15 LIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLI---YAGRILKD-DDTLKQYGIQD 77 (493)
T ss_pred eeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeee---ecCccccC-hhhHHHcCCCC
Confidence 47899999998 788999999999999999987642224455666 99999997 57999999996
No 86
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=50.12 E-value=27 Score=34.98 Aligned_cols=40 Identities=18% Similarity=0.130 Sum_probs=33.5
Q ss_pred hhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHh
Q 015405 8 ANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLD 47 (407)
Q Consensus 8 ~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~ 47 (407)
-.+-.+.=.+.+||++.+.|+.+|+.++|++-.||-.-..
T Consensus 229 l~~Ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~Ai~~~~~ 268 (291)
T TIGR00274 229 LKARAVRIVRQATDCNKELAEQTLLAADQNVKLAIVMILS 268 (291)
T ss_pred HHHHHHHHHHHHhCcCHHHHHHHHHHhCCCcHHHHHHHHh
Confidence 3444556678889999999999999999999999987654
No 87
>PF03765 CRAL_TRIO_N: CRAL/TRIO, N-terminal domain; InterPro: IPR008273 This entry defines the N-terminal of various retinaldehyde/retinal-binding proteins that may be functional components of the visual cycle. Cellular retinaldehyde-binding protein (CRALBP) carries 11-cis-retinol or 11-cis-retinaldehyde as endogenous ligands and may function as a substrate carrier protein that modulates interaction of these retinoids with visual cycle enzymes []. The multidomain protein Trio binds the LAR transmembrane tyrosine phosphatase, contains a protein kinase domain, and has separate rac-specific and rho-specific guanine nucleotide exchange factor domains []. Trio is a multifunctional protein that integrates and amplifies signals involved in coordinating actin remodeling, which is necessary for cell migration and growth. Other members of the family are transfer proteins that include, guanine nucleotide exchange factor that may function as an effector of RAC1, phosphatidylinositol/phosphatidylcholine transfer protein that is required for the transport of secretory proteins from the golgi complex and alpha-tocopherol transfer protein that enhances the transfer of the ligand between separate membranes.; PDB: 1OIZ_A 1R5L_A 1OIP_A 3HX3_A 3HY5_A 1AUA_A 3Q8G_A 3B7Q_B 3B7Z_A 3B7N_A ....
Probab=49.76 E-value=23 Score=25.95 Aligned_cols=26 Identities=15% Similarity=0.323 Sum_probs=21.0
Q ss_pred CCCHHHHHHHHHHcCCCHHHHHHHHH
Q 015405 21 SSTKDEALFFLESHQWNLDAAVSTFL 46 (407)
Q Consensus 21 gas~~~A~~yLe~~~wdLe~Av~~fy 46 (407)
..+...-.+||.+.+||++.|+..+-
T Consensus 28 ~~~d~~llRFLRARkf~v~~A~~mL~ 53 (55)
T PF03765_consen 28 DHDDNFLLRFLRARKFDVEKAFKMLK 53 (55)
T ss_dssp S-SHHHHHHHHHHTTT-HHHHHHHHH
T ss_pred CCCHHHHHHHHHHccCCHHHHHHHHH
Confidence 45678999999999999999998764
No 88
>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=45.30 E-value=63 Score=25.75 Aligned_cols=42 Identities=17% Similarity=0.184 Sum_probs=34.0
Q ss_pred EEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEE
Q 015405 336 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 377 (407)
Q Consensus 336 IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~ 377 (407)
+.|=||||++-++.....+||.|+-.=+-+.+.-....+.|.
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~ 43 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVF 43 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEE
Confidence 567799999999999999999999988877654444556665
No 89
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=44.76 E-value=33 Score=34.37 Aligned_cols=41 Identities=17% Similarity=0.221 Sum_probs=34.1
Q ss_pred hhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015405 8 ANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (407)
Q Consensus 8 ~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (407)
-.+-.+.=.+.+||++.+.|+..|+.++|++-.||-.....
T Consensus 230 l~~Ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~ai~~~~~~ 270 (296)
T PRK12570 230 LVARAVRIVMQATGCSEDEAKELLKESDNDVKLAILMILTG 270 (296)
T ss_pred HHHHHHHHHHHHHCcCHHHHHHHHHHhCCccHHHHHHHHhC
Confidence 34445566788899999999999999999999999877543
No 90
>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=41.33 E-value=89 Score=26.29 Aligned_cols=53 Identities=17% Similarity=0.308 Sum_probs=40.7
Q ss_pred EEEEEcCCCCE-EEEEcC--CCCCHHHHHHHHHhhCCCC--CCCeEEEecCCCCccCCCcc
Q 015405 335 SVQLRLADGTR-MVARFN--HHHTIRDIHRFIDASRPGS--ARNYQLQAMGFPPKQLTDLD 390 (407)
Q Consensus 335 ~IqIRL~dG~R-l~~rfn--~t~TV~dvr~fV~~~~~~~--~~~F~L~tt~FP~k~l~D~s 390 (407)
.|-|||.++-. +.+.++ .+.||..|...|+...|.. .+.-.|+ |=.|.|.|.+
T Consensus 2 ~l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI---~~Gr~L~d~t 59 (97)
T PF10302_consen 2 YLTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLI---YAGRLLNDHT 59 (97)
T ss_pred eEEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEee---ecCcccCccc
Confidence 36788888544 788888 8899999999999988554 4556666 6778888754
No 91
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=39.28 E-value=50 Score=33.10 Aligned_cols=42 Identities=21% Similarity=0.240 Sum_probs=35.5
Q ss_pred hhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhcc
Q 015405 8 ANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNA 49 (407)
Q Consensus 8 ~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~~ 49 (407)
-.+..+.=.+++||++.++|.++|+.++.++..||-.....-
T Consensus 232 L~dRa~RIv~~aT~~~~~~A~~~L~~~~~~vK~AIvm~~~~~ 273 (298)
T COG2103 232 LRDRAVRIVMEATGCSAEEAEALLEEAGGNVKLAIVMLLTGL 273 (298)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHcCCccHhHHHHHHhCC
Confidence 345566778889999999999999999999999998877543
No 92
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=39.19 E-value=49 Score=33.43 Aligned_cols=40 Identities=15% Similarity=0.192 Sum_probs=35.8
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhcc
Q 015405 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNA 49 (407)
Q Consensus 10 ~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~~ 49 (407)
-++|.+..+.||+.--.|++-|+.+++|+|.||+-.-..+
T Consensus 6 a~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG 45 (296)
T COG0264 6 AALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKG 45 (296)
T ss_pred HHHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 3589999999999999999999999999999998776543
No 93
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=36.42 E-value=2e+02 Score=26.70 Aligned_cols=51 Identities=18% Similarity=0.214 Sum_probs=38.4
Q ss_pred EEEEEcCCC----CEEEEEcCCCCCHHHHHHHHHhhCCCC-CCCeEEEecCCCCccCC
Q 015405 335 SVQLRLADG----TRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQLT 387 (407)
Q Consensus 335 ~IqIRL~dG----~Rl~~rfn~t~TV~dvr~fV~~~~~~~-~~~F~L~tt~FP~k~l~ 387 (407)
+|-|+..+| ..+.+.+..+.||.||++.|....+.. ...+.|. ...++.|.
T Consensus 2 ~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~--~~~n~~l~ 57 (162)
T PF13019_consen 2 NVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLT--TNSNGQLS 57 (162)
T ss_pred eEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEE--EeCCCeeC
Confidence 577899999 578888889999999999998875554 2336666 46666663
No 94
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=33.74 E-value=1.1e+02 Score=23.87 Aligned_cols=67 Identities=13% Similarity=0.284 Sum_probs=49.5
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCCeeEEe
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIANSVVIQ 405 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~D~s~TL~eagL~navvvq 405 (407)
.|.++...|+.+.+-...+++|.-|..-|.....-....-.|+ |-.|.+.| ++|-+.-+|....|+.
T Consensus 2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli---~~gkqm~D-D~tA~~Y~~~~GSVlH 68 (70)
T KOG0005|consen 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLI---YAGKQMND-DKTAAHYNLLGGSVLH 68 (70)
T ss_pred eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhh---hccccccc-cccHHHhhhccceeEe
Confidence 3677888999999999999999999999976521112223344 77888877 4899999998655543
No 95
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=30.54 E-value=1.9e+02 Score=22.70 Aligned_cols=52 Identities=23% Similarity=0.288 Sum_probs=35.6
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEEecCCCCccCC
Q 015405 335 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT 387 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~tt~FP~k~l~ 387 (407)
.+.+=||||++.++......||.|+-.-+-..+.-....+.+...+ ..+.|+
T Consensus 2 ~~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~-~~k~l~ 53 (71)
T PF02196_consen 2 TCRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVG-EKKPLD 53 (71)
T ss_dssp EEEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEE-EEEEE-
T ss_pred eEEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcC-CCcccc
Confidence 4788899999999999999999999888877654434444444123 555554
No 96
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=29.79 E-value=1.1e+02 Score=24.92 Aligned_cols=40 Identities=10% Similarity=0.088 Sum_probs=31.4
Q ss_pred EEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEE
Q 015405 338 LRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 377 (407)
Q Consensus 338 IRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~ 377 (407)
|=||||.+........+|+.||-.-+-+.+.-....+.|.
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~Lr 43 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYLR 43 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHheeE
Confidence 5689999999999999999999998866543334555554
No 97
>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=28.85 E-value=1.2e+02 Score=23.50 Aligned_cols=45 Identities=18% Similarity=0.247 Sum_probs=35.0
Q ss_pred ceEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEE
Q 015405 333 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 377 (407)
Q Consensus 333 ~t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~ 377 (407)
|.+|++++.++.|..+.+...-+..+|+.-|...-+.....|.|.
T Consensus 1 t~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~ 45 (84)
T PF00564_consen 1 TVRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLK 45 (84)
T ss_dssp SEEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEE
T ss_pred CEEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEE
Confidence 457889998888777888888899999999987644324677776
No 98
>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=27.88 E-value=2.1e+02 Score=22.21 Aligned_cols=43 Identities=14% Similarity=0.212 Sum_probs=33.5
Q ss_pred eEEEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEE
Q 015405 334 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 377 (407)
Q Consensus 334 t~IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~ 377 (407)
.+|++++ +|....+++...-|..+|+.-|...-+.....|.|.
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~ 44 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLK 44 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEE
Confidence 5688888 667778888889999999999987644334577776
No 99
>smart00455 RBD Raf-like Ras-binding domain.
Probab=27.80 E-value=1.6e+02 Score=23.15 Aligned_cols=42 Identities=19% Similarity=0.202 Sum_probs=31.8
Q ss_pred EEEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEE
Q 015405 336 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 377 (407)
Q Consensus 336 IqIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~ 377 (407)
+.+=||||++..+......||.|+-.=+-+.+.-......|.
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~ 43 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVR 43 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEE
Confidence 456799999999999999999999888766543323344444
No 100
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=26.15 E-value=1e+02 Score=24.60 Aligned_cols=40 Identities=20% Similarity=0.473 Sum_probs=28.1
Q ss_pred CCCCCHHHHHHHHHhhCCCC--CCCeEEEecCCCCccCCCccCchhh
Q 015405 351 NHHHTIRDIHRFIDASRPGS--ARNYQLQAMGFPPKQLTDLDQTVEQ 395 (407)
Q Consensus 351 n~t~TV~dvr~fV~~~~~~~--~~~F~L~tt~FP~k~l~D~s~TL~e 395 (407)
+.+++|.||++++... +.. -.+|.|. +-.+.|++. ..|.+
T Consensus 2 ~~~d~v~dvrq~L~~~-~~t~~~Tn~~L~---~~g~~L~~~-~el~~ 43 (76)
T PF15044_consen 2 SPTDTVQDVRQVLAES-PETCYLTNFSLE---HNGQRLDDF-VELSE 43 (76)
T ss_pred ChhhHHHHHHHHHHhC-ccccceeEEEEE---ECCCccCCc-hhhhh
Confidence 5689999999999875 443 5788887 456667653 34443
No 101
>PF09107 SelB-wing_3: Elongation factor SelB, winged helix ; InterPro: IPR015191 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 3". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2PJP_A 2UWM_A 1WSU_B 1LVA_A 2PLY_A.
Probab=25.57 E-value=84 Score=23.28 Aligned_cols=21 Identities=19% Similarity=0.344 Sum_probs=18.4
Q ss_pred HHHHHHHhCCCHHHHHHHHHH
Q 015405 13 INSFVEITSSTKDEALFFLES 33 (407)
Q Consensus 13 I~qF~~iTgas~~~A~~yLe~ 33 (407)
|.+|.+++|+|...|..|||-
T Consensus 13 v~~~rd~lg~sRK~ai~lLE~ 33 (50)
T PF09107_consen 13 VAEFRDLLGLSRKYAIPLLEY 33 (50)
T ss_dssp HHHHHHHHTS-HHHHHHHHHH
T ss_pred HHHHHHHHCccHHHHHHHHHH
Confidence 789999999999999999974
No 102
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=24.61 E-value=1e+02 Score=32.98 Aligned_cols=42 Identities=21% Similarity=0.392 Sum_probs=35.6
Q ss_pred CChhhhHHHHHHHHHHh----CCCHHHHHHHHHHcCCCHHHHHHHH
Q 015405 4 PTAEANSSLINSFVEIT----SSTKDEALFFLESHQWNLDAAVSTF 45 (407)
Q Consensus 4 ~~~~~~~e~I~qF~~iT----gas~~~A~~yLe~~~wdLe~Av~~f 45 (407)
|.-..+++.+.+|+++. |...++|-+.|--++.||+.|+...
T Consensus 135 p~~~i~D~kL~EYI~~A~~rY~i~ieqAL~iL~~h~~d~d~A~~~l 180 (534)
T KOG1194|consen 135 PPLEIQDDKLEEYISEAKERYGIPIEQALFILFWHKHDFDLAHADL 180 (534)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCcHHHHHHHHHhhcccchHHHHHH
Confidence 34456677889998885 8999999999999999999998765
No 103
>KOG0625 consensus Phosphoglucomutase [Carbohydrate transport and metabolism]
Probab=23.01 E-value=31 Score=36.61 Aligned_cols=35 Identities=20% Similarity=0.421 Sum_probs=28.7
Q ss_pred EEEEEcCCCCEEEEEcCCCCCHH-HHHHHHHhhCCC
Q 015405 335 SVQLRLADGTRMVARFNHHHTIR-DIHRFIDASRPG 369 (407)
Q Consensus 335 ~IqIRL~dG~Rl~~rfn~t~TV~-dvr~fV~~~~~~ 369 (407)
-|+|.|.||+|+++|+.-+-..+ .||-||+++.++
T Consensus 485 Glri~F~dGsR~VfRLSGTGSsGATiRLYie~ye~d 520 (558)
T KOG0625|consen 485 GLRIVFEDGSRIVFRLSGTGSSGATIRLYIESYEKD 520 (558)
T ss_pred ceEEEEcCCcEEEEEeccCCCCCceEEEehhhhccc
Confidence 48999999999999999776665 678888887544
No 104
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=22.56 E-value=3.1e+02 Score=21.39 Aligned_cols=39 Identities=21% Similarity=0.331 Sum_probs=34.3
Q ss_pred hHHHHHHHHHHhCC-CHHHHHHHHHHcCCCHHHHHHHHHh
Q 015405 9 NSSLINSFVEITSS-TKDEALFFLESHQWNLDAAVSTFLD 47 (407)
Q Consensus 9 ~~e~I~qF~~iTga-s~~~A~~yLe~~~wdLe~Av~~fy~ 47 (407)
-...|+...+|||. +++.---.|..||-|-++|++-...
T Consensus 5 ~rk~VQ~iKEiv~~hse~eIya~L~ecnMDpnea~qrLL~ 44 (60)
T PF06972_consen 5 SRKTVQSIKEIVGCHSEEEIYAMLKECNMDPNEAVQRLLS 44 (60)
T ss_pred HHHHHHHHHHHhcCCCHHHHHHHHHHhCCCHHHHHHHHHh
Confidence 35689999999999 8888888999999999999988765
No 105
>PF10075 PCI_Csn8: COP9 signalosome, subunit CSN8; InterPro: IPR019280 The photomorphogenic 9 (COP9) signalosome or CSN complex is composed of eight subunits: Cops1/GPS1, Cops2, Cops3, Cops4, Cops5, Cop6, Cops7 (Cops7A or Cops7B) and Cops8. In the complex, Cops8, which is the smallest subunit, probably interacts directly with Cops3, Cops4 and Cops7 (Cops7A or Cops7B). This signalosome is homologous to the lid subcomplex of the 26S proteasome and regulates the ubiquitin-proteasome pathway. It functions as a structural scaffold for subunit-subunit interactions within the complex and is a key regulator of photomorphogenic development [].; PDB: 1RZ4_A.
Probab=22.32 E-value=69 Score=28.10 Aligned_cols=34 Identities=21% Similarity=0.436 Sum_probs=22.9
Q ss_pred HHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 015405 13 INSFVEITSSTKDEALFFLESHQWNLDAAVSTFL 46 (407)
Q Consensus 13 I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy 46 (407)
++.++++.|.+++.+..|+++.||-++.+...|.
T Consensus 100 ~~~la~~Lg~~~~el~~~~~~~gW~~d~~~~~~~ 133 (143)
T PF10075_consen 100 LSDLAEMLGLSEEELEKFIKSRGWTVDGDGVLFP 133 (143)
T ss_dssp HHHHHHHTTS-HHHHHHHHHHHT-EE-----EE-
T ss_pred HHHHHHHhCCCHHHHHHHHHHcCCEECCCccEEe
Confidence 5678888999999999999999999986655443
No 106
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=21.63 E-value=1.1e+02 Score=24.99 Aligned_cols=34 Identities=15% Similarity=0.253 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHH
Q 015405 8 ANSSLINSFVEITSSTKDEALFFLESHQWNLDAAV 42 (407)
Q Consensus 8 ~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av 42 (407)
.--++|.++..+..-+++.|+++|..+- .|-.||
T Consensus 30 ql~ell~~mK~l~~~~p~~ar~lL~~nP-qLa~Al 63 (84)
T PF14327_consen 30 QLYELLSQMKQLAQQNPEQARQLLQQNP-QLAYAL 63 (84)
T ss_dssp HHHHHHHHHHHHHC----HHHHHHHS-T-HHHHHH
T ss_pred HHHHHHHHHHHHHHhCHHHHHHHHHHCc-HHHHHH
Confidence 3456789999999999999999998876 565554
No 107
>PF12096 DUF3572: Protein of unknown function (DUF3572); InterPro: IPR021955 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 100 amino acids in length.
Probab=21.61 E-value=1.4e+02 Score=25.01 Aligned_cols=41 Identities=20% Similarity=0.174 Sum_probs=31.3
Q ss_pred hhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhccc
Q 015405 8 ANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNAA 50 (407)
Q Consensus 8 ~~~e~I~qF~~iTgas~~~A~~yLe~~~wdLe~Av~~fy~~~~ 50 (407)
..++++..|+.+||++++.=|.-+..- .+-.+|=.|+-..+
T Consensus 19 ~d~e~l~rFLa~TG~~p~~LR~~a~dp--~FL~~VLdFl~~de 59 (88)
T PF12096_consen 19 GDPERLPRFLALTGLSPDDLRAAAGDP--AFLAAVLDFLLMDE 59 (88)
T ss_pred CCHHHHHHHHHHhCCCHHHHHHHccCh--HHHHHHHHHHHcch
Confidence 457899999999999999877655444 36678888876543
No 108
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=20.31 E-value=1.4e+02 Score=24.03 Aligned_cols=41 Identities=22% Similarity=0.193 Sum_probs=30.6
Q ss_pred EEEcCCCCEEEEEcCCCCCHHHHHHHHHhhCCCCCCCeEEE
Q 015405 337 QLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 377 (407)
Q Consensus 337 qIRL~dG~Rl~~rfn~t~TV~dvr~fV~~~~~~~~~~F~L~ 377 (407)
+|=||||++-+.....-.||.|+-.=+-..+.-....+.+.
T Consensus 3 rV~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf 43 (73)
T cd01817 3 RVILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLF 43 (73)
T ss_pred EEECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEE
Confidence 56799999999999999999998877665553333334444
No 109
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=20.05 E-value=51 Score=27.01 Aligned_cols=19 Identities=16% Similarity=0.277 Sum_probs=15.6
Q ss_pred ceEEEEEecCceeecCCCC
Q 015405 224 VSHNITFWRNGFTVDDGPL 242 (407)
Q Consensus 224 ~~~~it~w~nGF~VdDGpl 242 (407)
..++|.|+.||..|||.+|
T Consensus 41 ~~~~lvL~eDGT~VddEey 59 (80)
T cd06536 41 APITLVLAEDGTIVEDEDY 59 (80)
T ss_pred CceEEEEecCCcEEccHHH
Confidence 3578999999999988544
Done!