Query 015336
Match_columns 408
No_of_seqs 319 out of 817
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 05:21:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015336.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015336hhsearch_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 8.1E-79 1.8E-83 605.3 21.5 355 7-408 2-379 (380)
2 smart00553 SEP Domain present 100.0 1.5E-35 3.3E-40 245.8 8.3 89 223-312 2-90 (93)
3 PF08059 SEP: SEP domain; Int 100.0 9.4E-31 2E-35 209.6 5.3 75 228-303 1-75 (75)
4 cd01770 p47_UBX p47-like ubiqu 99.9 2.7E-24 5.8E-29 173.9 9.9 76 332-408 2-78 (79)
5 cd01767 UBX UBX (ubiquitin reg 99.8 1E-19 2.2E-24 145.7 9.7 74 333-408 1-76 (77)
6 smart00166 UBX Domain present 99.8 4E-18 8.7E-23 137.6 9.9 76 332-408 2-80 (80)
7 cd01773 Faf1_like1_UBX Faf1 ik 99.7 1E-17 2.2E-22 136.3 10.0 72 331-404 2-76 (82)
8 cd01774 Faf1_like2_UBX Faf1 ik 99.7 1.1E-17 2.5E-22 137.1 9.3 68 333-402 3-77 (85)
9 cd01771 Faf1_UBX Faf1 UBX doma 99.7 2.1E-17 4.6E-22 134.1 9.8 73 331-405 1-76 (80)
10 cd01772 SAKS1_UBX SAKS1-like U 99.7 5.9E-17 1.3E-21 130.9 9.1 73 333-407 3-79 (79)
11 PF00789 UBX: UBX domain; Int 99.7 4.7E-17 1E-21 131.3 8.1 78 330-408 2-82 (82)
12 KOG1364 Predicted ubiquitin re 99.6 1E-13 2.2E-18 137.8 17.1 74 334-408 277-355 (356)
13 PF14555 UBA_4: UBA-like domai 99.5 1.2E-13 2.6E-18 99.3 5.6 41 10-50 1-41 (43)
14 KOG2689 Predicted ubiquitin re 99.2 3.1E-11 6.7E-16 116.8 9.8 77 331-408 207-286 (290)
15 KOG2507 Ubiquitin regulatory p 98.6 2.4E-08 5.2E-13 101.9 4.7 69 332-401 312-382 (506)
16 KOG1363 Predicted regulator of 98.1 3.9E-06 8.4E-11 88.2 7.1 74 331-406 380-457 (460)
17 PF03943 TAP_C: TAP C-terminal 97.7 2.5E-05 5.4E-10 58.3 2.3 41 10-50 1-41 (51)
18 smart00804 TAP_C C-terminal do 97.6 0.00014 3.1E-09 56.7 6.1 42 6-47 9-50 (63)
19 cd01796 DDI1_N DNA damage indu 97.2 0.0013 2.8E-08 51.9 6.6 68 337-407 1-70 (71)
20 cd01806 Nedd8 Nebb8-like ubiq 97.0 0.0033 7.1E-08 49.2 7.7 63 336-402 2-64 (76)
21 cd01794 DC_UbP_C dendritic cel 97.0 0.0019 4.2E-08 50.9 6.3 65 337-405 1-65 (70)
22 cd01807 GDX_N ubiquitin-like d 97.0 0.0027 5.8E-08 50.1 7.0 65 336-404 2-67 (74)
23 PF12090 Spt20: Spt20 family; 96.9 0.00075 1.6E-08 63.0 3.2 61 224-286 14-85 (182)
24 cd01804 midnolin_N Ubiquitin-l 96.8 0.0059 1.3E-07 49.0 7.6 64 336-404 3-67 (78)
25 cd01805 RAD23_N Ubiquitin-like 96.7 0.008 1.7E-07 47.4 7.6 65 336-404 2-69 (77)
26 cd01792 ISG15_repeat1 ISG15 ub 96.7 0.0091 2E-07 48.0 7.9 68 335-404 3-71 (80)
27 cd01791 Ubl5 UBL5 ubiquitin-li 96.6 0.011 2.3E-07 47.2 7.9 67 335-405 2-69 (73)
28 cd01809 Scythe_N Ubiquitin-lik 96.6 0.0098 2.1E-07 45.9 7.0 65 336-404 2-67 (72)
29 PF00240 ubiquitin: Ubiquitin 96.6 0.0053 1.1E-07 47.3 5.4 62 340-405 1-63 (69)
30 cd01803 Ubiquitin Ubiquitin. U 96.5 0.0098 2.1E-07 46.4 6.9 62 336-401 2-63 (76)
31 PTZ00044 ubiquitin; Provisiona 96.5 0.012 2.5E-07 46.4 6.9 62 336-401 2-63 (76)
32 cd01798 parkin_N amino-termina 96.4 0.01 2.3E-07 46.2 6.0 64 337-404 1-65 (70)
33 PF00627 UBA: UBA/TS-N domain; 96.2 0.012 2.6E-07 40.6 5.2 34 9-43 2-35 (37)
34 cd01810 ISG15_repeat2 ISG15 ub 96.2 0.015 3.2E-07 45.9 6.2 64 337-404 1-65 (74)
35 cd01814 NTGP5 Ubiquitin-like N 96.1 0.012 2.5E-07 51.0 5.4 62 333-398 3-72 (113)
36 cd01812 BAG1_N Ubiquitin-like 96.0 0.036 7.9E-07 42.7 7.3 65 336-405 2-67 (71)
37 smart00213 UBQ Ubiquitin homol 96.0 0.026 5.7E-07 42.1 6.3 61 336-401 2-62 (64)
38 cd01808 hPLIC_N Ubiquitin-like 95.9 0.032 7E-07 43.6 6.9 65 336-405 2-67 (71)
39 PF13881 Rad60-SLD_2: Ubiquiti 95.7 0.032 7E-07 48.2 6.4 63 334-400 2-72 (111)
40 cd01802 AN1_N ubiquitin-like d 95.6 0.065 1.4E-06 45.6 7.8 68 333-404 26-94 (103)
41 cd01769 UBL Ubiquitin-like dom 95.5 0.066 1.4E-06 40.4 7.1 64 339-406 2-66 (69)
42 PF11543 UN_NPL4: Nuclear pore 95.4 0.024 5.1E-07 46.1 4.5 68 335-404 5-74 (80)
43 cd01763 Sumo Small ubiquitin-r 95.1 0.16 3.5E-06 41.5 8.5 67 331-401 8-74 (87)
44 smart00165 UBA Ubiquitin assoc 95.0 0.056 1.2E-06 36.9 4.8 35 10-45 2-36 (37)
45 cd01797 NIRF_N amino-terminal 95.0 0.1 2.3E-06 41.9 7.1 65 336-404 2-69 (78)
46 TIGR00601 rad23 UV excision re 94.8 0.095 2.1E-06 54.3 7.8 66 336-405 2-71 (378)
47 KOG4351 Uncharacterized conser 94.7 0.005 1.1E-07 59.1 -1.6 45 6-50 20-67 (244)
48 cd00194 UBA Ubiquitin Associat 94.5 0.11 2.3E-06 35.7 5.2 36 10-46 2-37 (38)
49 PF11976 Rad60-SLD: Ubiquitin- 94.3 0.16 3.5E-06 39.4 6.5 63 336-402 2-65 (72)
50 cd01793 Fubi Fubi ubiquitin-li 94.0 0.23 4.9E-06 39.1 6.8 63 336-404 2-65 (74)
51 cd01790 Herp_N Homocysteine-re 93.0 0.37 8.1E-06 39.2 6.5 60 335-398 2-65 (79)
52 cd01813 UBP_N UBP ubiquitin pr 92.7 0.61 1.3E-05 37.1 7.4 67 336-405 2-70 (74)
53 cd01800 SF3a120_C Ubiquitin-li 92.5 0.32 6.9E-06 38.6 5.5 58 343-404 6-64 (76)
54 PRK06369 nac nascent polypepti 91.1 0.38 8.3E-06 41.9 4.8 36 9-44 76-111 (115)
55 TIGR00264 alpha-NAC-related pr 91.0 0.41 8.9E-06 41.8 4.9 35 9-43 78-112 (116)
56 cd00196 UBQ Ubiquitin-like pro 90.9 0.82 1.8E-05 31.7 5.7 60 338-401 1-60 (69)
57 KOG2756 Predicted Mg2+-depende 90.7 0.23 4.9E-06 49.4 3.4 46 4-49 20-65 (349)
58 PF02845 CUE: CUE domain; Int 88.9 1.3 2.8E-05 31.3 5.3 38 10-47 2-40 (42)
59 smart00546 CUE Domain that may 86.5 2.3 4.9E-05 30.1 5.4 38 10-47 3-41 (43)
60 cd01799 Hoil1_N Ubiquitin-like 85.2 3.6 7.8E-05 32.8 6.6 58 340-401 8-66 (75)
61 KOG0011 Nucleotide excision re 84.4 2.5 5.3E-05 43.1 6.4 68 336-406 2-71 (340)
62 PF14560 Ubiquitin_2: Ubiquiti 83.6 3.6 7.7E-05 33.3 6.0 67 335-403 2-76 (87)
63 cd01795 USP48_C USP ubiquitin- 83.4 3.1 6.7E-05 35.6 5.6 55 347-406 17-74 (107)
64 PLN02560 enoyl-CoA reductase 83.3 5.1 0.00011 40.6 8.2 71 336-407 2-81 (308)
65 COG1308 EGD2 Transcription fac 82.6 2.4 5.2E-05 37.3 4.8 36 9-44 84-119 (122)
66 PF14836 Ubiquitin_3: Ubiquiti 82.4 2 4.4E-05 35.7 4.1 56 346-402 15-72 (88)
67 cd01801 Tsc13_N Ubiquitin-like 82.3 7.6 0.00016 30.8 7.3 54 352-407 20-75 (77)
68 PF08817 YukD: WXG100 protein 80.4 3.7 8E-05 32.8 4.9 68 334-404 2-75 (79)
69 PF11470 TUG-UBL1: GLUT4 regul 77.6 4.6 0.0001 31.7 4.5 58 341-402 3-60 (65)
70 cd01815 BMSC_UbP_N Ubiquitin-l 77.4 6.7 0.00015 31.7 5.5 48 353-404 19-70 (75)
71 PF09379 FERM_N: FERM N-termin 76.6 3 6.6E-05 32.7 3.3 61 339-400 1-65 (80)
72 KOG3493 Ubiquitin-like protein 76.1 2.4 5.1E-05 33.5 2.4 31 337-367 2-34 (73)
73 smart00295 B41 Band 4.1 homolo 72.5 11 0.00023 34.3 6.4 65 334-399 3-71 (207)
74 cd01777 SNX27_RA Ubiquitin dom 70.6 8.4 0.00018 32.1 4.6 33 335-367 2-34 (87)
75 PF11547 E3_UbLigase_EDD: E3 u 69.1 16 0.00036 27.2 5.3 47 4-50 4-51 (53)
76 CHL00098 tsf elongation factor 68.3 8.6 0.00019 36.6 4.8 38 11-48 3-40 (200)
77 cd01789 Alp11_N Ubiquitin-like 66.8 29 0.00062 28.1 7.0 66 335-402 2-73 (84)
78 PRK12332 tsf elongation factor 66.1 10 0.00022 36.1 4.8 39 10-48 5-43 (198)
79 PRK09377 tsf elongation factor 64.9 10 0.00022 38.1 4.9 40 9-48 5-44 (290)
80 TIGR00116 tsf translation elon 64.5 10 0.00022 38.1 4.8 39 10-48 5-43 (290)
81 KOG3077 Uncharacterized conser 63.3 3.5 7.5E-05 40.8 1.1 38 9-46 8-45 (260)
82 cd01787 GRB7_RA RA (RAS-associ 58.7 36 0.00078 28.2 6.2 57 335-392 3-64 (85)
83 PRK05441 murQ N-acetylmuramic 56.0 18 0.00039 36.3 4.9 40 9-48 235-274 (299)
84 TIGR00274 N-acetylmuramic acid 52.4 23 0.00051 35.4 5.0 39 9-47 230-268 (291)
85 KOG1071 Mitochondrial translat 52.4 19 0.00042 36.7 4.3 37 8-44 45-81 (340)
86 PF03765 CRAL_TRIO_N: CRAL/TRI 50.1 24 0.00052 25.9 3.6 26 21-46 28-53 (55)
87 KOG0010 Ubiquitin-like protein 49.0 37 0.0008 36.6 5.9 63 334-401 15-77 (493)
88 cd01760 RBD Ubiquitin-like dom 48.4 56 0.0012 26.1 5.6 42 337-378 2-43 (72)
89 PRK12570 N-acetylmuramic acid- 47.2 29 0.00062 34.8 4.7 40 9-48 231-270 (296)
90 PF10302 DUF2407: DUF2407 ubiq 41.8 84 0.0018 26.5 6.0 53 337-392 3-60 (97)
91 COG2103 Predicted sugar phosph 39.3 50 0.0011 33.1 4.8 40 9-48 233-272 (298)
92 COG0264 Tsf Translation elonga 38.8 50 0.0011 33.4 4.8 40 10-49 6-45 (296)
93 KOG0005 Ubiquitin-like protein 35.7 1E+02 0.0022 24.2 5.0 66 337-406 3-68 (70)
94 PF02196 RBD: Raf-like Ras-bin 34.4 1.6E+02 0.0034 23.2 6.2 52 336-388 2-53 (71)
95 cd01818 TIAM1_RBD Ubiquitin do 31.9 1E+02 0.0022 25.2 4.7 40 339-378 4-43 (77)
96 smart00455 RBD Raf-like Ras-bi 31.6 1.3E+02 0.0028 23.7 5.2 42 337-378 2-43 (70)
97 PF13019 Telomere_Sde2: Telome 31.1 1.7E+02 0.0038 27.1 6.7 51 336-388 2-57 (162)
98 PF15044 CLU_N: Mitochondrial 28.9 85 0.0018 25.1 3.8 35 352-390 2-38 (76)
99 PF00564 PB1: PB1 domain; Int 27.1 1.5E+02 0.0032 23.1 5.0 45 334-378 1-45 (84)
100 smart00666 PB1 PB1 domain. Pho 27.0 2.3E+02 0.0051 21.9 6.1 43 335-378 2-44 (81)
101 PF09107 SelB-wing_3: Elongati 24.7 89 0.0019 23.2 3.0 21 13-33 13-33 (50)
102 PF06972 DUF1296: Protein of u 24.4 2.7E+02 0.0058 21.7 5.6 39 9-47 5-44 (60)
103 PF10075 PCI_Csn8: COP9 signal 23.2 65 0.0014 28.3 2.4 34 13-46 100-133 (143)
104 KOG0625 Phosphoglucomutase [Ca 22.3 33 0.00072 36.4 0.4 35 336-370 485-520 (558)
105 PF14327 CSTF2_hinge: Hinge do 22.0 1E+02 0.0022 25.1 3.2 33 9-42 31-63 (84)
106 PF00788 RA: Ras association ( 21.5 2.9E+02 0.0063 21.5 5.8 59 335-394 3-71 (93)
107 cd00291 SirA_YedF_YeeD SirA, Y 20.3 1.5E+02 0.0033 22.2 3.7 27 341-367 23-49 (69)
No 1
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=100.00 E-value=8.1e-79 Score=605.29 Aligned_cols=355 Identities=44% Similarity=0.692 Sum_probs=278.2
Q ss_pred hhhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhcccccCCCCcccccccCCCCCCCCCCCCCCCCCCCCCCC
Q 015336 7 EANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNAAAATASPEASQSVATLPAVNSPSLSNSPSTSPSASLS 86 (408)
Q Consensus 7 ~~~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (408)
+...+.|++||++||.++.+|++||+.++||++.|...+|.+....... ... ++...+
T Consensus 2 ~~p~~~ls~f~~~t~~se~~~~~~l~s~~~d~~~a~~~~~~~~~~~~~~--~~s-------------q~~~~~------- 59 (380)
T KOG2086|consen 2 AIPLDSLSEFRAVTGPSESRARFYLESIYWDREAAHRSELEAFADEDLW--GSS-------------QGSSSS------- 59 (380)
T ss_pred CCchhHHHHHhccCCCCccccccccccCCCchhhhhhhhcccccccccc--ccc-------------cccccc-------
Confidence 3456789999999999999999999999999999999999875432000 000 000000
Q ss_pred CCCCCCCCCCCCCCCCchhhccCCCCCCcccccccCCCCCCCccccccccCCCCCCCCCCCCCCCCCcccccCCccccee
Q 015336 87 RSPSRSRSPSPAAARDPYELRSRSRPGKKEDKKAATGTSRGGIRTLADLNRTPPGGADSDDDDDEPQQYYTGGEKSGMLV 166 (408)
Q Consensus 87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~tl~dl~~~~~~~~d~dd~~~~~~~~faGGekSGl~V 166 (408)
......++ .... .......++|++++|+....+ .+.++|+++.|+||||||+|||+|
T Consensus 60 --~~~~~~~s--------------~~~~-----~~~~~~~~~~~s~~d~~~~~~--~~~~sddd~~qe~~~gge~~gq~~ 116 (380)
T KOG2086|consen 60 --DKEPTSPS--------------QSRT-----ALQDQVATGITSFRDLFSDRD--EELESDDDQEQEFYAGGEKSGQMV 116 (380)
T ss_pred --cccCCCCc--------------cccc-----ccccccccCcCCHHHhccccc--cccccccchhhhhhhccccccccc
Confidence 00000000 0000 012345568999999976422 233345666679999999999777
Q ss_pred eCCCCCC----CHHHHHHHHHHh-cccCCCccCCCCCCceeeeeeecCCCccCCCCCC------CCCCceEEEEEecCce
Q 015336 167 QDPTKGN----QVDEIFNQARQS-AVERPDLRASSSSKAFTGTARLLSGETVSSAPAP------PPENVSHNITFWRNGF 235 (408)
Q Consensus 167 ~~P~~~~----~v~~if~~A~~~-a~~~~~~~~~~~~~~F~G~G~~L~~~~~~~~~~~------~~~~~~~~it~w~nGF 235 (408)
..|++++ +|++||.+|+++ |+.............|.|++.-|.|..++...+. .++.+.|+|+||||||
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 7777655 299999999999 6543322222345679999999988877653211 2377999999999999
Q ss_pred eecCCCCCCCCChhhHHHHHHhhhcCCCCCccCCCCCCCcEEEEEeccccccccCCCCCCccccCcccccCCCCCCCc--
Q 015336 236 TVDDGPLRGMDDPANASFLEVSIMRSECPRELEPADKKTRVHVELINKREEDYSEPPKRRSAFQGVGRTLGGSDSPAS-- 313 (408)
Q Consensus 236 ~VdDGplr~ydDP~N~~fL~~~I~~G~~P~EL~~~~~~~~V~v~v~D~~~E~Y~~p~~~~~~F~G~G~rLGs~~p~~~-- 313 (408)
+|||||||+|+||+|++||+ +|++|+||.||+.++++++|+|+|+|||+|+|++|++.+++|+|+||+||++.|...
T Consensus 197 svdDGplr~ydDP~N~~fL~-~I~~Ge~P~eL~~~~~~~~V~v~v~~~r~E~~~~~~~~~~pF~G~Gq~LGs~~p~~~~s 275 (380)
T KOG2086|consen 197 SVDDGPLRSYDDPANAEFLE-SIRKGEAPSELLPVDPGQEVDVKVEDHRDEDYLEPKPVFKPFSGEGQRLGSTAPGVSGS 275 (380)
T ss_pred cccCCCcccccChhHHHHHH-HHhccCCCHHHhccccCCccceeccccccccccCCCcccCCCCCcCeecCCcCCCcccc
Confidence 99999999999999999999 999999999999999999999999999999999999899999999999999766321
Q ss_pred c--------cCC-CCCCCCCCcccCCCCCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCC-CCCeEEEecCCC
Q 015336 314 A--------ALN-TAPSPSSGLVVDATLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFP 383 (408)
Q Consensus 314 ~--------~~~-~~~~~~~~~~vd~s~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~-~~~f~L~tt~FP 383 (408)
+ +.+ ....+...+.+|+.+|+|+|||||+||+|+|++||++|||.|||.||..++|.+ ..+|.|+ ++||
T Consensus 276 s~~~~~~~~p~~~~~~~~~~sl~~d~~~PtTsIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~-~~FP 354 (380)
T KOG2086|consen 276 SSPPLTATVPANTQERSASSSLVIDPAEPTTSIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILM-MAFP 354 (380)
T ss_pred CCCcccccCCccccccccccccccCCCCCcceEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeee-ecCC
Confidence 1 011 111234568899999999999999999999999999999999999999999998 6789999 8999
Q ss_pred CccCCCccCchhhcCCCCeeEEeeC
Q 015336 384 PKQLTDLDQTVEQAGIANSVVIQKL 408 (408)
Q Consensus 384 ~k~l~D~s~TL~eagL~navvvqk~ 408 (408)
+|+|+|+++||++|||+|+||||||
T Consensus 355 pk~l~D~sqTle~AgL~Nsvlvqr~ 379 (380)
T KOG2086|consen 355 PKPLSDDSQTLEEAGLLNSVLVQRL 379 (380)
T ss_pred CcccCCcchhHHhccchhhhhhhhc
Confidence 9999999999999999999999997
No 2
>smart00553 SEP Domain present in Saccharomyces cerevisiae Shp1, Drosophila melanogaster eyes closed gene (eyc), and vertebrate p47.
Probab=100.00 E-value=1.5e-35 Score=245.76 Aligned_cols=89 Identities=51% Similarity=0.856 Sum_probs=85.5
Q ss_pred CceEEEEEecCceeecCCCCCCCCChhhHHHHHHhhhcCCCCCccCCCCCCCcEEEEEeccccccccCCCCCCccccCcc
Q 015336 223 NVSHNITFWRNGFTVDDGPLRGMDDPANASFLEVSIMRSECPRELEPADKKTRVHVELINKREEDYSEPPKRRSAFQGVG 302 (408)
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 (408)
++.|+||||+|||+|||||||+||||+|++||+ +|++|+||.||+++++++.|+|+|+|||+|+|++|++++++|+|+|
T Consensus 2 ~v~~~ltlw~nGFtVdDGplr~yddP~N~~FL~-~I~~G~~P~EL~~~~~~~~V~v~l~d~~~E~y~~p~~~~~~F~G~G 80 (93)
T smart00553 2 KVIVVLTFWSNGFSVDDGPLRTYDDPENAEFLE-SIRRGEAPLELLRVDKGQPVNVDVEDHRDEDYVAPPKAFKPFSGSG 80 (93)
T ss_pred CeEEEEEEecCCcEecCCCcccCCCHhHHHHHH-HHHcCCCCHHHHhhcCCCcEEEEeEeccCccccCCCCCccCCccCC
Confidence 478999999999999999999999999999999 9999999999999999999999999999999999988899999999
Q ss_pred cccCCCCCCC
Q 015336 303 RTLGGSDSPA 312 (408)
Q Consensus 303 ~rLGs~~p~~ 312 (408)
|+||+++|..
T Consensus 81 ~~LGs~~p~~ 90 (93)
T smart00553 81 QKLGSPGPQS 90 (93)
T ss_pred ccCCCCCCCc
Confidence 9999998853
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=99.96 E-value=9.4e-31 Score=209.61 Aligned_cols=75 Identities=53% Similarity=0.903 Sum_probs=67.8
Q ss_pred EEEecCceeecCCCCCCCCChhhHHHHHHhhhcCCCCCccCCCCCCCcEEEEEeccccccccCCCCCCccccCccc
Q 015336 228 ITFWRNGFTVDDGPLRGMDDPANASFLEVSIMRSECPRELEPADKKTRVHVELINKREEDYSEPPKRRSAFQGVGR 303 (408)
Q Consensus 228 it~w~nGF~VdDGplr~ydDP~N~~fL~~~I~~G~~P~EL~~~~~~~~V~v~v~D~~~E~Y~~p~~~~~~F~G~G~ 303 (408)
||||+|||+|||||||+|+||+|++||+ +|++|++|.||+.++|+++|+|+|+||++|+|++|++++++|+|+||
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 LTFWRNGFTVDDGPLRPYDDPENAQFLE-DINRGYFPSELQQRYPGDGVDVNLEDRRDEDYVPPKKKFKPFSGQGH 75 (75)
T ss_dssp EEEETTEEEETTS-EEETTSTTCHHHHH-HHHHT--SCHHHCTTSSS-EEEEEEEECTTSS-SSSSSSTTS-SSSS
T ss_pred CEEecCceEecCCCcccCCCHhHHHHHH-HHHhcCCCHHHHhccCCCeEEEEEEeCCCCccCCCCccccCCCcCCC
Confidence 8999999999999999999999999999 99999999999999999999999999999999999999999999997
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=2.7e-24 Score=173.94 Aligned_cols=76 Identities=45% Similarity=0.767 Sum_probs=72.0
Q ss_pred CCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCC-CCCeEEEecCCCCccCCCccCchhhcCCCCeeEEeeC
Q 015336 332 LPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQLTDLDQTVEQAGIANSVVIQKL 408 (408)
Q Consensus 332 ~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~-~~~f~L~tt~FP~k~l~D~s~TL~eagL~navvvqk~ 408 (408)
+|+|+|||||+||+|+++|||.+|||++||+||..+.+.. .++|.|+ ++||+|+|++.++||+||||+|++|||||
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=1e-19 Score=145.71 Aligned_cols=74 Identities=42% Similarity=0.795 Sum_probs=68.6
Q ss_pred CceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCC--ccCchhhcCCCCeeEEeeC
Q 015336 333 PTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTD--LDQTVEQAGIANSVVIQKL 408 (408)
Q Consensus 333 p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D--~s~TL~eagL~navvvqk~ 408 (408)
|+|+|||||+||+|+++||+.++||+|||+||..+... ..+|.|+ ++||+|.|++ .++||+||||++++|+|+|
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 6889999 7999999986 8999999999999999887
No 6
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=99.76 E-value=4e-18 Score=137.55 Aligned_cols=76 Identities=25% Similarity=0.477 Sum_probs=67.0
Q ss_pred CCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCC--ccCchhhcCCC-CeeEEeeC
Q 015336 332 LPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTD--LDQTVEQAGIA-NSVVIQKL 408 (408)
Q Consensus 332 ~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D--~s~TL~eagL~-navvvqk~ 408 (408)
++.|+||||||||+|++++|+.++||++||+||.........+|.|+ ++||+|.|++ .++||+|+||+ +++|+++|
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 47899999999999999999999999999999966544336789999 7999999984 47899999999 48888887
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=1e-17 Score=136.32 Aligned_cols=72 Identities=24% Similarity=0.445 Sum_probs=65.0
Q ss_pred CCCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC-eeE
Q 015336 331 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 331 s~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~--D~s~TL~eagL~n-avv 404 (408)
++|+|+||||||||+|+.+||+.++||.+||.||.++ .....+|.|+ ++||+|.|+ |.++||+||||++ ++|
T Consensus 2 ~~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~~-g~~~~~f~L~-t~FPRr~~~~~d~~~TL~e~GL~P~~~L 76 (82)
T cd01773 2 NGPKARLMLRYPDGKREQIALPEQAKLLALVRHVQSK-GYPNERFELL-TNFPRRKLSHLDYDITLQEAGLCPQETV 76 (82)
T ss_pred CCCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEe-cCCCCcccCCcccCCCHHHcCCCCCcEE
Confidence 6899999999999999999999999999999999985 3346899999 799999997 6689999999997 444
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=1.1e-17 Score=137.10 Aligned_cols=68 Identities=29% Similarity=0.514 Sum_probs=61.2
Q ss_pred CceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCC-------CccCchhhcCCCCe
Q 015336 333 PTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT-------DLDQTVEQAGIANS 402 (408)
Q Consensus 333 p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~-------D~s~TL~eagL~na 402 (408)
..|+||||||||+|+++|||.+|||++||+||.+ .+....+|.|+ ++||+|.|+ |.++||+||||+++
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 44456889999 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=99.73 E-value=2.1e-17 Score=134.05 Aligned_cols=73 Identities=19% Similarity=0.342 Sum_probs=64.4
Q ss_pred CCCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC-eeEE
Q 015336 331 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN-SVVI 405 (408)
Q Consensus 331 s~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~--D~s~TL~eagL~n-avvv 405 (408)
++|+|+||||||||+|+++||+.++||++||+||.+... ...+|.|+ ++||+|.|+ |.+.||+|+||++ ++|+
T Consensus 1 ~~~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~~~-~~~~f~L~-t~fPRk~~~~~d~~~TL~e~gL~p~~~L~ 76 (80)
T cd01771 1 GEPISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASKGY-PIDEYKLL-SSWPRRDLTQLDPNFTLLELKLYPQETLI 76 (80)
T ss_pred CCCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhcCC-CCCCEEEe-cCCCCCCCcCCCCCCcHHHcCCCCCcEEE
Confidence 478999999999999999999999999999999987632 25799999 799999997 7788999999996 4544
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=5.9e-17 Score=130.92 Aligned_cols=73 Identities=25% Similarity=0.539 Sum_probs=63.7
Q ss_pred CceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC-ee-EEee
Q 015336 333 PTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN-SV-VIQK 407 (408)
Q Consensus 333 p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~--D~s~TL~eagL~n-av-vvqk 407 (408)
..|+|||||+||+|++.||+.++||.+||+||..+... ..+|.|+ ++||+|.|+ |.++||+|+||++ ++ +|||
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 46899999999999999999999999999999987543 4789999 799999998 5689999999997 44 4554
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=99.70 E-value=4.7e-17 Score=131.25 Aligned_cols=78 Identities=29% Similarity=0.564 Sum_probs=67.1
Q ss_pred CCCCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCC-CeEEEecCCCCccCCCcc-CchhhcCCCC-eeEEe
Q 015336 330 ATLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSAR-NYQLQAMGFPPKQLTDLD-QTVEQAGIAN-SVVIQ 406 (408)
Q Consensus 330 ~s~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~-~f~L~tt~FP~k~l~D~s-~TL~eagL~n-avvvq 406 (408)
+..+.|+||||||||+|++++|+.++||++||+||......... .|.|+ ++||++.|++.+ +||+|+||++ ++|++
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 35678999999999999999999999999999999887544333 49999 799999998665 9999999995 88888
Q ss_pred eC
Q 015336 407 KL 408 (408)
Q Consensus 407 k~ 408 (408)
+|
T Consensus 81 ~~ 82 (82)
T PF00789_consen 81 EK 82 (82)
T ss_dssp E-
T ss_pred EC
Confidence 77
No 12
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=1e-13 Score=137.83 Aligned_cols=74 Identities=27% Similarity=0.456 Sum_probs=64.1
Q ss_pred ceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCC-CCCeEEEecCCCCccCC--CccCchhhcCCCCe--eEEeeC
Q 015336 334 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQLT--DLDQTVEQAGIANS--VVIQKL 408 (408)
Q Consensus 334 ~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~-~~~f~L~tt~FP~k~l~--D~s~TL~eagL~na--vvvqk~ 408 (408)
+|+||||++||+|.++||..++||+-||.|+..+..++ ...|.|+ .+||++.+. +.+.||+|+||+|+ ++.+-|
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 67799999999999999999999999999999886665 7899999 899987664 56789999999998 555543
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=1.2e-13 Score=99.29 Aligned_cols=41 Identities=34% Similarity=0.723 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhccc
Q 015336 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNAA 50 (408)
Q Consensus 10 ~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~~~ 50 (408)
+++|.+||+|||+++++|++||++++|||+.||+.||+.++
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 57999999999999999999999999999999999998754
No 14
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=3.1e-11 Score=116.82 Aligned_cols=77 Identities=23% Similarity=0.458 Sum_probs=68.3
Q ss_pred CCCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC-eeEEee
Q 015336 331 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN-SVVIQK 407 (408)
Q Consensus 331 s~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~--D~s~TL~eagL~n-avvvqk 407 (408)
....|+|||||+||+.+...||...|+.+||.||..++.....+|.|+ ++||++.|+ |+..+|++++|++ ++||.+
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 456899999999999999999999999999999999877666799999 799999997 7778999999998 565544
Q ss_pred C
Q 015336 408 L 408 (408)
Q Consensus 408 ~ 408 (408)
|
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=98.64 E-value=2.4e-08 Score=101.87 Aligned_cols=69 Identities=19% Similarity=0.425 Sum_probs=62.3
Q ss_pred CCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCC--CccCchhhcCCCC
Q 015336 332 LPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT--DLDQTVEQAGIAN 401 (408)
Q Consensus 332 ~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~--D~s~TL~eagL~n 401 (408)
...|+||||||||+.++-+|..+.-+..|++||++......+.|.|. +.||+|+|+ |..+||-|+.|++
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 35799999999999999999999999999999997644347999999 799999997 6788999999996
No 16
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=98.15 E-value=3.9e-06 Score=88.15 Aligned_cols=74 Identities=22% Similarity=0.446 Sum_probs=63.5
Q ss_pred CCCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCC--ccCchhhcCCCC--eeEEe
Q 015336 331 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTD--LDQTVEQAGIAN--SVVIQ 406 (408)
Q Consensus 331 s~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D--~s~TL~eagL~n--avvvq 406 (408)
..+.++|.||+|+|+|+.+||..+++|++||+||..+. .....|.|. ++||++.+.+ .+.||++.||.+ .+|++
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 34688999999999999999999999999999999874 336789999 7999999983 467999999986 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=97.68 E-value=2.5e-05 Score=58.33 Aligned_cols=41 Identities=20% Similarity=0.373 Sum_probs=35.8
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhccc
Q 015336 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNAA 50 (408)
Q Consensus 10 ~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~~~ 50 (408)
+++|.+|+..||.+..-|+.+|+.++||++.|+..|-.-..
T Consensus 1 q~mv~~~s~~Tgmn~~~s~~CL~~n~Wd~~~A~~~F~~l~~ 41 (51)
T PF03943_consen 1 QEMVQQFSQQTGMNLEWSQKCLEENNWDYERALQNFEELKA 41 (51)
T ss_dssp HHHHHHHHHHCSS-CCHHHHHHHHTTT-CCHHHHHHHHCCC
T ss_pred CHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 47899999999999999999999999999999999986543
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 015336 6 AEANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLD 47 (408)
Q Consensus 6 ~~~~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~ 47 (408)
+..+.++|.+|+..||....-++..|+.++||++.|+..|-+
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=97.18 E-value=0.0013 Score=51.85 Aligned_cols=68 Identities=15% Similarity=0.249 Sum_probs=55.0
Q ss_pred EEEEcC-CCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEEee
Q 015336 337 VQLRLA-DGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQK 407 (408)
Q Consensus 337 IqIRL~-dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avvvqk 407 (408)
|-||+. +|+.+.+.+..+.||++|...|.....-......|+ |=.|.|.|...||+++|+.+ ++|+.|
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 458999 999999999999999999999987632224556776 66999999778999999985 666654
No 20
>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=97.04 E-value=0.0033 Score=49.16 Aligned_cols=63 Identities=13% Similarity=0.266 Sum_probs=51.7
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCCe
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIANS 402 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~na 402 (408)
.|.||..+|+.+.+++..+.||++|.+.|.....-......|+ |-.+.|.| +.||.+.++.+.
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 5889999999999999999999999999987632224556666 67888887 589999999963
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=97.03 E-value=0.0019 Score=50.94 Aligned_cols=65 Identities=18% Similarity=0.313 Sum_probs=51.8
Q ss_pred EEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCCeeEE
Q 015336 337 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIANSVVI 405 (408)
Q Consensus 337 IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~navvv 405 (408)
|.||+.+|+...+.+..+.||++|...|.....-......|. |=.+.|+| +.||.++++.+..+|
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 458999999999999999999999999977532113445666 77899998 589999999964443
No 22
>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=97.01 E-value=0.0027 Score=50.14 Aligned_cols=65 Identities=14% Similarity=0.294 Sum_probs=53.8
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
.|.||..+|+.+.+.+..++||++|.+.|.....-....+.|+ |=.|.|.| +.||.+.|+.+ ++|
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---FKGKALAD-DKRLSDYSIGPNAKL 67 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE---ECCEECCC-CCCHHHCCCCCCCEE
Confidence 5889999999999999999999999999987632224567887 66899988 49999999985 544
No 23
>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=96.87 E-value=0.00075 Score=63.02 Aligned_cols=61 Identities=23% Similarity=0.254 Sum_probs=52.8
Q ss_pred ceEEEEEecCceee----cCCCCCCCCChhhHHHHHHhhhcCCCCCccCCC-------CCCCcEEEEEeccccc
Q 015336 224 VSHNITFWRNGFTV----DDGPLRGMDDPANASFLEVSIMRSECPRELEPA-------DKKTRVHVELINKREE 286 (408)
Q Consensus 224 ~~~~it~w~nGF~V----dDGplr~ydDP~N~~fL~~~I~~G~~P~EL~~~-------~~~~~V~v~v~D~~~E 286 (408)
...+|+||-++|.+ .++-..+|+.|. +.||+ .|.+|++|..|+.. +..+-|-|+|.|+|.-
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-KEFLE-YIDAGEIPHDLLELLDDANVPFYDGCLIVEVRDHRST 85 (182)
T ss_pred CeEEEEECCCCeeEeecCCCCceecCCchH-HHHHH-HHHcCCCCHHHHHHHHhCCCeeEcCEEEEEEeccccc
Confidence 58899999999999 577899999999 99999 99999999988764 3345678999999874
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=0.0059 Score=49.02 Aligned_cols=64 Identities=14% Similarity=0.234 Sum_probs=51.1
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
+|.||...|+...+.+..+.||++|+.-|.....-......|. |..|.|.|. ||+++|+.+ ++|
T Consensus 3 ~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~---~~Gk~L~d~--~L~~~gi~~~~~i 67 (78)
T cd01804 3 NLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALL---HRETRLSSG--KLQDLGLGDGSKL 67 (78)
T ss_pred EEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEE---ECCcCCCCC--cHHHcCCCCCCEE
Confidence 6889999999999999999999999999977632113344554 778999885 899999985 444
No 25
>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=96.72 E-value=0.008 Score=47.35 Aligned_cols=65 Identities=17% Similarity=0.297 Sum_probs=52.1
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCC--CCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPG--SARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~--~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
.|.||..+|+.+.+.+..++||.+|.+.|.....- ......|+ |-.+.|.| +.||.++|+.+ ++|
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 23445665 77999987 58999999985 444
No 26
>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=0.0091 Score=47.97 Aligned_cols=68 Identities=15% Similarity=0.198 Sum_probs=54.8
Q ss_pred eeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 335 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 335 t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
..|.||..+|+.+.+.+..+.||++|.+-|.....-....+.|. .-|-.+.|.| +.||.+.|+.+ ++|
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-HLDSREVLQD-GVPLVSQGLGPGSTV 71 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEE-eccCCCCCCC-CCCHHHcCCCCCCEE
Confidence 47899999999999999999999999999987642224567775 4577888987 47999999985 444
No 27
>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=96.65 E-value=0.011 Score=47.18 Aligned_cols=67 Identities=16% Similarity=0.131 Sum_probs=52.5
Q ss_pred eeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015336 335 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 405 (408)
Q Consensus 335 t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 405 (408)
.+|.||-..|+.+.+.+..+.||++|.+.|.....-....-.|. |..+.|.| +.||++.||.+ ++|.
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 46888988999999999999999999999987642223334554 77888887 57999999986 4543
No 28
>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=96.57 E-value=0.0098 Score=45.93 Aligned_cols=65 Identities=14% Similarity=0.242 Sum_probs=52.0
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
+|-||..+|+.+.+++..++||++|.+.|.....-......|+ |-.+.|.| +.||.+.|+.+ ++|
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 5789999999999999999999999999987632223445666 56788887 58999999986 444
No 29
>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=96.56 E-value=0.0053 Score=47.29 Aligned_cols=62 Identities=21% Similarity=0.344 Sum_probs=50.7
Q ss_pred EcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015336 340 RLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 405 (408)
Q Consensus 340 RL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 405 (408)
|..+|+.+.+.++.++||.+|...|.....-......|+ |-.+.|.| +.||.+.|+.+ ++|+
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 567899999999999999999999988644335667777 77899954 79999999996 5553
No 30
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=96.54 E-value=0.0098 Score=46.41 Aligned_cols=62 Identities=19% Similarity=0.281 Sum_probs=50.6
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 401 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n 401 (408)
.|-||..+|+.+.+.+..+.||.+|...|.....-......|. |..+.|.| +.||.+.|+.+
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 4789999999999999999999999999987632223445665 67888887 57999999986
No 31
>PTZ00044 ubiquitin; Provisional
Probab=96.45 E-value=0.012 Score=46.38 Aligned_cols=62 Identities=13% Similarity=0.298 Sum_probs=51.4
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 401 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n 401 (408)
.|-||..+|+.+++++..+.||.+|...|.....-......|. |-.+.|.| +.||.+.++.+
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 4779999999999999999999999999988642224556776 77899986 57899999985
No 32
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=96.36 E-value=0.01 Score=46.18 Aligned_cols=64 Identities=14% Similarity=0.337 Sum_probs=52.2
Q ss_pred EEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 337 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 337 IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
|-||..+|..+.+.+..++||++|...|.....-......|+ |=.++|.| +.||.++|+.+ ++|
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---FAGKELRN-TTTIQECDLGQQSIL 65 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEE---ECCeECCC-CCcHHHcCCCCCCEE
Confidence 458999999999999999999999999987632224567776 67999987 59999999985 554
No 33
>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=96.24 E-value=0.012 Score=40.64 Aligned_cols=34 Identities=18% Similarity=0.289 Sum_probs=30.7
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHH
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVS 43 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~ 43 (408)
.++.|++-++. |.+.+.|+..|..++||++.|++
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 34
>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=96.19 E-value=0.015 Score=45.92 Aligned_cols=64 Identities=14% Similarity=0.277 Sum_probs=52.3
Q ss_pred EEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 337 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 337 IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
|-||.++|+.+.+.+..++||.+|+..|.....-....+.|. |=.|.|.|. .||.+.|+.+ ++|
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 468999999999999999999999999987532224567887 668999985 8999999985 444
No 35
>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=96.09 E-value=0.012 Score=51.02 Aligned_cols=62 Identities=19% Similarity=0.299 Sum_probs=50.2
Q ss_pred CceeEEEEcCCCcEE-EEEeCCCCCHHHHHHHHHHhCCC------C-CCCeEEEecCCCCccCCCccCchhhcC
Q 015336 333 PTTSVQLRLADGTRM-VARFNHHHTIRDIHRFIDASRPG------S-ARNYQLQAMGFPPKQLTDLDQTVEQAG 398 (408)
Q Consensus 333 p~t~IqIRL~dG~Rl-~~rFn~s~TV~dv~~fv~~~~~~------~-~~~f~L~tt~FP~k~l~D~s~TL~eag 398 (408)
....|++||+||+-+ ..+|..++||.+|.+-|....+. . ...-.|+ |=-|.|.| +.||.+++
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 88999999999999999877653 1 2234565 77899998 59999999
No 36
>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=95.97 E-value=0.036 Score=42.74 Aligned_cols=65 Identities=20% Similarity=0.361 Sum_probs=50.7
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 405 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 405 (408)
+|.||.. |+...+++..+.||.+|.+.|.....-......|+ |-.+.|.| +.||.++|+.+ ++|+
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 88889999999999999999987632224557777 55788887 58999999986 4443
No 37
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=95.95 E-value=0.026 Score=42.07 Aligned_cols=61 Identities=16% Similarity=0.249 Sum_probs=48.2
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 401 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n 401 (408)
.|.||..+ +...+++..+.||++|...|.....-......|+ |-.+.|.| +.||.++|+.+
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 57899999 6888999999999999999987532223346666 55788887 58999999875
No 38
>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=95.94 E-value=0.032 Score=43.58 Aligned_cols=65 Identities=17% Similarity=0.239 Sum_probs=51.0
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 405 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 405 (408)
+|-||..+|. ..+.+..+.||++|++-|.....-....+.|. |..|.|.| +.||.++|+.+ ++|.
T Consensus 2 ~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li---~~Gk~L~d-~~tL~~~~i~~~stl~ 67 (71)
T cd01808 2 KVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLI---FAGKILKD-TDTLTQHNIKDGLTVH 67 (71)
T ss_pred EEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEE---ECCeEcCC-CCcHHHcCCCCCCEEE
Confidence 5788999996 58889999999999999977532224557776 78899987 47999999985 5553
No 39
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=95.65 E-value=0.032 Score=48.19 Aligned_cols=63 Identities=25% Similarity=0.414 Sum_probs=47.0
Q ss_pred ceeEEEEcCCCc-EEEEEeCCCCCHHHHHHHHHHhCCCC-------CCCeEEEecCCCCccCCCccCchhhcCCC
Q 015336 334 TTSVQLRLADGT-RMVARFNHHHTIRDIHRFIDASRPGS-------ARNYQLQAMGFPPKQLTDLDQTVEQAGIA 400 (408)
Q Consensus 334 ~t~IqIRL~dG~-Rl~~rFn~s~TV~dv~~fv~~~~~~~-------~~~f~L~tt~FP~k~l~D~s~TL~eagL~ 400 (408)
...|++||.||+ +...+|..+.||++|.++|...-|.. .....|+ +=.|.|+| +.||.++++-
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 88999999999999999999875543 2335666 55677876 7899999876
No 40
>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=95.57 E-value=0.065 Score=45.56 Aligned_cols=68 Identities=15% Similarity=0.145 Sum_probs=55.4
Q ss_pred CceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 333 PTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 333 p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
++-.|-||..+|+.+.+.+..++||.+|.+.|.....-......|+ |=.|.|+|. .||.+.+|.+ ++|
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 4678899999999999999999999999999987532224567887 668999884 8999999985 443
No 41
>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=95.53 E-value=0.066 Score=40.40 Aligned_cols=64 Identities=20% Similarity=0.297 Sum_probs=48.9
Q ss_pred EEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeEEe
Q 015336 339 LRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQ 406 (408)
Q Consensus 339 IRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avvvq 406 (408)
||..+|..+.+++..+.||++|...|.....-......|+ |-.+.|.| +.||.++++.+ +.|+.
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 6777899999999999999999999987643223445665 55678865 68999999996 44443
No 42
>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=95.42 E-value=0.024 Score=46.14 Aligned_cols=68 Identities=15% Similarity=0.223 Sum_probs=40.0
Q ss_pred eeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCC-ccC-CCccCchhhcCCCCeeE
Q 015336 335 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPP-KQL-TDLDQTVEQAGIANSVV 404 (408)
Q Consensus 335 t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~-k~l-~D~s~TL~eagL~navv 404 (408)
--||||-+||...+ .+..+.||.+|++-|...-......|.|. ..-.. ..+ .+.++||.++||.++-+
T Consensus 5 milRvrS~dG~~Ri-e~~~~~t~~~L~~kI~~~l~~~~~~~~L~-~~~~~~~~l~s~~~~tl~~lglkHGdm 74 (80)
T PF11543_consen 5 MILRVRSKDGMKRI-EVSPSSTLSDLKEKISEQLSIPDSSQSLS-KDRNNKEELKSSDSKTLSSLGLKHGDM 74 (80)
T ss_dssp -EEEEE-SSEEEEE-EE-TTSBHHHHHHHHHHHS---TTT---B-SSGGGGGCSSS-TT-CCCCT---TT-E
T ss_pred EEEEEECCCCCEEE-EcCCcccHHHHHHHHHHHcCCCCcceEEE-ecCCCCcccccCCcCCHHHcCCCCccE
Confidence 46899999997544 57799999999999988754445688887 44443 345 36689999999997543
No 43
>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=95.06 E-value=0.16 Score=41.47 Aligned_cols=67 Identities=12% Similarity=0.255 Sum_probs=55.7
Q ss_pred CCCceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015336 331 TLPTTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 401 (408)
Q Consensus 331 s~p~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n 401 (408)
.....+|.|+-.+|+.+.+++..++||..|.+.+.....-....+.|+ |=-+.|.+ +.|+++++|.+
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 345678889999999999999999999999999887643335677777 77899987 47999999996
No 44
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=95.03 E-value=0.056 Score=36.92 Aligned_cols=35 Identities=23% Similarity=0.338 Sum_probs=30.6
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHH
Q 015336 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTF 45 (408)
Q Consensus 10 ~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~f 45 (408)
++.|++++++ |.++..|+.-|+.++||++.|++-.
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 4567888776 9999999999999999999998754
No 45
>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=95.02 E-value=0.1 Score=41.94 Aligned_cols=65 Identities=15% Similarity=0.231 Sum_probs=50.7
Q ss_pred eEEEEcCCCcE-EEE-EeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 336 SVQLRLADGTR-MVA-RFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 336 ~IqIRL~dG~R-l~~-rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
.|-||..+|+. ..+ ....++||++|...|.....-......|+ |=.|.|.| +.||.+.||.+ ++|
T Consensus 2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi---~~Gk~L~D-~~tL~~y~i~~~~~i 69 (78)
T cd01797 2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLF---YRGKQMED-GHTLFDYNVGLNDII 69 (78)
T ss_pred EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEE---eCCEECCC-CCCHHHcCCCCCCEE
Confidence 47899999997 456 47889999999999987532224567887 66899988 68999999995 554
No 46
>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=94.79 E-value=0.095 Score=54.33 Aligned_cols=66 Identities=18% Similarity=0.347 Sum_probs=53.5
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCC--CC-CCCeEEEecCCCCccCCCccCchhhcCCCC-eeEE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRP--GS-ARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVI 405 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~--~~-~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avvv 405 (408)
+|-||..+|+.+.+.+..++||.+|+..|..... .. .....|+ |-.|.|.| +.||+++||.+ .+||
T Consensus 2 kItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLI---y~GkiL~D-d~tL~dy~I~e~~~Iv 71 (378)
T TIGR00601 2 TLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLI---YSGKILSD-DKTVREYKIKEKDFVV 71 (378)
T ss_pred EEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEE---ECCEECCC-CCcHHHcCCCCCCEEE
Confidence 5889999999999999999999999999987643 13 3456776 77999987 47999999984 4444
No 47
>KOG4351 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.71 E-value=0.005 Score=59.12 Aligned_cols=45 Identities=27% Similarity=0.468 Sum_probs=39.7
Q ss_pred hhhhHHHHHHHHHHhC--CCH-HHHHHHHHHcCCCHHHHHHHHHhccc
Q 015336 6 AEANSSLINSFVEITS--STK-DEALFFLESHQWNLDAAVSTFLDNAA 50 (408)
Q Consensus 6 ~~~~~~~I~qF~~iTg--~s~-~~A~~yLe~~~wdLe~Av~~fy~~~~ 50 (408)
..+++++|.||-.+++ ..+ .-|+|||+..||+|..|++.||+...
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 5678999999999986 455 88999999999999999999998654
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=94.55 E-value=0.11 Score=35.69 Aligned_cols=36 Identities=22% Similarity=0.281 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 015336 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFL 46 (408)
Q Consensus 10 ~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy 46 (408)
++.|++.++ .|.+...|+.-|+.++||++.|++-.|
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 356888877 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=94.35 E-value=0.16 Score=39.39 Aligned_cols=63 Identities=19% Similarity=0.302 Sum_probs=50.7
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCC-CCeEEEecCCCCccCCCccCchhhcCCCCe
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSA-RNYQLQAMGFPPKQLTDLDQTVEQAGIANS 402 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~-~~f~L~tt~FP~k~l~D~s~TL~eagL~na 402 (408)
+|.||..+|+.+.++...++||+.|.+.+.....-.. ..+.|. |=.+.|.+ +.|++++||.+.
T Consensus 2 ~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~---fdG~~L~~-~~T~~~~~ied~ 65 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLI---FDGKRLDP-NDTPEDLGIEDG 65 (72)
T ss_dssp EEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEE---ETTEEE-T-TSCHHHHT-STT
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEE---ECCEEcCC-CCCHHHCCCCCC
Confidence 6889999999999999999999999998876543334 678887 88888876 479999999963
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=94.00 E-value=0.23 Score=39.11 Aligned_cols=63 Identities=16% Similarity=0.198 Sum_probs=47.5
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
.|-||. ++..++.+..++||++|...|.....-......|+ |=.|.|.|. .||.++|+.+ ++|
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 46788899999999999999987532114456776 668999984 9999999986 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=0.37 Score=39.24 Aligned_cols=60 Identities=10% Similarity=0.193 Sum_probs=47.5
Q ss_pred eeEEEEcCCCcE--EEEEeCCCCCHHHHHHHHHHhCCCC--CCCeEEEecCCCCccCCCccCchhhcC
Q 015336 335 TSVQLRLADGTR--MVARFNHHHTIRDIHRFIDASRPGS--ARNYQLQAMGFPPKQLTDLDQTVEQAG 398 (408)
Q Consensus 335 t~IqIRL~dG~R--l~~rFn~s~TV~dv~~fv~~~~~~~--~~~f~L~tt~FP~k~l~D~s~TL~eag 398 (408)
.+|.||-++|+. +.+.+..+.||.+|.+.|....+.. ...-.|+ |=.|.|.| +.||++.+
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 4555589999999999998865422 2445777 88999987 59999985
No 52
>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=92.73 E-value=0.61 Score=37.09 Aligned_cols=67 Identities=15% Similarity=0.168 Sum_probs=49.4
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecC-CCCccCCCccCchhhcCCCC-eeEE
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMG-FPPKQLTDLDQTVEQAGIAN-SVVI 405 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~-FP~k~l~D~s~TL~eagL~n-avvv 405 (408)
+|.|++ .|+.+.+.++.++||++|.+-|.....-....-.|+ .. |=.+.+.| +.||.++++.+ +.||
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 577887 778899999999999999999988632224556777 21 22456666 69999999985 4443
No 53
>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=92.53 E-value=0.32 Score=38.58 Aligned_cols=58 Identities=14% Similarity=0.211 Sum_probs=45.4
Q ss_pred CCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 343 DGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 343 dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
+|+.+.+.+..+.||.+|.+-|.....-......|+ |-.+.|.| +.||.+.++.+ ++|
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 688889999999999999999987632224557777 44678887 48999999985 444
No 54
>PRK06369 nac nascent polypeptide-associated complex protein; Reviewed
Probab=91.15 E-value=0.38 Score=41.92 Aligned_cols=36 Identities=25% Similarity=0.176 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHH
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVST 44 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~ 44 (408)
.++.|.--|+-||+|.+.|+.-|+.+||||-.||-.
T Consensus 76 ~~edI~lv~~q~gvs~~~A~~AL~~~~gDl~~AI~~ 111 (115)
T PRK06369 76 PEEDIELVAEQTGVSEEEARKALEEANGDLAEAILK 111 (115)
T ss_pred CHHHHHHHHHHHCcCHHHHHHHHHHcCCcHHHHHHH
Confidence 467789999999999999999999999999999874
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=91.01 E-value=0.41 Score=41.76 Aligned_cols=35 Identities=23% Similarity=0.170 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHH
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVS 43 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~ 43 (408)
.++.|.--++-||+|.+.|+.-|+.+||||-.||-
T Consensus 78 ~~eDI~lV~eq~gvs~e~A~~AL~~~~gDl~~AI~ 112 (116)
T TIGR00264 78 TEDDIELVMKQCNVSKEEARRALEECGGDLAEAIM 112 (116)
T ss_pred CHHHHHHHHHHhCcCHHHHHHHHHHcCCCHHHHHH
Confidence 45678889999999999999999999999999986
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=90.91 E-value=0.82 Score=31.68 Aligned_cols=60 Identities=17% Similarity=0.201 Sum_probs=43.0
Q ss_pred EEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015336 338 QLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 401 (408)
Q Consensus 338 qIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n 401 (408)
+|++.+|+....+++...||++|+++|..........|.|. ...+.. .+ ..++.+.++..
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 36777999999999999999999999987644335678888 454432 22 23445666664
No 57
>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms]
Probab=90.74 E-value=0.23 Score=49.38 Aligned_cols=46 Identities=20% Similarity=0.485 Sum_probs=40.4
Q ss_pred CChhhhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhcc
Q 015336 4 PTAEANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNA 49 (408)
Q Consensus 4 ~~~~~~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~~ 49 (408)
|+.-....++-.|..+|.++++.|+.+|..+.|+++.|++.||+.+
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 58
>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=88.90 E-value=1.3 Score=31.25 Aligned_cols=38 Identities=13% Similarity=0.324 Sum_probs=32.5
Q ss_pred HHHHHHHHHHh-CCCHHHHHHHHHHcCCCHHHHHHHHHh
Q 015336 10 SSLINSFVEIT-SSTKDEALFFLESHQWNLDAAVSTFLD 47 (408)
Q Consensus 10 ~~~I~qF~~iT-g~s~~~A~~yLe~~~wdLe~Av~~fy~ 47 (408)
++.|.+..++. ..+...-+.-|+.++||++.||+..++
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 789999999999999999999999875
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=86.48 E-value=2.3 Score=30.08 Aligned_cols=38 Identities=13% Similarity=0.301 Sum_probs=31.6
Q ss_pred HHHHHHHHHHh-CCCHHHHHHHHHHcCCCHHHHHHHHHh
Q 015336 10 SSLINSFVEIT-SSTKDEALFFLESHQWNLDAAVSTFLD 47 (408)
Q Consensus 10 ~~~I~qF~~iT-g~s~~~A~~yLe~~~wdLe~Av~~fy~ 47 (408)
.+.|.+..++- ..+....+.-|+.+++|++.||+..++
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 34566666654 789999999999999999999999875
No 60
>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=85.23 E-value=3.6 Score=32.84 Aligned_cols=58 Identities=10% Similarity=0.023 Sum_probs=43.1
Q ss_pred EcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCC-C
Q 015336 340 RLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIA-N 401 (408)
Q Consensus 340 RL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~-n 401 (408)
++-.|+.+.+.+..+.||++|...|.....-......| |-.+.|.|++.||.+.|+. |
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 44567778899999999999999998652211233344 4567787778999999998 5
No 61
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=84.38 E-value=2.5 Score=43.09 Aligned_cols=68 Identities=12% Similarity=0.232 Sum_probs=53.4
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCC-CCCCCeEEEecCCCCccCCCccCchhhcCCC-CeeEEe
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRP-GSARNYQLQAMGFPPKQLTDLDQTVEQAGIA-NSVVIQ 406 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~-~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~-navvvq 406 (408)
+|-||...|....++++.+|||.+|..-|..... ++...+..+. |-.|.|.| +.||.+.++. +..||.
T Consensus 2 ~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLI--y~GkiL~D-~~tv~Eykv~E~~fiVv 71 (340)
T KOG0011|consen 2 KLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLI--YSGKILKD-ETTVGEYKVKEKKFIVV 71 (340)
T ss_pred eeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheee--ecceeccC-CcchhhhccccCceEEE
Confidence 5789999999999999999999999999987632 2334444442 77899988 6999999999 455444
No 62
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=83.59 E-value=3.6 Score=33.35 Aligned_cols=67 Identities=16% Similarity=0.271 Sum_probs=47.6
Q ss_pred eeEEEEcCCCc--EEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCC------CccCCCccCchhhcCCCCee
Q 015336 335 TSVQLRLADGT--RMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFP------PKQLTDLDQTVEQAGIANSV 403 (408)
Q Consensus 335 t~IqIRL~dG~--Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP------~k~l~D~s~TL~eagL~nav 403 (408)
.+|.|.-..-+ ....||+.+.||++|..-|...-.-......|. . ++ ...+.|+.++|..-|+.+..
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 45677776653 789999999999999999998743334556665 2 31 13356778999999999744
No 63
>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=83.40 E-value=3.1 Score=35.60 Aligned_cols=55 Identities=18% Similarity=0.240 Sum_probs=43.5
Q ss_pred EEEEeCCCCCHHHHHHHHHHhCCCCCCCe--EEEecCCCCccCCCccCchhhcCCCC-eeEEe
Q 015336 347 MVARFNHHHTIRDIHRFIDASRPGSARNY--QLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQ 406 (408)
Q Consensus 347 l~~rFn~s~TV~dv~~fv~~~~~~~~~~f--~L~tt~FP~k~l~D~s~TL~eagL~n-avvvq 406 (408)
+.+.++.++||++|...|.++-. -.+| .|+ .. -+.|+|++.||.+.||.. ++|..
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 45679999999999999988732 3455 777 34 779999999999999996 55543
No 64
>PLN02560 enoyl-CoA reductase
Probab=83.30 E-value=5.1 Score=40.56 Aligned_cols=71 Identities=14% Similarity=0.252 Sum_probs=47.4
Q ss_pred eEEEEcCCCcEE---EEEeCCCCCHHHHHHHHHHhCCC-CCCCeEEEecCC----CCccCCCccCchhhcCCCC-eeEEe
Q 015336 336 SVQLRLADGTRM---VARFNHHHTIRDIHRFIDASRPG-SARNYQLQAMGF----PPKQLTDLDQTVEQAGIAN-SVVIQ 406 (408)
Q Consensus 336 ~IqIRL~dG~Rl---~~rFn~s~TV~dv~~fv~~~~~~-~~~~f~L~tt~F----P~k~l~D~s~TL~eagL~n-avvvq 406 (408)
+|.|+..+|+.+ .+.+..+.||+||..-|.+.... ....-.|. ..- |....-+++.||++.|+.+ ++|..
T Consensus 2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~-~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~ 80 (308)
T PLN02560 2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLT-LPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF 80 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEE-EecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence 478888889886 57889999999999999876432 22334444 111 2222223467999999985 56655
Q ss_pred e
Q 015336 407 K 407 (408)
Q Consensus 407 k 407 (408)
|
T Consensus 81 k 81 (308)
T PLN02560 81 K 81 (308)
T ss_pred E
Confidence 4
No 65
>COG1308 EGD2 Transcription factor homologous to NACalpha-BTF3 [Transcription]
Probab=82.64 E-value=2.4 Score=37.33 Aligned_cols=36 Identities=22% Similarity=0.239 Sum_probs=32.1
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHH
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVST 44 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~ 44 (408)
.++.|.--++=||+|.+.|+.-|+.+|+||-.||..
T Consensus 84 ~eeDIkLV~eQa~VsreeA~kAL~e~~GDlaeAIm~ 119 (122)
T COG1308 84 SEEDIKLVMEQAGVSREEAIKALEEAGGDLAEAIMK 119 (122)
T ss_pred CHHHHHHHHHHhCCCHHHHHHHHHHcCCcHHHHHHH
Confidence 356688888999999999999999999999999864
No 66
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=82.42 E-value=2 Score=35.74 Aligned_cols=56 Identities=18% Similarity=0.147 Sum_probs=32.3
Q ss_pred EEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCC--ccCCCccCchhhcCCCCe
Q 015336 346 RMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPP--KQLTDLDQTVEQAGIANS 402 (408)
Q Consensus 346 Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~--k~l~D~s~TL~eagL~na 402 (408)
-+...|...+||+.|-..+.+.-.- ...-.|=...... -.|.+..+||+||||+.+
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 4788999999999999998875211 2222222111222 224577899999999964
No 67
>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=82.32 E-value=7.6 Score=30.76 Aligned_cols=54 Identities=24% Similarity=0.381 Sum_probs=38.4
Q ss_pred CCCCCHHHHHHHHHHhCCCC-CCCeEEEecCCCCccCCCccCchhhcCCCC-eeEEee
Q 015336 352 NHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVVIQK 407 (408)
Q Consensus 352 n~s~TV~dv~~fv~~~~~~~-~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avvvqk 407 (408)
..+.||.||+..|....... .....|. ..+..+.|.| +.||.+.|+.+ ++|..|
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~-~~~~g~~L~d-~~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLR-LEPKGKSLKD-DDTLVDLGVGAGATLYVR 75 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEE-eCCCCcccCC-cccHhhcCCCCCCEEEEe
Confidence 45689999999998764332 3445565 4677888876 46899999986 556554
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=80.38 E-value=3.7 Score=32.78 Aligned_cols=68 Identities=15% Similarity=0.159 Sum_probs=44.6
Q ss_pred ceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCC---C-C--CCeEEEecCCCCccCCCccCchhhcCCCCeeE
Q 015336 334 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPG---S-A--RNYQLQAMGFPPKQLTDLDQTVEQAGIANSVV 404 (408)
Q Consensus 334 ~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~---~-~--~~f~L~tt~FP~k~l~D~s~TL~eagL~navv 404 (408)
.++|-|...+|+++-+.+..+.+|.+|..-|...-.. . . ..|.|. .-..+.|.+ ++||.++|+.+.-+
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~--~~~g~~L~~-~~tL~~~gV~dGd~ 75 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLA--RAGGRPLDP-DQTLADAGVRDGDV 75 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG---GGTEEEET-TSBCGGGT--TT-E
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEE--ecCCcccCC-cCcHhHcCCCCCCE
Confidence 4788899988899999999999999999887764222 1 1 147776 355566665 79999999997443
No 69
>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=77.60 E-value=4.6 Score=31.69 Aligned_cols=58 Identities=16% Similarity=0.165 Sum_probs=36.9
Q ss_pred cCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCCe
Q 015336 341 LADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIANS 402 (408)
Q Consensus 341 L~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~na 402 (408)
.++|.|..+++..++|+.+|.+-+...-.-....|.|. +=+|.| |.++.+.=+||.|.
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 46899999999999999999998876643335689999 345666 66899999999963
No 70
>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=77.45 E-value=6.7 Score=31.72 Aligned_cols=48 Identities=25% Similarity=0.358 Sum_probs=36.8
Q ss_pred CCCCHHHHHHHHHHhCCC--C-CCCeEEEecCCCCccCCCccCchhhcCCCC-eeE
Q 015336 353 HHHTIRDIHRFIDASRPG--S-ARNYQLQAMGFPPKQLTDLDQTVEQAGIAN-SVV 404 (408)
Q Consensus 353 ~s~TV~dv~~fv~~~~~~--~-~~~f~L~tt~FP~k~l~D~s~TL~eagL~n-avv 404 (408)
.++||.+|..-|...-++ . ...+.|+ |=.|.|.| +.||++.|+.+ ++|
T Consensus 19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLI---y~GKiL~D-~~TL~dygI~~gstl 70 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDSLPDPELIDLI---HCGRKLKD-DQTLDFYGIQSGSTI 70 (75)
T ss_pred ccCcHHHHHHHHHHhhccCCCChHHeEEE---eCCcCCCC-CCcHHHcCCCCCCEE
Confidence 579999999999876322 1 3457887 78999987 58999999995 443
No 71
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=76.63 E-value=3 Score=32.68 Aligned_cols=61 Identities=20% Similarity=0.167 Sum_probs=42.7
Q ss_pred EEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCC-CCCeEEEecC-CCC--ccCCCccCchhhcCCC
Q 015336 339 LRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMG-FPP--KQLTDLDQTVEQAGIA 400 (408)
Q Consensus 339 IRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~-~~~f~L~tt~-FP~--k~l~D~s~TL~eagL~ 400 (408)
|+|+||+.+...++.+.|+++|.+.|...-.-. ..-|.|. .. -.. ..+-|.+.+|.+..-.
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 1223667788766544
No 72
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=76.12 E-value=2.4 Score=33.53 Aligned_cols=31 Identities=29% Similarity=0.569 Sum_probs=25.5
Q ss_pred EEEEcCC--CcEEEEEeCCCCCHHHHHHHHHHh
Q 015336 337 VQLRLAD--GTRMVARFNHHHTIRDIHRFIDAS 367 (408)
Q Consensus 337 IqIRL~d--G~Rl~~rFn~s~TV~dv~~fv~~~ 367 (408)
|+|-+.| |+.+.+++|.++||+|+...|.+.
T Consensus 2 iev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQ 34 (73)
T KOG3493|consen 2 IEVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQ 34 (73)
T ss_pred ceehhhhhcCceEEEEeCCcccccCHHHHHHHh
Confidence 3444444 899999999999999999999875
No 73
>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=72.47 E-value=11 Score=34.32 Aligned_cols=65 Identities=17% Similarity=0.217 Sum_probs=46.7
Q ss_pred ceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCC-CCCeEEEecCCCCccC---CCccCchhhcCC
Q 015336 334 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQL---TDLDQTVEQAGI 399 (408)
Q Consensus 334 ~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~-~~~f~L~tt~FP~k~l---~D~s~TL~eagL 399 (408)
...|+|.|+||+.+.++++.+.|+.+|.+.|...-.-. ..-|.|. ..-+...+ -+...+|.+...
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 35799999999999999999999999999998763322 4668888 33333222 244556666554
No 74
>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=70.55 E-value=8.4 Score=32.09 Aligned_cols=33 Identities=15% Similarity=0.272 Sum_probs=30.2
Q ss_pred eeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHh
Q 015336 335 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDAS 367 (408)
Q Consensus 335 t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~ 367 (408)
..|+|=|+||+++.+++..+++..+|++-+...
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 468999999999999999999999999988764
No 75
>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=69.07 E-value=16 Score=27.19 Aligned_cols=47 Identities=17% Similarity=0.303 Sum_probs=36.1
Q ss_pred CChhhhHHHHHHHHHHh-CCCHHHHHHHHHHcCCCHHHHHHHHHhccc
Q 015336 4 PTAEANSSLINSFVEIT-SSTKDEALFFLESHQWNLDAAVSTFLDNAA 50 (408)
Q Consensus 4 ~~~~~~~~~I~qF~~iT-g~s~~~A~~yLe~~~wdLe~Av~~fy~~~~ 50 (408)
|.+.-.+++|.|-..+. |-+..+-.+-|+.+|-|++.||+..+...+
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 788999999999999999999999886543
No 76
>CHL00098 tsf elongation factor Ts
Probab=68.34 E-value=8.6 Score=36.64 Aligned_cols=38 Identities=11% Similarity=0.165 Sum_probs=34.4
Q ss_pred HHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015336 11 SLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (408)
Q Consensus 11 ~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (408)
++|.+..+.||+.--.++.-|+.++||++.|+.-.-..
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 57999999999999999999999999999999766543
No 77
>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=66.80 E-value=29 Score=28.09 Aligned_cols=66 Identities=15% Similarity=0.228 Sum_probs=46.1
Q ss_pred eeEEEEcCC-CcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCc-----cCCCccCchhhcCCCCe
Q 015336 335 TSVQLRLAD-GTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPK-----QLTDLDQTVEQAGIANS 402 (408)
Q Consensus 335 t~IqIRL~d-G~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k-----~l~D~s~TL~eagL~na 402 (408)
.+|.|.... ......||..+.||++|..-|.....-....-.|. -|..+ .|.++..+|..-|+.+.
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~--l~~~~~~~~~~l~~d~~~L~~y~~~dg 73 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQ--LFDGDDKLVSKLDDDDALLGSYPVDDG 73 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEE--EEcCCCCeEeecCCCccEeeeccCCCC
Confidence 345666543 33478899999999999999977632224445554 24554 57788899999999963
No 78
>PRK12332 tsf elongation factor Ts; Reviewed
Probab=66.13 E-value=10 Score=36.12 Aligned_cols=39 Identities=15% Similarity=0.184 Sum_probs=35.5
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015336 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (408)
Q Consensus 10 ~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (408)
-++|.+..+.||+.--.++.-|+.++||++.|+.-.-..
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 79
>PRK09377 tsf elongation factor Ts; Provisional
Probab=64.94 E-value=10 Score=38.13 Aligned_cols=40 Identities=13% Similarity=0.142 Sum_probs=35.8
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (408)
.-++|.+..+.||+.--.++.-|+.++||++.|+.---..
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 3468999999999999999999999999999999877543
No 80
>TIGR00116 tsf translation elongation factor Ts. This protein is found in Bacteria, mitochondria, and chloroplasts.
Probab=64.52 E-value=10 Score=38.11 Aligned_cols=39 Identities=13% Similarity=0.178 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015336 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (408)
Q Consensus 10 ~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (408)
-++|.+..+.||+.--.|+.-|+.++||++.|+.---..
T Consensus 5 a~~IK~LRe~Tgagm~dCKkAL~e~~gDiekAi~~LRkk 43 (290)
T TIGR00116 5 AQLVKELRERTGAGMMDCKKALTEANGDFEKAIKNLRES 43 (290)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 468999999999999999999999999999999877553
No 81
>KOG3077 consensus Uncharacterized conserved protein [Function unknown]
Probab=63.32 E-value=3.5 Score=40.82 Aligned_cols=38 Identities=26% Similarity=0.417 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFL 46 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy 46 (408)
+.+.+.+|+.+|++++.+++.+|..++|++..|.+.+|
T Consensus 8 ~~d~~~~~~~~~~~~~~~s~~~~~~~dw~~~~~~~~s~ 45 (260)
T KOG3077|consen 8 QKDKFEQFMSFTASRKKTSLSCLAACDWNLKYAFNDSY 45 (260)
T ss_pred HHHHHHhhcccccccchhhhhhhcccccccchhcccch
Confidence 67889999999999999999999999999999955544
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=58.65 E-value=36 Score=28.24 Aligned_cols=57 Identities=16% Similarity=0.243 Sum_probs=45.0
Q ss_pred eeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCC-CCCCCeEEEecCCCCc----cCCCccC
Q 015336 335 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRP-GSARNYQLQAMGFPPK----QLTDLDQ 392 (408)
Q Consensus 335 t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~-~~~~~f~L~tt~FP~k----~l~D~s~ 392 (408)
--|+|-+.||+...+-+..++|++||-+.+..... .....|.|+ -..|-- .|+|...
T Consensus 3 ~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~Lv-E~~P~l~lER~~EDHE~ 64 (85)
T cd01787 3 QVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLV-EHLPHLQLERLFEDHEL 64 (85)
T ss_pred eEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEE-EecchhhhhhhccchHH
Confidence 35889999999999999999999999998865432 236889999 688864 5556443
No 83
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=56.04 E-value=18 Score=36.26 Aligned_cols=40 Identities=20% Similarity=0.223 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (408)
.+..+.=.+.+||++.+.|+..|+.++|++-.||-.....
T Consensus 235 ~~ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~a~~~~~~~ 274 (299)
T PRK05441 235 VDRAVRIVMEATGVSREEAEAALEAADGSVKLAIVMILTG 274 (299)
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHHHhCCCcHHHHHHHHhC
Confidence 3444566888999999999999999999999999887653
No 84
>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=52.38 E-value=23 Score=35.41 Aligned_cols=39 Identities=18% Similarity=0.144 Sum_probs=33.0
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHh
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLD 47 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~ 47 (408)
.+-.+.=.+++||++.+.|+.+|+.++|++-.||-.-..
T Consensus 230 ~~Ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~Ai~~~~~ 268 (291)
T TIGR00274 230 KARAVRIVRQATDCNKELAEQTLLAADQNVKLAIVMILS 268 (291)
T ss_pred HHHHHHHHHHHhCcCHHHHHHHHHHhCCCcHHHHHHHHh
Confidence 344455678889999999999999999999999987654
No 85
>KOG1071 consensus Mitochondrial translation elongation factor EF-Tsmt, catalyzes nucleotide exchange on EF-Tumt [Translation, ribosomal structure and biogenesis]
Probab=52.37 E-value=19 Score=36.68 Aligned_cols=37 Identities=19% Similarity=0.075 Sum_probs=33.8
Q ss_pred hhHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHH
Q 015336 8 ANSSLINSFVEITSSTKDEALFFLESHQWNLDAAVST 44 (408)
Q Consensus 8 ~~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~ 44 (408)
...++|.+..+-||++-.-+++-|+.+||||..|..=
T Consensus 45 ~~~allk~LR~kTgas~~ncKkALee~~gDl~~A~~~ 81 (340)
T KOG1071|consen 45 SSKALLKKLREKTGASMVNCKKALEECGGDLVLAEEW 81 (340)
T ss_pred ccHHHHHHHHHHcCCcHHHHHHHHHHhCCcHHHHHHH
Confidence 5678999999999999999999999999999998643
No 86
>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=50.14 E-value=24 Score=25.89 Aligned_cols=26 Identities=15% Similarity=0.323 Sum_probs=21.0
Q ss_pred CCCHHHHHHHHHHcCCCHHHHHHHHH
Q 015336 21 SSTKDEALFFLESHQWNLDAAVSTFL 46 (408)
Q Consensus 21 g~s~~~A~~yLe~~~wdLe~Av~~fy 46 (408)
..+...-.+||.+.+||++.|+..+-
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 45778999999999999999998763
No 87
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=48.97 E-value=37 Score=36.56 Aligned_cols=63 Identities=16% Similarity=0.285 Sum_probs=51.6
Q ss_pred ceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCC
Q 015336 334 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIAN 401 (408)
Q Consensus 334 ~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~n 401 (408)
.++|.||-++. ...+..-.+.||.++.+-|...-......-+|+ |=-|.|.| ..||...|+..
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 788888899999999999988642224556666 88999997 58999999996
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=48.39 E-value=56 Score=26.07 Aligned_cols=42 Identities=17% Similarity=0.184 Sum_probs=34.6
Q ss_pred EEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEE
Q 015336 337 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 378 (408)
Q Consensus 337 IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~ 378 (408)
+.|=||||++-+......+||.|+-.=+-+.+.-....+.|.
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 567799999999999999999999988877665445566666
No 89
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=47.24 E-value=29 Score=34.83 Aligned_cols=40 Identities=18% Similarity=0.236 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (408)
.+..+.=.+.+||++.+.|+..|+.++|++-.||-.....
T Consensus 231 ~~Ra~~i~~~~~~~~~~~a~~~l~~~~~~vk~ai~~~~~~ 270 (296)
T PRK12570 231 VARAVRIVMQATGCSEDEAKELLKESDNDVKLAILMILTG 270 (296)
T ss_pred HHHHHHHHHHHHCcCHHHHHHHHHHhCCccHHHHHHHHhC
Confidence 4445556788899999999999999999999999877543
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=41.82 E-value=84 Score=26.46 Aligned_cols=53 Identities=17% Similarity=0.325 Sum_probs=40.6
Q ss_pred EEEEcCCCcE-EEEEeC--CCCCHHHHHHHHHHhCCCC--CCCeEEEecCCCCccCCCccC
Q 015336 337 VQLRLADGTR-MVARFN--HHHTIRDIHRFIDASRPGS--ARNYQLQAMGFPPKQLTDLDQ 392 (408)
Q Consensus 337 IqIRL~dG~R-l~~rFn--~s~TV~dv~~fv~~~~~~~--~~~f~L~tt~FP~k~l~D~s~ 392 (408)
|-|||.++-. +.+.++ .+.||..|+..|....|.. .+.-.|+ +=.|.|.|.+.
T Consensus 3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI---~~Gr~L~d~t~ 60 (97)
T PF10302_consen 3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLI---YAGRLLNDHTD 60 (97)
T ss_pred EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEee---ecCcccCccch
Confidence 6788888543 788888 8899999999999988554 4666676 66888887543
No 91
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=39.32 E-value=50 Score=33.14 Aligned_cols=40 Identities=23% Similarity=0.272 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhc
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDN 48 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~ 48 (408)
.+..+.=.+++||++.++|.++|+.++.++..||-...-.
T Consensus 233 ~dRa~RIv~~aT~~~~~~A~~~L~~~~~~vK~AIvm~~~~ 272 (298)
T COG2103 233 RDRAVRIVMEATGCSAEEAEALLEEAGGNVKLAIVMLLTG 272 (298)
T ss_pred HHHHHHHHHHHhCCCHHHHHHHHHHcCCccHhHHHHHHhC
Confidence 4555667788999999999999999999999999887754
No 92
>COG0264 Tsf Translation elongation factor Ts [Translation, ribosomal structure and biogenesis]
Probab=38.83 E-value=50 Score=33.40 Aligned_cols=40 Identities=15% Similarity=0.192 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHHhcc
Q 015336 10 SSLINSFVEITSSTKDEALFFLESHQWNLDAAVSTFLDNA 49 (408)
Q Consensus 10 ~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy~~~ 49 (408)
-++|.+..+.||+.--.|++-|+.+++|+|.||+-.-..+
T Consensus 6 a~~VKeLRe~TgAGMmdCKkAL~E~~Gd~EkAie~LR~kG 45 (296)
T COG0264 6 AALVKELREKTGAGMMDCKKALEEANGDIEKAIEWLREKG 45 (296)
T ss_pred HHHHHHHHHHhCCcHHHHHHHHHHcCCCHHHHHHHHHHhc
Confidence 3689999999999999999999999999999998776543
No 93
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=35.73 E-value=1e+02 Score=24.16 Aligned_cols=66 Identities=14% Similarity=0.299 Sum_probs=49.4
Q ss_pred EEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCCCccCchhhcCCCCeeEEe
Q 015336 337 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLTDLDQTVEQAGIANSVVIQ 406 (408)
Q Consensus 337 IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~D~s~TL~eagL~navvvq 406 (408)
|.++...|+.+.+-...+++|..|..-|.....-....-.|+ |-.|.+.| ++|-+.-+|....|+.
T Consensus 3 iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli---~~gkqm~D-D~tA~~Y~~~~GSVlH 68 (70)
T KOG0005|consen 3 IKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLI---YAGKQMND-DKTAAHYNLLGGSVLH 68 (70)
T ss_pred eeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhh---hccccccc-cccHHHhhhccceeEe
Confidence 677888999999999999999999999976522112233444 77788876 5899999998755543
No 94
>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=34.36 E-value=1.6e+02 Score=23.16 Aligned_cols=52 Identities=23% Similarity=0.288 Sum_probs=36.1
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEEecCCCCccCC
Q 015336 336 SVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQAMGFPPKQLT 388 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~tt~FP~k~l~ 388 (408)
.+++=||||++.+.......||.|+-.-+-..+.-....+.+...+ ..+.|.
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 4788999999999999999999999888877665444455444122 555554
No 95
>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=31.94 E-value=1e+02 Score=25.18 Aligned_cols=40 Identities=10% Similarity=0.088 Sum_probs=31.9
Q ss_pred EEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEE
Q 015336 339 LRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 378 (408)
Q Consensus 339 IRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~ 378 (408)
|=||||.+........+|+.||-.-+-+.+.-....+-|.
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 5689999999999999999999998876544334555554
No 96
>smart00455 RBD Raf-like Ras-binding domain.
Probab=31.62 E-value=1.3e+02 Score=23.67 Aligned_cols=42 Identities=19% Similarity=0.202 Sum_probs=32.5
Q ss_pred EEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEE
Q 015336 337 VQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 378 (408)
Q Consensus 337 IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~ 378 (408)
+.+=||||++.........||.|+-.=+-+.+.-....+.|.
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 456799999999999999999999888776654333445555
No 97
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=31.07 E-value=1.7e+02 Score=27.10 Aligned_cols=51 Identities=18% Similarity=0.214 Sum_probs=38.2
Q ss_pred eEEEEcCCC----cEEEEEeCCCCCHHHHHHHHHHhCCCC-CCCeEEEecCCCCccCC
Q 015336 336 SVQLRLADG----TRMVARFNHHHTIRDIHRFIDASRPGS-ARNYQLQAMGFPPKQLT 388 (408)
Q Consensus 336 ~IqIRL~dG----~Rl~~rFn~s~TV~dv~~fv~~~~~~~-~~~f~L~tt~FP~k~l~ 388 (408)
+|-|+..+| ..+.+.+..+.||.||++.|....+.. ...+.|. ...++.|.
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 2336676 35666663
No 98
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=28.91 E-value=85 Score=25.12 Aligned_cols=35 Identities=23% Similarity=0.520 Sum_probs=26.2
Q ss_pred CCCCCHHHHHHHHHHhCCCC--CCCeEEEecCCCCccCCCc
Q 015336 352 NHHHTIRDIHRFIDASRPGS--ARNYQLQAMGFPPKQLTDL 390 (408)
Q Consensus 352 n~s~TV~dv~~fv~~~~~~~--~~~f~L~tt~FP~k~l~D~ 390 (408)
+.+++|.||+++|... +.. -.+|.|. +-.+.|++.
T Consensus 2 ~~~d~v~dvrq~L~~~-~~t~~~Tn~~L~---~~g~~L~~~ 38 (76)
T PF15044_consen 2 SPTDTVQDVRQVLAES-PETCYLTNFSLE---HNGQRLDDF 38 (76)
T ss_pred ChhhHHHHHHHHHHhC-ccccceeEEEEE---ECCCccCCc
Confidence 5789999999999875 443 5788888 456667553
No 99
>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=27.14 E-value=1.5e+02 Score=23.06 Aligned_cols=45 Identities=18% Similarity=0.247 Sum_probs=34.9
Q ss_pred ceeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEE
Q 015336 334 TTSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 378 (408)
Q Consensus 334 ~t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~ 378 (408)
|.+|.+++.++.|..+.+...-+..+|+.-|...-+.....|.|.
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 457888998887777888888899999999987644324677776
No 100
>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=27.02 E-value=2.3e+02 Score=21.91 Aligned_cols=43 Identities=14% Similarity=0.212 Sum_probs=33.3
Q ss_pred eeEEEEcCCCcEEEEEeCCCCCHHHHHHHHHHhCCCCCCCeEEE
Q 015336 335 TSVQLRLADGTRMVARFNHHHTIRDIHRFIDASRPGSARNYQLQ 378 (408)
Q Consensus 335 t~IqIRL~dG~Rl~~rFn~s~TV~dv~~fv~~~~~~~~~~f~L~ 378 (408)
.+|++++ +|....+++...-|..+|+.-|...-+.....|.|.
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~ 44 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLK 44 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEE
Confidence 4688888 667777888889999999999987644334578777
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=24.73 E-value=89 Score=23.17 Aligned_cols=21 Identities=19% Similarity=0.344 Sum_probs=18.3
Q ss_pred HHHHHHHhCCCHHHHHHHHHH
Q 015336 13 INSFVEITSSTKDEALFFLES 33 (408)
Q Consensus 13 I~qF~~iTg~s~~~A~~yLe~ 33 (408)
|++|.+++|+|...|..|||-
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
>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=24.42 E-value=2.7e+02 Score=21.74 Aligned_cols=39 Identities=21% Similarity=0.331 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHhCC-CHHHHHHHHHHcCCCHHHHHHHHHh
Q 015336 9 NSSLINSFVEITSS-TKDEALFFLESHQWNLDAAVSTFLD 47 (408)
Q Consensus 9 ~~~~I~qF~~iTg~-s~~~A~~yLe~~~wdLe~Av~~fy~ 47 (408)
-...|+...+|||+ +++.---.|..||-|-+.|++-...
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 45689999999999 8888888999999999999988765
No 103
>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=23.17 E-value=65 Score=28.30 Aligned_cols=34 Identities=21% Similarity=0.436 Sum_probs=22.9
Q ss_pred HHHHHHHhCCCHHHHHHHHHHcCCCHHHHHHHHH
Q 015336 13 INSFVEITSSTKDEALFFLESHQWNLDAAVSTFL 46 (408)
Q Consensus 13 I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av~~fy 46 (408)
++.++++.|.+++.+..|+++.+|-++.+...|.
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 104
>KOG0625 consensus Phosphoglucomutase [Carbohydrate transport and metabolism]
Probab=22.29 E-value=33 Score=36.42 Aligned_cols=35 Identities=20% Similarity=0.421 Sum_probs=28.7
Q ss_pred eEEEEcCCCcEEEEEeCCCCCHH-HHHHHHHHhCCC
Q 015336 336 SVQLRLADGTRMVARFNHHHTIR-DIHRFIDASRPG 370 (408)
Q Consensus 336 ~IqIRL~dG~Rl~~rFn~s~TV~-dv~~fv~~~~~~ 370 (408)
-|+|.|.||+|++.|+.-+-..+ .||-||.++.++
T Consensus 485 Glri~F~dGsR~VfRLSGTGSsGATiRLYie~ye~d 520 (558)
T KOG0625|consen 485 GLRIVFEDGSRIVFRLSGTGSSGATIRLYIESYEKD 520 (558)
T ss_pred ceEEEEcCCcEEEEEeccCCCCCceEEEehhhhccc
Confidence 48999999999999999776664 688888887544
No 105
>PF14327 CSTF2_hinge: Hinge domain of cleavage stimulation factor subunit 2; PDB: 4EBA_G.
Probab=21.99 E-value=1e+02 Score=25.09 Aligned_cols=33 Identities=15% Similarity=0.262 Sum_probs=22.3
Q ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHcCCCHHHHH
Q 015336 9 NSSLINSFVEITSSTKDEALFFLESHQWNLDAAV 42 (408)
Q Consensus 9 ~~~~I~qF~~iTg~s~~~A~~yLe~~~wdLe~Av 42 (408)
--++|.++..+..-+++.|+++|..+- .|-.||
T Consensus 31 l~ell~~mK~l~~~~p~~ar~lL~~nP-qLa~Al 63 (84)
T PF14327_consen 31 LYELLSQMKQLAQQNPEQARQLLQQNP-QLAYAL 63 (84)
T ss_dssp HHHHHHHHHHHHC----HHHHHHHS-T-HHHHHH
T ss_pred HHHHHHHHHHHHHhCHHHHHHHHHHCc-HHHHHH
Confidence 456788999999999999999998876 565554
No 106
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=21.47 E-value=2.9e+02 Score=21.54 Aligned_cols=59 Identities=14% Similarity=0.138 Sum_probs=42.9
Q ss_pred eeEEEEcCCCc----EEEEEeCCCCCHHHHHHHHHHh-CC-CCCCCeEE--EecCCCC--ccCCCccCch
Q 015336 335 TSVQLRLADGT----RMVARFNHHHTIRDIHRFIDAS-RP-GSARNYQL--QAMGFPP--KQLTDLDQTV 394 (408)
Q Consensus 335 t~IqIRL~dG~----Rl~~rFn~s~TV~dv~~fv~~~-~~-~~~~~f~L--~tt~FP~--k~l~D~s~TL 394 (408)
..|+|-..+++ ...+++..+.|+.+|..-+... .- .....|.| . ..... |.|.+...-|
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~-~~~~~~er~L~~~E~pl 71 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEV-EESGGEERPLDDDECPL 71 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEE-ECTTTEEEEETTTSBHH
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEE-EcCCCEEEEcCCCCchH
Confidence 56899999999 8999999999999999887654 22 23678999 5 45444 4565554443
No 107
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=20.31 E-value=1.5e+02 Score=22.19 Aligned_cols=27 Identities=15% Similarity=0.315 Sum_probs=24.2
Q ss_pred cCCCcEEEEEeCCCCCHHHHHHHHHHh
Q 015336 341 LADGTRMVARFNHHHTIRDIHRFIDAS 367 (408)
Q Consensus 341 L~dG~Rl~~rFn~s~TV~dv~~fv~~~ 367 (408)
+..|..+.+..+...++.+|..|+...
T Consensus 23 l~~g~~l~v~~d~~~~~~~i~~~~~~~ 49 (69)
T cd00291 23 LKSGEVLEVLLDDPGAVEDIPAWAKET 49 (69)
T ss_pred CCCCCEEEEEecCCcHHHHHHHHHHHc
Confidence 567999999999999999999999875
Done!