Query 025134
Match_columns 257
No_of_seqs 205 out of 801
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 02:59:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025134.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025134hhsearch_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 2.5E-67 5.4E-72 486.8 18.9 252 3-257 112-379 (380)
2 smart00553 SEP Domain present 100.0 4.8E-37 1.1E-41 236.8 8.5 89 68-156 2-91 (93)
3 PF08059 SEP: SEP domain; Int 100.0 3.6E-32 7.8E-37 202.4 5.9 74 73-146 1-75 (75)
4 cd01770 p47_UBX p47-like ubiqu 99.9 1.8E-25 3.9E-30 168.0 10.0 76 181-257 2-78 (79)
5 cd01767 UBX UBX (ubiquitin reg 99.8 6.2E-21 1.3E-25 142.1 9.9 74 182-257 1-76 (77)
6 smart00166 UBX Domain present 99.8 2.8E-19 6.1E-24 134.1 10.2 76 181-257 2-80 (80)
7 cd01773 Faf1_like1_UBX Faf1 ik 99.8 6E-19 1.3E-23 133.3 10.0 73 180-254 2-77 (82)
8 cd01774 Faf1_like2_UBX Faf1 ik 99.8 6E-19 1.3E-23 134.4 9.3 70 181-252 2-78 (85)
9 cd01771 Faf1_UBX Faf1 UBX doma 99.8 3.9E-18 8.6E-23 128.5 9.8 73 180-254 1-76 (80)
10 PF00789 UBX: UBX domain; Int 99.8 2.4E-18 5.3E-23 129.0 8.1 78 179-257 2-82 (82)
11 cd01772 SAKS1_UBX SAKS1-like U 99.7 7.8E-18 1.7E-22 126.4 9.3 71 182-254 3-76 (79)
12 KOG2689 Predicted ubiquitin re 99.3 6.3E-12 1.4E-16 113.0 10.1 77 180-257 207-286 (290)
13 KOG1364 Predicted ubiquitin re 99.0 2.6E-10 5.7E-15 105.7 4.1 72 183-255 277-353 (356)
14 KOG2507 Ubiquitin regulatory p 98.8 3.3E-09 7.2E-14 100.5 4.9 69 181-250 312-382 (506)
15 KOG1363 Predicted regulator of 98.3 1.1E-06 2.4E-11 85.4 7.0 74 180-255 380-457 (460)
16 cd01796 DDI1_N DNA damage indu 97.6 0.00029 6.2E-09 51.4 7.3 68 186-256 1-70 (71)
17 cd01794 DC_UbP_C dendritic cel 97.4 0.0007 1.5E-08 49.5 7.0 65 186-254 1-65 (70)
18 cd01792 ISG15_repeat1 ISG15 ub 97.3 0.0018 4E-08 48.1 8.2 68 184-253 3-71 (80)
19 cd01806 Nedd8 Nebb8-like ubiq 97.3 0.0022 4.9E-08 46.4 8.2 65 185-253 2-67 (76)
20 cd01807 GDX_N ubiquitin-like d 97.2 0.0022 4.7E-08 46.9 7.6 66 185-254 2-68 (74)
21 cd01804 midnolin_N Ubiquitin-l 97.2 0.0028 6.1E-08 47.1 8.1 66 184-254 2-68 (78)
22 cd01791 Ubl5 UBL5 ubiquitin-li 97.1 0.0037 8E-08 46.1 8.3 67 184-254 2-69 (73)
23 PF00240 ubiquitin: Ubiquitin 97.0 0.0025 5.5E-08 45.4 6.3 62 189-254 1-63 (69)
24 cd01809 Scythe_N Ubiquitin-lik 97.0 0.0057 1.2E-07 43.7 8.1 66 185-254 2-68 (72)
25 cd01805 RAD23_N Ubiquitin-like 97.0 0.0064 1.4E-07 44.3 8.1 66 185-254 2-70 (77)
26 cd01803 Ubiquitin Ubiquitin. U 96.9 0.0073 1.6E-07 43.6 7.7 65 185-253 2-67 (76)
27 PF11543 UN_NPL4: Nuclear pore 96.8 0.0017 3.7E-08 48.8 4.0 69 184-254 5-75 (80)
28 cd01798 parkin_N amino-termina 96.7 0.0065 1.4E-07 43.8 6.7 64 186-253 1-65 (70)
29 cd01810 ISG15_repeat2 ISG15 ub 96.7 0.0072 1.6E-07 44.1 6.9 64 186-253 1-65 (74)
30 PTZ00044 ubiquitin; Provisiona 96.7 0.01 2.2E-07 43.2 7.6 65 185-253 2-67 (76)
31 smart00213 UBQ Ubiquitin homol 96.6 0.01 2.2E-07 41.0 6.9 61 185-250 2-62 (64)
32 cd01808 hPLIC_N Ubiquitin-like 96.6 0.015 3.3E-07 42.0 7.8 66 185-255 2-68 (71)
33 cd01812 BAG1_N Ubiquitin-like 96.6 0.014 3.1E-07 41.7 7.5 65 185-254 2-67 (71)
34 PF12090 Spt20: Spt20 family; 96.6 0.002 4.4E-08 55.6 3.6 59 69-128 14-84 (182)
35 cd01814 NTGP5 Ubiquitin-like N 96.5 0.0053 1.2E-07 49.1 5.3 62 182-247 3-72 (113)
36 PF13881 Rad60-SLD_2: Ubiquiti 96.5 0.016 3.5E-07 46.2 7.8 63 183-249 2-72 (111)
37 cd01802 AN1_N ubiquitin-like d 96.4 0.025 5.4E-07 44.5 8.3 69 181-253 25-94 (103)
38 cd01769 UBL Ubiquitin-like dom 96.0 0.052 1.1E-06 37.9 7.6 64 188-255 2-66 (69)
39 cd01797 NIRF_N amino-terminal 95.9 0.052 1.1E-06 40.3 7.7 66 185-254 2-70 (78)
40 cd01763 Sumo Small ubiquitin-r 95.7 0.11 2.5E-06 39.2 9.0 66 181-250 9-74 (87)
41 TIGR00601 rad23 UV excision re 95.3 0.078 1.7E-06 50.9 8.4 66 185-254 2-71 (378)
42 cd01793 Fubi Fubi ubiquitin-li 94.9 0.17 3.8E-06 36.7 7.5 63 185-253 2-65 (74)
43 PF11976 Rad60-SLD: Ubiquitin- 94.9 0.15 3.3E-06 36.5 7.0 62 185-250 2-64 (72)
44 cd01790 Herp_N Homocysteine-re 94.5 0.14 3.1E-06 38.4 6.3 60 184-247 2-65 (79)
45 cd01813 UBP_N UBP ubiquitin pr 94.5 0.27 5.9E-06 36.1 7.5 68 185-254 2-70 (74)
46 cd01800 SF3a120_C Ubiquitin-li 94.4 0.18 3.9E-06 36.9 6.4 59 192-254 6-65 (76)
47 cd01795 USP48_C USP ubiquitin- 93.7 0.19 4.2E-06 39.6 5.6 58 196-256 17-75 (107)
48 cd00196 UBQ Ubiquitin-like pro 92.8 0.24 5.3E-06 31.9 4.5 60 187-250 1-60 (69)
49 cd01799 Hoil1_N Ubiquitin-like 92.5 0.5 1.1E-05 34.9 6.1 57 190-250 9-66 (75)
50 PLN02560 enoyl-CoA reductase 90.7 1.4 3.1E-05 41.1 8.6 71 185-256 2-81 (308)
51 PF14560 Ubiquitin_2: Ubiquiti 90.6 1.2 2.5E-05 33.4 6.5 71 184-254 2-78 (87)
52 PF14836 Ubiquitin_3: Ubiquiti 89.2 1.7 3.7E-05 33.4 6.4 58 195-253 15-74 (88)
53 cd01801 Tsc13_N Ubiquitin-like 88.0 3.6 7.9E-05 30.0 7.4 54 201-256 20-75 (77)
54 KOG0011 Nucleotide excision re 86.8 1.9 4.1E-05 40.6 6.5 69 185-256 2-72 (340)
55 PF11470 TUG-UBL1: GLUT4 regul 86.7 2.4 5.3E-05 30.6 5.7 58 190-251 3-60 (65)
56 PF08817 YukD: WXG100 protein 84.3 3.1 6.6E-05 30.6 5.4 68 183-253 2-75 (79)
57 PF09379 FERM_N: FERM N-termin 83.2 1.4 3E-05 32.0 3.1 62 188-249 1-65 (80)
58 cd01789 Alp11_N Ubiquitin-like 82.8 7.6 0.00016 29.0 7.1 65 184-250 2-72 (84)
59 cd01815 BMSC_UbP_N Ubiquitin-l 82.2 2.8 6E-05 31.3 4.4 48 202-253 19-70 (75)
60 KOG3493 Ubiquitin-like protein 81.9 1.3 2.8E-05 32.2 2.4 25 193-217 11-35 (73)
61 smart00295 B41 Band 4.1 homolo 77.0 5.3 0.00012 33.6 5.2 65 183-248 3-71 (207)
62 cd01777 SNX27_RA Ubiquitin dom 76.7 5.4 0.00012 30.6 4.5 34 184-217 2-35 (87)
63 cd01760 RBD Ubiquitin-like dom 71.4 17 0.00037 26.7 6.0 43 186-228 2-44 (72)
64 cd01787 GRB7_RA RA (RAS-associ 60.9 39 0.00085 25.8 6.3 50 184-234 3-53 (85)
65 KOG0010 Ubiquitin-like protein 60.9 23 0.00049 35.3 6.2 63 183-250 15-77 (493)
66 cd01818 TIAM1_RBD Ubiquitin do 60.2 25 0.00054 26.4 4.9 42 187-228 3-44 (77)
67 PF10302 DUF2407: DUF2407 ubiq 58.6 36 0.00077 26.4 5.9 54 186-240 3-59 (97)
68 smart00455 RBD Raf-like Ras-bi 52.4 51 0.0011 23.8 5.5 43 186-228 2-44 (70)
69 PF02196 RBD: Raf-like Ras-bin 50.0 72 0.0016 23.0 6.0 52 185-237 2-53 (71)
70 smart00666 PB1 PB1 domain. Pho 43.5 99 0.0021 22.1 6.0 44 184-228 2-45 (81)
71 PF00564 PB1: PB1 domain; Int 42.2 67 0.0015 23.0 4.9 46 183-228 1-46 (84)
72 PF13019 Telomere_Sde2: Telome 41.5 1.4E+02 0.003 25.5 7.2 51 185-237 2-57 (162)
73 KOG0005 Ubiquitin-like protein 38.4 97 0.0021 22.3 4.9 66 185-254 2-67 (70)
74 COG5100 NPL4 Nuclear pore prot 35.6 1.2E+02 0.0025 29.9 6.5 66 185-253 2-73 (571)
75 cd06536 CIDE_N_ICAD CIDE_N dom 35.2 19 0.00042 27.2 1.0 18 70-87 42-59 (80)
76 cd01817 RGS12_RBD Ubiquitin do 31.4 1.9E+02 0.0042 21.4 5.7 58 187-245 3-62 (73)
77 smart00266 CAD Domains present 30.4 25 0.00055 26.1 0.9 19 70-88 38-56 (74)
78 cd01615 CIDE_N CIDE_N domain, 30.3 26 0.00057 26.3 1.0 19 69-87 39-57 (78)
79 cd00291 SirA_YedF_YeeD SirA, Y 28.5 91 0.002 21.5 3.6 27 190-216 23-49 (69)
80 PF03562 MltA: MltA specific i 28.5 1E+02 0.0022 26.2 4.4 33 186-219 88-142 (158)
81 cd06538 CIDE_N_FSP27 CIDE_N do 28.1 28 0.0006 26.2 0.8 18 70-87 39-56 (79)
82 PF15044 CLU_N: Mitochondrial 27.4 1.2E+02 0.0027 22.2 4.2 34 201-238 2-37 (76)
83 PF07872 DUF1659: Protein of u 27.1 82 0.0018 21.0 2.9 31 183-213 5-45 (47)
84 PF00788 RA: Ras association ( 25.0 2.6E+02 0.0057 20.0 7.2 58 184-242 3-70 (93)
85 KOG0625 Phosphoglucomutase [Ca 24.7 27 0.00058 34.4 0.2 36 184-219 484-520 (558)
86 PF01206 TusA: Sulfurtransfera 24.0 98 0.0021 21.6 3.1 27 190-216 24-50 (70)
87 cd01788 ElonginB Ubiquitin-lik 23.0 1.8E+02 0.0039 23.6 4.6 50 196-249 14-63 (119)
88 PF14162 YozD: YozD-like prote 22.8 55 0.0012 22.8 1.4 14 98-111 18-31 (57)
89 cd06407 PB1_NLP A PB1 domain i 22.5 3.3E+02 0.0072 20.2 6.0 43 185-228 2-45 (82)
90 PRK00095 mutL DNA mismatch rep 22.0 1.1E+02 0.0023 31.4 4.0 25 2-30 15-39 (617)
91 PF02824 TGS: TGS domain; Int 20.9 1.5E+02 0.0032 20.5 3.4 28 186-215 1-28 (60)
92 PF13141 DUF3979: Protein of u 20.4 72 0.0016 24.9 1.8 16 67-82 46-61 (114)
No 1
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=100.00 E-value=2.5e-67 Score=486.81 Aligned_cols=252 Identities=49% Similarity=0.803 Sum_probs=211.9
Q ss_pred ccccccCCCCCC--CchHHHHHHHHHHcCCCCCCCCCCCCCCCCCceeeeeeecCCCCCCCCCC-------CCCCceEEE
Q 025134 3 CGMLVQDPSKGD--PNDVDAIFNQAKELGAVEGPLEHLSPSSSSRSFTGTARLLSGETVPSAPQ-------QPEPIVHNI 73 (257)
Q Consensus 3 SG~~V~~p~~~~--~~~v~~if~~A~~~ga~~~~~~~~~~~~~~~~F~G~G~~Lg~~~~~~~~~-------~~~~~~~~l 73 (257)
|||+|.+|+++. .+.|+++|++|+++||++.+... .-.....|.|++.-|.|+.+|...+ .++.+.|+|
T Consensus 112 ~gq~~v~~~~k~~~~e~v~~~~~~a~q~~a~~~~~~~--~~~~~~~~~gs~~~lsg~~~~~~~q~~~~~~~~~~~v~~~l 189 (380)
T KOG2086|consen 112 SGQMVVEPPDKKSSEEDVDEIFGQARQMGAVEGPLAP--SESSSGEFLGSGGDLSGEVVPLGTQQQQREAQPPEPVTVTL 189 (380)
T ss_pred ccccccCCCccccHHHHHHHHHhhhcccCccccCccC--ccccccccccccccccCccccCCcccCcccccCCCcceeEE
Confidence 676666665543 35899999999999997644211 1123467889988888888775443 257799999
Q ss_pred EEeccceeecCCCCccCCChhhHHHHHHHhcCCCCCcccCCCCCCceEEEEe-cccccCCCCCCCCccccccccccccCC
Q 025134 74 VFWANGFTVNDGPLRRLDDPENASFLESIKKSECPKELEPADKRSSVHVNLI-RRDVKCPEPEKHHVPFQGVGRTLGSSS 152 (257)
Q Consensus 74 ~lw~nGF~VddGp~R~y~dP~n~~FL~~I~~G~~P~EL~~~~~~~~V~v~l~-~r~e~y~~p~~~~~~F~G~G~~LGs~~ 152 (257)
+||||||+|||||||+|+||+|++||++|++|+||.||+.++++++|+|+|+ ||+|+|.+|++.+++|+|+||+||++.
T Consensus 190 ~lW~nGFsvdDGplr~ydDP~N~~fL~~I~~Ge~P~eL~~~~~~~~V~v~v~~~r~E~~~~~~~~~~pF~G~Gq~LGs~~ 269 (380)
T KOG2086|consen 190 KLWKNGFSVDDGPLRSYDDPANAEFLESIRKGEAPSELLPVDPGQEVDVKVEDHRDEDYLEPKPVFKPFSGEGQRLGSTA 269 (380)
T ss_pred EEeeccccccCCCcccccChhHHHHHHHHhccCCCHHHhccccCCccceeccccccccccCCCcccCCCCCcCeecCCcC
Confidence 9999999999999999999999999999999999999999999999999999 589999999888999999999999987
Q ss_pred CCCCCCC-CCCCC---CC-CCCCCCCCcccCCCCCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCC-CcCeEE
Q 025134 153 TAASEPT-VDSTP---VN-TASSSSEGLVVDENLPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGT-ARNYQL 226 (257)
Q Consensus 153 p~~~~~~-~~~~~---~~-~~~~~~~~~~vd~s~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~-~~~f~L 226 (257)
|....++ +.... ++ .+..+...+.+|+..|+|+|||||+||+|+|++||++|||.|||.||..++|.+ ..+|.|
T Consensus 270 p~~~~ss~~~~~~~~p~~~~~~~~~~sl~~d~~~PtTsIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L 349 (380)
T KOG2086|consen 270 PGVSGSSSPPLTATVPANTQERSASSSLVIDPAEPTTSIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFIL 349 (380)
T ss_pred CCccccCCCcccccCCccccccccccccccCCCCCcceEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceee
Confidence 7654322 11111 11 223356678899999999999999999999999999999999999999999987 568999
Q ss_pred EecCCCCcccCCccCcHhhhCCCCeeEEeeC
Q 025134 227 QMMGFPPKVLADRTQTIEQAGLANSVVIQKF 257 (257)
Q Consensus 227 ~t~~fP~k~l~d~s~TL~eagL~navivqk~ 257 (257)
++ +||+|+|+|+++|||+|||+|+||||||
T Consensus 350 ~~-~FPpk~l~D~sqTle~AgL~Nsvlvqr~ 379 (380)
T KOG2086|consen 350 MM-AFPPKPLSDDSQTLEEAGLLNSVLVQRL 379 (380)
T ss_pred ee-cCCCcccCCcchhHHhccchhhhhhhhc
Confidence 98 9999999999999999999999999997
No 2
>smart00553 SEP Domain present in Saccharomyces cerevisiae Shp1, Drosophila melanogaster eyes closed gene (eyc), and vertebrate p47.
Probab=100.00 E-value=4.8e-37 Score=236.77 Aligned_cols=89 Identities=46% Similarity=0.814 Sum_probs=84.3
Q ss_pred CceEEEEEeccceeecCCCCccCCChhhHHHHHHHhcCCCCCcccCCCCCCceEEEEe-cccccCCCCCCCCcccccccc
Q 025134 68 PIVHNIVFWANGFTVNDGPLRRLDDPENASFLESIKKSECPKELEPADKRSSVHVNLI-RRDVKCPEPEKHHVPFQGVGR 146 (257)
Q Consensus 68 ~~~~~l~lw~nGF~VddGp~R~y~dP~n~~FL~~I~~G~~P~EL~~~~~~~~V~v~l~-~r~e~y~~p~~~~~~F~G~G~ 146 (257)
.+.|+||||+|||+|||||||+||||+|++||++|++|++|.||++.++++.|+|+|+ +|+|+|++|++++++|+|+||
T Consensus 2 ~v~~~ltlw~nGFtVdDGplr~yddP~N~~FL~~I~~G~~P~EL~~~~~~~~V~v~l~d~~~E~y~~p~~~~~~F~G~G~ 81 (93)
T smart00553 2 KVIVVLTFWSNGFSVDDGPLRTYDDPENAEFLESIRRGEAPLELLRVDKGQPVNVDVEDHRDEDYVAPPKAFKPFSGSGQ 81 (93)
T ss_pred CeEEEEEEecCCcEecCCCcccCCCHhHHHHHHHHHcCCCCHHHHhhcCCCcEEEEeEeccCccccCCCCCccCCccCCc
Confidence 5789999999999999999999999999999999999999999999999999999998 679999999888999999999
Q ss_pred ccccCCCCCC
Q 025134 147 TLGSSSTAAS 156 (257)
Q Consensus 147 ~LGs~~p~~~ 156 (257)
+||+++|...
T Consensus 82 ~LGs~~p~~~ 91 (93)
T smart00553 82 KLGSPGPQSL 91 (93)
T ss_pred cCCCCCCCcc
Confidence 9999988764
No 3
>PF08059 SEP: SEP domain; InterPro: IPR012989 The SEP (after shp1, eyc and p47) domain is an eukaryotic domain, which occurs frequently and mainly in single units. Almost all proteins containing a SEP domain are succeeded closely by a UBX domain (see PDOC50033 from PROSITEDOC). The function of the SEP domain is as yet unknown but it has been proposed to act as a reversible competitive inhibitor of the lysosomal cysteine protease cathepsin L [, ]. The sructure of the SEP domain comprises a beta-sheet composed of four strands, and two alpha-helices. One side of the beta-sheet faces alpha1 and alpha2. The longer helix alpha1 packs against the four- stranded beta-sheet, where as the shorter helix alpha2 is located at one edge of the globular structure formed by alpha1 and the four stranded beta sheet. A number of highly conserved hydrophobic residues are present in the SEP domain, which are predominantly buried and form the hydrophobic core [, ]. Some proteins known to contain a SEP domain are listed below: - Eukaryotic NSFL1 cofactor p37 (or p97 cofactor p37), an adapter protein required for Golgi and endoplasmic reticulum biogenesis. It is involved in Golgi and endoplasmic reticulum maintenance during interphase and in their reassembly at the end of mitosis. - Eukaryotic NSFL1 cofactor p47 (or p97 cofactor p47), a major adaptor molecule of the cytosolic AAA-type ATPase (ATPases associated with various cellular activities) p97. p47 is required for the p97-regulated membrane reassembly of the endoplasmic reticulum (ER), the nuclear envelope and the Golgi apparatus. - Vertebrate UBX domain-containing protein 4 (UBXD4). - Plant UBA and UBX domain-containing protein. - Saccharomyces cerevisiae (Baker's yeast) UBX domain-containing protein 1 or Suppressor of high-copy PP1 protein (shp1), the homologue of p47. - Drosophila melanogaster (Fruit fly) eyes closed (eyc). ; PDB: 1S3S_G 1VAZ_A 1SS6_A.
Probab=99.97 E-value=3.6e-32 Score=202.43 Aligned_cols=74 Identities=50% Similarity=0.855 Sum_probs=65.5
Q ss_pred EEEeccceeecCCCCccCCChhhHHHHHHHhcCCCCCcccCCCCCCceEEEEec-ccccCCCCCCCCcccccccc
Q 025134 73 IVFWANGFTVNDGPLRRLDDPENASFLESIKKSECPKELEPADKRSSVHVNLIR-RDVKCPEPEKHHVPFQGVGR 146 (257)
Q Consensus 73 l~lw~nGF~VddGp~R~y~dP~n~~FL~~I~~G~~P~EL~~~~~~~~V~v~l~~-r~e~y~~p~~~~~~F~G~G~ 146 (257)
||||+|||+|||||||+|+||+|++||++|++|++|.||+..+|++.|+|+|++ |+|+|++|++++++|+|+||
T Consensus 1 l~~w~nGf~VddGplR~y~dp~n~~Fl~~I~~G~~P~EL~~~~p~~~v~v~l~d~~~e~y~~~~~~~~~F~G~G~ 75 (75)
T PF08059_consen 1 LTFWRNGFTVDDGPLRPYDDPENAQFLEDINRGYFPSELQQRYPGDGVDVNLEDRRDEDYVPPKKKFKPFSGQGH 75 (75)
T ss_dssp EEEETTEEEETTS-EEETTSTTCHHHHHHHHHT--SCHHHCTTSSS-EEEEEEEECTTSS-SSSSSSTTS-SSSS
T ss_pred CEEecCceEecCCCcccCCCHhHHHHHHHHHhcCCCHHHHhccCCCeEEEEEEeCCCCccCCCCccccCCCcCCC
Confidence 799999999999999999999999999999999999999999998899999995 59999999888999999997
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=99.93 E-value=1.8e-25 Score=168.02 Aligned_cols=76 Identities=46% Similarity=0.773 Sum_probs=71.9
Q ss_pred CCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCC-CcCeEEEecCCCCcccCCccCcHhhhCCCCeeEEeeC
Q 025134 181 LPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGT-ARNYQLQMMGFPPKVLADRTQTIEQAGLANSVVIQKF 257 (257)
Q Consensus 181 ~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~-~~~f~L~t~~fP~k~l~d~s~TL~eagL~navivqk~ 257 (257)
+|+|+||||||||+|++++||.+|||+|||+||.++.++. ..+|.|++ +||+|+|+|+++||+||||+||+|+|||
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 EPTTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMT-AFPVKELSDESLTLKEANLLNAVIVQRL 78 (79)
T ss_pred CCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEec-CCCCcccCCCCCcHHHCCCcCcEEEEEe
Confidence 6899999999999999999999999999999999987654 58999999 9999999988999999999999999998
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=99.85 E-value=6.2e-21 Score=142.05 Aligned_cols=74 Identities=43% Similarity=0.779 Sum_probs=68.5
Q ss_pred CceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCC--ccCcHhhhCCCCeeEEeeC
Q 025134 182 PSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLAD--RTQTIEQAGLANSVVIQKF 257 (257)
Q Consensus 182 p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d--~s~TL~eagL~navivqk~ 257 (257)
|+|+||||||||+|++++|+.++||+|||+||..+... ..+|.|++ +||+|.|++ .++||+||||.|++++++|
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-AEPFTLMT-SFPRRVLTDLDYELTLQEAGLVNEVVFQRL 76 (77)
T ss_pred CcEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEe-CCCCccCCCCCccCcHHHcCCccceEEEEe
Confidence 68999999999999999999999999999999987543 57899999 999999986 7999999999999999987
No 6
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=99.80 E-value=2.8e-19 Score=134.11 Aligned_cols=76 Identities=24% Similarity=0.430 Sum_probs=67.2
Q ss_pred CCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCc--cCcHhhhCCC-CeeEEeeC
Q 025134 181 LPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADR--TQTIEQAGLA-NSVVIQKF 257 (257)
Q Consensus 181 ~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~--s~TL~eagL~-navivqk~ 257 (257)
++.|+||||||||+|++++|+.++||+|||+||.........+|.|++ +||+|.|++. ++||+|+||+ +++|+++|
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 SDQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNS-PFPRRTFTKDDYSKTLLELALLPSSTLVLEP 80 (80)
T ss_pred CCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEe-CCCCcCCccccccCCHHHCCCCCceEEEEeC
Confidence 478999999999999999999999999999999665433457899999 9999999854 7999999999 58888876
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=99.79 E-value=6e-19 Score=133.27 Aligned_cols=73 Identities=22% Similarity=0.373 Sum_probs=65.1
Q ss_pred CCCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccC--CccCcHhhhCCCC-eeEE
Q 025134 180 NLPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLA--DRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 180 s~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~--d~s~TL~eagL~n-aviv 254 (257)
++|+|+||||||||+|++++|+.++||.+||.||.+. .....+|.|+| +||+|.|+ |.++||+||||++ ++|+
T Consensus 2 ~~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~~-g~~~~~f~L~t-~FPRr~~~~~d~~~TL~e~GL~P~~~Lf 77 (82)
T cd01773 2 NGPKARLMLRYPDGKREQIALPEQAKLLALVRHVQSK-GYPNERFELLT-NFPRRKLSHLDYDITLQEAGLCPQETVF 77 (82)
T ss_pred CCCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEec-CCCCcccCCcccCCCHHHcCCCCCcEEE
Confidence 7899999999999999999999999999999999883 34468899999 99999997 5579999999997 4443
No 8
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.79 E-value=6e-19 Score=134.36 Aligned_cols=70 Identities=29% Similarity=0.488 Sum_probs=61.9
Q ss_pred CCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccC-------CccCcHhhhCCCCee
Q 025134 181 LPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLA-------DRTQTIEQAGLANSV 252 (257)
Q Consensus 181 ~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~-------d~s~TL~eagL~nav 252 (257)
...|+||||||||+|+++||+.+|||++||+||.. .+....+|.|++ +||+|.|+ |.++||+||||.+++
T Consensus 2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t-~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~ 78 (85)
T cd01774 2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVT-NFPRRVLPCLPSEGDPPPPTLLEAGLSNSE 78 (85)
T ss_pred CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEec-CCCCccccccccccCcCCCCHHHcCCCCcc
Confidence 35799999999999999999999999999999964 545567899999 99999997 458899999999853
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=99.76 E-value=3.9e-18 Score=128.46 Aligned_cols=73 Identities=19% Similarity=0.293 Sum_probs=64.0
Q ss_pred CCCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccC--CccCcHhhhCCCC-eeEE
Q 025134 180 NLPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLA--DRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 180 s~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~--d~s~TL~eagL~n-aviv 254 (257)
.+|+++||||||||+|+++||+.++||++||+||.+.. ....+|.|++ +||+|.|+ |.+.||+|+||.+ ++|+
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 GEPISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASKG-YPIDEYKLLS-SWPRRDLTQLDPNFTLLELKLYPQETLI 76 (80)
T ss_pred CCCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhcC-CCCCCEEEec-CCCCCCCcCCCCCCcHHHcCCCCCcEEE
Confidence 36899999999999999999999999999999998753 2346899999 99999997 5678999999996 5554
No 10
>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=99.76 E-value=2.4e-18 Score=129.00 Aligned_cols=78 Identities=29% Similarity=0.531 Sum_probs=67.5
Q ss_pred CCCCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCc-CeEEEecCCCCcccCCcc-CcHhhhCCCC-eeEEe
Q 025134 179 ENLPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTAR-NYQLQMMGFPPKVLADRT-QTIEQAGLAN-SVVIQ 255 (257)
Q Consensus 179 ~s~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~-~f~L~t~~fP~k~l~d~s-~TL~eagL~n-avivq 255 (257)
+..+.|+||||||||++++++|+.++||++||+||......... .|.|++ +||++.|++++ +||+|+||.+ ++|++
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 EESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELIT-AFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp STSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEE-SSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred CCCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEe-CCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 35678999999999999999999999999999999886544434 399999 99999999655 9999999995 88888
Q ss_pred eC
Q 025134 256 KF 257 (257)
Q Consensus 256 k~ 257 (257)
+|
T Consensus 81 ~~ 82 (82)
T PF00789_consen 81 EK 82 (82)
T ss_dssp E-
T ss_pred EC
Confidence 76
No 11
>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=99.75 E-value=7.8e-18 Score=126.37 Aligned_cols=71 Identities=30% Similarity=0.544 Sum_probs=62.3
Q ss_pred CceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccC--CccCcHhhhCCCC-eeEE
Q 025134 182 PSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLA--DRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 182 p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~--d~s~TL~eagL~n-aviv 254 (257)
..|+||||||||+|++.+|+.++||.+||+||..+... ..+|.|++ +||+|.|+ |.++||+|+||.+ |+|+
T Consensus 3 ~~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~-~~~f~L~t-~fPrk~~~~~d~~~TL~elgL~Psa~L~ 76 (79)
T cd01772 3 TETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGN-GGPFTLMT-PFPRKVFTEDDMEKPLQELGLVPSAVLI 76 (79)
T ss_pred cEEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCC-CCCEEEEe-CCCCeECCcccccCCHHHCCCCCceEEE
Confidence 46899999999999999999999999999999886533 47899999 99999998 4589999999997 4443
No 12
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.33 E-value=6.3e-12 Score=112.98 Aligned_cols=77 Identities=26% Similarity=0.496 Sum_probs=67.9
Q ss_pred CCCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccC--CccCcHhhhCCCC-eeEEee
Q 025134 180 NLPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLA--DRTQTIEQAGLAN-SVVIQK 256 (257)
Q Consensus 180 s~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~--d~s~TL~eagL~n-avivqk 256 (257)
....|+|||||+||+.+..+||...|+.+||.||..++.+...+|.|++ +||++.|+ |...+|++++|++ |+|+.+
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 DYSQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHT-GFPRVTFTEDDELKPLQELDLVPSAVLILE 285 (290)
T ss_pred cccceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeec-CCCceecccccccccHHHhccccchheecc
Confidence 3568999999999999999999999999999999998866667999999 99999997 5578999999998 666654
Q ss_pred C
Q 025134 257 F 257 (257)
Q Consensus 257 ~ 257 (257)
|
T Consensus 286 ~ 286 (290)
T KOG2689|consen 286 P 286 (290)
T ss_pred c
Confidence 3
No 13
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=99.00 E-value=2.6e-10 Score=105.70 Aligned_cols=72 Identities=28% Similarity=0.419 Sum_probs=62.9
Q ss_pred ceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCC-CcCeEEEecCCCCcccC--CccCcHhhhCCCCe--eEEe
Q 025134 183 STSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGT-ARNYQLQMMGFPPKVLA--DRTQTIEQAGLANS--VVIQ 255 (257)
Q Consensus 183 ~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~-~~~f~L~t~~fP~k~l~--d~s~TL~eagL~na--vivq 255 (257)
+|+|+||+|||+|.++||..++||.-||.|+..+..+. ...|.|++ +||++.+. +.+.||+||||.|+ ++.+
T Consensus 277 vt~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~-a~P~~k~l~~~~daT~~eaGL~nS~~~~~~ 353 (356)
T KOG1364|consen 277 VTSIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQ-AIPASKTLDYGADATFKEAGLANSETLLSV 353 (356)
T ss_pred eeEEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeee-cccchhhhhccccchHHHhccCcccccccc
Confidence 68899999999999999999999999999999877655 67899999 99987765 45789999999998 4444
No 14
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=98.82 E-value=3.3e-09 Score=100.52 Aligned_cols=69 Identities=17% Similarity=0.339 Sum_probs=61.7
Q ss_pred CCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccC--CccCcHhhhCCCC
Q 025134 181 LPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLA--DRTQTIEQAGLAN 250 (257)
Q Consensus 181 ~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~--d~s~TL~eagL~n 250 (257)
-..|+||||||||+.++-+|..++-+..|++||.+........|.|.+ .||+|+++ |.++||-|+.|.+
T Consensus 312 ~d~~rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~Lat-pyPRReft~eDy~KtllEl~L~p 382 (506)
T KOG2507|consen 312 ADDVRLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLAT-PYPRREFTDEDYDKTLLELRLFP 382 (506)
T ss_pred cceeEEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeecc-ccccccccchhhhhhHHHhccCC
Confidence 367999999999999999999999999999999875433468999999 99999998 4578999999996
No 15
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=98.32 E-value=1.1e-06 Score=85.45 Aligned_cols=74 Identities=24% Similarity=0.453 Sum_probs=63.9
Q ss_pred CCCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCC--ccCcHhhhCCCC--eeEEe
Q 025134 180 NLPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLAD--RTQTIEQAGLAN--SVVIQ 255 (257)
Q Consensus 180 s~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d--~s~TL~eagL~n--avivq 255 (257)
..++.+|.||+|+|+|+.+||..++++++||+||..+. .....|.|.+ +||++.+.+ .+.||++.||.+ .+|++
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-FHPEEYSLNT-SFPRRPLGDYEHSSSLQDIGLTPRQETLFL 457 (460)
T ss_pred cccceeeEEECCCCCeeeeeeecccchhHHHHHHHhcc-CCchhhcccc-CCCcccccccccccccccCCcccccceeee
Confidence 45689999999999999999999999999999998865 4467899999 999999984 478999999996 44443
No 16
>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=97.62 E-value=0.00029 Score=51.44 Aligned_cols=68 Identities=15% Similarity=0.226 Sum_probs=54.4
Q ss_pred EEEEcC-CCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEEee
Q 025134 186 VQIRLA-DGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVIQK 256 (257)
Q Consensus 186 iqIRl~-dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avivqk 256 (257)
|-||+. +|+...+.+..+.||++|...|.....-......|+. =.+.|+|++.||+++|+.+ ++|+.|
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 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIY---NGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEE---CCeEccCCcccHHHcCCCCCCEEEEe
Confidence 458899 8998999999999999999999875422244566654 5889999889999999995 777654
No 17
>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=97.41 E-value=0.0007 Score=49.46 Aligned_cols=65 Identities=15% Similarity=0.305 Sum_probs=50.8
Q ss_pred EEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCCeeEE
Q 025134 186 VQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLANSVVI 254 (257)
Q Consensus 186 iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~naviv 254 (257)
+.||+.+|+...+.+..++||++|++.|.....-......|. |=.+.|+| +.||+++++.+..+|
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 468999999999999999999999999977532123445554 56788888 589999999964443
No 18
>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=97.29 E-value=0.0018 Score=48.14 Aligned_cols=68 Identities=19% Similarity=0.222 Sum_probs=55.0
Q ss_pred eEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 184 TSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 184 t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
..|.||..+|+.+.+.+..+.||++|.+-|.....-....+.|.. -|-.+.|.|+ .||.+.|+.+ ++|
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~-~~~G~~L~D~-~tL~~~gi~~gs~l 71 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAH-LDSREVLQDG-VPLVSQGLGPGSTV 71 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEe-ccCCCCCCCC-CCHHHcCCCCCCEE
Confidence 478999999999999999999999999999876432345677765 5777888874 7999999985 444
No 19
>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=97.26 E-value=0.0022 Score=46.36 Aligned_cols=65 Identities=14% Similarity=0.243 Sum_probs=51.6
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
+|.||..+|+.+.+++..+.||++|.+.|.....-......|. |-.+.|+| +.||.+.++.+ ++|
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~---~~g~~L~d-~~tl~~~~i~~g~~i 67 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLI---YSGKQMND-DKTAADYKLEGGSVL 67 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEE---ECCeEccC-CCCHHHcCCCCCCEE
Confidence 5889999999999999999999999999987542223445555 46888877 58999999996 444
No 20
>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=97.20 E-value=0.0022 Score=46.88 Aligned_cols=66 Identities=12% Similarity=0.212 Sum_probs=53.2
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
+|.||..+|+.+.+.+..++||++|++-|.....-......|.. =.+.|+|+ .||.+.|+.+ ++|.
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~---~G~~L~d~-~~L~~~~i~~~~~l~ 68 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLF---KGKALADD-KRLSDYSIGPNAKLN 68 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEE---CCEECCCC-CCHHHCCCCCCCEEE
Confidence 68899999999999999999999999999875322245677764 58889874 8999999995 5553
No 21
>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=97.18 E-value=0.0028 Score=47.06 Aligned_cols=66 Identities=17% Similarity=0.197 Sum_probs=51.5
Q ss_pred eEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 184 TSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 184 t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
.+|.||...|+...+.+..+.||++|++-|+....-......| .|..+.|.|. ||+++|+.+ ++|.
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL---~~~Gk~L~d~--~L~~~gi~~~~~i~ 68 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLAL---LHRETRLSSG--KLQDLGLGDGSKLT 68 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEE---EECCcCCCCC--cHHHcCCCCCCEEE
Confidence 4789999999999999999999999999997754212233444 4678889885 899999985 5554
No 22
>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=97.13 E-value=0.0037 Score=46.09 Aligned_cols=67 Identities=15% Similarity=0.115 Sum_probs=52.1
Q ss_pred eEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 184 TSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 184 t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
.+|.||-..|+.+...+..++||++|.+.|.....-....-.| .|..+.|.| +.||++.||.+ ++|.
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrL---i~~Gk~L~D-~~tL~~ygi~~~stv~ 69 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVL---KKWYTIFKD-HISLGDYEIHDGMNLE 69 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEE---EeCCcCCCC-CCCHHHcCCCCCCEEE
Confidence 5788999999999999999999999999998764222333344 456888887 47999999986 5554
No 23
>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=97.00 E-value=0.0025 Score=45.41 Aligned_cols=62 Identities=16% Similarity=0.235 Sum_probs=49.8
Q ss_pred EcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 189 RLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 189 Rl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
|..+|+.+.+.++.++||.+|.+.|.....-......|+. -.+.|. ++.||.+.|+.+ ++|+
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~---~G~~L~-d~~tL~~~~i~~~~~I~ 63 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIY---NGKELD-DDKTLSDYGIKDGSTIH 63 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEE---TTEEES-TTSBTGGGTTSTTEEEE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeee---eeeccc-CcCcHHHcCCCCCCEEE
Confidence 5678999999999999999999999886543345666664 788894 479999999996 6554
No 24
>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=96.99 E-value=0.0057 Score=43.71 Aligned_cols=66 Identities=14% Similarity=0.206 Sum_probs=51.5
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
+|-||..+|+....++..++||++|.+.|.....-......|+ |..+.|.| +.||.+.|+.+ ++|.
T Consensus 2 ~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~---~~g~~L~d-~~~L~~~~i~~~~~l~ 68 (72)
T cd01809 2 EIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLI---YSGRVLKD-DETLSEYKVEDGHTIH 68 (72)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEE---ECCEECCC-cCcHHHCCCCCCCEEE
Confidence 6889999999999999999999999999987542223345555 35777877 58999999986 5543
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=96.95 E-value=0.0064 Score=44.32 Aligned_cols=66 Identities=14% Similarity=0.299 Sum_probs=51.6
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCC--CCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPG--TARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~--~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
.|.||..+|+...+.+..++||++|++.|.....- ......|+ |..+.|.| +.||+++|+.+ ++|+
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~---~~G~~L~d-~~~L~~~~i~~~~~i~ 70 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLI---YSGKILKD-DTTLEEYKIDEKDFVV 70 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEE---ECCEEccC-CCCHHHcCCCCCCEEE
Confidence 57899999999999999999999999999875422 23344554 57889987 48999999995 4443
No 26
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=96.86 E-value=0.0073 Score=43.64 Aligned_cols=65 Identities=17% Similarity=0.265 Sum_probs=51.1
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
.|-||..+|+.+.+.+..++||++|.+.|.....-......|. |..+.|.| +.||.+.|+.+ ++|
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~---~~g~~L~d-~~~L~~~~i~~~~~i 67 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI---FAGKQLED-GRTLSDYNIQKESTL 67 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEE---ECCEECCC-CCcHHHcCCCCCCEE
Confidence 5789999999999999999999999999987542223345554 46888887 47999999986 444
No 27
>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=96.79 E-value=0.0017 Score=48.82 Aligned_cols=69 Identities=17% Similarity=0.228 Sum_probs=40.8
Q ss_pred eEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCC-cccC-CccCcHhhhCCCCeeEE
Q 025134 184 TSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPP-KVLA-DRTQTIEQAGLANSVVI 254 (257)
Q Consensus 184 t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~-k~l~-d~s~TL~eagL~naviv 254 (257)
.-||||.+||.. .+.+..++|+++|++-|..........|.|.. .... .++. +.++||+++||.++-++
T Consensus 5 milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~-~~~~~~~l~s~~~~tl~~lglkHGdml 75 (80)
T PF11543_consen 5 MILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPDSSQSLSK-DRNNKEELKSSDSKTLSSLGLKHGDML 75 (80)
T ss_dssp -EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---TTT---BS-SGGGGGCSSS-TT-CCCCT---TT-EE
T ss_pred EEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCCcceEEEe-cCCCCcccccCCcCCHHHcCCCCccEE
Confidence 468999999964 33578999999999999987654456788876 5444 3453 66899999999975443
No 28
>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=96.75 E-value=0.0065 Score=43.77 Aligned_cols=64 Identities=17% Similarity=0.308 Sum_probs=51.2
Q ss_pred EEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 186 VQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 186 iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
|-||..+|..+.+.+..++||++|.+.|.....-......|. |=.+.|+|+ .||.++|+.+ ++|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li---~~G~~L~d~-~~l~~~~i~~~stl 65 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVI---FAGKELRNT-TTIQECDLGQQSIL 65 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEE---ECCeECCCC-CcHHHcCCCCCCEE
Confidence 458999999999999999999999999987642224456665 468889874 9999999995 555
No 29
>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=96.73 E-value=0.0072 Score=44.13 Aligned_cols=64 Identities=19% Similarity=0.336 Sum_probs=51.5
Q ss_pred EEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 186 VQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 186 iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
|-||.++|+...+.+..++||++|++-|.....-....+.|. |=.+.|.|+ .||.+.|+.+ ++|
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 468999999999999999999999999977532224567776 468899875 8999999985 544
No 30
>PTZ00044 ubiquitin; Provisional
Probab=96.72 E-value=0.01 Score=43.20 Aligned_cols=65 Identities=12% Similarity=0.252 Sum_probs=51.9
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
.|-||..+|+.+++++..++||++|..-|.....-......|. |-.+.|+| +.||.+.++.+ ++|
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~---~~g~~L~d-~~~l~~~~i~~~~~i 67 (76)
T PTZ00044 2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLI---YSGKQMSD-DLKLSDYKVVPGSTI 67 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE---ECCEEccC-CCcHHHcCCCCCCEE
Confidence 4789999999999999999999999999988642224456665 46888886 57899999995 444
No 31
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=96.64 E-value=0.01 Score=40.97 Aligned_cols=61 Identities=16% Similarity=0.230 Sum_probs=47.6
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN 250 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n 250 (257)
.|.||..+ ....+++..+.||++|...|.....-......|+. -.+.|.| +.||.++|+.+
T Consensus 2 ~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~---~g~~L~d-~~tL~~~~i~~ 62 (64)
T smart00213 2 ELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIY---KGKVLED-DRTLADYNIQD 62 (64)
T ss_pred EEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEE---CCEECCC-CCCHHHcCCcC
Confidence 57899998 67889999999999999999875422233456654 4788887 48999999975
No 32
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=96.59 E-value=0.015 Score=41.97 Aligned_cols=66 Identities=15% Similarity=0.214 Sum_probs=50.7
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEEe
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVIQ 255 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avivq 255 (257)
+|-||..+|. ..+.+..+.||++|++-|+....-....+.|. |..+.|.|+ .||.++|+.+ ++|..
T Consensus 2 ~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li---~~Gk~L~d~-~tL~~~~i~~~stl~l 68 (71)
T cd01808 2 KVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLI---FAGKILKDT-DTLTQHNIKDGLTVHL 68 (71)
T ss_pred EEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEE---ECCeEcCCC-CcHHHcCCCCCCEEEE
Confidence 5788999996 58899999999999999987542223456664 578889874 7999999985 66643
No 33
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=96.59 E-value=0.014 Score=41.65 Aligned_cols=65 Identities=18% Similarity=0.298 Sum_probs=49.6
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
+|.||.. |....+++..+.||++|.+-|.....-......|.. -.+.|.| +.||.++|+.+ ++|+
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-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIF---KGKERDD-AETLDMSGVKDGSKVM 67 (71)
T ss_pred EEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEee---CCcccCc-cCcHHHcCCCCCCEEE
Confidence 5788886 777889999999999999999875422345567764 4677876 58999999986 4544
No 34
>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=96.59 E-value=0.002 Score=55.64 Aligned_cols=59 Identities=20% Similarity=0.249 Sum_probs=48.7
Q ss_pred ceEEEEEeccceee----cCCCCccCCChhhHHHHHHHhcCCCCCcccCCC-------CCCceEEEEe-ccc
Q 025134 69 IVHNIVFWANGFTV----NDGPLRRLDDPENASFLESIKKSECPKELEPAD-------KRSSVHVNLI-RRD 128 (257)
Q Consensus 69 ~~~~l~lw~nGF~V----ddGp~R~y~dP~n~~FL~~I~~G~~P~EL~~~~-------~~~~V~v~l~-~r~ 128 (257)
....|+||-++|.+ .++-..+|++|. +.||+.|.+|.+|..|.+.. .+|-|-|+|. +|.
T Consensus 14 pSl~vhL~p~~f~f~~~~~~~~~~pY~~~~-k~~L~~I~~~~iP~~Lle~l~~~~v~FYdGClIveV~D~R~ 84 (182)
T PF12090_consen 14 PSLIVHLYPNHFRFSLNDQQDGSFPYNSPM-KEFLEYIDAGEIPHDLLELLDDANVPFYDGCLIVEVRDHRS 84 (182)
T ss_pred CeEEEEECCCCeeEeecCCCCceecCCchH-HHHHHHHHcCCCCHHHHHHHHhCCCeeEcCEEEEEEecccc
Confidence 46889999999999 577789999999 99999999999999887653 3555677776 354
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=96.53 E-value=0.0053 Score=49.10 Aligned_cols=62 Identities=16% Similarity=0.302 Sum_probs=48.8
Q ss_pred CceEEEEEcCCCCEE-EEEeCCCCCHHHHHHHHHhhCCCC-------CcCeEEEecCCCCcccCCccCcHhhhC
Q 025134 182 PSTSVQIRLADGTRL-IAHFNLHHTISDIHSFIDASRPGT-------ARNYQLQMMGFPPKVLADRTQTIEQAG 247 (257)
Q Consensus 182 p~t~iqIRl~dG~rl-v~~fn~s~TI~dl~~fi~~~~p~~-------~~~f~L~t~~fP~k~l~d~s~TL~eag 247 (257)
...-|+|||+||+-+ -.+|..++||++|.+-|....+.. ...-.|+ |--|.|.| +.||.+++
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 346799999999876 789999999999999998776531 1223444 47788887 59999999
No 36
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=96.47 E-value=0.016 Score=46.22 Aligned_cols=63 Identities=25% Similarity=0.379 Sum_probs=46.2
Q ss_pred ceEEEEEcCCCC-EEEEEeCCCCCHHHHHHHHHhhCCCC-------CcCeEEEecCCCCcccCCccCcHhhhCCC
Q 025134 183 STSVQIRLADGT-RLIAHFNLHHTISDIHSFIDASRPGT-------ARNYQLQMMGFPPKVLADRTQTIEQAGLA 249 (257)
Q Consensus 183 ~t~iqIRl~dG~-rlv~~fn~s~TI~dl~~fi~~~~p~~-------~~~f~L~t~~fP~k~l~d~s~TL~eagL~ 249 (257)
...|++||.||+ +...+|..+.||++|.++|...-|.. .....|+. =-|.|+| +.||.++++.
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 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIY---AGRILED-NKTLSDCRLP 72 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEE---TTEEE-S-SSBTGGGT--
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEe---CCeecCC-cCcHHHhCCC
Confidence 357999999999 88999999999999999999866553 12355554 4567775 6899999877
No 37
>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=96.38 E-value=0.025 Score=44.46 Aligned_cols=69 Identities=12% Similarity=0.102 Sum_probs=55.2
Q ss_pred CCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 181 LPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 181 ~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
.++..|-||..+|+.+.+.+..++||++|++.|.....-......|+. =.+.|+|+ .||++.+|.+ ++|
T Consensus 25 ~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~---~Gk~L~D~-~tL~dy~I~~~stL 94 (103)
T cd01802 25 YDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIW---NNMELEDE-YCLNDYNISEGCTL 94 (103)
T ss_pred CCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEE---CCEECCCC-CcHHHcCCCCCCEE
Confidence 346889999999999999999999999999999875322245577764 57888885 8999999995 444
No 38
>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=95.97 E-value=0.052 Score=37.87 Aligned_cols=64 Identities=17% Similarity=0.310 Sum_probs=47.8
Q ss_pred EEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEEe
Q 025134 188 IRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVIQ 255 (257)
Q Consensus 188 IRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avivq 255 (257)
||..+|..+...+..+.||++|+..|.....-......|+ |-.+.|.| +.||.++++.+ +.|+.
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 5777899999999999999999999988643233445554 34577755 68999999996 54543
No 39
>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=95.94 E-value=0.052 Score=40.35 Aligned_cols=66 Identities=14% Similarity=0.147 Sum_probs=50.3
Q ss_pred EEEEEcCCCCE-EEE-EeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 185 SVQIRLADGTR-LIA-HFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 185 ~iqIRl~dG~r-lv~-~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
.|-||..+|+. ... ....++||++|++.|.....-......|+. =.|.|.| +.||.+.|+.+ ++|.
T Consensus 2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~---~Gk~L~D-~~tL~~y~i~~~~~i~ 70 (78)
T cd01797 2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFY---RGKQMED-GHTLFDYNVGLNDIIQ 70 (78)
T ss_pred EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEe---CCEECCC-CCCHHHcCCCCCCEEE
Confidence 57899999987 356 478899999999999875322245567764 5888987 58999999995 5554
No 40
>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=95.74 E-value=0.11 Score=39.17 Aligned_cols=66 Identities=11% Similarity=0.201 Sum_probs=53.2
Q ss_pred CCceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC
Q 025134 181 LPSTSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN 250 (257)
Q Consensus 181 ~p~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n 250 (257)
....+|.|+..+|+.+.+++..++||..|.+.+.....-....+.|+ |=-+.|.+ +.|++++|+.+
T Consensus 9 ~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~---f~G~~L~~-~~T~~~l~m~d 74 (87)
T cd01763 9 SEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFL---FDGQRIRD-NQTPDDLGMED 74 (87)
T ss_pred CCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEE---ECCeECCC-CCCHHHcCCCC
Confidence 35677888999999999999999999999999987643334556665 45788887 47999999996
No 41
>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=95.33 E-value=0.078 Score=50.87 Aligned_cols=66 Identities=14% Similarity=0.316 Sum_probs=52.6
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCC--CC-CcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRP--GT-ARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p--~~-~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
+|.||..+|+.+.+.+..++||.+|++.|..... .. .....|+ |-.|.|.|+ .||+++||.+ .+||
T Consensus 2 kItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLI---y~GkiL~Dd-~tL~dy~I~e~~~Iv 71 (378)
T TIGR00601 2 TLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLI---YSGKILSDD-KTVREYKIKEKDFVV 71 (378)
T ss_pred EEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEE---ECCEECCCC-CcHHHcCCCCCCEEE
Confidence 6889999999999999999999999999987542 12 3445665 468899874 7999999984 5554
No 42
>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=94.91 E-value=0.17 Score=36.72 Aligned_cols=63 Identities=17% Similarity=0.211 Sum_probs=46.8
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
.|-||. ++.....+..++||++|..-|.....-......|+ |=.+.|+|+ .||+++|+.+ ++|
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 456676 46678899999999999999977532123455665 457889885 9999999986 554
No 43
>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=94.86 E-value=0.15 Score=36.47 Aligned_cols=62 Identities=19% Similarity=0.263 Sum_probs=48.3
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCC-cCeEEEecCCCCcccCCccCcHhhhCCCC
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTA-RNYQLQMMGFPPKVLADRTQTIEQAGLAN 250 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~-~~f~L~t~~fP~k~l~d~s~TL~eagL~n 250 (257)
+|.+|..+|+.+..+...++|++.|.+.++....-.. ..+.|. |=.+.|+. +.|++++||-+
T Consensus 2 ~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~---fdG~~L~~-~~T~~~~~ied 64 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLI---FDGKRLDP-NDTPEDLGIED 64 (72)
T ss_dssp EEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEE---ETTEEE-T-TSCHHHHT-ST
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEE---ECCEEcCC-CCCHHHCCCCC
Confidence 6889999999999999999999999998877543333 567765 46777765 47999999996
No 44
>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=94.54 E-value=0.14 Score=38.44 Aligned_cols=60 Identities=13% Similarity=0.264 Sum_probs=46.2
Q ss_pred eEEEEEcCCCCE--EEEEeCCCCCHHHHHHHHHhhCCC-C-CcCeEEEecCCCCcccCCccCcHhhhC
Q 025134 184 TSVQIRLADGTR--LIAHFNLHHTISDIHSFIDASRPG-T-ARNYQLQMMGFPPKVLADRTQTIEQAG 247 (257)
Q Consensus 184 t~iqIRl~dG~r--lv~~fn~s~TI~dl~~fi~~~~p~-~-~~~f~L~t~~fP~k~l~d~s~TL~eag 247 (257)
.+|.||.++|+. +...+..+.||++|.+-|....+. . ...-.|+ |-.|.|.| +.||++.+
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 468999999998 455558999999999999886543 2 2345565 47889987 48999985
No 45
>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=94.46 E-value=0.27 Score=36.10 Aligned_cols=68 Identities=16% Similarity=0.167 Sum_probs=48.3
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
+|.|++ .|+...+.++.++||++|.+-|.....-....-.|+...|=.+.+.| +.||.++++.+ +.|+
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-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAED-DVKISALKLKPNTKIM 70 (74)
T ss_pred EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCC-CcCHHHcCCCCCCEEE
Confidence 466766 56678899999999999999998864323455667630123455666 69999999985 4444
No 46
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=94.36 E-value=0.18 Score=36.94 Aligned_cols=59 Identities=20% Similarity=0.249 Sum_probs=44.8
Q ss_pred CCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEE
Q 025134 192 DGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVI 254 (257)
Q Consensus 192 dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-aviv 254 (257)
+|+.+.+.+..++||++|.+-|.....-......|+. -.+.|+| +.||.+.++.+ ++|.
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~---~G~~L~d-~~tL~~~~i~~g~~l~ 65 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQY---EGIFIKD-SNSLAYYNLANGTIIH 65 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEE---CCEEcCC-CCcHHHcCCCCCCEEE
Confidence 5777889999999999999999875422245567765 3577777 48999999985 5543
No 47
>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=93.70 E-value=0.19 Score=39.55 Aligned_cols=58 Identities=19% Similarity=0.236 Sum_probs=44.1
Q ss_pred EEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEEee
Q 025134 196 LIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVIQK 256 (257)
Q Consensus 196 lv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avivqk 256 (257)
+.+..+.++||++|...|.+.-......-.|+. . -+.|.|++.||.+.||.. |+|..+
T Consensus 17 ~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~-d--G~~L~DDsrTLssyGv~sgSvl~Ll 75 (107)
T cd01795 17 KALLVSANQTLKELKIQIMHAFSVAPFDQNLSI-D--GKILSDDCATLGTLGVIPESVILLK 75 (107)
T ss_pred ceEEeCccccHHHHHHHHHHHhcCCcccceeee-c--CceeccCCccHHhcCCCCCCEEEEE
Confidence 467799999999999999886432222236776 4 679999999999999996 666543
No 48
>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=92.82 E-value=0.24 Score=31.89 Aligned_cols=60 Identities=18% Similarity=0.222 Sum_probs=42.9
Q ss_pred EEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC
Q 025134 187 QIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN 250 (257)
Q Consensus 187 qIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n 250 (257)
+|++.+|+.....++.++||++|++.|..........|.|.. ..+.. .+ ..++.+.++.+
T Consensus 1 ~v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~-~~~~~--~~-~~~~~~~~~~~ 60 (69)
T cd00196 1 KVKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLV-NGKIL--PD-SLTLEDYGLQD 60 (69)
T ss_pred CeEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEE-CCeEC--CC-CCcHHHcCCCC
Confidence 367779999999999999999999999886543356788887 54432 22 23445566664
No 49
>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=92.47 E-value=0.5 Score=34.88 Aligned_cols=57 Identities=11% Similarity=0.052 Sum_probs=42.6
Q ss_pred cCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCC-C
Q 025134 190 LADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLA-N 250 (257)
Q Consensus 190 l~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~-n 250 (257)
+..|..+.+.+..+.||++|...|.....-......| . -.+.+.|++.||.+.|+. |
T Consensus 9 ~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~---~G~~L~dD~~tL~~ygi~~~ 66 (75)
T cd01799 9 QSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-V---IGQRLARDQETLYSHGIRTN 66 (75)
T ss_pred ccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-E---cCCeeCCCcCCHHHcCCCCC
Confidence 4456778899999999999999998753222344556 3 456687778999999999 5
No 50
>PLN02560 enoyl-CoA reductase
Probab=90.71 E-value=1.4 Score=41.10 Aligned_cols=71 Identities=18% Similarity=0.272 Sum_probs=46.9
Q ss_pred EEEEEcCCCCEE---EEEeCCCCCHHHHHHHHHhhCCC-CCcCeEEEec---CCCCc-ccCCccCcHhhhCCCC-eeEEe
Q 025134 185 SVQIRLADGTRL---IAHFNLHHTISDIHSFIDASRPG-TARNYQLQMM---GFPPK-VLADRTQTIEQAGLAN-SVVIQ 255 (257)
Q Consensus 185 ~iqIRl~dG~rl---v~~fn~s~TI~dl~~fi~~~~p~-~~~~f~L~t~---~fP~k-~l~d~s~TL~eagL~n-avivq 255 (257)
+|.|+..+|+.+ .+.+..+.||+||..-|.+.... ....-.|... +=|.. .|. ++.||++.|+.+ ++|..
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 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLD-DSKSLKDYGLGDGGTVVF 80 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccC-CCCCHHhcCCCCCceEEE
Confidence 478888888876 57889999999999999886432 2223344320 11222 344 467999999985 66654
Q ss_pred e
Q 025134 256 K 256 (257)
Q Consensus 256 k 256 (257)
|
T Consensus 81 k 81 (308)
T PLN02560 81 K 81 (308)
T ss_pred E
Confidence 4
No 51
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=90.60 E-value=1.2 Score=33.42 Aligned_cols=71 Identities=15% Similarity=0.207 Sum_probs=48.0
Q ss_pred eEEEEEcCCCC--EEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEec----CCCCcccCCccCcHhhhCCCCeeEE
Q 025134 184 TSVQIRLADGT--RLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMM----GFPPKVLADRTQTIEQAGLANSVVI 254 (257)
Q Consensus 184 t~iqIRl~dG~--rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~----~fP~k~l~d~s~TL~eagL~naviv 254 (257)
.+|.|.-..-+ ....||..+.||++|..-|.....-......|... .-+...++|+++||..-|+.+...|
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i 78 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRI 78 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEE
Confidence 45677666653 78999999999999999998865333444555441 1122345677899999999974443
No 52
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=89.15 E-value=1.7 Score=33.39 Aligned_cols=58 Identities=21% Similarity=0.134 Sum_probs=34.0
Q ss_pred EEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCC--cccCCccCcHhhhCCCCeeE
Q 025134 195 RLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPP--KVLADRTQTIEQAGLANSVV 253 (257)
Q Consensus 195 rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~--k~l~d~s~TL~eagL~navi 253 (257)
-+...|...|||+.|...+...-.- ...-.|-.+..+. -.|.+...||+||||..+.+
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~ 74 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQV 74 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEE
T ss_pred HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCE
Confidence 4688999999999999998874322 2233333311222 23457789999999997443
No 53
>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=87.96 E-value=3.6 Score=30.03 Aligned_cols=54 Identities=22% Similarity=0.319 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHhhCCCC-CcCeEEEecCCCCcccCCccCcHhhhCCCC-eeEEee
Q 025134 201 NLHHTISDIHSFIDASRPGT-ARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVVIQK 256 (257)
Q Consensus 201 n~s~TI~dl~~fi~~~~p~~-~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avivqk 256 (257)
..+.||+||+..|....... .....|.. .+..+.|.|+ .||.+.|+.+ ++|..|
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~-~~~g~~L~d~-~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRL-EPKGKSLKDD-DTLVDLGVGAGATLYVR 75 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEe-CCCCcccCCc-ccHhhcCCCCCCEEEEe
Confidence 46789999999998764332 34455655 6777888764 6899999986 555543
No 54
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=86.83 E-value=1.9 Score=40.59 Aligned_cols=69 Identities=10% Similarity=0.230 Sum_probs=53.3
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCC-CCCcCeEEEecCCCCcccCCccCcHhhhCCC-CeeEEee
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRP-GTARNYQLQMMGFPPKVLADRTQTIEQAGLA-NSVVIQK 256 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p-~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~-navivqk 256 (257)
+|-||.-.|+.....++.+|||.+|..=|..... ++...+.... |-.|.|.| +.||.|.++. +..||.+
T Consensus 2 ~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLI--y~GkiL~D-~~tv~Eykv~E~~fiVvM 72 (340)
T KOG0011|consen 2 KLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLI--YSGKILKD-ETTVGEYKVKEKKFIVVM 72 (340)
T ss_pred eeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheee--ecceeccC-CcchhhhccccCceEEEE
Confidence 5789999999999999999999999999988542 2333344433 57888888 5999999999 4555543
No 55
>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=86.74 E-value=2.4 Score=30.61 Aligned_cols=58 Identities=16% Similarity=0.111 Sum_probs=37.3
Q ss_pred cCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCCe
Q 025134 190 LADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLANS 251 (257)
Q Consensus 190 l~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~na 251 (257)
.++++|...+...++|+.+|.+-+...-.-....|.|.. =.|.| |.+.++.-+||.|.
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h---~~k~l-dlslp~R~snL~n~ 60 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKH---NNKPL-DLSLPFRLSNLPNN 60 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEE---TTEEE-SSS-BHHHH---SS
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEE---CCEEe-ccccceeecCCCCC
Confidence 468999999999999999999998776433456899987 45666 66899999999973
No 56
>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=84.30 E-value=3.1 Score=30.64 Aligned_cols=68 Identities=13% Similarity=0.130 Sum_probs=44.1
Q ss_pred ceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCC---C-Cc--CeEEEecCCCCcccCCccCcHhhhCCCCeeE
Q 025134 183 STSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPG---T-AR--NYQLQMMGFPPKVLADRTQTIEQAGLANSVV 253 (257)
Q Consensus 183 ~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~---~-~~--~f~L~t~~fP~k~l~d~s~TL~eagL~navi 253 (257)
.++|-|...+|+++-+.+..+.||.+|..-|...... . .. .|.|.+ -..+.|++ +.||.++|+.++-+
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~--~~g~~L~~-~~tL~~~gV~dGd~ 75 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLAR--AGGRPLDP-DQTLADAGVRDGDV 75 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG---GGTEEEET-TSBCGGGT--TT-E
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEe--cCCcccCC-cCcHhHcCCCCCCE
Confidence 4788899988889999999999999999888774322 1 11 466663 35555655 69999999997444
No 57
>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=83.15 E-value=1.4 Score=31.96 Aligned_cols=62 Identities=16% Similarity=0.097 Sum_probs=42.6
Q ss_pred EEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCC-CcCeEEEe-cCC-CCcccCCccCcHhhhCCC
Q 025134 188 IRLADGTRLIAHFNLHHTISDIHSFIDASRPGT-ARNYQLQM-MGF-PPKVLADRTQTIEQAGLA 249 (257)
Q Consensus 188 IRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~-~~~f~L~t-~~f-P~k~l~d~s~TL~eagL~ 249 (257)
|+|+||+.+...++.+.|+.||.+.|.....-. ..-|-|.. ..- ....+-|.+.+|.+..-.
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~ 65 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKK 65 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCC
Confidence 789999999999999999999999998854222 35577765 111 112233667777766544
No 58
>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=82.82 E-value=7.6 Score=29.00 Aligned_cols=65 Identities=15% Similarity=0.214 Sum_probs=44.8
Q ss_pred eEEEEEcCC-CCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCc-----ccCCccCcHhhhCCCC
Q 025134 184 TSVQIRLAD-GTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPK-----VLADRTQTIEQAGLAN 250 (257)
Q Consensus 184 t~iqIRl~d-G~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k-----~l~d~s~TL~eagL~n 250 (257)
.+|.|.... ......||..+.||++|.+-+.....-....-.|.. |..+ .|+|+..+|..-|+.+
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l--~~~~~~~~~~l~~d~~~L~~y~~~d 72 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQL--FDGDDKLVSKLDDDDALLGSYPVDD 72 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEE--EcCCCCeEeecCCCccEeeeccCCC
Confidence 346666643 334688999999999999999775422234445532 3333 5778889999999996
No 59
>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=82.18 E-value=2.8 Score=31.25 Aligned_cols=48 Identities=23% Similarity=0.283 Sum_probs=35.7
Q ss_pred CCCCHHHHHHHHHhhCCC--C-CcCeEEEecCCCCcccCCccCcHhhhCCCC-eeE
Q 025134 202 LHHTISDIHSFIDASRPG--T-ARNYQLQMMGFPPKVLADRTQTIEQAGLAN-SVV 253 (257)
Q Consensus 202 ~s~TI~dl~~fi~~~~p~--~-~~~f~L~t~~fP~k~l~d~s~TL~eagL~n-avi 253 (257)
.++||++|.+-|....++ . ...+.|+ |=.|.|.| +.||++.|+.+ ++|
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 579999999999886422 1 2346665 57888877 48999999995 544
No 60
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=81.89 E-value=1.3 Score=32.24 Aligned_cols=25 Identities=28% Similarity=0.470 Sum_probs=22.8
Q ss_pred CCEEEEEeCCCCCHHHHHHHHHhhC
Q 025134 193 GTRLIAHFNLHHTISDIHSFIDASR 217 (257)
Q Consensus 193 G~rlv~~fn~s~TI~dl~~fi~~~~ 217 (257)
|+.+..+.|.++||+|+...|++..
T Consensus 11 GKKVRvKCn~dDtiGD~KKliaaQt 35 (73)
T KOG3493|consen 11 GKKVRVKCNTDDTIGDLKKLIAAQT 35 (73)
T ss_pred CceEEEEeCCcccccCHHHHHHHhh
Confidence 8889999999999999999998753
No 61
>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=77.02 E-value=5.3 Score=33.57 Aligned_cols=65 Identities=18% Similarity=0.207 Sum_probs=46.6
Q ss_pred ceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCC-CCcCeEEEecCCCCccc---CCccCcHhhhCC
Q 025134 183 STSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPG-TARNYQLQMMGFPPKVL---ADRTQTIEQAGL 248 (257)
Q Consensus 183 ~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~-~~~~f~L~t~~fP~k~l---~d~s~TL~eagL 248 (257)
...|+|.|+||+.+..+++.+.|+.+|.+.|.....- ...-|.|.. .-+.... -+...+|.+...
T Consensus 3 ~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~-~~~~~~~~~~l~~~~~l~~~~~ 71 (207)
T smart00295 3 PRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQF-EDPDEDLSHWLDPAKTLLDQDV 71 (207)
T ss_pred cEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEE-EcCCCCcCeeCCCccCHHHhcC
Confidence 3578999999999999999999999999999885422 245688876 3333222 234566666554
No 62
>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=76.69 E-value=5.4 Score=30.57 Aligned_cols=34 Identities=15% Similarity=0.195 Sum_probs=30.5
Q ss_pred eEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhC
Q 025134 184 TSVQIRLADGTRLIAHFNLHHTISDIHSFIDASR 217 (257)
Q Consensus 184 t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~ 217 (257)
..|+|-||||+++..+...+++..+|++-+....
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl 35 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKA 35 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHh
Confidence 4689999999999999999999999999987743
No 63
>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=71.42 E-value=17 Score=26.69 Aligned_cols=43 Identities=12% Similarity=0.166 Sum_probs=35.2
Q ss_pred EEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEe
Q 025134 186 VQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQM 228 (257)
Q Consensus 186 iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t 228 (257)
++|=||||++-+......+||.|+-.=+...+.-....+.|..
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~ 44 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFL 44 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEE
Confidence 5677999999999999999999999988776644445666665
No 64
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=60.92 E-value=39 Score=25.78 Aligned_cols=50 Identities=14% Similarity=0.182 Sum_probs=41.6
Q ss_pred eEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCC-CCCcCeEEEecCCCCc
Q 025134 184 TSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRP-GTARNYQLQMMGFPPK 234 (257)
Q Consensus 184 t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p-~~~~~f~L~t~~fP~k 234 (257)
--|+|=++||+...+-+..++|++||-+.+....- .....+.|+- ..|--
T Consensus 3 ~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE-~~P~l 53 (85)
T cd01787 3 QVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVE-HLPHL 53 (85)
T ss_pred eEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEE-ecchh
Confidence 35788899999999999999999999998877432 2367899998 88875
No 65
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=60.87 E-value=23 Score=35.25 Aligned_cols=63 Identities=13% Similarity=0.275 Sum_probs=50.0
Q ss_pred ceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCC
Q 025134 183 STSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLAN 250 (257)
Q Consensus 183 ~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~n 250 (257)
.++|.||.++. +..+....+.||.++.+-|...-......-+|+ |--|.|.| ..||...|+.+
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 47889999998 778999999999999999988542223334444 68899996 58999999996
No 66
>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=60.24 E-value=25 Score=26.35 Aligned_cols=42 Identities=10% Similarity=0.085 Sum_probs=32.6
Q ss_pred EEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEe
Q 025134 187 QIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQM 228 (257)
Q Consensus 187 qIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t 228 (257)
-|-||||.+........+|+.|+..-+.+.+.-....+-|..
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~Lrl 44 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYLRL 44 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHheeEE
Confidence 366999999999999999999999998775533344555543
No 67
>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=58.61 E-value=36 Score=26.41 Aligned_cols=54 Identities=20% Similarity=0.324 Sum_probs=39.4
Q ss_pred EEEEcCCCCE-EEEEeC--CCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCcc
Q 025134 186 VQIRLADGTR-LIAHFN--LHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRT 240 (257)
Q Consensus 186 iqIRl~dG~r-lv~~fn--~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s 240 (257)
|-|||.++-. +.+.++ .+.||..|+..|....|.....=.|.. =|=.|.|.|.+
T Consensus 3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRl-I~~Gr~L~d~t 59 (97)
T PF10302_consen 3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRL-IYAGRLLNDHT 59 (97)
T ss_pred EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEe-eecCcccCccc
Confidence 6788888543 778888 889999999999998865533334444 35778888753
No 68
>smart00455 RBD Raf-like Ras-binding domain.
Probab=52.42 E-value=51 Score=23.84 Aligned_cols=43 Identities=14% Similarity=0.168 Sum_probs=33.1
Q ss_pred EEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEe
Q 025134 186 VQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQM 228 (257)
Q Consensus 186 iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t 228 (257)
+.+=||||++...+..+..||.|+-.=+-+.+.-......|..
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~ 44 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRL 44 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEE
Confidence 4667999999999999999999999888776533334455553
No 69
>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=50.03 E-value=72 Score=23.04 Aligned_cols=52 Identities=21% Similarity=0.275 Sum_probs=36.3
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccC
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLA 237 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~ 237 (257)
.+++=||||++.+.......||.|+-.-+-..+.-....+.+...+ ..+.|+
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 4688899999999999999999999888877664344455555313 555554
No 70
>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=43.54 E-value=99 Score=22.10 Aligned_cols=44 Identities=14% Similarity=0.181 Sum_probs=33.7
Q ss_pred eEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEe
Q 025134 184 TSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQM 228 (257)
Q Consensus 184 t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t 228 (257)
.+|++++ .|.....++..+-|..+|+.-|...-+.....|.|..
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y 45 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKY 45 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEE
Confidence 4678888 5556677888899999999999887654345787765
No 71
>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=42.19 E-value=67 Score=23.04 Aligned_cols=46 Identities=20% Similarity=0.260 Sum_probs=35.1
Q ss_pred ceEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEe
Q 025134 183 STSVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQM 228 (257)
Q Consensus 183 ~t~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t 228 (257)
+.+|++++.++.+..+.+...-+..+|+.-|...-+.....|.|..
T Consensus 1 t~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y 46 (84)
T PF00564_consen 1 TVRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKY 46 (84)
T ss_dssp SEEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEE
T ss_pred CEEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEe
Confidence 3578888888777668888888999999999886544345677764
No 72
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=41.53 E-value=1.4e+02 Score=25.54 Aligned_cols=51 Identities=20% Similarity=0.205 Sum_probs=38.0
Q ss_pred EEEEEcCCC----CEEEEEeCCCCCHHHHHHHHHhhCCCCCc-CeEEEecCCCCcccC
Q 025134 185 SVQIRLADG----TRLIAHFNLHHTISDIHSFIDASRPGTAR-NYQLQMMGFPPKVLA 237 (257)
Q Consensus 185 ~iqIRl~dG----~rlv~~fn~s~TI~dl~~fi~~~~p~~~~-~f~L~t~~fP~k~l~ 237 (257)
+|=|+..|| ..+.+.+..+.||.||++.|....+.... .+.|.+ ..++.|.
T Consensus 2 ~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~--~~n~~l~ 57 (162)
T PF13019_consen 2 NVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTT--NSNGQLS 57 (162)
T ss_pred eEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEE--eCCCeeC
Confidence 467888999 57888888999999999999887655432 356665 4666664
No 73
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=38.42 E-value=97 Score=22.33 Aligned_cols=66 Identities=12% Similarity=0.218 Sum_probs=47.1
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCCCeeEE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLANSVVI 254 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~naviv 254 (257)
.|.++.-.|+.+.+...++++|..+.+-|.... ...+-.-.. -|-.|.+.| +.|-+.-+|..+.|+
T Consensus 2 ~iKvktLt~KeIeidIep~DkverIKErvEEke--GIPp~qqrl-i~~gkqm~D-D~tA~~Y~~~~GSVl 67 (70)
T KOG0005|consen 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKE--GIPPQQQRL-IYAGKQMND-DKTAAHYNLLGGSVL 67 (70)
T ss_pred eeeEeeeccceEEEeeCcchHHHHHHHHhhhhc--CCCchhhhh-hhccccccc-cccHHHhhhccceeE
Confidence 467888899999999999999999999997642 211212122 356677766 589999888864443
No 74
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=35.63 E-value=1.2e+02 Score=29.93 Aligned_cols=66 Identities=14% Similarity=0.126 Sum_probs=42.4
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhh-CCCC-CcCeEEEecCCCC-ccc---CCccCcHhhhCCCCeeE
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDAS-RPGT-ARNYQLQMMGFPP-KVL---ADRTQTIEQAGLANSVV 253 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~-~p~~-~~~f~L~t~~fP~-k~l---~d~s~TL~eagL~navi 253 (257)
-+++|...|++ .+.|..+++++-|-.-|-.. .+.+ ...|.+.. + |- +-. ...++|+.++||.++.+
T Consensus 2 i~rfRsk~G~~-Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~-~-p~~qG~~~s~l~dqt~~dlGL~hGqm 73 (571)
T COG5100 2 IFRFRSKEGQR-RVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCS-A-PDGQGEIFSLLKDQTPDDLGLRHGQM 73 (571)
T ss_pred eEEEecCCCce-eeeccccchhhhhhHHHHhhhccCCCccceEEEe-C-CCCCceeeecccccChhhhccccCcE
Confidence 37899999987 56788899988554333221 2222 34677665 3 44 222 24579999999997433
No 75
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=35.25 E-value=19 Score=27.16 Aligned_cols=18 Identities=22% Similarity=0.272 Sum_probs=15.4
Q ss_pred eEEEEEeccceeecCCCC
Q 025134 70 VHNIVFWANGFTVNDGPL 87 (257)
Q Consensus 70 ~~~l~lw~nGF~VddGp~ 87 (257)
.++|.|+.||..|||.+|
T Consensus 42 ~~~lvL~eDGT~VddEey 59 (80)
T cd06536 42 PITLVLAEDGTIVEDEDY 59 (80)
T ss_pred ceEEEEecCCcEEccHHH
Confidence 578999999999988654
No 76
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=31.42 E-value=1.9e+02 Score=21.41 Aligned_cols=58 Identities=17% Similarity=0.123 Sum_probs=37.7
Q ss_pred EEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccC--CccCcHhh
Q 025134 187 QIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLA--DRTQTIEQ 245 (257)
Q Consensus 187 qIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~--d~s~TL~e 245 (257)
+|=||||++-+.....-.||.|+-.=+-..+.-....+.+.. .=-.+.|. -++.+|..
T Consensus 3 rV~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~-~g~~k~l~~~qD~~~L~~ 62 (73)
T cd01817 3 RVILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFL-VGGDKPLVLDQDSSVLAG 62 (73)
T ss_pred EEECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEE-ecCCcccccCCccceeec
Confidence 566999999999999999999988777665533333444444 21124444 33455543
No 77
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=30.45 E-value=25 Score=26.13 Aligned_cols=19 Identities=21% Similarity=0.219 Sum_probs=15.9
Q ss_pred eEEEEEeccceeecCCCCc
Q 025134 70 VHNIVFWANGFTVNDGPLR 88 (257)
Q Consensus 70 ~~~l~lw~nGF~VddGp~R 88 (257)
.++|.|+.||..|||.+|.
T Consensus 38 ~~~l~L~eDGT~VddEeyF 56 (74)
T smart00266 38 PVTLVLEEDGTIVDDEEYF 56 (74)
T ss_pred CcEEEEecCCcEEccHHHH
Confidence 5789999999999886653
No 78
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=30.34 E-value=26 Score=26.30 Aligned_cols=19 Identities=21% Similarity=0.270 Sum_probs=15.7
Q ss_pred ceEEEEEeccceeecCCCC
Q 025134 69 IVHNIVFWANGFTVNDGPL 87 (257)
Q Consensus 69 ~~~~l~lw~nGF~VddGp~ 87 (257)
..++|.|+.||..|||.++
T Consensus 39 ~~~~lvL~eDGTeVddEeY 57 (78)
T cd01615 39 APVTLVLEEDGTEVDDEEY 57 (78)
T ss_pred CCeEEEEeCCCcEEccHHH
Confidence 3578999999999988654
No 79
>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=28.50 E-value=91 Score=21.48 Aligned_cols=27 Identities=19% Similarity=0.288 Sum_probs=24.1
Q ss_pred cCCCCEEEEEeCCCCCHHHHHHHHHhh
Q 025134 190 LADGTRLIAHFNLHHTISDIHSFIDAS 216 (257)
Q Consensus 190 l~dG~rlv~~fn~s~TI~dl~~fi~~~ 216 (257)
+..|..+.+..+...++.+|..|+...
T Consensus 23 l~~g~~l~v~~d~~~~~~~i~~~~~~~ 49 (69)
T cd00291 23 LKSGEVLEVLLDDPGAVEDIPAWAKET 49 (69)
T ss_pred CCCCCEEEEEecCCcHHHHHHHHHHHc
Confidence 577999999999999999999999874
No 80
>PF03562 MltA: MltA specific insert domain; InterPro: IPR005300 This group of proteins includes MltA; a membrane-bound, murein degrading transglycosylase enzyme which plays an important role in the controlled growth of the stress-bearing sacculus of Escherichia coli [, ].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 2PI8_D 2AE0_X 2PIC_A 2GAE_A 2PJJ_A 3CZB_A 2G6G_A 2PNW_A 2G5D_A.
Probab=28.46 E-value=1e+02 Score=26.17 Aligned_cols=33 Identities=21% Similarity=0.479 Sum_probs=24.5
Q ss_pred EEEEcCCCCEEEEEeC----------------------CCCCHHHHHHHHHhhCCC
Q 025134 186 VQIRLADGTRLIAHFN----------------------LHHTISDIHSFIDASRPG 219 (257)
Q Consensus 186 iqIRl~dG~rlv~~fn----------------------~s~TI~dl~~fi~~~~p~ 219 (257)
=+|||+||+.+.+-|. ...+...|++|+.++ |+
T Consensus 88 Grl~l~DG~~~rvgYAg~NG~pY~sIGr~Li~~G~i~~~~~Smq~Ir~wl~~~-P~ 142 (158)
T PF03562_consen 88 GRLRLPDGSTVRVGYAGQNGHPYTSIGRLLIDRGEIPREQMSMQAIRAWLRAH-PE 142 (158)
T ss_dssp EEEE-TTSSEEEEEEEEE-SS----HHHHHHHTTSS-TTS-SHHHHHHHHHHT-GG
T ss_pred EEEEcCCCCEEEEEEcccCCCccccHHHHHHHcCCcChhhCCHHHHHHHHHHC-HH
Confidence 3789999998877775 467888999999875 54
No 81
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=28.13 E-value=28 Score=26.24 Aligned_cols=18 Identities=17% Similarity=0.346 Sum_probs=14.9
Q ss_pred eEEEEEeccceeecCCCC
Q 025134 70 VHNIVFWANGFTVNDGPL 87 (257)
Q Consensus 70 ~~~l~lw~nGF~VddGp~ 87 (257)
.++|.|+.||..|||.+|
T Consensus 39 ~~~lvL~eDGT~Vd~Eey 56 (79)
T cd06538 39 ISSLVLDEDGTGVDTEEF 56 (79)
T ss_pred ccEEEEecCCcEEccHHH
Confidence 378999999999988543
No 82
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=27.35 E-value=1.2e+02 Score=22.15 Aligned_cols=34 Identities=26% Similarity=0.439 Sum_probs=25.1
Q ss_pred CCCCCHHHHHHHHHhhCCCC--CcCeEEEecCCCCcccCC
Q 025134 201 NLHHTISDIHSFIDASRPGT--ARNYQLQMMGFPPKVLAD 238 (257)
Q Consensus 201 n~s~TI~dl~~fi~~~~p~~--~~~f~L~t~~fP~k~l~d 238 (257)
+.+++|.||++++... +.. -.+|.|.. -.+.|++
T Consensus 2 ~~~d~v~dvrq~L~~~-~~t~~~Tn~~L~~---~g~~L~~ 37 (76)
T PF15044_consen 2 SPTDTVQDVRQVLAES-PETCYLTNFSLEH---NGQRLDD 37 (76)
T ss_pred ChhhHHHHHHHHHHhC-ccccceeEEEEEE---CCCccCC
Confidence 5689999999999774 442 46888875 5566754
No 83
>PF07872 DUF1659: Protein of unknown function (DUF1659); InterPro: IPR012454 This family consists of hypothetical bacterial proteins of unknown function
Probab=27.06 E-value=82 Score=21.02 Aligned_cols=31 Identities=16% Similarity=0.276 Sum_probs=21.5
Q ss_pred ceEEEEEcCCC-----CEE--EE---EeCCCCCHHHHHHHH
Q 025134 183 STSVQIRLADG-----TRL--IA---HFNLHHTISDIHSFI 213 (257)
Q Consensus 183 ~t~iqIRl~dG-----~rl--v~---~fn~s~TI~dl~~fi 213 (257)
.++|+||+.+| +-+ .. .+..+.|-+|||+-.
T Consensus 5 ~s~L~l~~~~G~d~~Gkpi~k~ks~~nvk~~Atdedl~~Va 45 (47)
T PF07872_consen 5 SSSLRLKYQTGVDENGKPIFKTKSFSNVKPDATDEDLYDVA 45 (47)
T ss_pred ceEEEEEEEcccCCCCCEEEEeeehhhcCCCCCHHHHHHHh
Confidence 47889999766 222 33 445889999999754
No 84
>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=24.97 E-value=2.6e+02 Score=19.98 Aligned_cols=58 Identities=12% Similarity=0.060 Sum_probs=42.4
Q ss_pred eEEEEEcCCCC----EEEEEeCCCCCHHHHHHHHHhhCC--CCCcCeEE--EecCCCC--cccCCccCc
Q 025134 184 TSVQIRLADGT----RLIAHFNLHHTISDIHSFIDASRP--GTARNYQL--QMMGFPP--KVLADRTQT 242 (257)
Q Consensus 184 t~iqIRl~dG~----rlv~~fn~s~TI~dl~~fi~~~~p--~~~~~f~L--~t~~fP~--k~l~d~s~T 242 (257)
..|+|-..+++ ...+++..+.|..+|..-+..... +....|.| .. .... +.|.++..-
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~-~~~~~er~L~~~E~p 70 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVE-ESGGEERPLDDDECP 70 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEE-CTTTEEEEETTTSBH
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEE-cCCCEEEEcCCCCch
Confidence 56889999998 889999999999999988766432 23578999 44 4554 446654443
No 85
>KOG0625 consensus Phosphoglucomutase [Carbohydrate transport and metabolism]
Probab=24.68 E-value=27 Score=34.43 Aligned_cols=36 Identities=17% Similarity=0.369 Sum_probs=28.3
Q ss_pred eEEEEEcCCCCEEEEEeCCCCCHH-HHHHHHHhhCCC
Q 025134 184 TSVQIRLADGTRLIAHFNLHHTIS-DIHSFIDASRPG 219 (257)
Q Consensus 184 t~iqIRl~dG~rlv~~fn~s~TI~-dl~~fi~~~~p~ 219 (257)
--|+|.+.||+|++.|+.-+-..+ .||-||+++.++
T Consensus 484 QGlri~F~dGsR~VfRLSGTGSsGATiRLYie~ye~d 520 (558)
T KOG0625|consen 484 QGLRIVFEDGSRIVFRLSGTGSSGATIRLYIESYEKD 520 (558)
T ss_pred CceEEEEcCCcEEEEEeccCCCCCceEEEehhhhccc
Confidence 358999999999999998765554 677888876554
No 86
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=24.04 E-value=98 Score=21.58 Aligned_cols=27 Identities=19% Similarity=0.266 Sum_probs=23.3
Q ss_pred cCCCCEEEEEeCCCCCHHHHHHHHHhh
Q 025134 190 LADGTRLIAHFNLHHTISDIHSFIDAS 216 (257)
Q Consensus 190 l~dG~rlv~~fn~s~TI~dl~~fi~~~ 216 (257)
++.|..+.+..+....+.||..|+...
T Consensus 24 l~~G~~l~v~~d~~~~~~di~~~~~~~ 50 (70)
T PF01206_consen 24 LPPGEVLEVLVDDPAAVEDIPRWCEEN 50 (70)
T ss_dssp SGTT-EEEEEESSTTHHHHHHHHHHHH
T ss_pred cCCCCEEEEEECCccHHHHHHHHHHHC
Confidence 467899999999999999999999886
No 87
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=22.97 E-value=1.8e+02 Score=23.58 Aligned_cols=50 Identities=12% Similarity=0.292 Sum_probs=32.3
Q ss_pred EEEEeCCCCCHHHHHHHHHhhCCCCCcCeEEEecCCCCcccCCccCcHhhhCCC
Q 025134 196 LIAHFNLHHTISDIHSFIDASRPGTARNYQLQMMGFPPKVLADRTQTIEQAGLA 249 (257)
Q Consensus 196 lv~~fn~s~TI~dl~~fi~~~~p~~~~~f~L~t~~fP~k~l~d~s~TL~eagL~ 249 (257)
+-.....++||-+|..-|..-......+-.| |.--.+-|+++||.|+|+.
T Consensus 14 iF~dakes~tVlelK~~iegI~k~pp~dQrL----~kd~qvLeD~kTL~d~g~t 63 (119)
T cd01788 14 IFTDAKESTTVYELKRIVEGILKRPPEDQRL----YKDDQLLDDGKTLGDCGFT 63 (119)
T ss_pred EEeecCCcccHHHHHHHHHHHhcCChhHhee----ecCceeecccccHHHcCcc
Confidence 4455668999999999987743222222222 2333455668999999994
No 88
>PF14162 YozD: YozD-like protein
Probab=22.79 E-value=55 Score=22.81 Aligned_cols=14 Identities=29% Similarity=0.475 Sum_probs=11.2
Q ss_pred HHHHHhcCCCCCcc
Q 025134 98 FLESIKKSECPKEL 111 (257)
Q Consensus 98 FL~~I~~G~~P~EL 111 (257)
|.+-+++||+|.|.
T Consensus 18 y~eL~kRGyvP~e~ 31 (57)
T PF14162_consen 18 YHELVKRGYVPTEE 31 (57)
T ss_pred HHHHHHccCCCcHH
Confidence 45779999999864
No 89
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=22.55 E-value=3.3e+02 Score=20.23 Aligned_cols=43 Identities=7% Similarity=0.090 Sum_probs=31.0
Q ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHhhCCCCC-cCeEEEe
Q 025134 185 SVQIRLADGTRLIAHFNLHHTISDIHSFIDASRPGTA-RNYQLQM 228 (257)
Q Consensus 185 ~iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~~~p~~~-~~f~L~t 228 (257)
+|++.+ +|..+..++..+.++.+|++-|........ ..|.|.-
T Consensus 2 ~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY 45 (82)
T cd06407 2 RVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY 45 (82)
T ss_pred EEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence 355555 456778899999999999999988543322 5777765
No 90
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=22.01 E-value=1.1e+02 Score=31.37 Aligned_cols=25 Identities=28% Similarity=0.472 Sum_probs=21.0
Q ss_pred cccccccCCCCCCCchHHHHHHHHHHcCC
Q 025134 2 FCGMLVQDPSKGDPNDVDAIFNQAKELGA 30 (257)
Q Consensus 2 ~SG~~V~~p~~~~~~~v~~if~~A~~~ga 30 (257)
.||..|++|. ..|.+|++-|-.+||
T Consensus 15 aAgevI~~~~----svvkElveNsiDAga 39 (617)
T PRK00095 15 AAGEVVERPA----SVVKELVENALDAGA 39 (617)
T ss_pred cCcCcccCHH----HHHHHHHHHHHhCCC
Confidence 5888998884 689999999998775
No 91
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=20.87 E-value=1.5e+02 Score=20.47 Aligned_cols=28 Identities=21% Similarity=0.285 Sum_probs=22.9
Q ss_pred EEEEcCCCCEEEEEeCCCCCHHHHHHHHHh
Q 025134 186 VQIRLADGTRLIAHFNLHHTISDIHSFIDA 215 (257)
Q Consensus 186 iqIRl~dG~rlv~~fn~s~TI~dl~~fi~~ 215 (257)
|.|.||||+.+. |....|+.|+-.-|..
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~ 28 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHS 28 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSH
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCH
Confidence 678899997655 8888999999888764
No 92
>PF13141 DUF3979: Protein of unknown function (DUF3979)
Probab=20.43 E-value=72 Score=24.90 Aligned_cols=16 Identities=19% Similarity=0.245 Sum_probs=12.7
Q ss_pred CCceEEEEEeccceee
Q 025134 67 EPIVHNIVFWANGFTV 82 (257)
Q Consensus 67 ~~~~~~l~lw~nGF~V 82 (257)
+-.++.|||||+|..|
T Consensus 46 eyde~ritlyk~g~pi 61 (114)
T PF13141_consen 46 EYDEVRITLYKDGNPI 61 (114)
T ss_pred ccceEEEEEEeCCCch
Confidence 4467899999999754
Done!