Query 009661
Match_columns 529
No_of_seqs 219 out of 931
Neff 4.2
Searched_HMMs 46136
Date Thu Mar 28 15:49:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009661.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009661hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1363 Predicted regulator of 100.0 9.6E-39 2.1E-43 339.0 21.6 392 46-529 54-460 (460)
2 cd01771 Faf1_UBX Faf1 UBX doma 99.8 1.4E-20 3E-25 158.1 10.1 78 449-528 2-79 (80)
3 cd01773 Faf1_like1_UBX Faf1 ik 99.8 1.9E-20 4.1E-25 158.7 10.4 79 448-528 2-80 (82)
4 cd01774 Faf1_like2_UBX Faf1 ik 99.8 1.1E-19 2.4E-24 154.2 10.1 79 449-529 2-85 (85)
5 smart00166 UBX Domain present 99.8 3.7E-19 8.1E-24 147.7 9.9 78 450-528 3-80 (80)
6 cd01772 SAKS1_UBX SAKS1-like U 99.8 4.2E-19 9E-24 148.0 9.8 78 449-528 2-79 (79)
7 PF00789 UBX: UBX domain; Int 99.8 2.1E-18 4.6E-23 142.5 8.4 79 448-528 3-82 (82)
8 cd01767 UBX UBX (ubiquitin reg 99.8 4.2E-18 9.2E-23 140.2 10.0 75 451-528 2-76 (77)
9 cd01770 p47_UBX p47-like ubiqu 99.7 1E-16 2.2E-21 134.4 10.1 75 450-528 3-78 (79)
10 KOG2689 Predicted ubiquitin re 99.7 2.7E-15 5.9E-20 150.4 16.7 81 448-529 207-287 (290)
11 KOG2507 Ubiquitin regulatory p 99.5 7.6E-14 1.6E-18 146.7 11.5 79 449-527 312-390 (506)
12 KOG2086 Protein tyrosine phosp 98.9 1.4E-09 3E-14 114.0 6.6 77 439-520 296-373 (380)
13 KOG1364 Predicted ubiquitin re 98.9 8.8E-10 1.9E-14 114.2 5.0 76 449-525 275-351 (356)
14 cd01806 Nedd8 Nebb8-like ubiq 97.0 0.0032 7E-08 50.6 7.8 69 453-527 2-70 (76)
15 PF11543 UN_NPL4: Nuclear pore 96.8 0.0022 4.8E-08 54.4 5.3 76 451-529 4-80 (80)
16 cd01807 GDX_N ubiquitin-like d 96.5 0.011 2.4E-07 48.3 7.2 68 453-526 2-69 (74)
17 cd01792 ISG15_repeat1 ISG15 ub 96.5 0.014 3.1E-07 48.6 7.9 71 452-526 3-73 (80)
18 PTZ00044 ubiquitin; Provisiona 96.4 0.012 2.7E-07 47.8 7.2 69 453-527 2-70 (76)
19 cd01809 Scythe_N Ubiquitin-lik 96.4 0.013 2.9E-07 46.6 7.0 69 452-526 1-69 (72)
20 cd01791 Ubl5 UBL5 ubiquitin-li 96.4 0.022 4.8E-07 47.4 8.2 69 452-526 2-70 (73)
21 cd01803 Ubiquitin Ubiquitin. U 96.2 0.023 5E-07 45.7 7.3 69 453-527 2-70 (76)
22 cd01794 DC_UbP_C dendritic cel 96.1 0.019 4.1E-07 47.2 6.6 67 454-526 1-67 (70)
23 cd01798 parkin_N amino-termina 96.0 0.025 5.4E-07 45.6 6.5 67 454-526 1-67 (70)
24 cd01804 midnolin_N Ubiquitin-l 95.8 0.04 8.7E-07 45.9 7.5 68 452-526 2-69 (78)
25 cd01805 RAD23_N Ubiquitin-like 95.8 0.049 1.1E-06 44.3 7.7 68 453-526 2-71 (77)
26 cd01812 BAG1_N Ubiquitin-like 95.8 0.041 8.9E-07 43.8 7.0 69 452-527 1-69 (71)
27 cd01763 Sumo Small ubiquitin-r 95.6 0.098 2.1E-06 44.5 9.1 73 448-526 8-80 (87)
28 cd01810 ISG15_repeat2 ISG15 ub 95.6 0.045 9.8E-07 44.8 6.6 68 454-527 1-68 (74)
29 PF00240 ubiquitin: Ubiquitin 95.4 0.047 1E-06 43.3 6.2 64 457-526 1-64 (69)
30 cd01808 hPLIC_N Ubiquitin-like 95.1 0.093 2E-06 42.5 7.0 68 452-526 1-68 (71)
31 cd01802 AN1_N ubiquitin-like d 94.8 0.16 3.4E-06 45.0 8.2 72 450-527 26-97 (103)
32 cd01796 DDI1_N DNA damage indu 94.6 0.13 2.8E-06 42.1 6.6 68 454-526 1-69 (71)
33 cd01814 NTGP5 Ubiquitin-like N 93.2 0.21 4.5E-06 45.6 5.8 62 450-516 3-72 (113)
34 TIGR00601 rad23 UV excision re 92.8 0.32 6.9E-06 52.3 7.6 68 453-526 2-72 (378)
35 smart00213 UBQ Ubiquitin homol 92.8 0.35 7.5E-06 37.0 5.9 61 453-519 2-62 (64)
36 cd01797 NIRF_N amino-terminal 92.7 0.51 1.1E-05 39.6 7.2 69 453-527 2-72 (78)
37 cd01769 UBL Ubiquitin-like dom 92.7 0.45 9.8E-06 36.8 6.4 66 456-527 2-67 (69)
38 cd01813 UBP_N UBP ubiquitin pr 92.2 0.63 1.4E-05 38.7 7.0 70 452-526 1-71 (74)
39 PF13881 Rad60-SLD_2: Ubiquiti 92.0 0.98 2.1E-05 40.8 8.5 64 451-519 2-73 (111)
40 cd01793 Fubi Fubi ubiquitin-li 91.7 0.87 1.9E-05 37.2 7.3 66 453-526 2-67 (74)
41 PF11976 Rad60-SLD: Ubiquitin- 91.6 0.65 1.4E-05 37.3 6.3 69 452-526 1-70 (72)
42 cd00196 UBQ Ubiquitin-like pro 90.8 0.96 2.1E-05 31.9 6.0 65 456-526 2-66 (69)
43 PF14560 Ubiquitin_2: Ubiquiti 89.5 1.7 3.7E-05 36.7 7.3 76 452-528 2-82 (87)
44 cd01800 SF3a120_C Ubiquitin-li 88.6 1.3 2.7E-05 36.6 5.8 61 460-526 6-66 (76)
45 cd01799 Hoil1_N Ubiquitin-like 88.5 2.4 5.3E-05 35.4 7.5 68 456-528 7-74 (75)
46 PF02809 UIM: Ubiquitin intera 81.2 1.4 3.1E-05 28.1 2.1 16 159-174 2-17 (18)
47 PF14836 Ubiquitin_3: Ubiquiti 79.0 5.6 0.00012 35.0 5.8 63 463-527 15-78 (88)
48 KOG1144 Translation initiation 78.8 8.5 0.00018 45.4 8.7 17 373-389 227-243 (1064)
49 cd01790 Herp_N Homocysteine-re 77.5 12 0.00026 32.2 7.3 60 452-516 2-65 (79)
50 PF08817 YukD: WXG100 protein 76.9 6.5 0.00014 32.7 5.5 71 451-526 2-78 (79)
51 KOG1029 Endocytic adaptor prot 76.8 14 0.0003 43.7 9.6 10 49-58 104-113 (1118)
52 KOG1029 Endocytic adaptor prot 76.6 11 0.00024 44.4 8.8 12 367-378 327-338 (1118)
53 PTZ00266 NIMA-related protein 75.9 20 0.00043 43.6 11.1 6 194-199 270-275 (1021)
54 smart00726 UIM Ubiquitin-inter 75.5 2.6 5.7E-05 29.1 2.3 19 160-178 2-20 (26)
55 cd01789 Alp11_N Ubiquitin-like 74.2 21 0.00046 30.2 8.0 75 452-528 2-80 (84)
56 KOG3654 Uncharacterized CH dom 73.6 15 0.00033 41.5 8.6 56 374-430 396-451 (708)
57 smart00726 UIM Ubiquitin-inter 71.6 1.9 4.1E-05 29.8 0.9 19 191-209 2-20 (26)
58 PTZ00266 NIMA-related protein 71.3 26 0.00057 42.6 10.6 12 311-322 423-434 (1021)
59 KOG2412 Nuclear-export-signal 69.8 30 0.00065 39.4 9.9 11 370-380 186-196 (591)
60 KOG0163 Myosin class VI heavy 67.2 37 0.00081 40.3 10.2 12 471-482 1069-1080(1259)
61 PLN02560 enoyl-CoA reductase 64.1 31 0.00068 36.3 8.4 74 453-529 2-83 (308)
62 cd01815 BMSC_UbP_N Ubiquitin-l 63.9 15 0.00033 31.3 5.0 52 469-526 18-72 (75)
63 cd01801 Tsc13_N Ubiquitin-like 63.7 26 0.00057 28.9 6.3 57 469-529 20-77 (77)
64 COG3122 Uncharacterized protei 62.9 49 0.0011 33.1 8.8 26 453-478 128-153 (215)
65 COG5100 NPL4 Nuclear pore prot 62.6 21 0.00045 39.5 6.8 71 453-528 2-78 (571)
66 KOG2412 Nuclear-export-signal 60.9 67 0.0015 36.7 10.5 16 322-337 117-132 (591)
67 KOG4364 Chromatin assembly fac 60.5 60 0.0013 38.0 10.2 14 513-527 457-470 (811)
68 KOG4364 Chromatin assembly fac 59.4 57 0.0012 38.2 9.7 10 69-78 19-28 (811)
69 KOG1363 Predicted regulator of 59.0 46 0.001 37.1 8.9 43 460-504 382-424 (460)
70 PLN02316 synthase/transferase 57.5 81 0.0018 38.7 11.2 24 361-384 236-259 (1036)
71 KOG1144 Translation initiation 57.3 58 0.0013 38.9 9.5 10 156-165 14-23 (1064)
72 PF06098 Radial_spoke_3: Radia 57.3 99 0.0022 32.7 10.5 28 371-398 142-169 (291)
73 PF07946 DUF1682: Protein of u 55.3 44 0.00096 35.1 7.7 27 367-393 255-281 (321)
74 PF13904 DUF4207: Domain of un 54.3 92 0.002 32.0 9.6 23 460-482 169-191 (264)
75 KOG3054 Uncharacterized conser 54.2 81 0.0018 33.0 9.0 11 428-438 172-182 (299)
76 PF15236 CCDC66: Coiled-coil d 51.6 2.4E+02 0.0052 27.5 12.4 28 366-393 42-69 (157)
77 smart00295 B41 Band 4.1 homolo 50.2 64 0.0014 30.0 7.2 68 451-518 3-72 (207)
78 PF09379 FERM_N: FERM N-termin 49.5 17 0.00036 29.6 2.8 63 456-518 1-65 (80)
79 PF11470 TUG-UBL1: GLUT4 regul 47.6 58 0.0013 27.0 5.7 62 458-525 3-64 (65)
80 KOG3054 Uncharacterized conser 47.5 1.6E+02 0.0034 31.0 9.8 9 474-482 202-210 (299)
81 cd01795 USP48_C USP ubiquitin- 47.0 63 0.0014 29.6 6.2 54 468-526 21-74 (107)
82 PTZ00121 MAEBL; Provisional 46.2 1.1E+02 0.0024 39.0 9.8 25 369-393 1116-1140(2084)
83 KOG0011 Nucleotide excision re 45.9 55 0.0012 35.3 6.6 63 453-520 2-66 (340)
84 KOG2891 Surface glycoprotein [ 44.4 1.1E+02 0.0023 32.7 8.3 7 303-309 211-217 (445)
85 COG3064 TolA Membrane protein 42.7 2.2E+02 0.0049 30.9 10.4 8 313-320 63-70 (387)
86 PF02196 RBD: Raf-like Ras-bin 42.4 63 0.0014 26.8 5.2 54 453-506 2-55 (71)
87 KOG0010 Ubiquitin-like protein 39.5 70 0.0015 36.1 6.4 70 450-526 14-83 (493)
88 PLN03086 PRLI-interacting fact 38.3 2.1E+02 0.0045 33.1 10.0 26 369-394 7-32 (567)
89 PRK00247 putative inner membra 38.3 3E+02 0.0065 30.7 11.0 19 364-382 282-300 (429)
90 PF07946 DUF1682: Protein of u 38.2 83 0.0018 33.1 6.6 15 46-61 93-107 (321)
91 PLN03086 PRLI-interacting fact 36.5 1.1E+02 0.0025 35.1 7.6 7 375-381 8-14 (567)
92 PLN02316 synthase/transferase 34.6 1.8E+02 0.0038 35.9 9.2 15 191-205 109-123 (1036)
93 KOG2072 Translation initiation 33.8 3.6E+02 0.0077 32.8 11.1 21 379-399 575-595 (988)
94 PTZ00121 MAEBL; Provisional 33.3 2.6E+02 0.0056 36.1 10.1 11 46-56 760-772 (2084)
95 cd01760 RBD Ubiquitin-like dom 31.7 1.3E+02 0.0028 25.4 5.4 44 454-497 2-45 (72)
96 KOG4661 Hsp27-ERE-TATA-binding 30.0 2E+02 0.0043 33.5 8.1 16 262-277 549-564 (940)
97 COG4942 Membrane-bound metallo 29.5 3.4E+02 0.0073 30.4 9.5 21 454-475 297-318 (420)
98 KOG3878 Protein involved in ma 29.0 1.5E+02 0.0033 32.3 6.6 36 368-405 124-159 (469)
99 KOG2072 Translation initiation 27.9 4.4E+02 0.0095 32.1 10.5 7 19-25 342-348 (988)
100 KOG3915 Transcription regulato 27.1 8.9E+02 0.019 27.8 12.2 7 350-356 494-500 (641)
101 COG1422 Predicted membrane pro 26.3 2.5E+02 0.0054 28.4 7.3 14 383-396 63-76 (201)
102 cd01777 SNX27_RA Ubiquitin dom 24.4 91 0.002 27.6 3.4 36 452-487 2-37 (87)
103 PF09831 DUF2058: Uncharacteri 24.0 5.8E+02 0.013 25.3 9.2 22 453-475 92-113 (177)
104 KOG2357 Uncharacterized conser 21.9 3.6E+02 0.0077 30.2 8.0 9 310-318 263-271 (440)
105 smart00455 RBD Raf-like Ras-bi 21.2 3.5E+02 0.0075 22.5 6.1 43 454-496 2-44 (70)
106 PRK09510 tolA cell envelope in 20.8 7.4E+02 0.016 27.4 10.1 12 451-462 327-339 (387)
107 PF12210 Hrs_helical: Hepatocy 20.4 4.1E+02 0.0089 24.1 6.7 19 378-396 56-74 (96)
No 1
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=100.00 E-value=9.6e-39 Score=338.95 Aligned_cols=392 Identities=29% Similarity=0.344 Sum_probs=283.0
Q ss_pred CCCCCCCccccccccCCCCCCCCCCCCCCCCCcccccceeecCCCCC---CCCCCcccccccccccCCCCCCcceeecCC
Q 009661 46 NPFSLLDPSSRRRFFDGASDFMSREPHVTHPREVREIPIEVRDGGDP---SGHAPTIEDVTESANTHGPDNRGTAIIDEV 122 (529)
Q Consensus 46 ~pf~lldp~~~r~~f~~~~~~~~r~p~vshprevr~ipievkd~~~~---s~~~p~iedvt~~~~~~gp~~~gtvi~d~~ 122 (529)
+||.++||.|..+++++... +|+++|.|+++++.+++.|++++.. +...++++||+.+.+.++| .++.+++|+.
T Consensus 54 ~~~~~vd~~~~~r~~~~~~~--~~~~~v~~~~~~~~~~~~~~~s~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~g~~~ 130 (460)
T KOG1363|consen 54 DPFPVVDPDFNYRDDNVDVS--PRPNTVGESKEIRSNEGGVPSSNGLLGGWSDNRTTEDVLSLALSLLP-LQSIVGGDPS 130 (460)
T ss_pred CccccccchhcccccCCCcc--cCCCcccccceeeccCCCccccccccccccccccccccchhhhhcCc-hhhccccCCC
Confidence 79999999998888883333 8999999999999999999999988 7788899999999999999 9999999987
Q ss_pred CC-CCCCC-cc--------cccccCCCCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHhHHHHhhccCCCCCCCCCCCcc
Q 009661 123 DE-DIPAP-PA--------AQSTLRNDGRSSPTAPAFDNLADYSNDIEEEMIRAAIEASKQEAENVSGAGTEHRQPHLED 192 (529)
Q Consensus 123 ~~-~~~~~-~~--------~~~~~~~~~~~~p~~~~~~~~~~~~ndieeemiraaieask~~~~~~~~~~~~~~~~~~ed 192 (529)
.+ ++.++ .+ ..++.+... +|.+.-|+ |--|+-||++++...- ..+.- ..|
T Consensus 131 ~~~~~~s~p~~~~~~~f~~~f~~ry~~~-----------~p~F~~d~---l~~a~~~A~~~~~~~~-~~l~~--~~~--- 190 (460)
T KOG1363|consen 131 SGDNIVSTPQGDSRETFVDNFGDRYGSE-----------LPSFYTDV---LRNAFLEAFDRESEAR-KLLAI--YLH--- 190 (460)
T ss_pred CCCccccCCcchHHHHHHHHHHHhcCCC-----------CCccchhH---HHHHHHHHHhhhhhhh-eeeEE--ecC---
Confidence 65 66665 33 111222111 23333333 4446677777762211 11000 000
Q ss_pred chhhhhhhhhhhHHHHHHHHHHhcCcccccccCCCCCccccccccccCCCccCCCCCCccccccccccCccccccccccC
Q 009661 193 VDLAHAVSLSLRTAEQEKAQRELGGDVGASVAGASKPSEMELGKVATSNGRLEGGSLSIQEETEDVEEQPLVRHRSIHTS 272 (529)
Q Consensus 193 ~d~a~avslsl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~pl~r~r~r~~~ 272 (529)
.+ ....++.+....+..+...+...+++|+.++ .++.
T Consensus 191 -----------------------------------------~~-~~~~~~~F~~~iL~~e~v~~~l~~~~llw~~-dvt~ 227 (460)
T KOG1363|consen 191 -----------------------------------------DD-KSDDTNVFCGQILCNEAVVDYLRENFLLWGW-DVTE 227 (460)
T ss_pred -----------------------------------------CC-CcccHHHHHHhhhhhHHHHHHHhhceeeecc-cccC
Confidence 00 1122333555556667777778899999999 6666
Q ss_pred CCCCCCccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCChhhhhHHHHHHHHHhCCCCCCCCC-CCCCCCCCC
Q 009661 273 SGSGESDKEVGVTEVSSPPSPGQPDVSNQPQHNGNAFPSDEWGGISSEEHDEAVMLEAAMFGGIPESGYR-FPYAPHQYM 351 (529)
Q Consensus 273 ~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~f~~~ewggi~s~e~dea~mleaam~gg~p~~~~~-~~~~~~~~~ 351 (529)
++++-........ ++..... +.+... +++.| |..|++|+++.++|++|+.++|+|++.+..+- .++..+..
T Consensus 228 ~e~~~~~~~~~~r--~~~~~~~---~~~~~~-~~~~f-P~~~iv~~~~~~~Ell~~l~g~~~~~e~~~~~~~~~~~~~~- 299 (460)
T KOG1363|consen 228 SENLLVFNSLLNR--SISSPAA---VTNKAS-KSERF-PLVRIVIGSRSPEELLRYLQGVTGVDEEMTLLLVAFEEEER- 299 (460)
T ss_pred chhhHHHHHHhhc--ccchhhh---hhcchh-hcccC-chhhhhhcCCCHHHHHHHHHhcCCchHHHHHHHhhhhhhhH-
Confidence 6666655555555 2221111 112333 67887 99999999999999999999999999885543 33322222
Q ss_pred CCCCCCCCCCCCCCCccHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009661 352 QPEGSYPRRVPRPPSPSLEAQRLIREQ-QDDEYLASLQADREKAEARRLMEEEARNAALAEERRKEEETRRKMEEQQEYE 430 (529)
Q Consensus 352 ~~~~~~~~~i~R~~~~~le~~R~LREE-QD~aY~eSLraDrEK~e~rr~EEe~aR~aaeEeeR~keEE~~rk~ee~eele 430 (529)
..+.+...+...++|+++++ ||.+|++||++|+.|+.+++ +++.++.++++| +.++++++..
T Consensus 300 -------~~q~~~~~~~er~~r~~~~~eQd~eyq~sle~Dr~r~~e~e---~~~e~~r~e~er-------~~~~ee~e~~ 362 (460)
T KOG1363|consen 300 -------RLQMRRSEQDEREARLALEQEQDDEYQASLEADRVREAEAE---QAAEEFRLEKER-------KEEEEERETA 362 (460)
T ss_pred -------HHhhcccchhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH---HhhHHHHHhhhh-------hhHHHHHHHH
Confidence 12556777777777776665 59999999999999922111 111111122222 2223446677
Q ss_pred HHHHHHHccCCCCCCCCCCCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCccc
Q 009661 431 RQLAAKEASLPQEPAPDDENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESAL 510 (529)
Q Consensus 431 r~r~~K~asLPpEP~a~~~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~ 510 (529)
+++.|+..+||+||.+...++++|+||||+|.+..|||.+++++++||+||+++ +..+..|.|+++|||++|.......
T Consensus 363 R~~l~~es~lp~EP~a~~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~-~~~~~e~~~~~~fPr~~~~~~~~~~ 441 (460)
T KOG1363|consen 363 RQLLALESSLPPEPSASEEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSN-GFHPEEYSLNTSFPRRPLGDYEHSS 441 (460)
T ss_pred HHHHhhhccCCCCCCcCcccceeeEEECCCCCeeeeeeecccchhHHHHHHHhc-cCCchhhccccCCCccccccccccc
Confidence 889999999999998888899999999999999999999999999999999854 5788999999999999999988899
Q ss_pred chhhcCCCCCceeEEEeeC
Q 009661 511 TLNELGLTSKQEALFLELV 529 (529)
Q Consensus 511 TLeElGL~PsqaaL~VE~i 529 (529)
||+++||+|+|++||||.+
T Consensus 442 sl~~~~l~p~qe~lflE~~ 460 (460)
T KOG1363|consen 442 SLQDIGLTPRQETLFLEEI 460 (460)
T ss_pred ccccCCcccccceeeeecC
Confidence 9999999997899999975
No 2
>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=99.83 E-value=1.4e-20 Score=158.11 Aligned_cols=78 Identities=37% Similarity=0.592 Sum_probs=72.2
Q ss_pred CCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEee
Q 009661 449 ENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLEL 528 (529)
Q Consensus 449 ~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE~ 528 (529)
+++|+|+||||||+|++|||+.+++|++||+||++ .++.+.+|+|+|+||||+|+..|.+.||+|+||+| +++||||.
T Consensus 2 ~~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~-~~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p-~~~L~Vee 79 (80)
T cd01771 2 EPISKLRVRTPSGDFLERRFLGDTPLQVLLNFVAS-KGYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYP-QETLILEE 79 (80)
T ss_pred CCeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCC-CcEEEEEc
Confidence 46899999999999999999999999999999985 57778899999999999998777889999999998 69999984
No 3
>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=99.83 E-value=1.9e-20 Score=158.65 Aligned_cols=79 Identities=29% Similarity=0.524 Sum_probs=74.0
Q ss_pred CCCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 448 DENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 448 ~~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
+...|+|+||||||+|+.|||..+++|++||+||.+ .++.+..|+|+|+||||+|+.+|.++||+|+||+| +++||||
T Consensus 2 ~~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P-~~~LfVq 79 (82)
T cd01773 2 NGPKARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCP-QETVFVQ 79 (82)
T ss_pred CCCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCC-CcEEEEe
Confidence 357899999999999999999999999999999986 67888999999999999999988999999999998 5999998
Q ss_pred e
Q 009661 528 L 528 (529)
Q Consensus 528 ~ 528 (529)
.
T Consensus 80 ~ 80 (82)
T cd01773 80 E 80 (82)
T ss_pred c
Confidence 4
No 4
>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=99.81 E-value=1.1e-19 Score=154.23 Aligned_cols=79 Identities=28% Similarity=0.552 Sum_probs=71.8
Q ss_pred CCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCC-----CCcccchhhcCCCCCcee
Q 009661 449 ENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSD-----GESALTLNELGLTSKQEA 523 (529)
Q Consensus 449 ~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~-----eD~s~TLeElGL~Psqaa 523 (529)
+++|+|+||||||+|+.|||+.++||++||+||. +.+..+.+|.|+++||||+|++ .+.++||+|+||+| +++
T Consensus 2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~-~~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~-s~~ 79 (85)
T cd01774 2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLF-SLKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSN-SEV 79 (85)
T ss_pred CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHH-hCCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCC-ccE
Confidence 4789999999999999999999999999999997 4667789999999999999984 36789999999998 599
Q ss_pred EEEeeC
Q 009661 524 LFLELV 529 (529)
Q Consensus 524 L~VE~i 529 (529)
|+|+.+
T Consensus 80 L~V~d~ 85 (85)
T cd01774 80 LFVQDL 85 (85)
T ss_pred EEEecC
Confidence 999965
No 5
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=99.79 E-value=3.7e-19 Score=147.65 Aligned_cols=78 Identities=33% Similarity=0.608 Sum_probs=71.9
Q ss_pred CcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEee
Q 009661 450 NAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLEL 528 (529)
Q Consensus 450 ~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE~ 528 (529)
+.|+|+||||||+|++|+|+.+++|++||+||....+.....|.|+++||||.|+..|.++||.|+||+| +++|+||+
T Consensus 3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p-~~~l~v~~ 80 (80)
T smart00166 3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLP-SSTLVLEP 80 (80)
T ss_pred CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCC-ceEEEEeC
Confidence 6799999999999999999999999999999976666667789999999999999877789999999998 59999984
No 6
>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=99.79 E-value=4.2e-19 Score=148.04 Aligned_cols=78 Identities=22% Similarity=0.501 Sum_probs=70.8
Q ss_pred CCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEee
Q 009661 449 ENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLEL 528 (529)
Q Consensus 449 ~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE~ 528 (529)
.+.|+|+||||||++++++|+.+++|++||+||++.. .....|.|+|+||||.|+.+|.++||+|+||+|+ ++|+||+
T Consensus 2 ~~~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~-~~~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Ps-a~L~v~~ 79 (79)
T cd01772 2 YTETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNT-GNGGPFTLMTPFPRKVFTEDDMEKPLQELGLVPS-AVLIVTK 79 (79)
T ss_pred CcEEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcC-CCCCCEEEEeCCCCeECCcccccCCHHHCCCCCc-eEEEEeC
Confidence 4679999999999999999999999999999998654 3457899999999999998888999999999995 9999985
No 7
>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=2.1e-18 Score=142.49 Aligned_cols=79 Identities=37% Similarity=0.668 Sum_probs=70.0
Q ss_pred CCCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcC-eEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 448 DENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGT-YRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 448 ~~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~-F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
..+.|+|+||||||++++|+|.+++||++||+||+......... |.|+++|||+.|...+ ++||+|+||+| +++|+|
T Consensus 3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~-~~tl~e~~l~p-~~~l~v 80 (82)
T PF00789_consen 3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDED-SKTLEEAGLLP-SATLIV 80 (82)
T ss_dssp TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTT-TSBTCCCTTSS-CEEEEE
T ss_pred CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccc-cccHHHhcCCC-CeEEEE
Confidence 35789999999999999999999999999999998765444444 9999999999999876 89999999998 599999
Q ss_pred ee
Q 009661 527 EL 528 (529)
Q Consensus 527 E~ 528 (529)
++
T Consensus 81 ~~ 82 (82)
T PF00789_consen 81 EK 82 (82)
T ss_dssp E-
T ss_pred EC
Confidence 85
No 8
>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=99.75 E-value=4.2e-18 Score=140.22 Aligned_cols=75 Identities=33% Similarity=0.636 Sum_probs=67.1
Q ss_pred cEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEee
Q 009661 451 AVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLEL 528 (529)
Q Consensus 451 ~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE~ 528 (529)
+|+|+||||||++++|+|+.+++|++||+||+++. .....|.|+++||||.|++.+.++||+|+||.| ++++|+.
T Consensus 2 ~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~-~~~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~--s~~~~~~ 76 (77)
T cd01767 2 TTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNG-PPAEPFTLMTSFPRRVLTDLDYELTLQEAGLVN--EVVFQRL 76 (77)
T ss_pred cEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcC-CCCCCEEEEeCCCCccCCCCCccCcHHHcCCcc--ceEEEEe
Confidence 68999999999999999999999999999998654 347889999999999999877899999999996 5777664
No 9
>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=99.69 E-value=1e-16 Score=134.37 Aligned_cols=75 Identities=27% Similarity=0.492 Sum_probs=65.3
Q ss_pred CcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCC-CCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEee
Q 009661 450 NAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRG-IKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLEL 528 (529)
Q Consensus 450 ~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~-~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE~ 528 (529)
+.|+|+||||||+|++|||+.++||++||+||.++.. .....|.|+++||+|.|++. ++||+|+||.+ ++|++.+
T Consensus 3 p~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~--~~Tl~eagL~~--s~v~q~~ 78 (79)
T cd01770 3 PTTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDE--SLTLKEANLLN--AVIVQRL 78 (79)
T ss_pred CeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCC--CCcHHHCCCcC--cEEEEEe
Confidence 4799999999999999999999999999999996543 24578999999999999963 89999999996 5666654
No 10
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=2.7e-15 Score=150.39 Aligned_cols=81 Identities=27% Similarity=0.485 Sum_probs=76.1
Q ss_pred CCCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 448 DENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 448 ~~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
+.+.|+|+||||||+.+...|+...+|..|..||+...+.....|.|.|+|||+.|+.+|..++|++|||.|+ ++|+++
T Consensus 207 ~ys~crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Ps-a~lil~ 285 (290)
T KOG2689|consen 207 DYSQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPS-AVLILE 285 (290)
T ss_pred cccceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCCceecccccccccHHHhccccc-hheecc
Confidence 3578999999999999999999999999999999998888888999999999999999999999999999997 999987
Q ss_pred eC
Q 009661 528 LV 529 (529)
Q Consensus 528 ~i 529 (529)
++
T Consensus 286 ~~ 287 (290)
T KOG2689|consen 286 PL 287 (290)
T ss_pred cc
Confidence 64
No 11
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=99.51 E-value=7.6e-14 Score=146.67 Aligned_cols=79 Identities=34% Similarity=0.582 Sum_probs=72.5
Q ss_pred CCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 449 ENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 449 ~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
.+.|+|+||||||+.++..|..++.|..|.+||........++|.|.++||||+|+++|..+||.||.|.|++++|+|.
T Consensus 312 ~d~~rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvvlp 390 (506)
T KOG2507|consen 312 ADDVRLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVVLP 390 (506)
T ss_pred cceeEEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeeccccccccccchhhhhhHHHhccCCcceEEEEe
Confidence 3789999999999999999999999999999999777778899999999999999999999999999999986555554
No 12
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=98.92 E-value=1.4e-09 Score=114.02 Aligned_cols=77 Identities=29% Similarity=0.508 Sum_probs=65.7
Q ss_pred cCCCCCCCCCCCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCC-CcCeEEEcCCCCcccCCCCcccchhhcCC
Q 009661 439 SLPQEPAPDDENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIK-AGTYRLVRPYPRRAFSDGESALTLNELGL 517 (529)
Q Consensus 439 sLPpEP~a~~~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~-p~~F~LvT~fPRRvft~eD~s~TLeElGL 517 (529)
.|+..|. ...+.|||||.||+|+.-+|+.++||.+||.||+..+... ...|.|+++||.|.|++ .++||+++||
T Consensus 296 sl~~d~~---~PtTsIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D--~sqTle~AgL 370 (380)
T KOG2086|consen 296 SLVIDPA---EPTTSIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSD--DSQTLEEAGL 370 (380)
T ss_pred ccccCCC---CCcceEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCC--cchhHHhccc
Confidence 3544443 4678999999999999999999999999999999876544 44799999999999996 5899999999
Q ss_pred CCC
Q 009661 518 TSK 520 (529)
Q Consensus 518 ~Ps 520 (529)
.++
T Consensus 371 ~Ns 373 (380)
T KOG2086|consen 371 LNS 373 (380)
T ss_pred hhh
Confidence 973
No 13
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.92 E-value=8.8e-10 Score=114.24 Aligned_cols=76 Identities=32% Similarity=0.528 Sum_probs=65.2
Q ss_pred CCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhc-CCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEE
Q 009661 449 ENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVG-RGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALF 525 (529)
Q Consensus 449 ~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~-~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~ 525 (529)
..+|+|+||||||+|.+|||.++++++.||.|+.++ .+.....|+|++.||++.....+.+.||+++||.|+ ++|+
T Consensus 275 svvt~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS-~~~~ 351 (356)
T KOG1364|consen 275 SVVTSIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANS-ETLL 351 (356)
T ss_pred cceeEEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcc-cccc
Confidence 347789999999999999999999999999999764 345577899999999888777778999999999985 5444
No 14
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=97.04 E-value=0.0032 Score=50.64 Aligned_cols=69 Identities=19% Similarity=0.298 Sum_probs=59.4
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
+|.||..+|+.+..++..++|+.+|...|....+..+...+|+ |-.+.+.+ +.||.++|+.+ +.+|.|-
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~--~~g~~L~d---~~tl~~~~i~~-g~~i~l~ 70 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLI--YSGKQMND---DKTAADYKLEG-GSVLHLV 70 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEE--ECCeEccC---CCCHHHcCCCC-CCEEEEE
Confidence 6889999999999999999999999999987777888889998 66777764 68999999997 5777653
No 15
>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=96.82 E-value=0.0022 Score=54.42 Aligned_cols=76 Identities=25% Similarity=0.339 Sum_probs=44.5
Q ss_pred cEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCc-ccCCCCcccchhhcCCCCCceeEEEeeC
Q 009661 451 AVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRR-AFSDGESALTLNELGLTSKQEALFLELV 529 (529)
Q Consensus 451 ~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRR-vft~eD~s~TLeElGL~PsqaaL~VE~i 529 (529)
..-|+||.+||...+ ....++|+.+||+.|....+.....|.|......+ .+.. +.++||.++||.. +.+|||..+
T Consensus 4 ~milRvrS~dG~~Ri-e~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s-~~~~tl~~lglkH-GdmlyL~~~ 80 (80)
T PF11543_consen 4 SMILRVRSKDGMKRI-EVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKS-SDSKTLSSLGLKH-GDMLYLKPM 80 (80)
T ss_dssp --EEEEE-SSEEEEE-EE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS--TT-CCCCT---T-T-EEE----
T ss_pred cEEEEEECCCCCEEE-EcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCccccc-CCcCCHHHcCCCC-ccEEEEecC
Confidence 457999999998544 58899999999999987777777799998765444 3322 3589999999997 799998653
No 16
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=96.50 E-value=0.011 Score=48.32 Aligned_cols=68 Identities=16% Similarity=0.273 Sum_probs=58.8
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
+|.||..+|+.+.-....++|+.+|..-|....+..+..++|+ |=-+.+.+ +.||.++|+.+ +.+|+|
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~--~~G~~L~d---~~~L~~~~i~~-~~~l~l 69 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLL--FKGKALAD---DKRLSDYSIGP-NAKLNL 69 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE--ECCEECCC---CCCHHHCCCCC-CCEEEE
Confidence 6889999999998899999999999999988778888899998 55777764 58999999997 577765
No 17
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=96.48 E-value=0.014 Score=48.58 Aligned_cols=71 Identities=24% Similarity=0.229 Sum_probs=59.7
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
..|.||..+|+.+...+..++|+.+|.+-|....+.....++|...|-.+.+.+ +.||.++|+.+ +.+|+|
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D---~~tL~~~gi~~-gs~l~l 73 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQD---GVPLVSQGLGP-GSTVLL 73 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCC---CCCHHHcCCCC-CCEEEE
Confidence 578999999999999999999999999999877677888899965576777764 57999999987 577755
No 18
>PTZ00044 ubiquitin; Provisional
Probab=96.45 E-value=0.012 Score=47.76 Aligned_cols=69 Identities=20% Similarity=0.390 Sum_probs=59.3
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
.|-||..+|+.+.-++..++|+.+|..-|....+..+...+|+ |--+.+.+ +.||.+.++.+ +.+|.|-
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~--~~g~~L~d---~~~l~~~~i~~-~~~i~l~ 70 (76)
T PTZ00044 2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLI--YSGKQMSD---DLKLSDYKVVP-GSTIHMV 70 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE--ECCEEccC---CCcHHHcCCCC-CCEEEEE
Confidence 5789999999999999999999999999998888888899999 67777764 67899999997 5776653
No 19
>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=96.41 E-value=0.013 Score=46.60 Aligned_cols=69 Identities=22% Similarity=0.287 Sum_probs=57.0
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
++|.||.++|+.+...+..++|+.+|...|....+..+...+|+ |-.+.+.+ +.||.+.|+.+ +..|+|
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~--~~g~~L~d---~~~L~~~~i~~-~~~l~l 69 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLI--YSGRVLKD---DETLSEYKVED-GHTIHL 69 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEE--ECCEECCC---cCcHHHCCCCC-CCEEEE
Confidence 37899999999999999999999999999987767777778887 44666654 67999999997 566665
No 20
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=96.36 E-value=0.022 Score=47.38 Aligned_cols=69 Identities=14% Similarity=0.166 Sum_probs=58.9
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
++|.||-..|+.+.-.+..++|+.+|.+-|....++.+..-+|+ |.-+.|.+ +.||.+.|+.+ +.++++
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi--~~Gk~L~D---~~tL~~ygi~~-~stv~l 70 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLK--KWYTIFKD---HISLGDYEIHD-GMNLEL 70 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEE--eCCcCCCC---CCCHHHcCCCC-CCEEEE
Confidence 57889999999999999999999999999987767888888887 66777764 57999999997 577765
No 21
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=96.18 E-value=0.023 Score=45.68 Aligned_cols=69 Identities=19% Similarity=0.328 Sum_probs=57.9
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
.|.||..+|+.+.-.+..++|+.+|...|....+..+...+|+ |.-+.+.+ +.||.++|+.+ +.+|.|-
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~--~~g~~L~d---~~~L~~~~i~~-~~~i~l~ 70 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI--FAGKQLED---GRTLSDYNIQK-ESTLHLV 70 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEE--ECCEECCC---CCcHHHcCCCC-CCEEEEE
Confidence 5889999999999999999999999999987777777888888 66777764 57999999986 4666653
No 22
>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=96.13 E-value=0.019 Score=47.22 Aligned_cols=67 Identities=15% Similarity=0.253 Sum_probs=57.4
Q ss_pred EEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 454 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 454 IqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
+.||+.+|+.+.-.+..++|+.+|...|....+..+...+|+ |=-+.+.+ +.||.++|+.+ +.+|.|
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li--~~G~~L~D---~~~l~~~~i~~-~~tv~~ 67 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWF--FSGKLLTD---KTRLQETKIQK-DYVVQV 67 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEE--ECCeECCC---CCCHHHcCCCC-CCEEEE
Confidence 468999999999999999999999999987777888888897 66777775 68999999995 577765
No 23
>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=95.96 E-value=0.025 Score=45.62 Aligned_cols=67 Identities=16% Similarity=0.296 Sum_probs=57.2
Q ss_pred EEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 454 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 454 IqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
|-||+.+|..+.-.+..++|+.+|...|....+.....++|+ |=-+.|.+ +.||.++|+.+ +.+|+|
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li--~~G~~L~d---~~~l~~~~i~~-~stl~l 67 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVI--FAGKELRN---TTTIQECDLGQ-QSILHA 67 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEE--ECCeECCC---CCcHHHcCCCC-CCEEEE
Confidence 458999999999999999999999999988777888889997 55777764 68999999997 577765
No 24
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=95.85 E-value=0.04 Score=45.90 Aligned_cols=68 Identities=19% Similarity=0.235 Sum_probs=56.6
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
.+|.||..+|+.+.-.+..++|+.+|..-|....++.+...+|+ |..+.+.+ + ||.++|+.+ +++|+|
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~--~~Gk~L~d---~-~L~~~gi~~-~~~i~l 69 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALL--HRETRLSS---G-KLQDLGLGD-GSKLTL 69 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEE--ECCcCCCC---C-cHHHcCCCC-CCEEEE
Confidence 47899999999999999999999999999987667777788887 66777764 4 899999997 466665
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=95.81 E-value=0.049 Score=44.26 Aligned_cols=68 Identities=13% Similarity=0.235 Sum_probs=56.1
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCC--CCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGI--KAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~--~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
+|.||..+|+.+.-.+..++|+.+|...|....+. .+...+|+ |..+.|.+ +.||.++|+.. +.+|+|
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~--~~G~~L~d---~~~L~~~~i~~-~~~i~~ 71 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLI--YSGKILKD---DTTLEEYKIDE-KDFVVV 71 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEE--ECCEEccC---CCCHHHcCCCC-CCEEEE
Confidence 57899999999988999999999999999876665 67778887 56777764 57999999986 466655
No 26
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=95.76 E-value=0.041 Score=43.83 Aligned_cols=69 Identities=16% Similarity=0.215 Sum_probs=55.8
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
++|.||.. |.....++..++|+.+|..-|....+..+...+|+.. .+.+.+ +.||.++|+.+ +..|+|-
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~--g~~l~d---~~~L~~~~i~~-g~~l~v~ 69 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFK--GKERDD---AETLDMSGVKD-GSKVMLL 69 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeC--CcccCc---cCcHHHcCCCC-CCEEEEe
Confidence 47889986 8888899999999999999998777778888888743 455543 68999999986 5777763
No 27
>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=95.62 E-value=0.098 Score=44.47 Aligned_cols=73 Identities=18% Similarity=0.270 Sum_probs=60.8
Q ss_pred CCCcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 448 DENAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 448 ~~~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
....++|.|+.++|+.+.-+...+++|+.|++.+....+..+..++|+-. -+.|.. +.|+.++|+.. +.++.|
T Consensus 8 ~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~--G~~L~~---~~T~~~l~m~d-~d~I~v 80 (87)
T cd01763 8 ISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFD--GQRIRD---NQTPDDLGMED-GDEIEV 80 (87)
T ss_pred CCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEEC--CeECCC---CCCHHHcCCCC-CCEEEE
Confidence 45789999999999999999999999999999998777888888888853 454553 67999999996 577665
No 28
>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=95.57 E-value=0.045 Score=44.76 Aligned_cols=68 Identities=21% Similarity=0.344 Sum_probs=57.8
Q ss_pred EEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 454 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 454 IqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
|-||.++|+.+.-....++|+.+|..-|....+.....++|+ |=-+.|.+ +.||.+.|+.+ +.+|++-
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~--~~G~~L~D---~~tL~~~~i~~-~~tl~l~ 68 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLS--FEGRPMED---EHPLGEYGLKP-GCTVFMN 68 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEE--ECCEECCC---CCCHHHcCCCC-CCEEEEE
Confidence 468999999999999999999999999987777888899998 55777774 58999999997 5777664
No 29
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=95.45 E-value=0.047 Score=43.35 Aligned_cols=64 Identities=19% Similarity=0.269 Sum_probs=54.9
Q ss_pred ECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 457 RMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 457 RLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
|..+|+.+.-.+..++|+.+|...|....+..+...+|+. --+.+.+ +.||.++|+.+ +++|+|
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~--~G~~L~d---~~tL~~~~i~~-~~~I~l 64 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIY--NGKELDD---DKTLSDYGIKD-GSTIHL 64 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEE--TTEEEST---TSBTGGGTTST-TEEEEE
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeee--eeecccC---cCcHHHcCCCC-CCEEEE
Confidence 5679999999999999999999999988888899999984 4677743 78999999997 677765
No 30
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=95.10 E-value=0.093 Score=42.51 Aligned_cols=68 Identities=10% Similarity=0.212 Sum_probs=55.2
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
++|-||.++|. ..-.+..++|+.+|..-|....+.....++|+ |..+.|.+ +.||.++|+.+ +.+|+|
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li--~~Gk~L~d---~~tL~~~~i~~-~stl~l 68 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLI--FAGKILKD---TDTLTQHNIKD-GLTVHL 68 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEE--ECCeEcCC---CCcHHHcCCCC-CCEEEE
Confidence 36889999996 46678899999999999987666777788886 56777764 57999999997 677766
No 31
>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=94.79 E-value=0.16 Score=44.99 Aligned_cols=72 Identities=18% Similarity=0.222 Sum_probs=61.5
Q ss_pred CcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 450 NAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 450 ~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
+...|-||..+|+.+.-....++|+.+|...|....+.....++|+ |=-+.|.+ +.||.+.++.+ +.+|.|-
T Consensus 26 ~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi--~~Gk~L~D---~~tL~dy~I~~-~stL~l~ 97 (103)
T cd01802 26 DTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLI--WNNMELED---EYCLNDYNISE-GCTLKLV 97 (103)
T ss_pred CCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEE--ECCEECCC---CCcHHHcCCCC-CCEEEEE
Confidence 4678999999999999999999999999999987777888899998 55777765 58999999997 5777764
No 32
>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=94.57 E-value=0.13 Score=42.11 Aligned_cols=68 Identities=18% Similarity=0.236 Sum_probs=56.7
Q ss_pred EEEECC-CCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 454 LLVRMP-DGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 454 IqIRLP-DGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
|-||++ +|+.+.-....+.|+.+|...|....+......+|+ |=-+.+.+ ...+|.++|+.+ +.+|+|
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li--~~Gk~L~D--~~~~L~~~gi~~-~~~l~l 69 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLI--YNGRELVD--NKRLLALYGVKD-GDLVVL 69 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEE--ECCeEccC--CcccHHHcCCCC-CCEEEE
Confidence 457999 999898999999999999999988778888888998 44777754 357999999997 577776
No 33
>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=93.18 E-value=0.21 Score=45.62 Aligned_cols=62 Identities=15% Similarity=0.226 Sum_probs=48.7
Q ss_pred CcEEEEEECCCCCEE-EEEecCCCcHHHHHHHHHhcCC-------CCCcCeEEEcCCCCcccCCCCcccchhhcC
Q 009661 450 NAVTLLVRMPDGSRR-GRRFLKSNKLQSLFDYIDVGRG-------IKAGTYRLVRPYPRRAFSDGESALTLNELG 516 (529)
Q Consensus 450 ~~vrIqIRLPDGsRi-~RRF~~SDTLqdLydFVd~~~~-------~~p~~F~LvT~fPRRvft~eD~s~TLeElG 516 (529)
+.+.|.|||+||+-+ -.+|..++|+.+|..-|....+ +....-+|+ |=-|+|.+ ++||.+++
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 568899999999754 5789999999999999975553 334556777 45777775 68999999
No 34
>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=92.84 E-value=0.32 Score=52.28 Aligned_cols=68 Identities=16% Similarity=0.287 Sum_probs=56.8
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCC---CCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRG---IKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~---~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
+|.||..+|+.+.-.+..++||.+|...|....+ +.....+|+ |--|+|.+ ++||.++||.. +.+|+|
T Consensus 2 kItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GkiL~D---d~tL~dy~I~e-~~~Ivv 72 (378)
T TIGR00601 2 TLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLI--YSGKILSD---DKTVREYKIKE-KDFVVV 72 (378)
T ss_pred EEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEE--ECCEECCC---CCcHHHcCCCC-CCEEEE
Confidence 6889999999999999999999999999987665 667888998 66888875 57999999986 355554
No 35
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=92.79 E-value=0.35 Score=37.04 Aligned_cols=61 Identities=21% Similarity=0.241 Sum_probs=49.5
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCC
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTS 519 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~P 519 (529)
+|.||.++ +.+.-++..+.|+.+|..-|....+..+...+|+. -.+.+.+ +.||.++|+.+
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 68899998 57888999999999999999876677777788874 3556654 58999999975
No 36
>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=92.71 E-value=0.51 Score=39.56 Aligned_cols=69 Identities=22% Similarity=0.263 Sum_probs=55.2
Q ss_pred EEEEECCCCCE-EEE-EecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 453 TLLVRMPDGSR-RGR-RFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 453 rIqIRLPDGsR-i~R-RF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
.|-||..+|+. +.- -...++|+.+|..-|....+..+...+|+ |=-|.|.+ +.||.+.|+.+ +++|+|-
T Consensus 2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi--~~Gk~L~D---~~tL~~y~i~~-~~~i~l~ 72 (78)
T cd01797 2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLF--YRGKQMED---GHTLFDYNVGL-NDIIQLL 72 (78)
T ss_pred EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEE--eCCEECCC---CCCHHHcCCCC-CCEEEEE
Confidence 57899999986 333 35678999999999987777888899998 55777765 68999999997 5777663
No 37
>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=92.67 E-value=0.45 Score=36.84 Aligned_cols=66 Identities=20% Similarity=0.282 Sum_probs=51.5
Q ss_pred EECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEe
Q 009661 456 VRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 456 IRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
||..+|..+...+..+.|+.+|...|....+..+....|+. -.+.+.+ +.||.++|+.+ +..|+|-
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~--~g~~l~d---~~~l~~~~v~~-~~~i~v~ 67 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIY--AGKILKD---DKTLSDYGIQD-GSTLHLV 67 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEE--CCcCCCC---cCCHHHCCCCC-CCEEEEE
Confidence 57778999999999999999999999876676677777743 3455543 67999999997 5766663
No 38
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=92.18 E-value=0.63 Score=38.65 Aligned_cols=70 Identities=16% Similarity=0.297 Sum_probs=54.9
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcC-CCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRP-YPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~-fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
++|.|++ +|+.+.-.+..++|+.+|..-|....+..+..-+|+-. |=.+.+.+ +.||.++|+.+ +..|+|
T Consensus 1 ~~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D---~~~L~~~~i~~-g~~i~l 71 (74)
T cd01813 1 VPVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAED---DVKISALKLKP-NTKIMM 71 (74)
T ss_pred CEEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCC---CcCHHHcCCCC-CCEEEE
Confidence 3688888 88888889999999999999999888888999999852 22333332 68999999997 455554
No 39
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=91.96 E-value=0.98 Score=40.82 Aligned_cols=64 Identities=27% Similarity=0.282 Sum_probs=45.8
Q ss_pred cEEEEEECCCCC-EEEEEecCCCcHHHHHHHHHhcCCC-------CCcCeEEEcCCCCcccCCCCcccchhhcCCCC
Q 009661 451 AVTLLVRMPDGS-RRGRRFLKSNKLQSLFDYIDVGRGI-------KAGTYRLVRPYPRRAFSDGESALTLNELGLTS 519 (529)
Q Consensus 451 ~vrIqIRLPDGs-Ri~RRF~~SDTLqdLydFVd~~~~~-------~p~~F~LvT~fPRRvft~eD~s~TLeElGL~P 519 (529)
.+.|.|||.||+ +..-+|..++|+.+|..+|-..-.. .+...+|+.. -|.|.+ +.||.++++..
T Consensus 2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~--GriL~d---~~tL~~~~~~~ 73 (111)
T PF13881_consen 2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYA--GRILED---NKTLSDCRLPS 73 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEET--TEEE-S---SSBTGGGT--T
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeC--CeecCC---cCcHHHhCCCC
Confidence 589999999999 8999999999999999999753211 2345778742 456664 78999998764
No 40
>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=91.74 E-value=0.87 Score=37.22 Aligned_cols=66 Identities=17% Similarity=0.172 Sum_probs=53.2
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
.|-||. ++.+.-.+..++|+.+|..-|....+..+...+|+ |=-+.+.+ +.||.++|+.+ +++|.|
T Consensus 2 qi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li--~~Gk~L~D---~~tL~~~~i~~-~~tl~l 67 (74)
T cd01793 2 QLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLL--LAGVPLED---DATLGQCGVEE-LCTLEV 67 (74)
T ss_pred EEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEE--ECCeECCC---CCCHHHcCCCC-CCEEEE
Confidence 466776 46677888999999999999987777888888888 44677765 58999999997 577766
No 41
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=91.57 E-value=0.65 Score=37.27 Aligned_cols=69 Identities=19% Similarity=0.293 Sum_probs=53.6
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCC-cCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKA-GTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p-~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
++|.|+..+|+.+.-+-..+++++.|++......+... ..++|+- =-+.+.. +.|++++||.. +..+-|
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~f--dG~~L~~---~~T~~~~~ied-~d~Idv 70 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIF--DGKRLDP---NDTPEDLGIED-GDTIDV 70 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEE--TTEEE-T---TSCHHHHT-ST-TEEEEE
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEE--CCEEcCC---CCCHHHCCCCC-CCEEEE
Confidence 47899999999999999999999999998876667777 7888873 3444543 68999999996 566544
No 42
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=90.79 E-value=0.96 Score=31.90 Aligned_cols=65 Identities=22% Similarity=0.251 Sum_probs=48.3
Q ss_pred EECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 456 VRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 456 IRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
|++++|.....++..+.|+.+|+.+|....+..+..|.|+...+...- ..++.+.++.. +..+.|
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~-----~~~~~~~~~~~-~~~i~~ 66 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPD-----SLTLEDYGLQD-GDELVL 66 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCC-----CCcHHHcCCCC-CCEEEE
Confidence 677799999999999999999999998766677888999987665421 23445666665 344444
No 43
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=89.51 E-value=1.7 Score=36.67 Aligned_cols=76 Identities=18% Similarity=0.204 Sum_probs=56.4
Q ss_pred EEEEEECCCCC--EEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcC---CCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 452 VTLLVRMPDGS--RRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRP---YPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 452 vrIqIRLPDGs--Ri~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~---fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
++|.|..++-+ ...+||..+.||.+|..-|+...|..+...+|.-- -+.......+..++|...|+.. +..|+|
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~d-g~~i~V 80 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKD-GMRIHV 80 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-ST-TEEEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCC-CCEEEE
Confidence 67788877664 89999999999999999999888888888777642 1222222345689999999997 588887
Q ss_pred ee
Q 009661 527 EL 528 (529)
Q Consensus 527 E~ 528 (529)
..
T Consensus 81 ~D 82 (87)
T PF14560_consen 81 VD 82 (87)
T ss_dssp EE
T ss_pred Ee
Confidence 64
No 44
>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=88.57 E-value=1.3 Score=36.60 Aligned_cols=61 Identities=20% Similarity=0.180 Sum_probs=49.7
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 460 DGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 460 DGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
+|+.+.-.+..++|+.+|..-|....+..+...+|+- --+.+.+ +.||.++|+.+ +.+|+|
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~--~G~~L~d---~~tL~~~~i~~-g~~l~v 66 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQY--EGIFIKD---SNSLAYYNLAN-GTIIHL 66 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEE--CCEEcCC---CCcHHHcCCCC-CCEEEE
Confidence 6788888999999999999999887788888888883 3455553 58999999997 577765
No 45
>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=88.48 E-value=2.4 Score=35.42 Aligned_cols=68 Identities=13% Similarity=0.095 Sum_probs=52.9
Q ss_pred EECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEee
Q 009661 456 VRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLEL 528 (529)
Q Consensus 456 IRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE~ 528 (529)
=+...|+.+.-.|..++||.+|...|....+..+...+| |--+.+.. ...||.++|+.+.+.+|++-.
T Consensus 7 ~~~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL---~~G~~L~d--D~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 7 DAQSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW---VIGQRLAR--DQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred ccccCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE---EcCCeeCC--CcCCHHHcCCCCCCCEEEEEe
Confidence 355677888899999999999999998877888888888 33444432 368999999995457887753
No 46
>PF02809 UIM: Ubiquitin interaction motif; InterPro: IPR003903 The Ubiquitin Interacting Motif (UIM), or 'LALAL-motif', is a stretch of about 20 amino acid residues, which was first described in the 26S proteasome subunit PSD4/RPN-10 that is known to recognise ubiquitin [,]. In addition, the UIM is found, often in tandem or triplet arrays, in a variety of proteins either involved in ubiquitination and ubiquitin metabolism, or known to interact with ubiquitin-like modifiers. Among the UIM proteins are two different subgroups of the UBP (ubiquitin carboxy-terminal hydrolase) family of deubiquitinating enzymes, one F-box protein, one family of HECT-containing ubiquitin-ligases (E3s) from plants, and several proteins containing ubiquitin-associated UBA and/or UBX domains []. In most of these proteins, the UIM occurs in multiple copies and in association with other domains such as UBA (IPR015940 from INTERPRO), UBX (IPR001012 from INTERPRO), ENTH, EH (IPR000261 from INTERPRO), VHS (IPR002014 from INTERPRO), SH3 (IPR001452 from INTERPRO), HECT (IPR000569 from INTERPRO), VWFA (IPR002035 from INTERPRO), EF-hand calcium-binding, WD-40 (IPR001680 from INTERPRO), F-box (IPR001810 from INTERPRO), LIM (IPR001781 from INTERPRO), protein kinase (IPR000719 from INTERPRO), ankyrin (IPR002110 from INTERPRO), PX (IPR001683 from INTERPRO), phosphatidylinositol 3- and 4-kinase (IPR000403 from INTERPRO), C2 (IPR000008 from INTERPRO), OTU (IPR003323 from INTERPRO), dnaJ (IPR001623 from INTERPRO), RING-finger (IPR001841 from INTERPRO) or FYVE-finger (IPR017455 from INTERPRO). UIMs have been shown to bind ubiquitin and to serve as a specific targeting signal important for monoubiquitination. Thus, UIMs may have several functions in ubiquitin metabolism each of which may require different numbers of UIMs [, , ]. The UIM is unlikely to form an independent folding domain. Instead, based on the spacing of the conserved residues, the motif probably forms a short alpha-helix that can be embedded into different protein folds []. Some proteins known to contain an UIM are listed below: Eukaryotic PSD4/RPN-10/S5, a multi-ubiquitin binding subunit of the 26S proteasome. Vertebrate Machado-Joseph disease protein 1 (Ataxin-3), which acts as a histone-binding protein that regulates transcription; defects in Ataxin-3 cause the neurodegenerative disorder Machado-Joseph disease (MJD). Vertebrate epsin and epsin2. Vertebrate hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). Mammalian epidermal growth factor receptor substrate 15 (EPS15), which is involved in cell growth regulation. Mammalian epidermal growth factor receptor substrate EPS15R. Drosophila melanogaster (Fruit fly) liquid facets (lqf), an epsin. Yeast VPS27 vacuolar sorting protein, which is required for membrane traffic to the vacuole. ; PDB: 2KDE_A 2KDF_A 1YX6_A 1YX5_A 1YX4_A 1P9C_A 1UEL_B 1P9D_S 2KLZ_A.
Probab=81.20 E-value=1.4 Score=28.08 Aligned_cols=16 Identities=38% Similarity=0.424 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHhHHH
Q 009661 159 IEEEMIRAAIEASKQE 174 (529)
Q Consensus 159 ieeemiraaieask~~ 174 (529)
-|+++++.||+.|.++
T Consensus 2 ~Ed~~L~~Al~~S~~e 17 (18)
T PF02809_consen 2 DEDEDLQRALEMSLEE 17 (18)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHhhhcc
Confidence 4777777777777765
No 47
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=78.96 E-value=5.6 Score=35.01 Aligned_cols=63 Identities=16% Similarity=0.257 Sum_probs=39.1
Q ss_pred EEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCC-CCcccchhhcCCCCCceeEEEe
Q 009661 463 RRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSD-GESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 463 Ri~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~-eD~s~TLeElGL~PsqaaL~VE 527 (529)
.+++.|.+.|||..|...+...... ...-+|-.-|=.-.+.. .+...||+|+||... -+|++|
T Consensus 15 ~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~g-Q~vliE 78 (88)
T PF14836_consen 15 VLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDG-QVVLIE 78 (88)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TT-EEEEEE
T ss_pred HhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCC-CEEEEE
Confidence 5899999999999999988654444 55566665333222221 134789999999974 566666
No 48
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=78.77 E-value=8.5 Score=45.37 Aligned_cols=17 Identities=24% Similarity=0.143 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 009661 373 RLIREQQDDEYLASLQA 389 (529)
Q Consensus 373 R~LREEQD~aY~eSLra 389 (529)
+..+|+|.++-.+-|+.
T Consensus 227 qe~eE~qkreeEE~~r~ 243 (1064)
T KOG1144|consen 227 QEEEERQKREEEERLRR 243 (1064)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333444444443333
No 49
>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=77.48 E-value=12 Score=32.16 Aligned_cols=60 Identities=20% Similarity=0.236 Sum_probs=47.2
Q ss_pred EEEEEECCCCCE--EEEEecCCCcHHHHHHHHHhcCC--CCCcCeEEEcCCCCcccCCCCcccchhhcC
Q 009661 452 VTLLVRMPDGSR--RGRRFLKSNKLQSLFDYIDVGRG--IKAGTYRLVRPYPRRAFSDGESALTLNELG 516 (529)
Q Consensus 452 vrIqIRLPDGsR--i~RRF~~SDTLqdLydFVd~~~~--~~p~~F~LvT~fPRRvft~eD~s~TLeElG 516 (529)
++|.||.|+|++ +.-.|..++|+.+|-.-|....+ ..+..-+|+ |=-|+|.+ +.||.+.+
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 689999999998 55556899999999999976543 335677888 56788865 58999885
No 50
>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=76.91 E-value=6.5 Score=32.75 Aligned_cols=71 Identities=18% Similarity=0.242 Sum_probs=46.6
Q ss_pred cEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCC---CC---cCeEEEcCCCCcccCCCCcccchhhcCCCCCceeE
Q 009661 451 AVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGI---KA---GTYRLVRPYPRRAFSDGESALTLNELGLTSKQEAL 524 (529)
Q Consensus 451 ~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~---~p---~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL 524 (529)
.|+|.|..++|+++--....+-++..|..-|-...+. .. ..|.|.+ -.-+.|.. +.||.++|+.. +..|
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~-~~g~~L~~---~~tL~~~gV~d-Gd~L 76 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLAR-AGGRPLDP---DQTLADAGVRD-GDVL 76 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG--GGTEEEET---TSBCGGGT--T-T-EE
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEe-cCCcccCC---cCcHhHcCCCC-CCEE
Confidence 5899999988899999999999999988887543332 11 2577773 34445554 78999999997 6777
Q ss_pred EE
Q 009661 525 FL 526 (529)
Q Consensus 525 ~V 526 (529)
.+
T Consensus 77 ~L 78 (79)
T PF08817_consen 77 VL 78 (79)
T ss_dssp EE
T ss_pred Ee
Confidence 76
No 51
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=76.77 E-value=14 Score=43.70 Aligned_cols=10 Identities=10% Similarity=-0.220 Sum_probs=6.9
Q ss_pred CCCCcccccc
Q 009661 49 SLLDPSSRRR 58 (529)
Q Consensus 49 ~lldp~~~r~ 58 (529)
+++-|+|+++
T Consensus 104 p~~~p~fg~G 113 (1118)
T KOG1029|consen 104 PSTWPGFGMG 113 (1118)
T ss_pred CCCCCccCCC
Confidence 4567788775
No 52
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=76.55 E-value=11 Score=44.37 Aligned_cols=12 Identities=33% Similarity=0.401 Sum_probs=5.8
Q ss_pred ccHHHHHHHHHH
Q 009661 367 PSLEAQRLIREQ 378 (529)
Q Consensus 367 ~~le~~R~LREE 378 (529)
.+|+..|++.++
T Consensus 327 aELerRRq~lee 338 (1118)
T KOG1029|consen 327 AELERRRQALEE 338 (1118)
T ss_pred HHHHHHHHHHHH
Confidence 345555554443
No 53
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=75.92 E-value=20 Score=43.58 Aligned_cols=6 Identities=17% Similarity=0.340 Sum_probs=2.3
Q ss_pred hhhhhh
Q 009661 194 DLAHAV 199 (529)
Q Consensus 194 d~a~av 199 (529)
+|..-|
T Consensus 270 eL~dLI 275 (1021)
T PTZ00266 270 ELNILI 275 (1021)
T ss_pred HHHHHH
Confidence 343333
No 54
>smart00726 UIM Ubiquitin-interacting motif. Present in proteasome subunit S5a and other ubiquitin-associated proteins.
Probab=75.52 E-value=2.6 Score=29.15 Aligned_cols=19 Identities=47% Similarity=0.525 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHhHHHHhhc
Q 009661 160 EEEMIRAAIEASKQEAENV 178 (529)
Q Consensus 160 eeemiraaieask~~~~~~ 178 (529)
|+|||+.||+.|.++.+..
T Consensus 2 EDe~Lq~Ai~lSl~e~e~~ 20 (26)
T smart00726 2 EDEDLQLALELSLQEAEES 20 (26)
T ss_pred hHHHHHHHHHHhHHHhhhc
Confidence 5677788888887776554
No 55
>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=74.22 E-value=21 Score=30.22 Aligned_cols=75 Identities=11% Similarity=0.101 Sum_probs=53.0
Q ss_pred EEEEEECCC-CCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCc---ccCCCCcccchhhcCCCCCceeEEEe
Q 009661 452 VTLLVRMPD-GSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRR---AFSDGESALTLNELGLTSKQEALFLE 527 (529)
Q Consensus 452 vrIqIRLPD-GsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRR---vft~eD~s~TLeElGL~PsqaaL~VE 527 (529)
++|.|.... .....|||..+.|+..|..=+....+..+..-+|.- |..+ +-...+...+|...|+.+ +..|+|.
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l-~~~~~~~~~~l~~d~~~L~~y~~~d-g~~IhVv 79 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQL-FDGDDKLVSKLDDDDALLGSYPVDD-GCRIHVI 79 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEE-EcCCCCeEeecCCCccEeeeccCCC-CCEEEEE
Confidence 456666543 345899999999999999998876677788877742 2333 111234578999999997 5777765
Q ss_pred e
Q 009661 528 L 528 (529)
Q Consensus 528 ~ 528 (529)
.
T Consensus 80 D 80 (84)
T cd01789 80 D 80 (84)
T ss_pred e
Confidence 4
No 56
>KOG3654 consensus Uncharacterized CH domain protein [Cytoskeleton]
Probab=73.61 E-value=15 Score=41.47 Aligned_cols=56 Identities=34% Similarity=0.334 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009661 374 LIREQQDDEYLASLQADREKAEARRLMEEEARNAALAEERRKEEETRRKMEEQQEYE 430 (529)
Q Consensus 374 ~LREEQD~aY~eSLraDrEK~e~rr~EEe~aR~aaeEeeR~keEE~~rk~ee~eele 430 (529)
+|-.||.++-+.-++..+...+...+.||++|++++++.+ +++|..++..-+++.+
T Consensus 396 llekqqrraeear~rkqqleae~e~kreearrkaeeer~~-keee~arrefirqey~ 451 (708)
T KOG3654|consen 396 LLEKQQRRAEEARRRKQQLEAEKEQKREEARRKAEEERAP-KEEEVARREFIRQEYE 451 (708)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhhcc-hhhhhhHHHHHHHHHH
Confidence 4666777777777777766655544445555655555444 4445444444444433
No 57
>smart00726 UIM Ubiquitin-interacting motif. Present in proteasome subunit S5a and other ubiquitin-associated proteins.
Probab=71.58 E-value=1.9 Score=29.83 Aligned_cols=19 Identities=53% Similarity=0.648 Sum_probs=17.1
Q ss_pred ccchhhhhhhhhhhHHHHH
Q 009661 191 EDVDLAHAVSLSLRTAEQE 209 (529)
Q Consensus 191 ed~d~a~avslsl~~~~~~ 209 (529)
||++|++||.||+.+++..
T Consensus 2 EDe~Lq~Ai~lSl~e~e~~ 20 (26)
T smart00726 2 EDEDLQLALELSLQEAEES 20 (26)
T ss_pred hHHHHHHHHHHhHHHhhhc
Confidence 6889999999999998865
No 58
>PTZ00266 NIMA-related protein kinase; Provisional
Probab=71.35 E-value=26 Score=42.57 Aligned_cols=12 Identities=25% Similarity=0.714 Sum_probs=6.1
Q ss_pred CCCCCCCChhhh
Q 009661 311 SDEWGGISSEEH 322 (529)
Q Consensus 311 ~~ewggi~s~e~ 322 (529)
.+.|||--++|.
T Consensus 423 ~g~~g~r~eke~ 434 (1021)
T PTZ00266 423 NGHYGGRVDKDH 434 (1021)
T ss_pred cCccccccchhH
Confidence 444666554444
No 59
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=69.78 E-value=30 Score=39.39 Aligned_cols=11 Identities=27% Similarity=0.332 Sum_probs=5.0
Q ss_pred HHHHHHHHHHH
Q 009661 370 EAQRLIREQQD 380 (529)
Q Consensus 370 e~~R~LREEQD 380 (529)
++++++-+.+|
T Consensus 186 e~Q~qv~qsl~ 196 (591)
T KOG2412|consen 186 EEQNQVLQSLD 196 (591)
T ss_pred HHHHHHHHHHH
Confidence 44444444444
No 60
>KOG0163 consensus Myosin class VI heavy chain [Cytoskeleton]
Probab=67.25 E-value=37 Score=40.30 Aligned_cols=12 Identities=33% Similarity=0.266 Sum_probs=7.3
Q ss_pred CCcHHHHHHHHH
Q 009661 471 SNKLQSLFDYID 482 (529)
Q Consensus 471 SDTLqdLydFVd 482 (529)
.++-.+|.|-|-
T Consensus 1069 ~wkyaeLRDtIN 1080 (1259)
T KOG0163|consen 1069 KWKYAELRDTIN 1080 (1259)
T ss_pred cccHHHHHHhhc
Confidence 466666666654
No 61
>PLN02560 enoyl-CoA reductase
Probab=64.08 E-value=31 Score=36.33 Aligned_cols=74 Identities=18% Similarity=0.209 Sum_probs=51.2
Q ss_pred EEEEECCCCCEE---EEEecCCCcHHHHHHHHHhcCCC-CCcCeEEEcC----CCCcccCCCCcccchhhcCCCCCceeE
Q 009661 453 TLLVRMPDGSRR---GRRFLKSNKLQSLFDYIDVGRGI-KAGTYRLVRP----YPRRAFSDGESALTLNELGLTSKQEAL 524 (529)
Q Consensus 453 rIqIRLPDGsRi---~RRF~~SDTLqdLydFVd~~~~~-~p~~F~LvT~----fPRRvft~eD~s~TLeElGL~PsqaaL 524 (529)
+|.|+..+|+.+ .-....+.|+.+|..-|....+. .+..-+|.-. =|+...- +.++||.+.|+.. +++|
T Consensus 2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L--~d~ktL~d~gv~~-gstL 78 (308)
T PLN02560 2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVL--DDSKSLKDYGLGD-GGTV 78 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCcccc--CCCCCHHhcCCCC-CceE
Confidence 477788889876 45788999999999999755432 4556666631 1232222 2367999999986 6889
Q ss_pred EEeeC
Q 009661 525 FLELV 529 (529)
Q Consensus 525 ~VE~i 529 (529)
+|.++
T Consensus 79 y~kDL 83 (308)
T PLN02560 79 VFKDL 83 (308)
T ss_pred EEEeC
Confidence 88764
No 62
>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=63.90 E-value=15 Score=31.32 Aligned_cols=52 Identities=17% Similarity=0.229 Sum_probs=40.4
Q ss_pred cCCCcHHHHHHHHHhcC--CC-CCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 469 LKSNKLQSLFDYIDVGR--GI-KAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 469 ~~SDTLqdLydFVd~~~--~~-~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
..++|+.+|..-|.... +. .+..++|+ |=-|.|.+ +.||.+.|+.+ +++|++
T Consensus 18 ~~~~TV~~LK~kI~~~~~egi~~~dqQrLI--y~GKiL~D---~~TL~dygI~~-gstlhL 72 (75)
T cd01815 18 PGGYQVSTLKQLIAAQLPDSLPDPELIDLI--HCGRKLKD---DQTLDFYGIQS-GSTIHI 72 (75)
T ss_pred CccCcHHHHHHHHHHhhccCCCChHHeEEE--eCCcCCCC---CCcHHHcCCCC-CCEEEE
Confidence 46899999999997653 23 47789999 66787764 68999999997 566665
No 63
>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=63.70 E-value=26 Score=28.91 Aligned_cols=57 Identities=16% Similarity=0.191 Sum_probs=42.0
Q ss_pred cCCCcHHHHHHHHHhcCC-CCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEEeeC
Q 009661 469 LKSNKLQSLFDYIDVGRG-IKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFLELV 529 (529)
Q Consensus 469 ~~SDTLqdLydFVd~~~~-~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~VE~i 529 (529)
..+.|+.+|+..+..... +.+...+|.-.+..+.|.+ +.||.+.|+.. +.+|+|-.|
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d---~~tL~~~gv~~-g~~lyvKDL 77 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKD---DDTLVDLGVGA-GATLYVRDL 77 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCC---cccHhhcCCCC-CCEEEEeeC
Confidence 456899999999975432 3456667776677777764 56899999986 578888654
No 64
>COG3122 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=62.89 E-value=49 Score=33.06 Aligned_cols=26 Identities=15% Similarity=0.286 Sum_probs=20.1
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHH
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLF 478 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLy 478 (529)
.|.+-|+||..+.|=|-...+...|.
T Consensus 128 Di~~nF~d~~kIKrI~V~~l~~~~L~ 153 (215)
T COG3122 128 DIGFNFTDGNKIKRIYVDKLTQAQLI 153 (215)
T ss_pred cceeeccCCCEeEEEEecHHHHHHHh
Confidence 48899999998888877766665543
No 65
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=62.57 E-value=21 Score=39.46 Aligned_cols=71 Identities=23% Similarity=0.337 Sum_probs=52.1
Q ss_pred EEEEECCCCCEEEEEecCCCcHH----HHHHHHHhcCCCCCcCeEEEcCCC-C-cccCCCCcccchhhcCCCCCceeEEE
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQ----SLFDYIDVGRGIKAGTYRLVRPYP-R-RAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLq----dLydFVd~~~~~~p~~F~LvT~fP-R-Rvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
-++||-++|.+. -.|..+|+|. .|..|++ .++.+.+|.+++.-- . -.|+. ..++|+.+|||.. +-+|+|
T Consensus 2 i~rfRsk~G~~R-ve~qe~d~lg~l~~kll~~~~--~n~~~e~~svc~~p~~qG~~~s~-l~dqt~~dlGL~h-GqmLyl 76 (571)
T COG5100 2 IFRFRSKEGQRR-VEVQESDVLGMLSPKLLAFFE--VNYSPEQISVCSAPDGQGEIFSL-LKDQTPDDLGLRH-GQMLYL 76 (571)
T ss_pred eEEEecCCCcee-eeccccchhhhhhHHHHhhhc--cCCCccceEEEeCCCCCceeeec-ccccChhhhcccc-CcEEEE
Confidence 378999999844 3788899987 4556665 347888999987422 2 24554 5689999999997 578888
Q ss_pred ee
Q 009661 527 EL 528 (529)
Q Consensus 527 E~ 528 (529)
+.
T Consensus 77 ~y 78 (571)
T COG5100 77 EY 78 (571)
T ss_pred Ee
Confidence 74
No 66
>KOG2412 consensus Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor [RNA processing and modification]
Probab=60.94 E-value=67 Score=36.73 Aligned_cols=16 Identities=13% Similarity=0.075 Sum_probs=7.0
Q ss_pred hhHHHHHHHHHhCCCC
Q 009661 322 HDEAVMLEAAMFGGIP 337 (529)
Q Consensus 322 ~dea~mleaam~gg~p 337 (529)
|....||-.-+.-+++
T Consensus 117 ~e~~~~l~~L~~~~~~ 132 (591)
T KOG2412|consen 117 HENEQDLNKLGLKESA 132 (591)
T ss_pred cchhhhHHHHHHhhcc
Confidence 4444444444444443
No 67
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=60.50 E-value=60 Score=38.00 Aligned_cols=14 Identities=14% Similarity=0.143 Sum_probs=7.5
Q ss_pred hhcCCCCCceeEEEe
Q 009661 513 NELGLTSKQEALFLE 527 (529)
Q Consensus 513 eElGL~PsqaaL~VE 527 (529)
..+.+..+ +.++|+
T Consensus 457 ~~adf~~s-a~kpve 470 (811)
T KOG4364|consen 457 EEADFDGS-ACKPVE 470 (811)
T ss_pred eecccccc-cceeec
Confidence 45555554 555554
No 68
>KOG4364 consensus Chromatin assembly factor-I [Chromatin structure and dynamics]
Probab=59.40 E-value=57 Score=38.19 Aligned_cols=10 Identities=20% Similarity=0.232 Sum_probs=4.8
Q ss_pred CCCCCCCCCc
Q 009661 69 REPHVTHPRE 78 (529)
Q Consensus 69 r~p~vshpre 78 (529)
-.+.-+.-||
T Consensus 19 k~~ld~~kre 28 (811)
T KOG4364|consen 19 KKKLDKRKRE 28 (811)
T ss_pred cCccchhhhc
Confidence 3444455555
No 69
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=59.02 E-value=46 Score=37.14 Aligned_cols=43 Identities=14% Similarity=0.094 Sum_probs=21.8
Q ss_pred CCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccC
Q 009661 460 DGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFS 504 (529)
Q Consensus 460 DGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft 504 (529)
+=.++.-||...+.+.-=|..-+ ......+|.....++...|.
T Consensus 382 ~~~~l~iR~P~G~r~~RrF~~s~--~~q~l~~~v~~~~~~~~e~~ 424 (460)
T KOG1363|consen 382 EAITVAIRLPSGTRLERRFLKSD--KLQILYDYVDSNGFHPEEYS 424 (460)
T ss_pred cceeeEEECCCCCeeeeeeeccc--chhHHHHHHHhccCCchhhc
Confidence 33567788888777653333222 11123344444455555554
No 70
>PLN02316 synthase/transferase
Probab=57.48 E-value=81 Score=38.65 Aligned_cols=24 Identities=8% Similarity=-0.028 Sum_probs=15.4
Q ss_pred CCCCCCccHHHHHHHHHHHHHHHH
Q 009661 361 VPRPPSPSLEAQRLIREQQDDEYL 384 (529)
Q Consensus 361 i~R~~~~~le~~R~LREEQD~aY~ 384 (529)
.........+.+..|++++-+++.
T Consensus 236 ~V~~~~~~~~~~~~l~ee~~~e~~ 259 (1036)
T PLN02316 236 EIEGGMDEHSFEDFLLEEKRRELE 259 (1036)
T ss_pred EeCCCCCHHHHHHHHHHHHHHHHH
Confidence 344556666677778887666664
No 71
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=57.25 E-value=58 Score=38.86 Aligned_cols=10 Identities=20% Similarity=0.454 Sum_probs=4.3
Q ss_pred CchHHHHHHH
Q 009661 156 SNDIEEEMIR 165 (529)
Q Consensus 156 ~ndieeemir 165 (529)
..|..+-.+.
T Consensus 14 d~d~~ea~l~ 23 (1064)
T KOG1144|consen 14 DGDASEALLA 23 (1064)
T ss_pred cccHHHHHHH
Confidence 3444444444
No 72
>PF06098 Radial_spoke_3: Radial spoke protein 3; InterPro: IPR009290 This family consists of several radial spoke protein 3 (RSP3) sequences. Eukaryotic cilia and flagella present in diverse types of cells perform motile, sensory, and developmental functions in organisms from protists to humans. They are centred by precisely organised, microtubule-based structures, the axonemes. The axoneme consists of two central singlet microtubules, called the central pair, and nine outer doublet microtubules. These structures are well conserved during evolution. The outer doublet microtubules, each composed of A and B sub-fibres, are connected to each other by nexin links, while the central pair is held at the centre of the axoneme by radial spokes. The radial spokes are T-shaped structures extending from the A-tubule of each outer doublet microtubule to the centre of the axoneme. Radial spoke protein 3 (RSP3), is present at the proximal end of the spoke stalk and helps in anchoring the radial spoke to the outer doublet. It is thought that radial spokes regulate the activity of inner arm dynein through protein phosphorylation and dephosphorylation [].
Probab=57.25 E-value=99 Score=32.65 Aligned_cols=28 Identities=25% Similarity=0.334 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009661 371 AQRLIREQQDDEYLASLQADREKAEARR 398 (529)
Q Consensus 371 ~~R~LREEQD~aY~eSLraDrEK~e~rr 398 (529)
.++-|.|-.+++=++.|++.+..-++.|
T Consensus 142 lEQAl~EV~EEeEL~~lr~~q~~fe~~R 169 (291)
T PF06098_consen 142 LEQALMEVMEEEELAALRRQQRAFEELR 169 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666667777777777776654443
No 73
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=55.28 E-value=44 Score=35.09 Aligned_cols=27 Identities=15% Similarity=0.352 Sum_probs=16.6
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009661 367 PSLEAQRLIREQQDDEYLASLQADREK 393 (529)
Q Consensus 367 ~~le~~R~LREEQD~aY~eSLraDrEK 393 (529)
..+.-....|++..+++.+...+.+..
T Consensus 255 e~~~K~~k~R~~~~~~~~K~~~~~r~E 281 (321)
T PF07946_consen 255 EAKKKAKKNREEEEEKILKEAHQERQE 281 (321)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556667887777777665554443
No 74
>PF13904 DUF4207: Domain of unknown function (DUF4207)
Probab=54.28 E-value=92 Score=32.02 Aligned_cols=23 Identities=9% Similarity=0.153 Sum_probs=16.5
Q ss_pred CCCEEEEEecCCCcHHHHHHHHH
Q 009661 460 DGSRRGRRFLKSNKLQSLFDYID 482 (529)
Q Consensus 460 DGsRi~RRF~~SDTLqdLydFVd 482 (529)
.+.+..+.......-..|-.|..
T Consensus 169 ~~~~~~~~~~~e~a~~~~q~W~~ 191 (264)
T PF13904_consen 169 QAAKPEREVSQEEAKQRYQEWER 191 (264)
T ss_pred cccccccccCHHHHHHHHHHHHH
Confidence 55667777777776677888864
No 75
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=54.16 E-value=81 Score=32.98 Aligned_cols=11 Identities=45% Similarity=0.371 Sum_probs=6.7
Q ss_pred HHHHHHHHHHc
Q 009661 428 EYERQLAAKEA 438 (529)
Q Consensus 428 eler~r~~K~a 438 (529)
+-+.+++||.+
T Consensus 172 eheEylkmKaa 182 (299)
T KOG3054|consen 172 EHEEYLKMKAA 182 (299)
T ss_pred HHHHHHHHHhh
Confidence 34567777753
No 76
>PF15236 CCDC66: Coiled-coil domain-containing protein 66
Probab=51.65 E-value=2.4e+02 Score=27.47 Aligned_cols=28 Identities=21% Similarity=0.240 Sum_probs=20.0
Q ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009661 366 SPSLEAQRLIREQQDDEYLASLQADREK 393 (529)
Q Consensus 366 ~~~le~~R~LREEQD~aY~eSLraDrEK 393 (529)
.+..-..|..|.+...+|+..+.+-.+-
T Consensus 42 Dpa~~eEre~rR~kq~E~q~ai~~QieE 69 (157)
T PF15236_consen 42 DPAQIEERERRRQKQLEHQRAIKQQIEE 69 (157)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444556788888889999888775543
No 77
>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=50.18 E-value=64 Score=30.05 Aligned_cols=68 Identities=19% Similarity=0.157 Sum_probs=46.2
Q ss_pred cEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCC-CcCeEEEcCCCCccc-CCCCcccchhhcCCC
Q 009661 451 AVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIK-AGTYRLVRPYPRRAF-SDGESALTLNELGLT 518 (529)
Q Consensus 451 ~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~-p~~F~LvT~fPRRvf-t~eD~s~TLeElGL~ 518 (529)
.+.|.|.|+||+.+.-++..+.++++|++-|-...+.. ..-|.|...-+.... ...+...+|.+....
T Consensus 3 ~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~ 72 (207)
T smart00295 3 PRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVK 72 (207)
T ss_pred cEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCC
Confidence 46899999999999999999999999999996555543 345777643332211 111235666666543
No 78
>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=49.47 E-value=17 Score=29.57 Aligned_cols=63 Identities=14% Similarity=0.044 Sum_probs=43.1
Q ss_pred EECCCCCEEEEEecCCCcHHHHHHHHHhcCCC-CCcCeEEEc-CCCCcccCCCCcccchhhcCCC
Q 009661 456 VRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGI-KAGTYRLVR-PYPRRAFSDGESALTLNELGLT 518 (529)
Q Consensus 456 IRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~-~p~~F~LvT-~fPRRvft~eD~s~TLeElGL~ 518 (529)
|+|+||+.+.-....+.+.++|++-|-...+. ...-|.|.- .-......-.+.+++|.+..-.
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 78999999999999999999999999655444 355677775 1111111111457788877654
No 79
>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=47.59 E-value=58 Score=27.01 Aligned_cols=62 Identities=13% Similarity=0.142 Sum_probs=39.0
Q ss_pred CCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEE
Q 009661 458 MPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALF 525 (529)
Q Consensus 458 LPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~ 525 (529)
.++|.|..-+..++.+|.+|..=+-...++.+..|.|... ++.+. .+.++.=+||.+ ++.|-
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~--~k~ld---lslp~R~snL~n-~akLe 64 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHN--NKPLD---LSLPFRLSNLPN-NAKLE 64 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEET--TEEES---SS-BHHHH---S-S-EEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEEC--CEEec---cccceeecCCCC-CCEEe
Confidence 3689999999999999999999875566778889999854 56654 478999999986 67664
No 80
>KOG3054 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.50 E-value=1.6e+02 Score=31.01 Aligned_cols=9 Identities=33% Similarity=0.796 Sum_probs=4.2
Q ss_pred HHHHHHHHH
Q 009661 474 LQSLFDYID 482 (529)
Q Consensus 474 LqdLydFVd 482 (529)
|.+..+||.
T Consensus 202 l~eFv~YIk 210 (299)
T KOG3054|consen 202 LSEFVEYIK 210 (299)
T ss_pred HHHHHHHHH
Confidence 444445544
No 81
>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=47.04 E-value=63 Score=29.57 Aligned_cols=54 Identities=19% Similarity=0.191 Sum_probs=42.6
Q ss_pred ecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 468 FLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 468 F~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
-++++||.+|-.-|....+..+..=+|+.. -+.|. |.+.||.++||.+ .+.|++
T Consensus 21 V~~~~TVg~LK~lImQ~f~V~P~dQkL~~d--G~~L~--DDsrTLssyGv~s-gSvl~L 74 (107)
T cd01795 21 VSANQTLKELKIQIMHAFSVAPFDQNLSID--GKILS--DDCATLGTLGVIP-ESVILL 74 (107)
T ss_pred eCccccHHHHHHHHHHHhcCCcccceeeec--Cceec--cCCccHHhcCCCC-CCEEEE
Confidence 678899999999998766777777788876 34555 4589999999997 577765
No 82
>PTZ00121 MAEBL; Provisional
Probab=46.19 E-value=1.1e+02 Score=39.01 Aligned_cols=25 Identities=4% Similarity=0.050 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 009661 369 LEAQRLIREQQDDEYLASLQADREK 393 (529)
Q Consensus 369 le~~R~LREEQD~aY~eSLraDrEK 393 (529)
+..+-..|++|-+.-.+.-++|..|
T Consensus 1116 ~~ee~~~r~e~arr~eeARrae~~R 1140 (2084)
T PTZ00121 1116 KAEEAKKKAEDARKAEEARKAEDAR 1140 (2084)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 3333445555555555555555444
No 83
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=45.89 E-value=55 Score=35.27 Aligned_cols=63 Identities=17% Similarity=0.251 Sum_probs=51.7
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCC--CCCcCeEEEcCCCCcccCCCCcccchhhcCCCCC
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRG--IKAGTYRLVRPYPRRAFSDGESALTLNELGLTSK 520 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~--~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~Ps 520 (529)
+|-||.-.|.++.-++..++|+..|+.=|....+ +....-+|+ |=.|+|.+ ++|+.+.++.-+
T Consensus 2 ~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLI--y~GkiL~D---~~tv~Eykv~E~ 66 (340)
T KOG0011|consen 2 KLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLI--YSGKILKD---ETTVGEYKVKEK 66 (340)
T ss_pred eeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheee--ecceeccC---CcchhhhccccC
Confidence 5789999999999999999999999999987666 434444565 55788886 789999999854
No 84
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=44.40 E-value=1.1e+02 Score=32.75 Aligned_cols=7 Identities=43% Similarity=0.705 Sum_probs=3.2
Q ss_pred CCCCCCC
Q 009661 303 QHNGNAF 309 (529)
Q Consensus 303 ~~~~~~f 309 (529)
|-.|-||
T Consensus 211 q~~gfg~ 217 (445)
T KOG2891|consen 211 QFHGFGF 217 (445)
T ss_pred eeecccc
Confidence 3344554
No 85
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=42.69 E-value=2.2e+02 Score=30.86 Aligned_cols=8 Identities=38% Similarity=0.812 Sum_probs=3.9
Q ss_pred CCCCCChh
Q 009661 313 EWGGISSE 320 (529)
Q Consensus 313 ewggi~s~ 320 (529)
+||-|-+.
T Consensus 63 q~~r~q~Q 70 (387)
T COG3064 63 QYGRIQSQ 70 (387)
T ss_pred HHHHHHHH
Confidence 45555443
No 86
>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=42.39 E-value=63 Score=26.85 Aligned_cols=54 Identities=13% Similarity=0.145 Sum_probs=39.4
Q ss_pred EEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCC
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDG 506 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~e 506 (529)
.+.|-||||++..=.-.+..|++++..-+-..+++.+..+.+...-.++.+..+
T Consensus 2 ~~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~ 55 (71)
T PF02196_consen 2 TCRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWD 55 (71)
T ss_dssp EEEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TT
T ss_pred eEEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCC
Confidence 467889999999999999999999998887677887877777643355555543
No 87
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=39.52 E-value=70 Score=36.10 Aligned_cols=70 Identities=19% Similarity=0.317 Sum_probs=52.6
Q ss_pred CcEEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcCCCCcccCCCCcccchhhcCCCCCceeEEE
Q 009661 450 NAVTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRPYPRRAFSDGESALTLNELGLTSKQEALFL 526 (529)
Q Consensus 450 ~~vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~fPRRvft~eD~s~TLeElGL~PsqaaL~V 526 (529)
..++|.||.|+. +..-.-..+.+|+.+.+-|....+...+.-+|+ |=-|+|.+ ..||...|+.. ..++++
T Consensus 14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLI--faGrILKD---~dTL~~~gI~D-g~TvHL 83 (493)
T KOG0010|consen 14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLI--YAGRILKD---DDTLKQYGIQD-GHTVHL 83 (493)
T ss_pred ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeee--ecCccccC---hhhHHHcCCCC-CcEEEE
Confidence 568999999999 566666778899999888865444445556665 77888885 57999999997 455554
No 88
>PLN03086 PRLI-interacting factor K; Provisional
Probab=38.34 E-value=2.1e+02 Score=33.06 Aligned_cols=26 Identities=31% Similarity=0.452 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009661 369 LEAQRLIREQQDDEYLASLQADREKA 394 (529)
Q Consensus 369 le~~R~LREEQD~aY~eSLraDrEK~ 394 (529)
+..+.+.|||-++.-++-|+.++||+
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 (567)
T PLN03086 7 RAREKLEREQRERKQRAKLKLERERK 32 (567)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456667777777777777777764
No 89
>PRK00247 putative inner membrane protein translocase component YidC; Validated
Probab=38.28 E-value=3e+02 Score=30.75 Aligned_cols=19 Identities=16% Similarity=0.078 Sum_probs=9.3
Q ss_pred CCCccHHHHHHHHHHHHHH
Q 009661 364 PPSPSLEAQRLIREQQDDE 382 (529)
Q Consensus 364 ~~~~~le~~R~LREEQD~a 382 (529)
....-...+|..+.+.+.+
T Consensus 282 ~~~~~~~~~~~~~~~~~~~ 300 (429)
T PRK00247 282 EFKEHHAEQRAQYREKQKE 300 (429)
T ss_pred chHHHHHHHHHHHHHHHHH
Confidence 3344455555555555443
No 90
>PF07946 DUF1682: Protein of unknown function (DUF1682); InterPro: IPR012879 The members of this family are all hypothetical eukaryotic proteins of unknown function. One member (Q920S6 from SWISSPROT) is described as being an adipocyte-specific protein, but no evidence of this was found.
Probab=38.19 E-value=83 Score=33.06 Aligned_cols=15 Identities=33% Similarity=0.224 Sum_probs=7.7
Q ss_pred CCCCCCCccccccccC
Q 009661 46 NPFSLLDPSSRRRFFD 61 (529)
Q Consensus 46 ~pf~lldp~~~r~~f~ 61 (529)
|||++| =+|..++|.
T Consensus 93 dl~~~l-~~~i~~~~~ 107 (321)
T PF07946_consen 93 DLFSWL-FEFILPFFF 107 (321)
T ss_pred CHHHHH-HHHHHhhcc
Confidence 566666 444444433
No 91
>PLN03086 PRLI-interacting factor K; Provisional
Probab=36.47 E-value=1.1e+02 Score=35.09 Aligned_cols=7 Identities=29% Similarity=0.468 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 009661 375 IREQQDD 381 (529)
Q Consensus 375 LREEQD~ 381 (529)
.|+.+.+
T Consensus 8 ~~~~~~~ 14 (567)
T PLN03086 8 AREKLER 14 (567)
T ss_pred HHHHHHH
Confidence 3333333
No 92
>PLN02316 synthase/transferase
Probab=34.56 E-value=1.8e+02 Score=35.89 Aligned_cols=15 Identities=20% Similarity=0.306 Sum_probs=8.7
Q ss_pred ccchhhhhhhhhhhH
Q 009661 191 EDVDLAHAVSLSLRT 205 (529)
Q Consensus 191 ed~d~a~avslsl~~ 205 (529)
+|+.|.+-+.|+++.
T Consensus 109 ~~~~~~~~~~~~~~~ 123 (1036)
T PLN02316 109 DDDSLDRKLKLEREN 123 (1036)
T ss_pred chHHHHHHhhhhHHH
Confidence 455566666666553
No 93
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=33.84 E-value=3.6e+02 Score=32.81 Aligned_cols=21 Identities=29% Similarity=0.362 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 009661 379 QDDEYLASLQADREKAEARRL 399 (529)
Q Consensus 379 QD~aY~eSLraDrEK~e~rr~ 399 (529)
-..+|.+.++..+++++++++
T Consensus 575 ~rKe~~E~~~~~re~Eea~~q 595 (988)
T KOG2072|consen 575 KRKEDLEKQNVEREAEEAQEQ 595 (988)
T ss_pred HHHhHHHHHHHHHHHHHHHHH
Confidence 467788888888888766543
No 94
>PTZ00121 MAEBL; Provisional
Probab=33.27 E-value=2.6e+02 Score=36.07 Aligned_cols=11 Identities=73% Similarity=1.374 Sum_probs=5.9
Q ss_pred CCCCC--CCcccc
Q 009661 46 NPFSL--LDPSSR 56 (529)
Q Consensus 46 ~pf~l--ldp~~~ 56 (529)
+||++ +|+.-+
T Consensus 760 ~~~~~k~~d~~tr 772 (2084)
T PTZ00121 760 NPFSMKELDPKNR 772 (2084)
T ss_pred Cccchhhcccccc
Confidence 45555 666543
No 95
>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=31.74 E-value=1.3e+02 Score=25.42 Aligned_cols=44 Identities=14% Similarity=0.154 Sum_probs=37.3
Q ss_pred EEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEcC
Q 009661 454 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVRP 497 (529)
Q Consensus 454 IqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT~ 497 (529)
+.|-||||++..=.-.+..||.++..=+-..+++.+..|.|...
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~ 45 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLL 45 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEe
Confidence 46779999999999999999999998886678888888877754
No 96
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=29.99 E-value=2e+02 Score=33.53 Aligned_cols=16 Identities=44% Similarity=0.387 Sum_probs=9.2
Q ss_pred ccccccccccCCCCCC
Q 009661 262 PLVRHRSIHTSSGSGE 277 (529)
Q Consensus 262 pl~r~r~r~~~~~~~~ 277 (529)
|=-.+|+|-+-+|+..
T Consensus 549 pGpsnRsR~tksgsRG 564 (940)
T KOG4661|consen 549 PGPSNRSRSTKSGSRG 564 (940)
T ss_pred CCccccccccccCCCc
Confidence 3335666666666654
No 97
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=29.49 E-value=3.4e+02 Score=30.36 Aligned_cols=21 Identities=29% Similarity=0.265 Sum_probs=14.0
Q ss_pred EEEECC-CCCEEEEEecCCCcHH
Q 009661 454 LLVRMP-DGSRRGRRFLKSNKLQ 475 (529)
Q Consensus 454 IqIRLP-DGsRi~RRF~~SDTLq 475 (529)
-++.+| +| ++.|||-..+.-.
T Consensus 297 G~l~~PV~G-~il~rFG~~~~gg 318 (420)
T COG4942 297 GQLAWPVTG-RILRRFGQADGGG 318 (420)
T ss_pred CCcCCCCCC-cHHHHhcccCCCC
Confidence 445556 55 5888888776655
No 98
>KOG3878 consensus Protein involved in maintenance of Golgi structure and ER-Golgi transport [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.01 E-value=1.5e+02 Score=32.33 Aligned_cols=36 Identities=31% Similarity=0.347 Sum_probs=19.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 009661 368 SLEAQRLIREQQDDEYLASLQADREKAEARRLMEEEAR 405 (529)
Q Consensus 368 ~le~~R~LREEQD~aY~eSLraDrEK~e~rr~EEe~aR 405 (529)
-+...+..++++..+ +.|+.-+++++.++++|.+.|
T Consensus 124 yia~~k~~kde~lkE--~e~r~~ee~~e~~~lQe~~qr 159 (469)
T KOG3878|consen 124 YIAAVKQDKDETLKE--KELRLMEEKKEARELQENAQR 159 (469)
T ss_pred HHHHhhhhhhhHHHH--HHHHHHHhhhcchhHHHHHHH
Confidence 345556666666653 334444555555555554444
No 99
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=27.94 E-value=4.4e+02 Score=32.09 Aligned_cols=7 Identities=29% Similarity=0.871 Sum_probs=4.3
Q ss_pred CccCCCC
Q 009661 19 DFMDIDD 25 (529)
Q Consensus 19 d~m~~d~ 25 (529)
-+|||++
T Consensus 342 r~~e~e~ 348 (988)
T KOG2072|consen 342 RLIEIED 348 (988)
T ss_pred ccccccc
Confidence 3567765
No 100
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=27.10 E-value=8.9e+02 Score=27.84 Aligned_cols=7 Identities=14% Similarity=0.259 Sum_probs=3.0
Q ss_pred CCCCCCC
Q 009661 350 YMQPEGS 356 (529)
Q Consensus 350 ~~~~~~~ 356 (529)
+++..+.
T Consensus 494 ~ada~SS 500 (641)
T KOG3915|consen 494 FADALSS 500 (641)
T ss_pred ccccchh
Confidence 4444433
No 101
>COG1422 Predicted membrane protein [Function unknown]
Probab=26.34 E-value=2.5e+02 Score=28.44 Aligned_cols=14 Identities=36% Similarity=0.437 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHH
Q 009661 383 YLASLQADREKAEA 396 (529)
Q Consensus 383 Y~eSLraDrEK~e~ 396 (529)
+...+-.|+||-++
T Consensus 63 i~~~~liD~ekm~~ 76 (201)
T COG1422 63 ILQKLLIDQEKMKE 76 (201)
T ss_pred HHHHHhccHHHHHH
Confidence 45566678888554
No 102
>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=24.39 E-value=91 Score=27.62 Aligned_cols=36 Identities=19% Similarity=0.341 Sum_probs=31.6
Q ss_pred EEEEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCC
Q 009661 452 VTLLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGI 487 (529)
Q Consensus 452 vrIqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~ 487 (529)
+.|.|=||||+++.-+-.++++-.+||.-+....+.
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L 37 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGM 37 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCC
Confidence 568899999999999999999999999998655554
No 103
>PF09831 DUF2058: Uncharacterized protein conserved in bacteria (DUF2058); InterPro: IPR018636 This family, found in various prokaryotic proteins, has no known function.
Probab=23.96 E-value=5.8e+02 Score=25.26 Aligned_cols=22 Identities=23% Similarity=0.398 Sum_probs=15.7
Q ss_pred EEEEECCCCCEEEEEecCCCcHH
Q 009661 453 TLLVRMPDGSRRGRRFLKSNKLQ 475 (529)
Q Consensus 453 rIqIRLPDGsRi~RRF~~SDTLq 475 (529)
-|.+.|.+|++| ++.+.+..++
T Consensus 92 di~ynFtdg~kI-K~iyV~~~~~ 113 (177)
T PF09831_consen 92 DIAYNFTDGNKI-KRIYVDAKQQ 113 (177)
T ss_pred ceeEecCCCCEE-EEEEECHHHH
Confidence 389999999855 5566665554
No 104
>KOG2357 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.90 E-value=3.6e+02 Score=30.25 Aligned_cols=9 Identities=11% Similarity=0.102 Sum_probs=5.6
Q ss_pred CCCCCCCCC
Q 009661 310 PSDEWGGIS 318 (529)
Q Consensus 310 ~~~ewggi~ 318 (529)
-|.+|+=+|
T Consensus 263 lP~~~~vmS 271 (440)
T KOG2357|consen 263 LPESFVVMS 271 (440)
T ss_pred CCcceeeee
Confidence 366776665
No 105
>smart00455 RBD Raf-like Ras-binding domain.
Probab=21.16 E-value=3.5e+02 Score=22.48 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=36.8
Q ss_pred EEEECCCCCEEEEEecCCCcHHHHHHHHHhcCCCCCcCeEEEc
Q 009661 454 LLVRMPDGSRRGRRFLKSNKLQSLFDYIDVGRGIKAGTYRLVR 496 (529)
Q Consensus 454 IqIRLPDGsRi~RRF~~SDTLqdLydFVd~~~~~~p~~F~LvT 496 (529)
+.+-||||++..=.-.+..||.++..=+-..+++.+..+.|..
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 4567999999999999999999999888767888888887775
No 106
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=20.83 E-value=7.4e+02 Score=27.40 Aligned_cols=12 Identities=42% Similarity=0.941 Sum_probs=7.0
Q ss_pred cEEEEEEC-CCCC
Q 009661 451 AVTLLVRM-PDGS 462 (529)
Q Consensus 451 ~vrIqIRL-PDGs 462 (529)
.|+|.|+| |||.
T Consensus 327 tc~VrI~LapDG~ 339 (387)
T PRK09510 327 TCTLRIKLAPDGT 339 (387)
T ss_pred eEEEEEEEcCCCc
Confidence 36666665 5564
No 107
>PF12210 Hrs_helical: Hepatocyte growth factor-regulated tyrosine kinase substrate; InterPro: IPR024641 This domain comprises the helical region of hepatocyte growth factor-regulated tyrosine kinase substrate (HRS). It is approximately 100 amino acids in length. Hrs, together with signal transducing adaptor molecule (STAM), forms the ESCRT-0 complex, which sorts ubiquitinated cell surface receptors to lysosomes for degradation []. ; PDB: 3F1I_H.
Probab=20.35 E-value=4.1e+02 Score=24.10 Aligned_cols=19 Identities=16% Similarity=0.291 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 009661 378 QQDDEYLASLQADREKAEA 396 (529)
Q Consensus 378 EQD~aY~eSLraDrEK~e~ 396 (529)
+..+.|.++|+-+......
T Consensus 56 ee~R~~~E~lQdkL~qi~e 74 (96)
T PF12210_consen 56 EEKRVYYEGLQDKLAQIKE 74 (96)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3557899999888776543
Done!