Query 046727
Match_columns 171
No_of_seqs 162 out of 569
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 03:55:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046727.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046727hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00166 UBX Domain present 99.9 3E-21 6.4E-26 134.5 9.5 77 25-101 2-80 (80)
2 PF00789 UBX: UBX domain; Int 99.8 1.3E-20 2.9E-25 131.2 9.7 79 23-101 2-82 (82)
3 cd01772 SAKS1_UBX SAKS1-like U 99.8 4.5E-20 9.9E-25 128.6 9.9 76 24-100 1-78 (79)
4 cd01767 UBX UBX (ubiquitin reg 99.8 3.6E-19 7.7E-24 123.1 9.2 72 26-98 1-74 (77)
5 cd01773 Faf1_like1_UBX Faf1 ik 99.8 6.1E-19 1.3E-23 123.8 9.5 75 25-100 3-79 (82)
6 cd01770 p47_UBX p47-like ubiqu 99.8 3.5E-18 7.6E-23 119.3 9.6 75 26-101 3-78 (79)
7 cd01771 Faf1_UBX Faf1 UBX doma 99.8 5.9E-18 1.3E-22 118.4 9.2 74 26-100 3-78 (80)
8 cd01774 Faf1_like2_UBX Faf1 ik 99.7 1.4E-17 2.9E-22 117.9 9.7 75 25-100 2-83 (85)
9 KOG2689 Predicted ubiquitin re 99.6 3.8E-16 8.2E-21 130.0 6.8 79 24-102 207-287 (290)
10 KOG2507 Ubiquitin regulatory p 99.3 2.5E-12 5.4E-17 112.8 4.3 83 22-104 309-393 (506)
11 KOG2086 Protein tyrosine phosp 99.3 7.8E-12 1.7E-16 108.7 5.9 76 22-97 300-376 (380)
12 KOG1364 Predicted ubiquitin re 98.7 1.3E-08 2.8E-13 87.7 3.8 71 26-96 276-349 (356)
13 KOG1363 Predicted regulator of 98.5 3E-07 6.5E-12 82.7 8.2 77 24-101 380-459 (460)
14 PF11543 UN_NPL4: Nuclear pore 97.9 2.6E-05 5.6E-10 54.5 5.3 72 27-100 4-78 (80)
15 KOG2699 Predicted ubiquitin re 97.7 5E-06 1.1E-10 73.4 -0.9 98 5-103 296-393 (407)
16 KOG2699 Predicted ubiquitin re 97.7 4.2E-06 9E-11 73.9 -1.7 97 6-102 249-345 (407)
17 cd01806 Nedd8 Nebb8-like ubiq 97.6 0.00095 2.1E-08 44.8 8.8 72 29-103 2-73 (76)
18 cd01809 Scythe_N Ubiquitin-lik 97.4 0.0017 3.7E-08 43.0 8.3 70 29-101 2-71 (72)
19 cd01807 GDX_N ubiquitin-like d 97.4 0.0018 3.9E-08 43.8 8.1 71 29-102 2-72 (74)
20 PF00240 ubiquitin: Ubiquitin 97.3 0.0021 4.6E-08 42.4 7.9 67 33-102 1-67 (69)
21 PTZ00044 ubiquitin; Provisiona 97.3 0.0025 5.4E-08 43.0 8.2 71 29-102 2-72 (76)
22 cd01794 DC_UbP_C dendritic cel 97.2 0.0027 5.8E-08 42.9 7.2 69 30-101 1-69 (70)
23 cd01803 Ubiquitin Ubiquitin. U 97.1 0.0057 1.2E-07 40.9 8.2 71 29-102 2-72 (76)
24 cd01796 DDI1_N DNA damage indu 97.0 0.0042 9.2E-08 41.9 7.2 69 30-100 1-70 (71)
25 cd01792 ISG15_repeat1 ISG15 ub 97.0 0.0058 1.3E-07 42.0 7.9 74 28-102 3-76 (80)
26 cd01810 ISG15_repeat2 ISG15 ub 97.0 0.0066 1.4E-07 41.0 7.6 70 30-102 1-70 (74)
27 cd01798 parkin_N amino-termina 96.8 0.0067 1.5E-07 40.4 6.9 68 30-100 1-68 (70)
28 cd01804 midnolin_N Ubiquitin-l 96.8 0.013 2.8E-07 40.3 7.9 71 29-103 3-73 (78)
29 cd01791 Ubl5 UBL5 ubiquitin-li 96.7 0.014 3.1E-07 39.8 8.0 70 29-101 3-72 (73)
30 cd01769 UBL Ubiquitin-like dom 96.7 0.013 2.8E-07 37.9 7.6 67 32-101 2-68 (69)
31 cd01812 BAG1_N Ubiquitin-like 96.7 0.011 2.5E-07 39.0 7.2 68 29-100 2-69 (71)
32 cd01805 RAD23_N Ubiquitin-like 96.7 0.019 4E-07 38.7 8.3 70 29-101 2-73 (77)
33 cd01763 Sumo Small ubiquitin-r 96.6 0.05 1.1E-06 38.0 9.9 77 23-102 7-83 (87)
34 cd01808 hPLIC_N Ubiquitin-like 96.5 0.022 4.9E-07 38.0 7.7 69 29-101 2-70 (71)
35 cd00196 UBQ Ubiquitin-like pro 96.4 0.026 5.6E-07 34.0 6.7 67 31-100 1-67 (69)
36 PF13881 Rad60-SLD_2: Ubiquiti 96.3 0.055 1.2E-06 40.0 9.4 73 27-102 2-88 (111)
37 cd01802 AN1_N ubiquitin-like d 96.3 0.042 9.2E-07 39.9 8.5 76 25-103 25-100 (103)
38 smart00213 UBQ Ubiquitin homol 96.2 0.029 6.3E-07 35.8 6.7 62 29-94 2-63 (64)
39 PF11976 Rad60-SLD: Ubiquitin- 96.2 0.067 1.5E-06 35.5 8.6 69 29-100 2-71 (72)
40 PF09379 FERM_N: FERM N-termin 96.2 0.06 1.3E-06 36.4 8.3 70 32-101 1-76 (80)
41 cd01814 NTGP5 Ubiquitin-like N 96.1 0.024 5.3E-07 42.1 6.2 74 26-102 3-90 (113)
42 cd01800 SF3a120_C Ubiquitin-li 95.6 0.088 1.9E-06 35.7 7.2 65 36-103 6-70 (76)
43 smart00295 B41 Band 4.1 homolo 95.2 0.2 4.3E-06 39.1 9.1 74 27-100 3-81 (207)
44 cd01795 USP48_C USP ubiquitin- 95.2 0.12 2.6E-06 37.8 6.9 62 42-105 19-80 (107)
45 PF08817 YukD: WXG100 protein 95.0 0.12 2.6E-06 35.3 6.5 72 27-100 2-79 (79)
46 cd01813 UBP_N UBP ubiquitin pr 95.0 0.17 3.8E-06 34.3 7.1 70 29-100 2-72 (74)
47 cd01797 NIRF_N amino-terminal 95.0 0.21 4.6E-06 34.2 7.6 71 29-102 2-74 (78)
48 PF14836 Ubiquitin_3: Ubiquiti 94.8 0.28 6E-06 34.9 7.9 65 38-103 14-81 (88)
49 cd01793 Fubi Fubi ubiquitin-li 94.7 0.28 6.1E-06 32.9 7.5 68 30-102 3-70 (74)
50 PF14560 Ubiquitin_2: Ubiquiti 94.1 0.5 1.1E-05 32.7 7.9 75 28-102 2-83 (87)
51 cd01799 Hoil1_N Ubiquitin-like 93.6 0.3 6.5E-06 33.3 5.9 62 35-99 10-72 (75)
52 cd01790 Herp_N Homocysteine-re 93.4 0.7 1.5E-05 32.1 7.6 71 28-101 2-78 (79)
53 TIGR00601 rad23 UV excision re 93.0 0.58 1.3E-05 41.5 8.3 73 29-104 2-77 (378)
54 cd01777 SNX27_RA Ubiquitin dom 91.8 0.5 1.1E-05 33.5 5.1 45 28-72 2-49 (87)
55 PF02196 RBD: Raf-like Ras-bin 91.5 1.2 2.6E-05 30.1 6.6 52 29-80 2-53 (71)
56 PF11470 TUG-UBL1: GLUT4 regul 89.2 1.6 3.6E-05 29.1 5.6 63 34-99 3-65 (65)
57 PF13019 Telomere_Sde2: Telome 88.3 5 0.00011 31.6 8.7 52 29-80 2-58 (162)
58 cd01789 Alp11_N Ubiquitin-like 88.0 6.8 0.00015 27.0 8.4 67 36-102 11-81 (84)
59 cd01787 GRB7_RA RA (RAS-associ 86.3 4.8 0.0001 28.5 6.8 51 27-77 2-53 (85)
60 PLN02560 enoyl-CoA reductase 86.2 5.2 0.00011 34.5 8.4 72 30-101 3-82 (308)
61 cd01801 Tsc13_N Ubiquitin-like 85.7 6.9 0.00015 26.3 7.3 55 45-100 20-75 (77)
62 COG5100 NPL4 Nuclear pore prot 84.5 5.2 0.00011 36.2 7.7 74 29-103 2-80 (571)
63 cd01760 RBD Ubiquitin-like dom 83.3 4 8.7E-05 27.8 5.2 44 30-73 2-45 (72)
64 cd01815 BMSC_UbP_N Ubiquitin-l 81.3 4.2 9E-05 28.0 4.7 53 45-100 18-73 (75)
65 smart00455 RBD Raf-like Ras-bi 80.0 8 0.00017 26.0 5.7 50 30-79 2-51 (70)
66 smart00666 PB1 PB1 domain. Pho 78.1 11 0.00024 25.1 6.1 44 28-72 2-45 (81)
67 PF02824 TGS: TGS domain; Int 76.8 3.8 8.2E-05 26.5 3.3 32 30-63 1-32 (60)
68 PF00564 PB1: PB1 domain; Int 74.2 14 0.0003 24.7 5.7 45 28-72 2-46 (84)
69 KOG0010 Ubiquitin-like protein 73.6 13 0.00029 34.1 6.9 75 26-104 14-88 (493)
70 cd01817 RGS12_RBD Ubiquitin do 73.6 14 0.00031 25.3 5.5 50 31-80 3-52 (73)
71 PF10302 DUF2407: DUF2407 ubiq 71.8 14 0.0003 26.5 5.5 53 30-82 3-58 (97)
72 KOG3530 FERM domain protein EH 71.1 14 0.00031 34.7 6.6 78 25-102 8-89 (616)
73 cd01788 ElonginB Ubiquitin-lik 71.1 39 0.00085 25.3 7.7 70 29-102 4-80 (119)
74 PF00788 RA: Ras association ( 70.6 20 0.00043 24.1 5.9 60 27-86 2-71 (93)
75 cd06407 PB1_NLP A PB1 domain i 68.5 25 0.00054 24.4 6.0 43 29-72 2-45 (82)
76 cd01768 RA RA (Ras-associating 67.5 25 0.00055 23.7 5.9 58 29-86 1-67 (87)
77 smart00314 RA Ras association 66.7 36 0.00079 23.1 6.6 60 27-86 2-69 (90)
78 KOG4495 RNA polymerase II tran 63.3 18 0.00039 26.3 4.5 63 28-92 3-65 (110)
79 cd06395 PB1_Map2k5 PB1 domain 62.8 13 0.00029 26.2 3.6 36 29-64 2-39 (91)
80 cd06406 PB1_P67 A PB1 domain i 61.5 32 0.00069 24.0 5.4 44 27-72 2-45 (80)
81 cd01818 TIAM1_RBD Ubiquitin do 61.1 24 0.00053 24.4 4.7 30 32-61 4-33 (77)
82 cd05992 PB1 The PB1 domain is 55.5 55 0.0012 21.5 5.8 43 28-71 1-44 (81)
83 cd06404 PB1_aPKC PB1 domain is 53.1 66 0.0014 22.6 5.9 43 29-72 2-45 (83)
84 cd01612 APG12_C Ubiquitin-like 50.7 76 0.0016 22.2 6.0 72 28-102 2-81 (87)
85 PF15016 DUF4520: Domain of un 48.7 19 0.00042 25.4 2.7 28 23-50 19-46 (85)
86 KOG0005 Ubiquitin-like protein 44.2 85 0.0018 20.9 5.0 68 29-99 2-69 (70)
87 KOG1781 Small Nuclear ribonucl 43.9 28 0.0006 25.3 2.9 53 17-69 17-70 (108)
88 cd06409 PB1_MUG70 The MUG70 pr 42.7 1.1E+02 0.0025 21.4 5.8 42 30-71 3-47 (86)
89 PF08825 E2_bind: E2 binding d 41.3 50 0.0011 23.0 3.8 58 42-100 1-69 (84)
90 cd01811 OASL_repeat1 2'-5' oli 39.2 1.3E+02 0.0028 20.9 7.0 71 30-100 3-74 (80)
91 TIGR02958 sec_mycoba_snm4 secr 38.3 1.9E+02 0.0041 26.3 8.1 72 27-101 2-79 (452)
92 cd00390 Urease_gamma Urease ga 35.9 42 0.00091 24.2 2.8 25 22-46 71-95 (96)
93 PF03562 MltA: MltA specific i 35.8 33 0.00073 26.8 2.5 15 31-45 89-103 (158)
94 PF08207 EFP_N: Elongation fac 35.1 53 0.0011 21.0 3.0 25 26-50 33-58 (58)
95 cd06398 PB1_Joka2 The PB1 doma 34.8 1.1E+02 0.0024 21.5 4.8 43 24-71 6-49 (91)
96 cd06396 PB1_NBR1 The PB1 domai 34.2 1.6E+02 0.0035 20.5 5.9 40 28-70 1-42 (81)
97 PF08813 Phage_tail_3: Phage t 32.6 45 0.00097 26.1 2.7 14 27-40 115-128 (165)
98 PF06519 TolA: TolA C-terminal 31.5 39 0.00084 24.1 2.0 36 23-60 34-70 (96)
99 TIGR00193 urease_gam urease, g 30.7 59 0.0013 23.7 2.9 25 22-46 74-98 (102)
100 PF06594 HCBP_related: Haemoly 30.1 35 0.00077 20.3 1.4 16 26-41 24-39 (43)
101 cd01667 TGS_ThrRS_N TGS _ThrRS 28.5 1.2E+02 0.0026 17.8 3.8 28 30-59 1-28 (61)
102 PF00547 Urease_gamma: Urease, 28.0 67 0.0015 23.3 2.7 23 24-46 76-98 (99)
103 PRK13241 ureA urease subunit g 27.7 72 0.0016 23.2 2.9 24 23-46 75-98 (100)
104 cd06408 PB1_NoxR The PB1 domai 27.7 2.2E+02 0.0048 20.0 6.3 43 27-71 2-44 (86)
105 PF01705 CX: CX module; Inter 27.2 46 0.001 21.6 1.7 12 31-42 30-41 (61)
106 KOG0011 Nucleotide excision re 27.1 2.2E+02 0.0049 25.1 6.3 70 29-100 2-72 (340)
107 PF11305 DUF3107: Protein of u 26.8 2E+02 0.0044 19.7 4.8 49 30-79 3-51 (74)
108 PRK13242 ureA urease subunit g 26.8 78 0.0017 23.0 2.9 24 23-46 75-98 (100)
109 PF06183 DinI: DinI-like famil 26.1 1.2E+02 0.0026 20.1 3.6 48 12-59 8-55 (65)
110 PF08428 Rib: Rib/alpha-like r 24.8 98 0.0021 20.2 2.9 17 26-42 41-57 (65)
111 KOG3439 Protein conjugation fa 24.5 3E+02 0.0065 20.5 5.9 50 23-72 26-80 (116)
112 cd04753 Commd5_HCaRG COMM_Doma 24.4 1.2E+02 0.0025 22.3 3.5 40 22-63 56-96 (110)
113 PF06487 SAP18: Sin3 associate 24.2 2.7E+02 0.0059 20.7 5.5 65 34-99 34-118 (120)
114 PF00794 PI3K_rbd: PI3-kinase 24.2 1.8E+02 0.004 20.4 4.5 51 24-74 13-70 (106)
115 PF08057 Ery_res_leader2: Eryt 23.2 47 0.001 15.3 0.8 8 29-36 4-11 (14)
116 cd00552 RaiA RaiA ("ribosome-a 22.7 1.1E+02 0.0024 20.7 3.0 31 26-61 50-80 (93)
117 PF15044 CLU_N: Mitochondrial 22.0 2.6E+02 0.0056 18.8 4.8 55 45-102 2-58 (76)
118 cd01816 Raf_RBD Ubiquitin doma 21.7 2.6E+02 0.0057 19.2 4.6 31 29-59 1-31 (74)
119 KOG0792 Protein tyrosine phosp 21.5 2.7E+02 0.0059 28.4 6.3 76 26-101 21-102 (1144)
120 COG3064 TolA Membrane protein 21.3 97 0.0021 27.3 2.9 27 22-48 322-349 (387)
121 PRK06724 hypothetical protein; 21.2 1.4E+02 0.0031 21.6 3.5 21 27-47 105-125 (128)
122 PF10790 DUF2604: Protein of U 20.4 2.9E+02 0.0062 18.7 6.6 66 36-103 4-72 (76)
No 1
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=99.86 E-value=3e-21 Score=134.51 Aligned_cols=77 Identities=19% Similarity=0.456 Sum_probs=71.2
Q ss_pred CCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecC--CCCChhhcCCCCceEEEEEe
Q 046727 25 FTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKD--VSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 25 ~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d--~~~tL~e~gl~P~a~l~~~~ 101 (171)
++.|.||||||||+.++.+|++++||++||+||+.+...+..+|.|++++|++.|.+ +++||.|+||+|+++|++.|
T Consensus 2 ~~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v~~ 80 (80)
T smart00166 2 SDQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVLEP 80 (80)
T ss_pred CCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEEeC
Confidence 478999999999999999999999999999999887776677999999999999974 47899999999999999987
No 2
>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=99.84 E-value=1.3e-20 Score=131.18 Aligned_cols=79 Identities=29% Similarity=0.468 Sum_probs=72.1
Q ss_pred cCCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCC-cEEEeCCCceeecCCC-CChhhcCCCCceEEEEE
Q 046727 23 SKFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLP-FYLYTTPPKKIIKDVS-QDFFSASFIPGAIVYFS 100 (171)
Q Consensus 23 ~~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~-F~L~~~~P~k~l~d~~-~tL~e~gl~P~a~l~~~ 100 (171)
..++.|.||||||||+.++..|.+++|+++||+||...+.....+ |.|++++|++.|.+.+ ++|.|+|+.|+++|++.
T Consensus 2 ~~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 2 EESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIVE 81 (82)
T ss_dssp STSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEEE
T ss_pred CCCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEEE
Confidence 457899999999999999999999999999999999998876654 9999999999998665 99999999999999998
Q ss_pred e
Q 046727 101 Y 101 (171)
Q Consensus 101 ~ 101 (171)
|
T Consensus 82 ~ 82 (82)
T PF00789_consen 82 K 82 (82)
T ss_dssp -
T ss_pred C
Confidence 7
No 3
>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=99.83 E-value=4.5e-20 Score=128.62 Aligned_cols=76 Identities=24% Similarity=0.456 Sum_probs=69.3
Q ss_pred CCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeec--CCCCChhhcCCCCceEEEEE
Q 046727 24 KFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIK--DVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 24 ~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~--d~~~tL~e~gl~P~a~l~~~ 100 (171)
.|+.|.|+||||||..++.+|++++||++||+||..+..++ .+|.|++++|+|.|. |.++||.|+||+|+|+|++.
T Consensus 1 ~~~~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v~ 78 (79)
T cd01772 1 EYTETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIVT 78 (79)
T ss_pred CCcEEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEEe
Confidence 37899999999999999999999999999999999876543 689999999999997 55889999999999999874
No 4
>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=99.80 E-value=3.6e-19 Score=123.06 Aligned_cols=72 Identities=22% Similarity=0.455 Sum_probs=64.6
Q ss_pred CeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecC--CCCChhhcCCCCceEEE
Q 046727 26 TKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKD--VSQDFFSASFIPGAIVY 98 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d--~~~tL~e~gl~P~a~l~ 98 (171)
+.|.||||||||..++.+|++++|+++||+||..+..+ ..+|.|++++|++.|.+ .++||.|+||+|++++.
T Consensus 1 p~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s~~~~ 74 (77)
T cd01767 1 PTTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVNEVVFQ 74 (77)
T ss_pred CcEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCccceEEE
Confidence 46899999999999999999999999999999988765 56899999999999976 78999999999766554
No 5
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.79 E-value=6.1e-19 Score=123.82 Aligned_cols=75 Identities=21% Similarity=0.374 Sum_probs=68.4
Q ss_pred CCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeec--CCCCChhhcCCCCceEEEEE
Q 046727 25 FTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIK--DVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 25 ~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~--d~~~tL~e~gl~P~a~l~~~ 100 (171)
-+.|.|+||||||..++.+|+.+++|++||+||..+ ..+..+|.|.+++|||+|. |+++||.|+||+|+++|++.
T Consensus 3 ~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~~-g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 3 GPKARLMLRYPDGKREQIALPEQAKLLALVRHVQSK-GYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred CCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 468999999999999999999999999999999884 4456789999999999997 66889999999999999985
No 6
>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=99.77 E-value=3.5e-18 Score=119.29 Aligned_cols=75 Identities=24% Similarity=0.382 Sum_probs=66.6
Q ss_pred CeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCC-CCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEe
Q 046727 26 TKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQ-PDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~-~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~ 101 (171)
+.|.|+||||||..++.+|+.++||++||+||..+... +..+|.|.++||++.|.|.++||.|+||.+ +.|+..|
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 PTTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLN-AVIVQRL 78 (79)
T ss_pred CeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcC-cEEEEEe
Confidence 57999999999999999999999999999999987643 347999999999999998899999999997 5555666
No 7
>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=99.75 E-value=5.9e-18 Score=118.43 Aligned_cols=74 Identities=20% Similarity=0.345 Sum_probs=66.7
Q ss_pred CeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeec--CCCCChhhcCCCCceEEEEE
Q 046727 26 TKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIK--DVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~--d~~~tL~e~gl~P~a~l~~~ 100 (171)
+.|.|+||||||+.++.+|+.+++|++||+||... ..+..+|.|++++|+++|+ |.+.||.|+||.|+++|++.
T Consensus 3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~Ve 78 (80)
T cd01771 3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLILE 78 (80)
T ss_pred CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEEE
Confidence 57899999999999999999999999999999875 3334589999999999997 66889999999999999885
No 8
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=99.74 E-value=1.4e-17 Score=117.85 Aligned_cols=75 Identities=16% Similarity=0.345 Sum_probs=66.9
Q ss_pred CCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeec-------CCCCChhhcCCCCceEE
Q 046727 25 FTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIK-------DVSQDFFSASFIPGAIV 97 (171)
Q Consensus 25 ~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~-------d~~~tL~e~gl~P~a~l 97 (171)
.+.|.|+||||||+.++.+|+.++|+++||+||. ++.....+|.|.++||+++++ |++.||.|+||.|+++|
T Consensus 2 ~~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~-~~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L 80 (85)
T cd01774 2 PDTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLF-SLKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVL 80 (85)
T ss_pred CceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHH-hCCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEE
Confidence 3579999999999999999999999999999995 454555789999999999996 45789999999999999
Q ss_pred EEE
Q 046727 98 YFS 100 (171)
Q Consensus 98 ~~~ 100 (171)
++.
T Consensus 81 ~V~ 83 (85)
T cd01774 81 FVQ 83 (85)
T ss_pred EEe
Confidence 885
No 9
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=99.63 E-value=3.8e-16 Score=130.02 Aligned_cols=79 Identities=18% Similarity=0.330 Sum_probs=74.6
Q ss_pred CCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeec--CCCCChhhcCCCCceEEEEEe
Q 046727 24 KFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIK--DVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 24 ~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~--d~~~tL~e~gl~P~a~l~~~~ 101 (171)
.|++|+|+||+|||++|+.+|++.+||..|+.||..+..++..||.|.+++||+.|. |+.++|.+|||+|+++|.+.|
T Consensus 207 ~ys~crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~t~fPR~tf~edD~~KpLq~L~L~Psa~lil~~ 286 (290)
T KOG2689|consen 207 DYSQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVTFTEDDELKPLQELDLVPSAVLILEP 286 (290)
T ss_pred cccceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeeecCCCceecccccccccHHHhccccchheeccc
Confidence 379999999999999999999999999999999999999888899999999999997 668999999999999999987
Q ss_pred C
Q 046727 102 D 102 (171)
Q Consensus 102 ~ 102 (171)
-
T Consensus 287 ~ 287 (290)
T KOG2689|consen 287 L 287 (290)
T ss_pred c
Confidence 4
No 10
>KOG2507 consensus Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains [General function prediction only]
Probab=99.28 E-value=2.5e-12 Score=112.82 Aligned_cols=83 Identities=16% Similarity=0.291 Sum_probs=75.2
Q ss_pred hcCCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeec--CCCCChhhcCCCCceEEEE
Q 046727 22 KSKFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIK--DVSQDFFSASFIPGAIVYF 99 (171)
Q Consensus 22 ~~~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~--d~~~tL~e~gl~P~a~l~~ 99 (171)
.+..+.|.|+||||||+.++-.|.+++-|..|++||++.-......|.|.++|||++|+ |..++|.|+.|+|++.|++
T Consensus 309 ~~~~d~~rLqiRLPdGssfte~Fps~~vL~~vr~yvrq~~~i~~g~f~LatpyPRReft~eDy~KtllEl~L~psaalvv 388 (506)
T KOG2507|consen 309 SKKADDVRLQIRLPDGSSFTEKFPSTSVLRMVRDYVRQNQTIGLGAFDLATPYPRREFTDEDYDKTLLELRLFPSAALVV 388 (506)
T ss_pred ccccceeEEEEecCCccchhhcCCcchHHHHHHHHHHhcccccccceeeccccccccccchhhhhhHHHhccCCcceEEE
Confidence 44569999999999999999999999999999999998877778899999999999997 5579999999999999999
Q ss_pred EeCCC
Q 046727 100 SYDLP 104 (171)
Q Consensus 100 ~~~~~ 104 (171)
.-...
T Consensus 389 lpk~r 393 (506)
T KOG2507|consen 389 LPKKR 393 (506)
T ss_pred EecCC
Confidence 86543
No 11
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=99.25 E-value=7.8e-12 Score=108.66 Aligned_cols=76 Identities=21% Similarity=0.329 Sum_probs=68.9
Q ss_pred hcCCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCC-CCCcEEEeCCCceeecCCCCChhhcCCCCceEE
Q 046727 22 KSKFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQP-DLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIV 97 (171)
Q Consensus 22 ~~~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~-~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l 97 (171)
....+.|.||||++||+.|...||.++||.+||.||....... ..+|.|+++||-|.|.|.++||.++||++++++
T Consensus 300 d~~~PtTsIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~Nsvlv 376 (380)
T KOG2086|consen 300 DPAEPTTSIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLNSVLV 376 (380)
T ss_pred CCCCCcceEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchhhhhh
Confidence 4567899999999999999999999999999999999987654 458999999999999999999999999987765
No 12
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=98.69 E-value=1.3e-08 Score=87.72 Aligned_cols=71 Identities=24% Similarity=0.285 Sum_probs=61.7
Q ss_pred CeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCC-CCCCcEEEeCCCceeec--CCCCChhhcCCCCceE
Q 046727 26 TKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQ-PDLPFYLYTTPPKKIIK--DVSQDFFSASFIPGAI 96 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~-~~~~F~L~~~~P~k~l~--d~~~tL~e~gl~P~a~ 96 (171)
-.|.|+||||||...|.+|..+|+++-||.|+..++.. +...|.|.+..|++... +.+.||.++||.|+++
T Consensus 276 vvt~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 276 VVTSIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred ceeEEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 35779999999999999999999999999999999876 35689999999876544 4478999999999986
No 13
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=98.53 E-value=3e-07 Score=82.73 Aligned_cols=77 Identities=19% Similarity=0.321 Sum_probs=67.1
Q ss_pred CCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCC--CCChhhcCCCC-ceEEEEE
Q 046727 24 KFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDV--SQDFFSASFIP-GAIVYFS 100 (171)
Q Consensus 24 ~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~--~~tL~e~gl~P-~a~l~~~ 100 (171)
...-..|+||||||+.+..+|..+++++.||+||..+. .....|.|.+++|++.+.+. ..+|.+.|+.| ...|.+.
T Consensus 380 ~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~~-~~~~e~~~~~~fPr~~~~~~~~~~sl~~~~l~p~qe~lflE 458 (460)
T KOG1363|consen 380 EEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSNG-FHPEEYSLNTSFPRRPLGDYEHSSSLQDIGLTPRQETLFLE 458 (460)
T ss_pred cccceeeEEECCCCCeeeeeeecccchhHHHHHHHhcc-CCchhhccccCCCcccccccccccccccCCcccccceeeee
Confidence 44578899999999999999999999999999999988 44568999999999999743 67999999999 7777776
Q ss_pred e
Q 046727 101 Y 101 (171)
Q Consensus 101 ~ 101 (171)
|
T Consensus 459 ~ 459 (460)
T KOG1363|consen 459 E 459 (460)
T ss_pred c
Confidence 5
No 14
>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=97.91 E-value=2.6e-05 Score=54.46 Aligned_cols=72 Identities=25% Similarity=0.366 Sum_probs=44.6
Q ss_pred eeEEEEEcCCCc-eEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCc-eeec-CCCCChhhcCCCCceEEEEE
Q 046727 27 KAVIRVRFPDNH-TLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPK-KIIK-DVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 27 ~~~IRIRfPDg~-~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~-k~l~-d~~~tL~e~gl~P~a~l~~~ 100 (171)
...||||=|||+ .+ ...+++|+++||+.|.+.+.-+...|.||..... ..+. +.+++|.++||.-+.+|++.
T Consensus 4 ~milRvrS~dG~~Ri--e~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 4 SMILRVRSKDGMKRI--EVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp --EEEEE-SSEEEEE--EE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred cEEEEEECCCCCEEE--EcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 568999999997 44 4679999999999999999877678999886543 4453 56789999999999998874
No 15
>KOG2699 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.72 E-value=5e-06 Score=73.38 Aligned_cols=98 Identities=17% Similarity=0.094 Sum_probs=78.6
Q ss_pred ccccccHHhHHHHHHHHhcCCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCC
Q 046727 5 IQVSIQKKIREAEEAARKSKFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQ 84 (171)
Q Consensus 5 ~~~L~Tk~~Re~e~~~~~~~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~ 84 (171)
.+.|+++.||++++ +-...|+...+++++|||..+|+.|.+.+.+..+|.|+++.+.-...+|.|....-.....+...
T Consensus 296 ~q~l~~~~~~~k~~-~~~~~~~~~~~~ak~pd~~l~q~~f~~~~~~~~~~g~~~~a~~~~~l~~el~~~~~e~~~~p~~~ 374 (407)
T KOG2699|consen 296 LQNLVSSDLKEKEM-AFLTLYTPFKNVAKDPDGELLQGIFLPNELLLARYGFVSEALEFMELPGELLQEGSEFLSLPSVN 374 (407)
T ss_pred HHHhhhhhhcchHH-HHHHhhcccchhccCcchhhhhhhhchhHHHHHHHhccccchhhhhhhhHHhhcccccccccccc
Confidence 35678899999877 77899999999999999999999999999999999999998876667888776542222234455
Q ss_pred ChhhcCCCCceEEEEEeCC
Q 046727 85 DFFSASFIPGAIVYFSYDL 103 (171)
Q Consensus 85 tL~e~gl~P~a~l~~~~~~ 103 (171)
+....+..+.+.+.+.|+.
T Consensus 375 ~~~~~~~~~~s~l~~~~~~ 393 (407)
T KOG2699|consen 375 ADNKRNPQAPSELNSSIAN 393 (407)
T ss_pred cccccCCCCcccccCcccc
Confidence 6667777778888888764
No 16
>KOG2699 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=97.70 E-value=4.2e-06 Score=73.90 Aligned_cols=97 Identities=22% Similarity=0.373 Sum_probs=84.5
Q ss_pred cccccHHhHHHHHHHHhcCCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCC
Q 046727 6 QVSIQKKIREAEEAARKSKFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQD 85 (171)
Q Consensus 6 ~~L~Tk~~Re~e~~~~~~~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~t 85 (171)
.++.||+.||.........++...++|.|||+.+.|+.|.++++++.++++|.+.+.+...-|....+|++-+..|.+..
T Consensus 249 ~P~~tk~~Re~~~~~~~~la~~~~l~v~f~~~~i~~~~~~r~e~i~~~q~l~~~~~~~k~~~~~~~~~~~~~~ak~pd~~ 328 (407)
T KOG2699|consen 249 APPVTKADRESAANPSLPLAPAIELPVKFPDREIKQEAFLRSELIELLQNLVSSDLKEKEMAFLTLYTPFKNVAKDPDGE 328 (407)
T ss_pred CCccchhHHHHhhccCccccccceeeeecChHHHHHHHHhhHHHHHHHHHhhhhhhcchHHHHHHhhcccchhccCcchh
Confidence 46679999997777778888999999999999999999999999999999999999987666776667878778788889
Q ss_pred hhhcCCCCceEEEEEeC
Q 046727 86 FFSASFIPGAIVYFSYD 102 (171)
Q Consensus 86 L~e~gl~P~a~l~~~~~ 102 (171)
|.+.-|.|+.+++..+.
T Consensus 329 l~q~~f~~~~~~~~~~g 345 (407)
T KOG2699|consen 329 LLQGIFLPNELLLARYG 345 (407)
T ss_pred hhhhhhchhHHHHHHHh
Confidence 99999999999966664
No 17
>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=97.57 E-value=0.00095 Score=44.76 Aligned_cols=72 Identities=14% Similarity=0.257 Sum_probs=59.2
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeCC
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYDL 103 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~ 103 (171)
.|.||..||..+...+.++.|+++|.+.|.+...-+.....|+ +..+.+.| +.+|.++|+..++.|++.+..
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~--~~g~~L~d-~~tl~~~~i~~g~~i~l~~~~ 73 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLI--YSGKQMND-DKTAADYKLEGGSVLHLVLAL 73 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEE--ECCeEccC-CCCHHHcCCCCCCEEEEEEEc
Confidence 5789999999999999999999999999988765455566776 33566654 579999999999999998853
No 18
>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=97.40 E-value=0.0017 Score=43.02 Aligned_cols=70 Identities=16% Similarity=0.161 Sum_probs=57.0
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEe
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~ 101 (171)
.|.|+.++|..+...+.+++|+++|.+.|.....-+.....|+. ..+.+.| +.+|.+.|+..++.|++.+
T Consensus 2 ~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~--~g~~L~d-~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 2 EIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIY--SGRVLKD-DETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEE--CCEECCC-cCcHHHCCCCCCCEEEEEe
Confidence 57899999999999999999999999999887654444456654 3466654 5799999999999999875
No 19
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=97.36 E-value=0.0018 Score=43.78 Aligned_cols=71 Identities=15% Similarity=0.221 Sum_probs=58.9
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
.|-||..+|..+.....+++|+++|.+.|.+...-+...+.|+. -.+.+.| +.+|.++|+.+++.|++...
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~--~G~~L~d-~~~L~~~~i~~~~~l~l~~~ 72 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLF--KGKALAD-DKRLSDYSIGPNAKLNLVVR 72 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEE--CCEECCC-CCCHHHCCCCCCCEEEEEEc
Confidence 57899999999999999999999999999887655555677864 3466755 58999999999999998764
No 20
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=97.32 E-value=0.0021 Score=42.42 Aligned_cols=67 Identities=13% Similarity=0.165 Sum_probs=56.2
Q ss_pred EcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 33 RFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 33 RfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
|..+|..+...+.+++|+++|.+.|.....-+.....|+.. .+.+ +++.+|.++|+.++++|++...
T Consensus 1 k~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~--G~~L-~d~~tL~~~~i~~~~~I~l~~k 67 (69)
T PF00240_consen 1 KTLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYN--GKEL-DDDKTLSDYGIKDGSTIHLVIK 67 (69)
T ss_dssp EETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEET--TEEE-STTSBTGGGTTSTTEEEEEEES
T ss_pred CCCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeee--eecc-cCcCcHHHcCCCCCCEEEEEEe
Confidence 46789999999999999999999999988766667777653 4667 5678999999999999998753
No 21
>PTZ00044 ubiquitin; Provisional
Probab=97.29 E-value=0.0025 Score=43.01 Aligned_cols=71 Identities=15% Similarity=0.163 Sum_probs=59.2
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
.|-||..+|..+...+.+++|+++|.+.|.+...-+.....|+ +..+.+. ++.+|.+.|+.+++.|++.+.
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~--~~g~~L~-d~~~l~~~~i~~~~~i~l~~~ 72 (76)
T PTZ00044 2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLI--YSGKQMS-DDLKLSDYKVVPGSTIHMVLQ 72 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEE--ECCEEcc-CCCcHHHcCCCCCCEEEEEEE
Confidence 3678999999999999999999999999999876555567777 3456675 457899999999999999875
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=97.16 E-value=0.0027 Score=42.92 Aligned_cols=69 Identities=12% Similarity=0.157 Sum_probs=55.6
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEe
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~ 101 (171)
+.||..+|..+...+.+++|+++|...|.+...-+.....|+ +-.+.+.| +.+|.++|+-..++|++..
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li--~~G~~L~D-~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWF--FSGKLLTD-KTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEE--ECCeECCC-CCCHHHcCCCCCCEEEEEe
Confidence 368999999999999999999999999987754344456676 44566754 6899999999999999864
No 23
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=97.07 E-value=0.0057 Score=40.87 Aligned_cols=71 Identities=14% Similarity=0.154 Sum_probs=57.7
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
.|-||..+|..+...+.+++|+++|.+.|.+...-+.....|+. ..+.+.| +.+|.++|+.+.+.|++.+.
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~--~g~~L~d-~~~L~~~~i~~~~~i~l~~~ 72 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIF--AGKQLED-GRTLSDYNIQKESTLHLVLR 72 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEE--CCEECCC-CCcHHHcCCCCCCEEEEEEE
Confidence 36789999999999999999999999999887654444566663 3566754 57999999999999999875
No 24
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=97.04 E-value=0.0042 Score=41.86 Aligned_cols=69 Identities=13% Similarity=0.135 Sum_probs=56.1
Q ss_pred EEEEcC-CCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 30 IRVRFP-DNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 30 IRIRfP-Dg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
|.|+.+ +|..+.....+++|+++|...|.+.-.-+.....|+. -.+.+.|...+|.++|+..+.+|++.
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~--~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIY--NGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEE--CCeEccCCcccHHHcCCCCCCEEEEe
Confidence 457888 9999999999999999999999887654445567764 35678776678999999999999875
No 25
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=97.02 E-value=0.0058 Score=42.04 Aligned_cols=74 Identities=16% Similarity=0.273 Sum_probs=58.5
Q ss_pred eEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 28 AVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 28 ~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
..|-|+-.+|..+...+.++.|+++|.+.|.+...-+...+.|...+..+.+.| +.+|.+.|+.+++.|++.+.
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D-~~tL~~~gi~~gs~l~l~~~ 76 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQD-GVPLVSQGLGPGSTVLLVVQ 76 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCC-CCCHHHcCCCCCCEEEEEEE
Confidence 467888899999999999999999999999887654444567743345566755 56999999999999998864
No 26
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=96.95 E-value=0.0066 Score=41.03 Aligned_cols=70 Identities=16% Similarity=0.199 Sum_probs=57.7
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
|-||-++|..+.....+++|+++|.+.|.+...-+...+.|+ +-.+.+.| +.+|.+.|+-..+.|++.+.
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~--~~G~~L~D-~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLS--FEGRPMED-EHPLGEYGLKPGCTVFMNLR 70 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEE--ECCEECCC-CCCHHHcCCCCCCEEEEEEE
Confidence 458899999999999999999999999988765555567776 34566765 48999999999999999875
No 27
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=96.85 E-value=0.0067 Score=40.45 Aligned_cols=68 Identities=15% Similarity=0.220 Sum_probs=55.9
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
|-||-++|..+.....+++|+++|.+.|.+...-+.....|+ +-.+.+.| +.+|.++|+.+++.|++.
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li--~~G~~L~d-~~~l~~~~i~~~stl~l~ 68 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVI--FAGKELRN-TTTIQECDLGQQSILHAV 68 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEE--ECCeECCC-CCcHHHcCCCCCCEEEEE
Confidence 347889999999999999999999999998866555567776 44566754 589999999999999875
No 28
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=96.76 E-value=0.013 Score=40.26 Aligned_cols=71 Identities=11% Similarity=0.178 Sum_probs=55.5
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeCC
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYDL 103 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~ 103 (171)
.|-|+-..|......+.++.|+++|.+.|.+...-+.....|. +..+.+.|. +|.++|+-.++.|++....
T Consensus 3 ~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~--~~Gk~L~d~--~L~~~gi~~~~~i~l~~~~ 73 (78)
T cd01804 3 NLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALL--HRETRLSSG--KLQDLGLGDGSKLTLVPTV 73 (78)
T ss_pred EEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEE--ECCcCCCCC--cHHHcCCCCCCEEEEEeec
Confidence 5778888999999999999999999999987754332334443 556677664 7999999999999987653
No 29
>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=96.75 E-value=0.014 Score=39.78 Aligned_cols=70 Identities=14% Similarity=0.105 Sum_probs=53.6
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEe
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~ 101 (171)
.|.|+=..|..+...+.+++|+++|.+.|.+...-+...-.|. +..+.+.| +.+|.+.|+..++.||+-|
T Consensus 3 ~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi--~~Gk~L~D-~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 3 EVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLK--KWYTIFKD-HISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEE--eCCcCCCC-CCCHHHcCCCCCCEEEEEe
Confidence 5667767789999999999999999999987753222233443 44566755 5799999999999999865
No 30
>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=96.75 E-value=0.013 Score=37.92 Aligned_cols=67 Identities=18% Similarity=0.198 Sum_probs=53.3
Q ss_pred EEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEe
Q 046727 32 VRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 32 IRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~ 101 (171)
||..+|..++..+.++.|+++|.+.|.....-+.....|+. -.+.+. .+.+|.++|+.+++.|++.+
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~--~g~~l~-d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIY--AGKILK-DDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEE--CCcCCC-CcCCHHHCCCCCCCEEEEEE
Confidence 67889999999999999999999999987664444555643 235564 46789999999999999875
No 31
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=96.71 E-value=0.011 Score=39.00 Aligned_cols=68 Identities=16% Similarity=0.150 Sum_probs=53.5
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
.|.||+. |......+.+++|+.+|.+.|.+.-.-+.....|+.. .+.+.| +.+|.++|+.++..|++.
T Consensus 2 ~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~--g~~l~d-~~~L~~~~i~~g~~l~v~ 69 (71)
T cd01812 2 RVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFK--GKERDD-AETLDMSGVKDGSKVMLL 69 (71)
T ss_pred EEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeC--CcccCc-cCcHHHcCCCCCCEEEEe
Confidence 6889997 8888999999999999999998875544445677643 344544 579999999999988875
No 32
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=96.69 E-value=0.019 Score=38.70 Aligned_cols=70 Identities=17% Similarity=0.172 Sum_probs=55.1
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCC--CCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEe
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQ--PDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~--~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~ 101 (171)
.|.||..+|........+++|+++|.+.|.+...- +.....|+ +..+.+.| +.+|.++|+-.+..|++..
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~--~~G~~L~d-~~~L~~~~i~~~~~i~~~~ 73 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLI--YSGKILKD-DTTLEEYKIDEKDFVVVMV 73 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEE--ECCEEccC-CCCHHHcCCCCCCEEEEEE
Confidence 47789999999999999999999999999887643 33345554 34567754 5799999999888888764
No 33
>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=96.55 E-value=0.05 Score=38.02 Aligned_cols=77 Identities=9% Similarity=0.022 Sum_probs=62.9
Q ss_pred cCCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 23 SKFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 23 ~~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
..-.+..|+|+.++|..+.....+++|++.|.+.+.+...-+...+.|+.. -+.|. .+.|+.++|+--..+|.+...
T Consensus 7 ~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~--G~~L~-~~~T~~~l~m~d~d~I~v~l~ 83 (87)
T cd01763 7 EISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFD--GQRIR-DNQTPDDLGMEDGDEIEVMLE 83 (87)
T ss_pred CCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEEC--CeECC-CCCCHHHcCCCCCCEEEEEEe
Confidence 345688999999999999999999999999999999887655556777654 35564 457999999999999888754
No 34
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=96.53 E-value=0.022 Score=38.02 Aligned_cols=69 Identities=14% Similarity=0.271 Sum_probs=53.6
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEe
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~ 101 (171)
.|-|+-++|.. ...+.++.|+++|.+.|.+...-+...+.|. +..+.+.| +.+|.++|+-.++.|++.+
T Consensus 2 ~i~vk~~~g~~-~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li--~~Gk~L~d-~~tL~~~~i~~~stl~l~~ 70 (71)
T cd01808 2 KVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQEQLVLI--FAGKILKD-TDTLTQHNIKDGLTVHLVI 70 (71)
T ss_pred EEEEEcCCCCE-EEEECCCChHHHHHHHHHHHhCCCHHHEEEE--ECCeEcCC-CCcHHHcCCCCCCEEEEEE
Confidence 46778888864 6788899999999999988765444467775 34566755 5799999999999999875
No 35
>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=96.35 E-value=0.026 Score=33.97 Aligned_cols=67 Identities=18% Similarity=0.159 Sum_probs=48.6
Q ss_pred EEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 31 RVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 31 RIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
+|+++||......+.+..|+++|.+.|.+....+...|.|+...+.. +....+.+.++.....|++.
T Consensus 1 ~v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~---~~~~~~~~~~~~~~~~i~~~ 67 (69)
T cd00196 1 KVKLNDGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKIL---PDSLTLEDYGLQDGDELVLV 67 (69)
T ss_pred CeEecCCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeEC---CCCCcHHHcCCCCCCEEEEE
Confidence 47888999999999999999999999998876555578888755322 22233345566666666654
No 36
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=96.34 E-value=0.055 Score=39.98 Aligned_cols=73 Identities=15% Similarity=0.216 Sum_probs=49.9
Q ss_pred eeEEEEEcCCCc-eEEEEeCCCCchHHHHHHHHHhcCCCC-------CCcEEEeCCCceeecCCCCChhhcCCCCc----
Q 046727 27 KAVIRVRFPDNH-TLEVNFHPSETMQSLVDFLKRVLSQPD-------LPFYLYTTPPKKIIKDVSQDFFSASFIPG---- 94 (171)
Q Consensus 27 ~~~IRIRfPDg~-~lq~~F~~~etl~~l~~~V~~~l~~~~-------~~F~L~~~~P~k~l~d~~~tL~e~gl~P~---- 94 (171)
.+.||+||.||. +-...|.++.|+++|-++|......+. ....|... -|+|. ++.+|.++++...
T Consensus 2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~--GriL~-d~~tL~~~~~~~~~~~~ 78 (111)
T PF13881_consen 2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYA--GRILE-DNKTLSDCRLPSGETPG 78 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEET--TEEE--SSSBTGGGT--TTSETT
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeC--CeecC-CcCcHHHhCCCCCCCCC
Confidence 578999999999 999999999999999999998775431 12444432 24664 5789999876432
Q ss_pred --eEEEEEeC
Q 046727 95 --AIVYFSYD 102 (171)
Q Consensus 95 --a~l~~~~~ 102 (171)
.++|+..-
T Consensus 79 ~~~vmHlvvr 88 (111)
T PF13881_consen 79 GPTVMHLVVR 88 (111)
T ss_dssp --EEEEEEE-
T ss_pred CCEEEEEEec
Confidence 46676664
No 37
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=96.30 E-value=0.042 Score=39.91 Aligned_cols=76 Identities=13% Similarity=0.128 Sum_probs=60.9
Q ss_pred CCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeCC
Q 046727 25 FTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYDL 103 (171)
Q Consensus 25 ~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~ 103 (171)
.+.-.|-||-.+|..+.....+++|+++|.+.|.+...-+...+.|+. -.+.+.| +.+|.+.|+.++.+|++.+..
T Consensus 25 ~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~--~Gk~L~D-~~tL~dy~I~~~stL~l~~~l 100 (103)
T cd01802 25 YDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIW--NNMELED-EYCLNDYNISEGCTLKLVLAM 100 (103)
T ss_pred CCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEE--CCEECCC-CCcHHHcCCCCCCEEEEEEec
Confidence 345678888899999999999999999999999887544445677763 4566755 579999999999999998753
No 38
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=96.22 E-value=0.029 Score=35.76 Aligned_cols=62 Identities=19% Similarity=0.288 Sum_probs=47.5
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCc
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPG 94 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~ 94 (171)
.|+||.++ ......+.++.|+++|.+.|.....-+.....|+.. .+.+.| +.+|.++|+.++
T Consensus 2 ~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~--g~~L~d-~~tL~~~~i~~~ 63 (64)
T smart00213 2 ELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYK--GKVLED-DRTLADYNIQDG 63 (64)
T ss_pred EEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEEC--CEECCC-CCCHHHcCCcCC
Confidence 58899999 578899999999999999998877544445666543 355655 589999997543
No 39
>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=96.21 E-value=0.067 Score=35.48 Aligned_cols=69 Identities=17% Similarity=0.198 Sum_probs=55.9
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCC-CCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPD-LPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~-~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
.|.|+..||..++..-.++++++.|.+...+...-+. ..|.|+.-. +.+ +.+.|+.++|+-....|.+.
T Consensus 2 ~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG--~~L-~~~~T~~~~~ied~d~Idv~ 71 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDG--KRL-DPNDTPEDLGIEDGDTIDVI 71 (72)
T ss_dssp EEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETT--EEE--TTSCHHHHT-STTEEEEEE
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECC--EEc-CCCCCHHHCCCCCCCEEEEE
Confidence 5889999999999999999999999999999887666 788887644 446 45679999999888887764
No 40
>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=96.16 E-value=0.06 Score=36.36 Aligned_cols=70 Identities=21% Similarity=0.189 Sum_probs=50.7
Q ss_pred EEcCCCceEEEEeCCCCchHHHHHHHHHhcCCC-CCCcEEEe--CC-CceeecCCCCChhhcCCC--CceEEEEEe
Q 046727 32 VRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQP-DLPFYLYT--TP-PKKIIKDVSQDFFSASFI--PGAIVYFSY 101 (171)
Q Consensus 32 IRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~-~~~F~L~~--~~-P~k~l~d~~~tL~e~gl~--P~a~l~~~~ 101 (171)
|+|+||+.++....++.|.++|.+.|...|.=. ..-|.|.. .. .....-|.+++|.+..-- +...++|+.
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~~~~~~l~frv 76 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKKNNPPFTLYFRV 76 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBTSSSSEEEEEEE
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCCCCCCEEEEEEE
Confidence 789999999999999999999999999988643 33588876 22 223334777788765443 566666654
No 41
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=96.05 E-value=0.024 Score=42.07 Aligned_cols=74 Identities=14% Similarity=0.051 Sum_probs=50.8
Q ss_pred CeeEEEEEcCCCc-eEEEEeCCCCchHHHHHHHHHhcCCC--CCC-----cEEEeCCCceeecCCCCChhhcC------C
Q 046727 26 TKAVIRVRFPDNH-TLEVNFHPSETMQSLVDFLKRVLSQP--DLP-----FYLYTTPPKKIIKDVSQDFFSAS------F 91 (171)
Q Consensus 26 ~~~~IRIRfPDg~-~lq~~F~~~etl~~l~~~V~~~l~~~--~~~-----F~L~~~~P~k~l~d~~~tL~e~g------l 91 (171)
..+.||+|++||+ +=-..|.+++|+++|.+.|.+.-... ..+ -.|.. --|+|. +++||.+++ .
T Consensus 3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIy--sGKiLe-D~~TL~d~~~p~g~~~ 79 (113)
T cd01814 3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLIS--AGKILE-NSKTVGECRSPVGDIA 79 (113)
T ss_pred ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEe--CCeecC-CCCcHHHhCCcccccC
Confidence 3578999999997 55678889999999999998776421 122 33443 336665 468998877 3
Q ss_pred CCceEEEEEeC
Q 046727 92 IPGAIVYFSYD 102 (171)
Q Consensus 92 ~P~a~l~~~~~ 102 (171)
-...++|+..-
T Consensus 80 ~~~~TmHvvlr 90 (113)
T cd01814 80 GGVITMHVVVQ 90 (113)
T ss_pred CCceEEEEEec
Confidence 33466666654
No 42
>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=95.60 E-value=0.088 Score=35.70 Aligned_cols=65 Identities=17% Similarity=0.160 Sum_probs=52.3
Q ss_pred CCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeCC
Q 046727 36 DNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYDL 103 (171)
Q Consensus 36 Dg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~ 103 (171)
+|.++...+.+++|+++|.+.|.....-+.....|+... +.+.| +.+|.++|+.+.+.|++....
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G--~~L~d-~~tL~~~~i~~g~~l~v~~~~ 70 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEG--IFIKD-SNSLAYYNLANGTIIHLQLKE 70 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECC--EEcCC-CCcHHHcCCCCCCEEEEEEec
Confidence 578889999999999999999988765455557776543 55655 579999999999999998764
No 43
>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=95.20 E-value=0.2 Score=39.11 Aligned_cols=74 Identities=23% Similarity=0.283 Sum_probs=52.9
Q ss_pred eeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCC-CCCcEEEeCCCce---eecCCCCChhhcCCC-CceEEEEE
Q 046727 27 KAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQP-DLPFYLYTTPPKK---IIKDVSQDFFSASFI-PGAIVYFS 100 (171)
Q Consensus 27 ~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~-~~~F~L~~~~P~k---~l~d~~~tL~e~gl~-P~a~l~~~ 100 (171)
...|||.||||+.....+.++.|+.+|.+.|...+.-. ..-|.|+..-+.. ...+...++.+..-- ....++|+
T Consensus 3 ~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~l~~~~~~~~~~~l~fr 81 (207)
T smart00295 3 PRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKTLLDQDVKSEPLTLYFR 81 (207)
T ss_pred cEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccCHHHhcCCCCCcEEEEE
Confidence 56899999999999999999999999999999988653 3468888744332 122445566655533 23455554
No 44
>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=95.17 E-value=0.12 Score=37.77 Aligned_cols=62 Identities=18% Similarity=0.222 Sum_probs=49.4
Q ss_pred EEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeCCCC
Q 046727 42 VNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYDLPK 105 (171)
Q Consensus 42 ~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~~~ 105 (171)
..-++++|+.+|-..|.+.+.-+...=.|+.. . +.+.|++.||.++|+.|.++|++..+.+.
T Consensus 19 L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~d-G-~~L~DDsrTLssyGv~sgSvl~LlideP~ 80 (107)
T cd01795 19 LLVSANQTLKELKIQIMHAFSVAPFDQNLSID-G-KILSDDCATLGTLGVIPESVILLKADEPI 80 (107)
T ss_pred EEeCccccHHHHHHHHHHHhcCCcccceeeec-C-ceeccCCccHHhcCCCCCCEEEEEecCCc
Confidence 45789999999999999988754222256655 3 37889999999999999999999987654
No 45
>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=95.01 E-value=0.12 Score=35.35 Aligned_cols=72 Identities=14% Similarity=0.206 Sum_probs=48.9
Q ss_pred eeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCC----CC--CcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 27 KAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQP----DL--PFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 27 ~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~----~~--~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
.|.|-|.+++|..+......+-+++.|..-|.+.+..+ .. .|.|.... ...| +.+.+|.++|..-+.+|++.
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~-g~~L-~~~~tL~~~gV~dGd~L~L~ 79 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAG-GRPL-DPDQTLADAGVRDGDVLVLR 79 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GG-TEEE-ETTSBCGGGT--TT-EEEE-
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecC-Cccc-CCcCcHhHcCCCCCCEEEeC
Confidence 58899999888999999999999999999999887652 11 36776433 3456 45789999999988888763
No 46
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=94.99 E-value=0.17 Score=34.33 Aligned_cols=70 Identities=14% Similarity=0.152 Sum_probs=51.4
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeC-CCceeecCCCCChhhcCCCCceEEEEE
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTT-PPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~-~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
.|.|++ .|......+.+++|+++|-+.|.+...-+...-.|... +-.+.+.| +.+|.++|+.++..|++-
T Consensus 2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D-~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAED-DVKISALKLKPNTKIMMM 72 (74)
T ss_pred EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCC-CcCHHHcCCCCCCEEEEE
Confidence 467777 57777899999999999999999877544444555531 22344544 689999999999888763
No 47
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=94.98 E-value=0.21 Score=34.23 Aligned_cols=71 Identities=15% Similarity=0.177 Sum_probs=55.0
Q ss_pred EEEEEcCCCce-EEEE-eCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 29 VIRVRFPDNHT-LEVN-FHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 29 ~IRIRfPDg~~-lq~~-F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
.|-||-.+|.. .... ..+++|+++|.+.|.+...-+.....|+. -.+.+.| +.+|.+.|+-+++.|++.+-
T Consensus 2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~--~Gk~L~D-~~tL~~y~i~~~~~i~l~~~ 74 (78)
T cd01797 2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFY--RGKQMED-GHTLFDYNVGLNDIIQLLVR 74 (78)
T ss_pred EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEe--CCEECCC-CCCHHHcCCCCCCEEEEEEe
Confidence 46788889985 4663 67899999999999887654445567764 3566754 67999999999999999875
No 48
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=94.81 E-value=0.28 Score=34.93 Aligned_cols=65 Identities=11% Similarity=0.185 Sum_probs=44.4
Q ss_pred ceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEe---CCCceeecCCCCChhhcCCCCceEEEEEeCC
Q 046727 38 HTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYT---TPPKKIIKDVSQDFFSASFIPGAIVYFSYDL 103 (171)
Q Consensus 38 ~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~---~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~ 103 (171)
..+...|...|||+.|...++..+.- ..+=.|+. .--.-.+.+...|+.|+||..+.+|.+.--.
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 47889999999999999999998876 33444443 3334456677889999999999999988643
No 49
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=94.70 E-value=0.28 Score=32.89 Aligned_cols=68 Identities=10% Similarity=-0.006 Sum_probs=51.2
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeC
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
|-||- +........+++|+++|.+.|.+.-.-+.....|+.. -+.+.| +.+|.++|+-+.+.|++.+.
T Consensus 3 i~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~--Gk~L~D-~~tL~~~~i~~~~tl~l~~~ 70 (74)
T cd01793 3 LFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLA--GVPLED-DATLGQCGVEELCTLEVAGR 70 (74)
T ss_pred EEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEEC--CeECCC-CCCHHHcCCCCCCEEEEEEe
Confidence 44554 4566778889999999999998875544445667643 466755 58999999999999999865
No 50
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=94.09 E-value=0.5 Score=32.73 Aligned_cols=75 Identities=16% Similarity=0.133 Sum_probs=55.2
Q ss_pred eEEEEEcCCC--ceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeC---CCce--eecCCCCChhhcCCCCceEEEEE
Q 046727 28 AVIRVRFPDN--HTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTT---PPKK--IIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 28 ~~IRIRfPDg--~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~---~P~k--~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
+.|.|.-+.. ...+.+|..+.|+++|...|..+.+-+.....|+.- .+.. .+.|+.++|...|+..+..|++.
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~ 81 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVV 81 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEE
Confidence 4567777666 499999999999999999999988766555555442 2222 23466889999999999999998
Q ss_pred eC
Q 046727 101 YD 102 (171)
Q Consensus 101 ~~ 102 (171)
-.
T Consensus 82 D~ 83 (87)
T PF14560_consen 82 DT 83 (87)
T ss_dssp E-
T ss_pred eC
Confidence 54
No 51
>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=93.61 E-value=0.3 Score=33.33 Aligned_cols=62 Identities=13% Similarity=0.118 Sum_probs=45.6
Q ss_pred CCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCC-CceEEEE
Q 046727 35 PDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFI-PGAIVYF 99 (171)
Q Consensus 35 PDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~-P~a~l~~ 99 (171)
..|..+...|.++.|+++|.+.|.+...-+.....| . .. +.+.|++.+|.++|+. ++.++++
T Consensus 10 ~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~-~G-~~L~dD~~tL~~ygi~~~g~~~~l 72 (75)
T cd01799 10 SHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-V-IG-QRLARDQETLYSHGIRTNGDSAFL 72 (75)
T ss_pred cCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-E-cC-CeeCCCcCCHHHcCCCCCCCEEEE
Confidence 346677889999999999999998876544445677 2 22 3365667899999998 5566665
No 52
>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=93.41 E-value=0.7 Score=32.13 Aligned_cols=71 Identities=15% Similarity=0.115 Sum_probs=50.0
Q ss_pred eEEEEEcCCCce--EEEEeCCCCchHHHHHHHHHhcCC--CCCCcEEEeCCCceeecCCCCChhhcC--CCCceEEEEEe
Q 046727 28 AVIRVRFPDNHT--LEVNFHPSETMQSLVDFLKRVLSQ--PDLPFYLYTTPPKKIIKDVSQDFFSAS--FIPGAIVYFSY 101 (171)
Q Consensus 28 ~~IRIRfPDg~~--lq~~F~~~etl~~l~~~V~~~l~~--~~~~F~L~~~~P~k~l~d~~~tL~e~g--l~P~a~l~~~~ 101 (171)
..|.||-|+|.. +...+.++.|+++|-+.|.+.... +...-.|... .|++.| +.+|.+.+ .-..-+||+.+
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~--GKiLkD-~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYS--GKLLPD-HLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEc--Ceeccc-hhhHHHHhhcccCCceEEEEe
Confidence 468899999998 666668999999999999987642 2234566543 367765 47887764 44456666654
No 53
>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=92.99 E-value=0.58 Score=41.53 Aligned_cols=73 Identities=15% Similarity=0.211 Sum_probs=56.7
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcC---CCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeCCC
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLS---QPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYDLP 104 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~---~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~~ 104 (171)
.|.||..+|..+.+.+.+++||.+|.+.|...-. -+.....|+ +-.++|.| +++|.++|+.....|++.....
T Consensus 2 kItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLI--y~GkiL~D-d~tL~dy~I~e~~~Ivvmv~k~ 77 (378)
T TIGR00601 2 TLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLI--YSGKILSD-DKTVREYKIKEKDFVVVMVSKP 77 (378)
T ss_pred EEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEE--ECCEECCC-CCcHHHcCCCCCCEEEEEeccC
Confidence 4788999999999999999999999999988654 223345665 44577765 5699999999888888776543
No 54
>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=91.75 E-value=0.5 Score=33.54 Aligned_cols=45 Identities=20% Similarity=0.293 Sum_probs=38.2
Q ss_pred eEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCC---CCcEEEe
Q 046727 28 AVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPD---LPFYLYT 72 (171)
Q Consensus 28 ~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~---~~F~L~~ 72 (171)
+.|||-+|||+.+...-..+++..+||+.+..-+.-+. .=|.||.
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~YFaLFe 49 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQNYFALFE 49 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhheeeeE
Confidence 57999999999999999999999999999998886542 2466765
No 55
>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=91.51 E-value=1.2 Score=30.08 Aligned_cols=52 Identities=15% Similarity=0.126 Sum_probs=37.5
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeec
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIK 80 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~ 80 (171)
.+||-+|||+.....-.+..|+.++..-+-+...=....+.+|....++.+.
T Consensus 2 ~~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~ 53 (71)
T PF02196_consen 2 TCRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLD 53 (71)
T ss_dssp EEEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-
T ss_pred eEEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCcccc
Confidence 4799999999999999999999877776665544334567777766666664
No 56
>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=89.22 E-value=1.6 Score=29.15 Aligned_cols=63 Identities=14% Similarity=0.172 Sum_probs=39.5
Q ss_pred cCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEE
Q 046727 34 FPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYF 99 (171)
Q Consensus 34 fPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~ 99 (171)
-+++........|+.++.+|.+-.-....=+...|.|.. -++.+ |.+..+.-+||..+|.|-+
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h--~~k~l-dlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKH--NNKPL-DLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEE--TTEEE-SSS-BHHHH---SS-EEEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEE--CCEEe-ccccceeecCCCCCCEEeC
Confidence 367888899999999999998888776654445788875 34666 7888999999999988753
No 57
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=88.32 E-value=5 Score=31.63 Aligned_cols=52 Identities=25% Similarity=0.296 Sum_probs=40.7
Q ss_pred EEEEEcCCC----ceEEEEeCCCCchHHHHHHHHHhcCCCCC-CcEEEeCCCceeec
Q 046727 29 VIRVRFPDN----HTLEVNFHPSETMQSLVDFLKRVLSQPDL-PFYLYTTPPKKIIK 80 (171)
Q Consensus 29 ~IRIRfPDg----~~lq~~F~~~etl~~l~~~V~~~l~~~~~-~F~L~~~~P~k~l~ 80 (171)
.|=|...|| ..++....++.|+++|++.|.+.+..+.. .++|++..-++...
T Consensus 2 ~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~ 58 (162)
T PF13019_consen 2 NVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSP 58 (162)
T ss_pred eEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCC
Confidence 355788899 68899999999999999999999887644 38888866555433
No 58
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=88.01 E-value=6.8 Score=27.01 Aligned_cols=67 Identities=18% Similarity=0.150 Sum_probs=49.1
Q ss_pred CCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEE--EeCCCce--eecCCCCChhhcCCCCceEEEEEeC
Q 046727 36 DNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYL--YTTPPKK--IIKDVSQDFFSASFIPGAIVYFSYD 102 (171)
Q Consensus 36 Dg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L--~~~~P~k--~l~d~~~tL~e~gl~P~a~l~~~~~ 102 (171)
++...+.+|.++-|+++|.+.+.....-+...-.| +..-... .+.+++++|...|+.++..||+.-.
T Consensus 11 ~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD~ 81 (84)
T cd01789 11 DSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVIDV 81 (84)
T ss_pred CceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEeC
Confidence 35678899999999999999998876654444455 3322112 3456678999999999999999843
No 59
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=86.35 E-value=4.8 Score=28.46 Aligned_cols=51 Identities=20% Similarity=0.223 Sum_probs=42.3
Q ss_pred eeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhc-CCCCCCcEEEeCCCce
Q 046727 27 KAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVL-SQPDLPFYLYTTPPKK 77 (171)
Q Consensus 27 ~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l-~~~~~~F~L~~~~P~k 77 (171)
+..|||-++||+.-.+-...+-|.++|.+.+..-- ......|.|+-..|--
T Consensus 2 k~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l 53 (85)
T cd01787 2 KQVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHL 53 (85)
T ss_pred ceEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEEEecchh
Confidence 56899999999999999999999999998876533 3456689999877754
No 60
>PLN02560 enoyl-CoA reductase
Probab=86.24 E-value=5.2 Score=34.53 Aligned_cols=72 Identities=14% Similarity=0.093 Sum_probs=48.3
Q ss_pred EEEEcCCCceE---EEEeCCCCchHHHHHHHHHhcCC-CCCCcEEEeC---C-CceeecCCCCChhhcCCCCceEEEEEe
Q 046727 30 IRVRFPDNHTL---EVNFHPSETMQSLVDFLKRVLSQ-PDLPFYLYTT---P-PKKIIKDVSQDFFSASFIPGAIVYFSY 101 (171)
Q Consensus 30 IRIRfPDg~~l---q~~F~~~etl~~l~~~V~~~l~~-~~~~F~L~~~---~-P~k~l~d~~~tL~e~gl~P~a~l~~~~ 101 (171)
|.|+-..|..+ .....++.|+++|.+.|.+.-.. ....-.|... . ++...-+++++|.+.|+..++.|+|+-
T Consensus 3 I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~kD 82 (308)
T PLN02560 3 VTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVFKD 82 (308)
T ss_pred EEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEEEe
Confidence 56666677665 67788999999999999876432 1112333321 1 332223456799999999999999983
No 61
>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=85.68 E-value=6.9 Score=26.31 Aligned_cols=55 Identities=20% Similarity=0.235 Sum_probs=38.8
Q ss_pred CCCCchHHHHHHHHHhcCC-CCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 45 HPSETMQSLVDFLKRVLSQ-PDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 45 ~~~etl~~l~~~V~~~l~~-~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
.++.|+++|++.|...-.. +.....|...+..+.+.| +.+|.+.|+..+..|||.
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d-~~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKD-DDTLVDLGVGAGATLYVR 75 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCC-cccHhhcCCCCCCEEEEe
Confidence 5778999999999876322 122344544566667754 458999999888888885
No 62
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=84.54 E-value=5.2 Score=36.19 Aligned_cols=74 Identities=15% Similarity=0.183 Sum_probs=58.0
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCC--CCCcEEEeCCC-cee-ec-CCCCChhhcCCCCceEEEEEeCC
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQP--DLPFYLYTTPP-KKI-IK-DVSQDFFSASFIPGAIVYFSYDL 103 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~--~~~F~L~~~~P-~k~-l~-d~~~tL~e~gl~P~a~l~~~~~~ 103 (171)
.||+|=+.|+ -.+.|..+++++.|...+-..+... ...|.++..|. +-+ +. ..++++.++||..+.+|++.+.+
T Consensus 2 i~rfRsk~G~-~Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~ysd 80 (571)
T COG5100 2 IFRFRSKEGQ-RRVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEYSD 80 (571)
T ss_pred eEEEecCCCc-eeeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEecc
Confidence 5899999998 4678999999998887776666543 24799999775 322 33 45789999999999999999954
No 63
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=83.34 E-value=4 Score=27.76 Aligned_cols=44 Identities=11% Similarity=0.126 Sum_probs=34.6
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeC
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTT 73 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~ 73 (171)
+||-||||..-...-.|..|+.++..-+-+...=....+.|+..
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 68999999999999999999998888776655433345666664
No 64
>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=81.35 E-value=4.2 Score=28.03 Aligned_cols=53 Identities=11% Similarity=0.039 Sum_probs=39.8
Q ss_pred CCCCchHHHHHHHHHhcCC---CCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 45 HPSETMQSLVDFLKRVLSQ---PDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 45 ~~~etl~~l~~~V~~~l~~---~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
..++|+.+|.+.|.+.... +...+.|.. --|.+. ++.+|.+.|+.+++.||+.
T Consensus 18 ~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy--~GKiL~-D~~TL~dygI~~gstlhLv 73 (75)
T cd01815 18 PGGYQVSTLKQLIAAQLPDSLPDPELIDLIH--CGRKLK-DDQTLDFYGIQSGSTIHIL 73 (75)
T ss_pred CccCcHHHHHHHHHHhhccCCCChHHeEEEe--CCcCCC-CCCcHHHcCCCCCCEEEEE
Confidence 3589999999999988531 233577764 345675 4589999999999999875
No 65
>smart00455 RBD Raf-like Ras-binding domain.
Probab=79.95 E-value=8 Score=25.98 Aligned_cols=50 Identities=18% Similarity=0.179 Sum_probs=35.9
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceee
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKII 79 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l 79 (171)
++|-+|||......-.|..|+.++..-+-+...=......|+...-.+.+
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g~~k~l 51 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRGEKKPL 51 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCcce
Confidence 68899999999999999999998877776654322334566664433444
No 66
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=78.07 E-value=11 Score=25.14 Aligned_cols=44 Identities=11% Similarity=0.211 Sum_probs=35.8
Q ss_pred eEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEe
Q 046727 28 AVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYT 72 (171)
Q Consensus 28 ~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~ 72 (171)
+.|+++| +|.+.-..+.+.-++.+|++.|...+......|.|..
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y 45 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKY 45 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEE
Confidence 5688889 6777888888899999999999999876555677743
No 67
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=76.83 E-value=3.8 Score=26.53 Aligned_cols=32 Identities=25% Similarity=0.364 Sum_probs=26.7
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCC
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQ 63 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~ 63 (171)
|+|.+|||...+ |....|+.++-.-|..-+..
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~~l~~ 32 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHSSLAK 32 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHHH
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHHh
Confidence 789999999988 88899988888888766643
No 68
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=74.19 E-value=14 Score=24.69 Aligned_cols=45 Identities=13% Similarity=0.204 Sum_probs=36.7
Q ss_pred eEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEe
Q 046727 28 AVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYT 72 (171)
Q Consensus 28 ~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~ 72 (171)
+.|+++|-++.+....+....++.+|++.|...+......|.|..
T Consensus 2 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y 46 (84)
T PF00564_consen 2 VRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKY 46 (84)
T ss_dssp EEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEE
T ss_pred EEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEe
Confidence 578889988777767888888999999999998877656777754
No 69
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=73.56 E-value=13 Score=34.08 Aligned_cols=75 Identities=17% Similarity=0.274 Sum_probs=56.1
Q ss_pred CeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeCCC
Q 046727 26 TKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYDLP 104 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~~ 104 (171)
..+.|+|+-|++ .-...-..+.||.++.+.|......+...-.|.. --|+++| +.||...|.-...+||+.....
T Consensus 14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIf--aGrILKD-~dTL~~~gI~Dg~TvHLVik~~ 88 (493)
T KOG0010|consen 14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIY--AGRILKD-DDTLKQYGIQDGHTVHLVIKSQ 88 (493)
T ss_pred ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeee--cCccccC-hhhHHHcCCCCCcEEEEEeccC
Confidence 457899999999 4444445688899999988887755444555553 3477875 5799999999999999987654
No 70
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=73.55 E-value=14 Score=25.31 Aligned_cols=50 Identities=24% Similarity=0.234 Sum_probs=35.9
Q ss_pred EEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeec
Q 046727 31 RVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIK 80 (171)
Q Consensus 31 RIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~ 80 (171)
||-+|||+.-...-.|..|+.++..-+-+...=....+.+|...-.+.+.
T Consensus 3 rV~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~ 52 (73)
T cd01817 3 RVILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLV 52 (73)
T ss_pred EEECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccc
Confidence 78899999999999999999988776665544333345566655455553
No 71
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=71.78 E-value=14 Score=26.51 Aligned_cols=53 Identities=17% Similarity=0.266 Sum_probs=33.6
Q ss_pred EEEEcCCCc-eEEEEeC--CCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCC
Q 046727 30 IRVRFPDNH-TLEVNFH--PSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDV 82 (171)
Q Consensus 30 IRIRfPDg~-~lq~~F~--~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~ 82 (171)
|-|||.|+. =|+..++ .+.|+.+|...|++.+.++...=.|..=+--+.|.|.
T Consensus 3 l~IRFs~sipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~ 58 (97)
T PF10302_consen 3 LTIRFSDSIPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDH 58 (97)
T ss_pred EEEEECCCCCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCcc
Confidence 445665532 3777777 7899999999999999554333333322334666553
No 72
>KOG3530 consensus FERM domain protein EHM2 [General function prediction only]
Probab=71.12 E-value=14 Score=34.72 Aligned_cols=78 Identities=19% Similarity=0.180 Sum_probs=57.3
Q ss_pred CCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCC-CcEEEeCCCcee--ecCCCCChh-hcCCCCceEEEEE
Q 046727 25 FTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDL-PFYLYTTPPKKI--IKDVSQDFF-SASFIPGAIVYFS 100 (171)
Q Consensus 25 ~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~-~F~L~~~~P~k~--l~d~~~tL~-e~gl~P~a~l~~~ 100 (171)
...+..+|+|=||+-|.++|......+.|+|+|-.+|.=... =|-|...-+.++ --|..+++. .....|.-.|+|+
T Consensus 8 k~~~~C~V~LLd~sdl~~~~pk~akGq~Lld~V~~~ldl~E~DYFGLry~D~~~~~hWLD~tK~I~kqvK~gppytL~~r 87 (616)
T KOG3530|consen 8 KKDVYCRVLLLDGSDLSINFPKTAKGQELLDYVFYHLDLIEKDYFGLRYQDSSKVRHWLDPTKSIKKQVKIGPPYTLHLR 87 (616)
T ss_pred CcceEEEEEEecCccceeccCcccchHHHHHHHHHhhceeeeeccceeeechhhcceecCcchhHHHHhccCCCeEEEEE
Confidence 345667889999999999999999999999999988864322 356643332222 126667764 5778889999998
Q ss_pred eC
Q 046727 101 YD 102 (171)
Q Consensus 101 ~~ 102 (171)
..
T Consensus 88 VK 89 (616)
T KOG3530|consen 88 VK 89 (616)
T ss_pred EE
Confidence 65
No 73
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=71.06 E-value=39 Score=25.29 Aligned_cols=70 Identities=19% Similarity=0.280 Sum_probs=48.9
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCC-------CCceEEEEEe
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASF-------IPGAIVYFSY 101 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl-------~P~a~l~~~~ 101 (171)
-|+||= ..+++=..=..++|+-+|-..|...+..+-.+=.|| .--.++ |+++||.|+|+ -.-|.|-+.|
T Consensus 4 FlmIrR-~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~--kd~qvL-eD~kTL~d~g~t~~~akaq~pA~vgLa~ 79 (119)
T cd01788 4 FLMIRR-HKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLY--KDDQLL-DDGKTLGDCGFTSQTARPQAPATVGLAF 79 (119)
T ss_pred EEEEEe-cceEEEeecCCcccHHHHHHHHHHHhcCChhHheee--cCceee-cccccHHHcCccccccccCCCCeEEEEE
Confidence 455553 234444455579999999999999998776666777 222445 66899999999 3356777766
Q ss_pred C
Q 046727 102 D 102 (171)
Q Consensus 102 ~ 102 (171)
-
T Consensus 80 r 80 (119)
T cd01788 80 R 80 (119)
T ss_pred e
Confidence 5
No 74
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=70.59 E-value=20 Score=24.13 Aligned_cols=60 Identities=13% Similarity=0.158 Sum_probs=43.9
Q ss_pred eeEEEEEcCCCc----eEEEEeCCCCchHHHHHHHHHhcCC--CCCCcEEE--eCCCc--eeecCCCCCh
Q 046727 27 KAVIRVRFPDNH----TLEVNFHPSETMQSLVDFLKRVLSQ--PDLPFYLY--TTPPK--KIIKDVSQDF 86 (171)
Q Consensus 27 ~~~IRIRfPDg~----~lq~~F~~~etl~~l~~~V~~~l~~--~~~~F~L~--~~~P~--k~l~d~~~tL 86 (171)
...|||-..|++ .-.....++.|.++|...+-+-+.- ....|.|+ ..... +.|.+.+..|
T Consensus 2 ~~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl 71 (93)
T PF00788_consen 2 SGVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPL 71 (93)
T ss_dssp EEEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHH
T ss_pred CeEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchH
Confidence 578999999999 8999999999999999988776553 34579994 43322 4455544443
No 75
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-inte
Probab=68.49 E-value=25 Score=24.36 Aligned_cols=43 Identities=14% Similarity=0.237 Sum_probs=33.4
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCC-CCcEEEe
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPD-LPFYLYT 72 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~-~~F~L~~ 72 (171)
+|++.| +|-++..++.++.++.+|++-|...+.-.. .+|.|..
T Consensus 2 ~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY 45 (82)
T cd06407 2 RVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY 45 (82)
T ss_pred EEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence 466677 456777888889999999999999887543 6788854
No 76
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=67.50 E-value=25 Score=23.71 Aligned_cols=58 Identities=14% Similarity=0.145 Sum_probs=41.9
Q ss_pred EEEEEcCC---CceEEEEeCCCCchHHHHHHHHHhcC-C-CCCCcEEEeCCC----ceeecCCCCCh
Q 046727 29 VIRVRFPD---NHTLEVNFHPSETMQSLVDFLKRVLS-Q-PDLPFYLYTTPP----KKIIKDVSQDF 86 (171)
Q Consensus 29 ~IRIRfPD---g~~lq~~F~~~etl~~l~~~V~~~l~-~-~~~~F~L~~~~P----~k~l~d~~~tL 86 (171)
.|||-+.| ++........+.|.++|...+-+-.. + ....|.|+.-.+ .+.+.|.+..|
T Consensus 1 ~ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~~~~er~L~~~e~pl 67 (87)
T cd01768 1 VLRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGDGGLERLLLPDECPL 67 (87)
T ss_pred CEEEeCCcCCCccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECCceEEEEeCCCCChH
Confidence 37888888 99999999999999999988876544 2 356899987322 24455555444
No 77
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=66.71 E-value=36 Score=23.13 Aligned_cols=60 Identities=13% Similarity=0.183 Sum_probs=43.1
Q ss_pred eeEEEEEcCC---CceEEEEeCCCCchHHHHHHHHHhcCC-C-CCCcEEEeCC-C--ceeecCCCCCh
Q 046727 27 KAVIRVRFPD---NHTLEVNFHPSETMQSLVDFLKRVLSQ-P-DLPFYLYTTP-P--KKIIKDVSQDF 86 (171)
Q Consensus 27 ~~~IRIRfPD---g~~lq~~F~~~etl~~l~~~V~~~l~~-~-~~~F~L~~~~-P--~k~l~d~~~tL 86 (171)
...|||-+-| ++.......++.|.++|...+-+-..- . ...|.|+..- . -+.|.+.+..|
T Consensus 2 ~~~lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~e~Pl 69 (90)
T smart00314 2 TFVLRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDDENPL 69 (90)
T ss_pred ceEEEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCCCcce
Confidence 4578888777 999999999999999999888765543 2 3579998743 2 24455544443
No 78
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=63.34 E-value=18 Score=26.34 Aligned_cols=63 Identities=22% Similarity=0.291 Sum_probs=44.4
Q ss_pred eEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCC
Q 046727 28 AVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFI 92 (171)
Q Consensus 28 ~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~ 92 (171)
.-||||= ..+.+=..-.+++|+-+|-..+...+..+..+-.||-----.++ +++++|.|+||.
T Consensus 3 ~f~~VrR-~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL-~D~ktL~d~gft 65 (110)
T KOG4495|consen 3 VFLRVRR-HKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLL-DDGKTLGDCGFT 65 (110)
T ss_pred eeeeeee-cceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHh-hccchhhhcccc
Confidence 4566764 34555555668999999999999999887666666542222444 568999999983
No 79
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=62.81 E-value=13 Score=26.16 Aligned_cols=36 Identities=19% Similarity=0.496 Sum_probs=30.6
Q ss_pred EEEEEcCCCceEEEEeCC--CCchHHHHHHHHHhcCCC
Q 046727 29 VIRVRFPDNHTLEVNFHP--SETMQSLVDFLKRVLSQP 64 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~--~etl~~l~~~V~~~l~~~ 64 (171)
+|||+-|+|--+.+.-.+ .=++.+|.+.|.++|.+.
T Consensus 2 VIRIk~p~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~a 39 (91)
T cd06395 2 VIRIKIPNGGAVDWTVQSGPQLLFRDVLDVIGQVLPEA 39 (91)
T ss_pred eEEEeCCCCCcccccccCcccccHHHHHHHHHHhcccc
Confidence 799999999888888774 467789999999999764
No 80
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=61.50 E-value=32 Score=24.00 Aligned_cols=44 Identities=18% Similarity=0.237 Sum_probs=35.2
Q ss_pred eeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEe
Q 046727 27 KAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYT 72 (171)
Q Consensus 27 ~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~ 72 (171)
.|+|+|+|-+ .+-++-.+.-+.++|++.|++-|.-+...-.|..
T Consensus 2 ~~vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsY 45 (80)
T cd06406 2 SYVVKVHFKY--TVAIQVARGLSYATLLQKISSKLELPAEHITLSY 45 (80)
T ss_pred CeEEEEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEe
Confidence 4889999976 7888889999999999999998876444445543
No 81
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=61.15 E-value=24 Score=24.43 Aligned_cols=30 Identities=17% Similarity=0.339 Sum_probs=26.1
Q ss_pred EEcCCCceEEEEeCCCCchHHHHHHHHHhc
Q 046727 32 VRFPDNHTLEVNFHPSETMQSLVDFLKRVL 61 (171)
Q Consensus 32 IRfPDg~~lq~~F~~~etl~~l~~~V~~~l 61 (171)
|-||||........++.|+.++.+..-...
T Consensus 4 V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~ 33 (77)
T cd01818 4 VCLPDNQPVLTYLRPGMSVEDFLESACKRK 33 (77)
T ss_pred EECCCCceEEEEECCCCCHHHHHHHHHHhc
Confidence 789999999999999999999988765543
No 82
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=55.50 E-value=55 Score=21.47 Aligned_cols=43 Identities=12% Similarity=0.166 Sum_probs=32.0
Q ss_pred eEEEEEcCCCceEEEEeC-CCCchHHHHHHHHHhcCCCCCCcEEE
Q 046727 28 AVIRVRFPDNHTLEVNFH-PSETMQSLVDFLKRVLSQPDLPFYLY 71 (171)
Q Consensus 28 ~~IRIRfPDg~~lq~~F~-~~etl~~l~~~V~~~l~~~~~~F~L~ 71 (171)
+.|+++|.++ +....+. ...++.+|++.|.+.+......|.|.
T Consensus 1 ~~vK~~~~~~-~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~ 44 (81)
T cd05992 1 VRVKVKYGGE-IRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLK 44 (81)
T ss_pred CcEEEEecCC-CEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEE
Confidence 3578888754 5566666 89999999999999887644456554
No 83
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=53.11 E-value=66 Score=22.60 Aligned_cols=43 Identities=16% Similarity=0.339 Sum_probs=35.3
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCC-CCCCcEEEe
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQ-PDLPFYLYT 72 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~-~~~~F~L~~ 72 (171)
+|++.| .|-++...+.+.-++..|.+-|+....- ..++|.+..
T Consensus 2 ~~K~~y-~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw 45 (83)
T cd06404 2 RVKAAY-NGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKW 45 (83)
T ss_pred eEEEEe-cCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEE
Confidence 567778 6889999999999999999999997654 356888754
No 84
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=50.70 E-value=76 Score=22.16 Aligned_cols=72 Identities=17% Similarity=0.324 Sum_probs=42.6
Q ss_pred eEEEEE----cCCCceEEEEeCCCCchHHHHHHHHHhcCC-CCCCcEEEeCCCceeecCCCC---ChhhcCCCCceEEEE
Q 046727 28 AVIRVR----FPDNHTLEVNFHPSETMQSLVDFLKRVLSQ-PDLPFYLYTTPPKKIIKDVSQ---DFFSASFIPGAIVYF 99 (171)
Q Consensus 28 ~~IRIR----fPDg~~lq~~F~~~etl~~l~~~V~~~l~~-~~~~F~L~~~~P~k~l~d~~~---tL~e~gl~P~a~l~~ 99 (171)
++||++ .|+-..-......+.|++.+..+|+..|.- +.....||..- ...+..+. .|++.- -...-|++
T Consensus 2 v~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn--~f~p~~d~~~g~LY~~~-~~dGfLyi 78 (87)
T cd01612 2 VTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINN--SFAPSPDENVGNLYRCF-GTNGELIV 78 (87)
T ss_pred eEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECC--ccCCCchhHHHHHHHhc-CCCCEEEE
Confidence 445554 344333444556799999999999999874 44567787732 00111112 445443 35667788
Q ss_pred EeC
Q 046727 100 SYD 102 (171)
Q Consensus 100 ~~~ 102 (171)
.+-
T Consensus 79 ~Ys 81 (87)
T cd01612 79 SYC 81 (87)
T ss_pred EEe
Confidence 775
No 85
>PF15016 DUF4520: Domain of unknown function (DUF4520)
Probab=48.75 E-value=19 Score=25.35 Aligned_cols=28 Identities=21% Similarity=0.394 Sum_probs=23.2
Q ss_pred cCCCeeEEEEEcCCCceEEEEeCCCCch
Q 046727 23 SKFTKAVIRVRFPDNHTLEVNFHPSETM 50 (171)
Q Consensus 23 ~~~~~~~IRIRfPDg~~lq~~F~~~etl 50 (171)
..|..=+||+-|-||++|+...+-++..
T Consensus 19 ~AysDgrVr~~F~Drt~L~l~~~~~~~~ 46 (85)
T PF15016_consen 19 TAYSDGRVRVHFDDRTILTLIWNFSSRE 46 (85)
T ss_pred EEEcCCeEEEEEcCCCEEEEEeCCCCcc
Confidence 4677889999999999999998766554
No 86
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=44.17 E-value=85 Score=20.92 Aligned_cols=68 Identities=12% Similarity=0.256 Sum_probs=45.5
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEE
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYF 99 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~ 99 (171)
.|+|++--|..|++...|++++..+-+-|.+-..-+...-.|..+ .+... ++++-...++.-+++||+
T Consensus 2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~--gkqm~-DD~tA~~Y~~~~GSVlHl 69 (70)
T KOG0005|consen 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYA--GKQMN-DDKTAAHYNLLGGSVLHL 69 (70)
T ss_pred eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhc--ccccc-ccccHHHhhhccceeEee
Confidence 478888899999999999999999999998865533222233222 22232 234555566666777765
No 87
>KOG1781 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification]
Probab=43.86 E-value=28 Score=25.30 Aligned_cols=53 Identities=23% Similarity=0.314 Sum_probs=39.2
Q ss_pred HHHHHhcCCCeeEEEEEcCCCceEEEEeCCCCch-HHHHHHHHHhcCCCCCCcE
Q 046727 17 EEAARKSKFTKAVIRVRFPDNHTLEVNFHPSETM-QSLVDFLKRVLSQPDLPFY 69 (171)
Q Consensus 17 e~~~~~~~~~~~~IRIRfPDg~~lq~~F~~~etl-~~l~~~V~~~l~~~~~~F~ 69 (171)
|.---.++|-.-.|||+|-.|-.+.+...--|.+ .-|.+=..+++.++..++.
T Consensus 17 EsilDLsky~Dk~Irvkf~GGr~~sGiLkGyDqLlNlVLDd~vEylrdpdd~~~ 70 (108)
T KOG1781|consen 17 ESILDLSKYLDKKIRVKFTGGREASGILKGYDQLLNLVLDDTVEYLRDPDDPYK 70 (108)
T ss_pred hHHhhHHHhhccceEEEeecCceeeeehhhHHHHHHHHHHHHHHHhcCCCCccc
Confidence 4445688999999999999999999988876554 4445555677777666544
No 88
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=42.71 E-value=1.1e+02 Score=21.42 Aligned_cols=42 Identities=19% Similarity=0.388 Sum_probs=34.1
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCC---CCcEEE
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPD---LPFYLY 71 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~---~~F~L~ 71 (171)
.+++=|.|-+...++.+++.+.+|++-|..-+.... ..|.|.
T Consensus 3 FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~ 47 (86)
T cd06409 3 FKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALS 47 (86)
T ss_pred EEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEE
Confidence 456778898999999999999999999999887643 356664
No 89
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=41.28 E-value=50 Score=23.03 Aligned_cols=58 Identities=22% Similarity=0.338 Sum_probs=39.4
Q ss_pred EEeCCCCchHHHHHHHHHhc----CCC---CCCcEEEeCCCcee--e--cCCCCChhhcCCCCceEEEEE
Q 046727 42 VNFHPSETMQSLVDFLKRVL----SQP---DLPFYLYTTPPKKI--I--KDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 42 ~~F~~~etl~~l~~~V~~~l----~~~---~~~F~L~~~~P~k~--l--~d~~~tL~e~gl~P~a~l~~~ 100 (171)
+.+.++.|++++.+.+.+.- ..+ ...=+||...|... . .+.+++|.|+ +..+..|++.
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence 36889999999999998751 122 23456777555221 1 2668899998 7777777775
No 90
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=39.25 E-value=1.3e+02 Score=20.90 Aligned_cols=71 Identities=4% Similarity=0.087 Sum_probs=49.0
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCC-CCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPD-LPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~-~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
++|.=-.+.-+...-||.+++..|-.-|+....-.. +...+--++..+.+-....+|.+.|++-...|.+.
T Consensus 3 VtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~ll 74 (80)
T cd01811 3 VTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSGLQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLL 74 (80)
T ss_pred EEeeecCCCceEEEeCCcchHHHHHHHHHHhhCcccceEEEeecCCcccccccccccHhhhcceeccEEEEE
Confidence 444444566677888999999999999988665432 22222234444555456789999999988877765
No 91
>TIGR02958 sec_mycoba_snm4 secretion protein snm4. Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.
Probab=38.35 E-value=1.9e+02 Score=26.26 Aligned_cols=72 Identities=13% Similarity=0.140 Sum_probs=56.2
Q ss_pred eeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCC------CCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 27 KAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQP------DLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 27 ~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~------~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
-|+|-|.=|++ .+......+.++.+|+.-|-.++.+. ...|.|.+.. ...| |.++||.+.|+.-+.+|+++
T Consensus 2 l~RVtV~~~~~-~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~g-G~pL-~~~~sL~~~gV~DG~~L~L~ 78 (452)
T TIGR02958 2 LCRVTVLAGRR-AVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAG-GSPL-DPDASLAEAGVRDGELLVLV 78 (452)
T ss_pred eEEEEEeeCCe-eeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCC-CCCC-CCCCCHHHcCCCCCCeEEEe
Confidence 46777776654 59999999999999999888877652 2368886633 2345 67899999999999999999
Q ss_pred e
Q 046727 101 Y 101 (171)
Q Consensus 101 ~ 101 (171)
-
T Consensus 79 p 79 (452)
T TIGR02958 79 P 79 (452)
T ss_pred e
Confidence 6
No 92
>cd00390 Urease_gamma Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of external and internally-generated urea as a nitrogen source. The enzyme consists of three subunits, alpha, beta and gamma, which can exist as separate proteins or can be fused on a single protein chain. The alpha-beta-gamma heterotrimer forms multimers, mainly trimers. The large alpha subunit is the catalytic domain containing an active site with a bi-nickel center complexed by a carbamylated lysine. The beta and gamma subunits play a role in subunit association to form the higher order trimers.
Probab=35.86 E-value=42 Score=24.25 Aligned_cols=25 Identities=20% Similarity=0.397 Sum_probs=19.2
Q ss_pred hcCCCeeEEEEEcCCCceEEEEeCC
Q 046727 22 KSKFTKAVIRVRFPDNHTLEVNFHP 46 (171)
Q Consensus 22 ~~~~~~~~IRIRfPDg~~lq~~F~~ 46 (171)
..-.+.+.|--.||||+.|...++|
T Consensus 71 ~emi~~vqVEatFpDGTkLVtvh~P 95 (96)
T cd00390 71 PEMLHDVQVEATFPDGTKLVTVHDP 95 (96)
T ss_pred HHhhcceeEEEEeCCCCEEEEccCC
Confidence 3456677888889999999877654
No 93
>PF03562 MltA: MltA specific insert domain; InterPro: IPR005300 This group of proteins includes MltA; a membrane-bound, murein degrading transglycosylase enzyme which plays an important role in the controlled growth of the stress-bearing sacculus of Escherichia coli [, ].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 2PI8_D 2AE0_X 2PIC_A 2GAE_A 2PJJ_A 3CZB_A 2G6G_A 2PNW_A 2G5D_A.
Probab=35.84 E-value=33 Score=26.85 Aligned_cols=15 Identities=40% Similarity=0.855 Sum_probs=12.8
Q ss_pred EEEcCCCceEEEEeC
Q 046727 31 RVRFPDNHTLEVNFH 45 (171)
Q Consensus 31 RIRfPDg~~lq~~F~ 45 (171)
||+||||+.+.+.|.
T Consensus 89 rl~l~DG~~~rvgYA 103 (158)
T PF03562_consen 89 RLRLPDGSTVRVGYA 103 (158)
T ss_dssp EEE-TTSSEEEEEEE
T ss_pred EEEcCCCCEEEEEEc
Confidence 789999999999986
No 94
>PF08207 EFP_N: Elongation factor P (EF-P) KOW-like domain; InterPro: IPR013185 This entry represents the N-terminal domain of homologues of elongation factor P, which probably are translation initiation factors. ; PDB: 3TRE_A 1YBY_A 1IZ6_B 1UEB_B 3HUW_V 3HUY_V 3A5Z_H 3OYY_B.
Probab=35.07 E-value=53 Score=21.01 Aligned_cols=25 Identities=8% Similarity=0.323 Sum_probs=17.9
Q ss_pred CeeEEEEE-cCCCceEEEEeCCCCch
Q 046727 26 TKAVIRVR-FPDNHTLEVNFHPSETM 50 (171)
Q Consensus 26 ~~~~IRIR-fPDg~~lq~~F~~~etl 50 (171)
..+.+++| +-.|.+++.+|.++|++
T Consensus 33 a~v~~klknl~tG~~~e~tf~s~d~v 58 (58)
T PF08207_consen 33 AFVRVKLKNLRTGSKVEKTFRSGDKV 58 (58)
T ss_dssp SEEEEEEEETTTTEEEEEEEETT-EE
T ss_pred eEEEEEEEECCCCCEEEEEECCCCcC
Confidence 34444554 77899999999999864
No 95
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=34.85 E-value=1.1e+02 Score=21.54 Aligned_cols=43 Identities=23% Similarity=0.339 Sum_probs=30.0
Q ss_pred CCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCC-CCCcEEE
Q 046727 24 KFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQP-DLPFYLY 71 (171)
Q Consensus 24 ~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~-~~~F~L~ 71 (171)
.|....+||++|-+- . .++-++..|++-|++.+.-+ ...|.|.
T Consensus 6 ~y~~~~rRf~l~~~~----~-~~d~~~~~L~~kI~~~f~l~~~~~~~l~ 49 (91)
T cd06398 6 KYGGTLRRFTFPVAE----N-QLDLNMDGLREKVEELFSLSPDADLSLT 49 (91)
T ss_pred EeCCEEEEEEecccc----c-cCCCCHHHHHHHHHHHhCCCCCCcEEEE
Confidence 456667777776431 1 34678999999999988654 3578874
No 96
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=34.20 E-value=1.6e+02 Score=20.47 Aligned_cols=40 Identities=10% Similarity=0.168 Sum_probs=29.4
Q ss_pred eEEEEEcCCCceEEEEeCC--CCchHHHHHHHHHhcCCCCCCcEE
Q 046727 28 AVIRVRFPDNHTLEVNFHP--SETMQSLVDFLKRVLSQPDLPFYL 70 (171)
Q Consensus 28 ~~IRIRfPDg~~lq~~F~~--~etl~~l~~~V~~~l~~~~~~F~L 70 (171)
++|++.| +|.++...|.+ .-++.+|.+-|+....-. +|.|
T Consensus 1 V~vKaty-~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~l 42 (81)
T cd06396 1 VNLKVTY-NGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQI 42 (81)
T ss_pred CEEEEEE-CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--ccee
Confidence 3567777 56777888888 559999999999876533 5655
No 97
>PF08813 Phage_tail_3: Phage tail protein; InterPro: IPR014918 This entry is represented by Bacteriophage T1, Orf41. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Proteins of this entry include phage tail proteins. They probably include bacterial Ig-like domains related to IPR003343 from INTERPRO. Which also includes a number of phage tail invasin proteins.
Probab=32.60 E-value=45 Score=26.06 Aligned_cols=14 Identities=29% Similarity=0.572 Sum_probs=11.9
Q ss_pred eeEEEEEcCCCceE
Q 046727 27 KAVIRVRFPDNHTL 40 (171)
Q Consensus 27 ~~~IRIRfPDg~~l 40 (171)
.+.+|+.||||..+
T Consensus 115 ~~a~r~~~p~G~~~ 128 (165)
T PF08813_consen 115 VRAFRVTLPNGSTI 128 (165)
T ss_pred eEEEEEEcCCCCEE
Confidence 56699999999866
No 98
>PF06519 TolA: TolA C-terminal; InterPro: IPR014161 TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cut-offs are based largely on conserved operon structure. The Tol-Pal complex is required for maintaining outer membrane integrity, and is also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins OmpC, PhoE and LamB.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2X9A_D 3QDP_A 3QDR_A 1TOL_A 1S62_A.
Probab=31.53 E-value=39 Score=24.12 Aligned_cols=36 Identities=22% Similarity=0.313 Sum_probs=23.6
Q ss_pred cCCCeeEEEEEcC-CCceEEEEeCCCCchHHHHHHHHHh
Q 046727 23 SKFTKAVIRVRFP-DNHTLEVNFHPSETMQSLVDFLKRV 60 (171)
Q Consensus 23 ~~~~~~~IRIRfP-Dg~~lq~~F~~~etl~~l~~~V~~~ 60 (171)
-+-..|.|+|+|. ||.++..+=...|. .|...+...
T Consensus 34 y~GK~C~v~i~l~~dG~v~~v~~~~GD~--~lC~aa~~A 70 (96)
T PF06519_consen 34 YKGKECRVRIRLAPDGLVLSVTVESGDP--ALCRAAKSA 70 (96)
T ss_dssp GTT--EEEEEEEETTSEEEEEEEEEE-H--HHHHHHHHH
T ss_pred cCCCEEEEEEEECCCCcEEEeeecCCCH--HHHHHHHHH
Confidence 3457899999985 99988887665554 556555555
No 99
>TIGR00193 urease_gam urease, gamma subunit. Nomenclature for the various subunits of urease in Helicobacter differs from nomenclature in most other species.
Probab=30.74 E-value=59 Score=23.71 Aligned_cols=25 Identities=24% Similarity=0.412 Sum_probs=19.6
Q ss_pred hcCCCeeEEEEEcCCCceEEEEeCC
Q 046727 22 KSKFTKAVIRVRFPDNHTLEVNFHP 46 (171)
Q Consensus 22 ~~~~~~~~IRIRfPDg~~lq~~F~~ 46 (171)
..-...+.|---||||+.|...++|
T Consensus 74 ~~mi~~vqVEatFpDGTKLVTvh~P 98 (102)
T TIGR00193 74 AEMLHEVQIEATFPDGTKLVTVHTP 98 (102)
T ss_pred HHhhcceeEEEEcCCCCEEEEeCCC
Confidence 3456677788889999999887776
No 100
>PF06594 HCBP_related: Haemolysin-type calcium binding protein related domain; InterPro: IPR010566 This family consists of a number of bacteria specific domains, which are found in haemolysin-type calcium binding proteins. This family is found in conjunction with IPR001343 from INTERPRO and is often found in multiple copies.
Probab=30.10 E-value=35 Score=20.33 Aligned_cols=16 Identities=13% Similarity=0.324 Sum_probs=11.3
Q ss_pred CeeEEEEEcCCCceEE
Q 046727 26 TKAVIRVRFPDNHTLE 41 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq 41 (171)
..-.=+|+|.||+++.
T Consensus 24 ~~~Ie~i~FaDGt~w~ 39 (43)
T PF06594_consen 24 SYRIEQIEFADGTVWT 39 (43)
T ss_pred CCcEeEEEEcCCCEec
Confidence 3445578999998763
No 101
>cd01667 TGS_ThrRS_N TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and SpoT proteins where it occurs. The TGS domain is thought to interact with the tRNA acceptor arm along with an adjacent N-terminal domain. The specific function of TGS is not well understood.
Probab=28.55 E-value=1.2e+02 Score=17.77 Aligned_cols=28 Identities=21% Similarity=0.392 Sum_probs=19.1
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHH
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKR 59 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~ 59 (171)
++|.+|||...+ |....++.++..-+..
T Consensus 1 ~~i~~~~~~~~~--~~~~~t~~~~~~~~~~ 28 (61)
T cd01667 1 IKITLPDGSVKE--FPKGTTPLDIAKSISP 28 (61)
T ss_pred CEEEcCCCCEEE--eCCCCCHHHHHHHHHH
Confidence 468899998666 5567777776555433
No 102
>PF00547 Urease_gamma: Urease, gamma subunit enzyme!; InterPro: IPR002026 Urease 3.5.1.5 from EC is a nickel-binding enzyme that catalyzes the hydrolysis of urea to carbon dioxide and ammonia []: Urea + H2O = CO2 + 2 NH3 Historically, it was the first enzyme to be crystallized (in 1926). It is mainly found in plantseeds and microorganisms. In plants, urease is a hexamer of identical chains. In bacteria [], it consists of either two or three different subunits (alpha IPR005847 from INTERPRO, beta IPR002019 from INTERPRO and gamma, described in this entry). The structure of the urease complex is known []. This subunit does not appear to take part in the catalytic mechanism.; GO: 0009039 urease activity, 0016151 nickel ion binding, 0006807 nitrogen compound metabolic process; PDB: 3QGA_G 3QGK_M 1E9Y_A 1E9Z_A 1FWF_A 1A5L_A 1EJW_A 1EJR_A 1FWH_A 1EJS_A ....
Probab=28.03 E-value=67 Score=23.33 Aligned_cols=23 Identities=22% Similarity=0.453 Sum_probs=17.7
Q ss_pred CCCeeEEEEEcCCCceEEEEeCC
Q 046727 24 KFTKAVIRVRFPDNHTLEVNFHP 46 (171)
Q Consensus 24 ~~~~~~IRIRfPDg~~lq~~F~~ 46 (171)
-...+.|--.||||+.|....+|
T Consensus 76 ml~~vqVEatFpDGtkLVtvh~P 98 (99)
T PF00547_consen 76 MLPEVQVEATFPDGTKLVTVHDP 98 (99)
T ss_dssp H-SEEEEEEEETTEEEEEEEESS
T ss_pred hhceeeEEEEeCCCCEEEEccCC
Confidence 45677777889999999887765
No 103
>PRK13241 ureA urease subunit gamma; Provisional
Probab=27.72 E-value=72 Score=23.20 Aligned_cols=24 Identities=21% Similarity=0.414 Sum_probs=18.6
Q ss_pred cCCCeeEEEEEcCCCceEEEEeCC
Q 046727 23 SKFTKAVIRVRFPDNHTLEVNFHP 46 (171)
Q Consensus 23 ~~~~~~~IRIRfPDg~~lq~~F~~ 46 (171)
.-...+.|---||||+.|....+|
T Consensus 75 emi~~vqVEatFpDGTkLVTvh~P 98 (100)
T PRK13241 75 EMIPDVQVEATFPDGTKLVTVHDP 98 (100)
T ss_pred HhhcceeEEEEcCCCCEEEEecCC
Confidence 445677777789999999877765
No 104
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=27.66 E-value=2.2e+02 Score=20.01 Aligned_cols=43 Identities=12% Similarity=0.149 Sum_probs=32.2
Q ss_pred eeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEE
Q 046727 27 KAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLY 71 (171)
Q Consensus 27 ~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~ 71 (171)
+..|+|.|- |-++-....++-++++|++-|+.-+.-. .+|.|.
T Consensus 2 ~ikVKv~~~-~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iK 44 (86)
T cd06408 2 KIRVKVHAQ-DDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIK 44 (86)
T ss_pred cEEEEEEec-CcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEE
Confidence 456677774 5578888999999999999999987542 356653
No 105
>PF01705 CX: CX module; InterPro: IPR002619 This domain has no known function. It is found in several Caenorhabditis elegans proteins. The domain contains 6 conserved cysteines that probably form three disulphide bridges.
Probab=27.15 E-value=46 Score=21.65 Aligned_cols=12 Identities=25% Similarity=0.504 Sum_probs=7.9
Q ss_pred EEEcCCCceEEE
Q 046727 31 RVRFPDNHTLEV 42 (171)
Q Consensus 31 RIRfPDg~~lq~ 42 (171)
.|+|+||+....
T Consensus 30 ~v~F~nGt~p~s 41 (61)
T PF01705_consen 30 NVTFPNGTRPKS 41 (61)
T ss_pred ceEccCCCccee
Confidence 577888875543
No 106
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=27.10 E-value=2.2e+02 Score=25.05 Aligned_cols=70 Identities=11% Similarity=0.080 Sum_probs=47.6
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCC-CcEEEeCCCceeecCCCCChhhcCCCCceEEEEE
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDL-PFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFS 100 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~-~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~ 100 (171)
.|-||-=+|....+.+.|++|+.+|..-|.+.-....- .....+ +-.|++.| +.++.+.++.-+.-|.+-
T Consensus 2 ~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLI-y~GkiL~D-~~tv~Eykv~E~~fiVvM 72 (340)
T KOG0011|consen 2 KLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLI-YSGKILKD-ETTVGEYKVKEKKFIVVM 72 (340)
T ss_pred eeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheee-ecceeccC-CcchhhhccccCceEEEE
Confidence 35667778999999999999999999999887764321 222222 33466654 578888887655444444
No 107
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=26.78 E-value=2e+02 Score=19.69 Aligned_cols=49 Identities=8% Similarity=0.180 Sum_probs=35.9
Q ss_pred EEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCCCCCCcEEEeCCCceee
Q 046727 30 IRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQPDLPFYLYTTPPKKII 79 (171)
Q Consensus 30 IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~~~~~F~L~~~~P~k~l 79 (171)
|+|=+-| +.-+..|..+.+-.+|.+.|...|..+...+.|--.-.++.|
T Consensus 3 IkIGi~~-~~REl~ies~~s~dev~~~v~~Al~~~~~~l~LtD~kGr~~l 51 (74)
T PF11305_consen 3 IKIGIQN-VARELVIESDQSADEVEAAVTDALADGSGVLTLTDEKGRRVL 51 (74)
T ss_pred EEEeeec-CCceEEEecCCCHHHHHHHHHHHHhCCCceEEEEeCCCCEEE
Confidence 3444433 346789999999999999999999887666776655555544
No 108
>PRK13242 ureA urease subunit gamma; Provisional
Probab=26.76 E-value=78 Score=23.02 Aligned_cols=24 Identities=17% Similarity=0.232 Sum_probs=18.7
Q ss_pred cCCCeeEEEEEcCCCceEEEEeCC
Q 046727 23 SKFTKAVIRVRFPDNHTLEVNFHP 46 (171)
Q Consensus 23 ~~~~~~~IRIRfPDg~~lq~~F~~ 46 (171)
.-...+.|---||||+.|....+|
T Consensus 75 ~mi~~vqVEatFpDGTkLVTvh~P 98 (100)
T PRK13242 75 DLLPLIQVEAVFSDGSRLVSLHNP 98 (100)
T ss_pred HhhcceeEEEEcCCCCEEEEecCC
Confidence 445677777789999999887765
No 109
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=26.08 E-value=1.2e+02 Score=20.07 Aligned_cols=48 Identities=15% Similarity=0.214 Sum_probs=24.7
Q ss_pred HhHHHHHHHHhcCCCeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHH
Q 046727 12 KIREAEEAARKSKFTKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKR 59 (171)
Q Consensus 12 ~~Re~e~~~~~~~~~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~ 59 (171)
+++.+-.++=...|+.+.||||+-....|...=...+.=..|...|.+
T Consensus 8 AL~~EL~kRl~~~yPd~~v~Vr~~s~~~l~v~g~~~~~k~~i~~iLqe 55 (65)
T PF06183_consen 8 ALESELTKRLHRQYPDAEVRVRPGSANGLSVSGGKKDDKERIEEILQE 55 (65)
T ss_dssp HHHHHHHHHHHHH-SS-EEEEEEESS-EEEEES--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCceEeeeecccCccccCCcCchHHHHHHHHHHH
Confidence 344322334478899999999988777776653333323333344433
No 110
>PF08428 Rib: Rib/alpha-like repeat; InterPro: IPR012706 This entry represents a region of about 79 amino acids found tandemly repeated up to fourteen times within the proteins that contain it. The repeats lack cysteines and are highly conserved, even at the DNA level, within and between proteins []. Proteins containing these repeats include the Rib and alpha surface antigens of group B Streptococcus, Esp of Enterococcus faecalis (Streptococcus faecalis), and related proteins of Lactobacillus. Most members of this protein family also have the cell wall anchor motif, LPXTG, shared by many staphyloccal and streptococcal surface antigens. These repeats are thought to define protective epitopes and may play a role in generating phenotypic and genotypic variation [].
Probab=24.78 E-value=98 Score=20.24 Aligned_cols=17 Identities=35% Similarity=0.610 Sum_probs=13.2
Q ss_pred CeeEEEEEcCCCceEEE
Q 046727 26 TKAVIRVRFPDNHTLEV 42 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq~ 42 (171)
....|+|.||||+.-+.
T Consensus 41 ~~~~V~VtypDgS~~~V 57 (65)
T PF08428_consen 41 KTGKVKVTYPDGSTDEV 57 (65)
T ss_pred EEEEEEEEcCCCCEEEE
Confidence 46779999999986544
No 111
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=24.55 E-value=3e+02 Score=20.49 Aligned_cols=50 Identities=26% Similarity=0.496 Sum_probs=35.3
Q ss_pred cCCCeeEEEEEcCCCc-eE---EEEeCCCCchHHHHHHHHHhcCC-CCCCcEEEe
Q 046727 23 SKFTKAVIRVRFPDNH-TL---EVNFHPSETMQSLVDFLKRVLSQ-PDLPFYLYT 72 (171)
Q Consensus 23 ~~~~~~~IRIRfPDg~-~l---q~~F~~~etl~~l~~~V~~~l~~-~~~~F~L~~ 72 (171)
....++.||+|==.+. +| ....++++|++.|..|++..|.- ......||.
T Consensus 26 ~~~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYV 80 (116)
T KOG3439|consen 26 KNIRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYV 80 (116)
T ss_pred CCcceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEE
Confidence 3456788888854443 22 34566899999999999999973 234566766
No 112
>cd04753 Commd5_HCaRG COMM_Domain containing protein 5, also called HCaRG (hypertension-related, calcium-regulated gene). HCaRG is a nuclear protein that might be involved in cell proliferation; it is negatively regulated by extracellular calcium concentration, and its basal mRNA levels are higher in hypertensive animals. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=24.40 E-value=1.2e+02 Score=22.28 Aligned_cols=40 Identities=13% Similarity=0.279 Sum_probs=32.7
Q ss_pred hcCCCeeEEEEEcCCCceEEEEeC-CCCchHHHHHHHHHhcCC
Q 046727 22 KSKFTKAVIRVRFPDNHTLEVNFH-PSETMQSLVDFLKRVLSQ 63 (171)
Q Consensus 22 ~~~~~~~~IRIRfPDg~~lq~~F~-~~etl~~l~~~V~~~l~~ 63 (171)
....+.+.++++++||. -.+|. +-++++.|+--|...|.+
T Consensus 56 ~~~~PtI~LkLkl~dg~--~~~fe~~~~kF~~Lry~~a~~l~e 96 (110)
T cd04753 56 RVLQPSILMEMKLSDGK--SHRFEVPVAKFHELRYNVALILKE 96 (110)
T ss_pred cccCCeEEEEEEecCCC--eEEEEeeHHHHHHHHHHHHHHHHH
Confidence 34667999999999998 66777 788999999988887753
No 113
>PF06487 SAP18: Sin3 associated polypeptide p18 (SAP18); InterPro: IPR010516 This family consists of several eukaryotic Sin3 associated polypeptide p18 (SAP18) sequences. SAP18 is known to be a component of the Sin3-containing complex, which is responsible for the repression of transcription via the modification of histone polypeptides []. SAP18 is also present in the ASAP complex which is thought to be involved in the regulation of splicing during the execution of programmed cell death [].; PDB: 2HDE_A 4A90_A 4A6Q_A 4A8X_C.
Probab=24.23 E-value=2.7e+02 Score=20.71 Aligned_cols=65 Identities=22% Similarity=0.344 Sum_probs=38.9
Q ss_pred cCCCceEEEEeCCCCchHHHHHHHHHhcCCC-----CCCcEEEeCC---Cc---eee---------cCCCCChhhcCCCC
Q 046727 34 FPDNHTLEVNFHPSETMQSLVDFLKRVLSQP-----DLPFYLYTTP---PK---KII---------KDVSQDFFSASFIP 93 (171)
Q Consensus 34 fPDg~~lq~~F~~~etl~~l~~~V~~~l~~~-----~~~F~L~~~~---P~---k~l---------~d~~~tL~e~gl~P 93 (171)
+| ...||+.=-.+-||.+|-+.|.+...+. ...|.+..+- ++ |.| .|.++||.+++|+.
T Consensus 34 ~P-~~elqIYtW~d~TLrEL~~Lik~~~~~~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~i 112 (120)
T PF06487_consen 34 LP-RNELQIYTWMDATLRELADLIKDVNPPARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVI 112 (120)
T ss_dssp -T-TTEEEEEE-TT-BHHHHHHHHHHH-HHHHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--T
T ss_pred CC-cCeeEEEEcccCCHHHHHHHHHHhCcccCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCccc
Confidence 45 5678888889999999999999976531 2356665422 22 111 16678999999887
Q ss_pred ceEEEE
Q 046727 94 GAIVYF 99 (171)
Q Consensus 94 ~a~l~~ 99 (171)
+--|-+
T Consensus 113 GDyidv 118 (120)
T PF06487_consen 113 GDYIDV 118 (120)
T ss_dssp T-EEEE
T ss_pred CCEEEE
Confidence 655543
No 114
>PF00794 PI3K_rbd: PI3-kinase family, ras-binding domain; InterPro: IPR000341 Phosphatidylinositol 3-kinase (PI3K) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. A subset of PI3Ks has the capacity to bind and be activated by the GTP-bound small GTPase p21Ras (Ras). PI3Ks are recognised as one of the principal effectors of Ras signalling to the cell-cycle control machinery. In the structure of the Ras-PI3K gamma complex, contacts between the two molecules are made primarily via the so-called switch I region of Ras and the PI3K RBD. The RBD fold comprises a five-stranded mixed beta-sheet, flanked by two alpha-helices. Interaction between Ras and the PI3K RBD is primarily polar in character and, as characterised by kinetic measurements, is reversible and transient [].; GO: 0016303 1-phosphatidylinositol-3-kinase activity, 0005942 phosphatidylinositol 3-kinase complex; PDB: 2RD0_A 3HIZ_A 3HHM_A 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2Y3A_A 3L54_A ....
Probab=24.16 E-value=1.8e+02 Score=20.41 Aligned_cols=51 Identities=18% Similarity=0.266 Sum_probs=35.6
Q ss_pred CCCeeEEEEEcC-CCceEEEEeCCCCchHHHHHHHHHh----cCCC-C-CCcEEEeCC
Q 046727 24 KFTKAVIRVRFP-DNHTLEVNFHPSETMQSLVDFLKRV----LSQP-D-LPFYLYTTP 74 (171)
Q Consensus 24 ~~~~~~IRIRfP-Dg~~lq~~F~~~etl~~l~~~V~~~----l~~~-~-~~F~L~~~~ 74 (171)
.-....|.|.|. ++......+.++.|..+|...+-.. +... . ..|.|....
T Consensus 13 ~~~~i~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G 70 (106)
T PF00794_consen 13 QNNKIKVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCG 70 (106)
T ss_dssp SSSEEEEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETT
T ss_pred CCCeEEEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecC
Confidence 455788999999 6778888899999999888766544 2222 1 268887754
No 115
>PF08057 Ery_res_leader2: Erythromycin resistance leader peptide; InterPro: IPR012559 This family consists of erythromycin resistance gene leader peptides. These leader peptides are involved in the transcriptional attenuation control of the synthesis of the macrolide-lincosamide -streptogramin B resistance protein. It acts as a transcriptional attenuator, in contrast to other inducible erm genes. The mRNA leader sequence can fold in either of two mutually exclusive conformations, one of which is postulated to form in the absence of induction, and to contain two rho factor-independent terminators [].; GO: 0046677 response to antibiotic
Probab=23.24 E-value=47 Score=15.34 Aligned_cols=8 Identities=50% Similarity=1.136 Sum_probs=5.7
Q ss_pred EEEEEcCC
Q 046727 29 VIRVRFPD 36 (171)
Q Consensus 29 ~IRIRfPD 36 (171)
..|+|||.
T Consensus 4 smrlrfpt 11 (14)
T PF08057_consen 4 SMRLRFPT 11 (14)
T ss_pred ceeeeccc
Confidence 46888884
No 116
>cd00552 RaiA RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site. RaiA is also thought to counteract miscoding at the A site thus reducing translation errors. The RaiA fold structurally resembles the double-stranded RNA-binding domain (dsRBD).
Probab=22.72 E-value=1.1e+02 Score=20.68 Aligned_cols=31 Identities=16% Similarity=0.292 Sum_probs=17.0
Q ss_pred CeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhc
Q 046727 26 TKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVL 61 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l 61 (171)
-.|.|+|++| |..+.+. +.-.++|..|+.++
T Consensus 50 ~~v~i~v~~~-g~~~~a~----~~~~d~~~Aid~a~ 80 (93)
T cd00552 50 FKVEITIHLP-GGVLRAE----ASAEDLYAAIDLAV 80 (93)
T ss_pred eEEEEEEEeC-CCEEEEE----EccCCHHHHHHHHH
Confidence 3466666666 5544443 44445666665543
No 117
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=21.97 E-value=2.6e+02 Score=18.81 Aligned_cols=55 Identities=15% Similarity=0.184 Sum_probs=34.2
Q ss_pred CCCCchHHHHHHHHHhcCCC-CCCcEEEeCCCceeecCCCCChhh-cCCCCceEEEEEeC
Q 046727 45 HPSETMQSLVDFLKRVLSQP-DLPFYLYTTPPKKIIKDVSQDFFS-ASFIPGAIVYFSYD 102 (171)
Q Consensus 45 ~~~etl~~l~~~V~~~l~~~-~~~F~L~~~~P~k~l~d~~~tL~e-~gl~P~a~l~~~~~ 102 (171)
++++++++|++++...-.-. ..+|.|.... +.+++ ...|.+ .|+...+.|.+.-+
T Consensus 2 ~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g--~~L~~-~~el~~i~~~~~~~~L~lve~ 58 (76)
T PF15044_consen 2 SPTDTVQDVRQVLAESPETCYLTNFSLEHNG--QRLDD-FVELSEIEGIKDGCVLELVEE 58 (76)
T ss_pred ChhhHHHHHHHHHHhCccccceeEEEEEECC--CccCC-chhhhhhhCCCCCcEEEEEec
Confidence 47899999999998764432 3478887532 33533 233333 34555777777744
No 118
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=21.67 E-value=2.6e+02 Score=19.18 Aligned_cols=31 Identities=26% Similarity=0.417 Sum_probs=23.5
Q ss_pred EEEEEcCCCceEEEEeCCCCchHHHHHHHHH
Q 046727 29 VIRVRFPDNHTLEVNFHPSETMQSLVDFLKR 59 (171)
Q Consensus 29 ~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~ 59 (171)
.||+.|||...-...-.|..|+.+.....-.
T Consensus 1 ~ir~~LPnqQrT~V~vrpG~tl~daL~KaLk 31 (74)
T cd01816 1 LIRVFLPNKQRTVVNVRPGMTLRDALAKALK 31 (74)
T ss_pred CeeEECCCCCeEEEEecCCcCHHHHHHHHHH
Confidence 4899999988888888898888765544433
No 119
>KOG0792 consensus Protein tyrosine phosphatase PTPMEG, contains FERM domain [Signal transduction mechanisms]
Probab=21.50 E-value=2.7e+02 Score=28.41 Aligned_cols=76 Identities=21% Similarity=0.239 Sum_probs=53.6
Q ss_pred CeeEEEEEcCCCceEEEEeCCCCchHHHHHHHHHhcCC-CCCCcEEEeCCCcee-ec--CCCCChhhcCCCC--ceEEEE
Q 046727 26 TKAVIRVRFPDNHTLEVNFHPSETMQSLVDFLKRVLSQ-PDLPFYLYTTPPKKI-IK--DVSQDFFSASFIP--GAIVYF 99 (171)
Q Consensus 26 ~~~~IRIRfPDg~~lq~~F~~~etl~~l~~~V~~~l~~-~~~~F~L~~~~P~k~-l~--d~~~tL~e~gl~P--~a~l~~ 99 (171)
..++.||+|=|+.+.+.+...+.|-+.+.+.|.+.|.- +..-|-|...+++-- +. |.++.|...+... ..+|+|
T Consensus 21 s~v~~~i~llds~~~eftls~es~gQ~~ld~V~qrL~~~e~~yFgl~~~~~k~~~~rWvdleK~lkkql~k~a~~p~l~f 100 (1144)
T KOG0792|consen 21 SCVVCRILLLDSDVVEFTLSSESTGQELLDAVAQRLELREKEYFGLLWSPDKPDQIRWVDLEKPLKKQLIKVANPPLLHF 100 (1144)
T ss_pred ceEEEEEEecCCceEEEEEecCCCchhHHHHHhhhhcccccccccccccCCccCccceeccchhHHHhhhccCCCceEEE
Confidence 57788999999999999999999999999999988764 334577544443311 11 6777776544333 456666
Q ss_pred Ee
Q 046727 100 SY 101 (171)
Q Consensus 100 ~~ 101 (171)
+.
T Consensus 101 rV 102 (1144)
T KOG0792|consen 101 RV 102 (1144)
T ss_pred EE
Confidence 53
No 120
>COG3064 TolA Membrane protein involved in colicin uptake [Cell envelope biogenesis, outer membrane]
Probab=21.30 E-value=97 Score=27.32 Aligned_cols=27 Identities=15% Similarity=0.263 Sum_probs=19.6
Q ss_pred hcCCCeeEEEEE-cCCCceEEEEeCCCC
Q 046727 22 KSKFTKAVIRVR-FPDNHTLEVNFHPSE 48 (171)
Q Consensus 22 ~~~~~~~~IRIR-fPDg~~lq~~F~~~e 48 (171)
.-.-..|+|||. .|||+++..+--..+
T Consensus 322 sf~gK~C~l~ikL~pdGtl~~~~~~~Gd 349 (387)
T COG3064 322 SFAGKTCRLRIKLAPDGTLLDIKPEGGD 349 (387)
T ss_pred ccCCceeEEEEEEcCCcceeeccccCCC
Confidence 445578999998 599998776655443
No 121
>PRK06724 hypothetical protein; Provisional
Probab=21.17 E-value=1.4e+02 Score=21.64 Aligned_cols=21 Identities=24% Similarity=0.406 Sum_probs=18.3
Q ss_pred eeEEEEEcCCCceEEEEeCCC
Q 046727 27 KAVIRVRFPDNHTLEVNFHPS 47 (171)
Q Consensus 27 ~~~IRIRfPDg~~lq~~F~~~ 47 (171)
...+.|+=|||..|+..+++.
T Consensus 105 ~~~~~f~DPdG~~iEl~~~~~ 125 (128)
T PRK06724 105 YYTIDFYDPNGFIIEVAYTPN 125 (128)
T ss_pred EEEEEEECCCCCEEEEEeCCC
Confidence 467889999999999999875
No 122
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=20.45 E-value=2.9e+02 Score=18.72 Aligned_cols=66 Identities=12% Similarity=0.221 Sum_probs=46.7
Q ss_pred CCceEEEEeCCCCchHHHHHHHHHhcCC---CCCCcEEEeCCCceeecCCCCChhhcCCCCceEEEEEeCC
Q 046727 36 DNHTLEVNFHPSETMQSLVDFLKRVLSQ---PDLPFYLYTTPPKKIIKDVSQDFFSASFIPGAIVYFSYDL 103 (171)
Q Consensus 36 Dg~~lq~~F~~~etl~~l~~~V~~~l~~---~~~~F~L~~~~P~k~l~d~~~tL~e~gl~P~a~l~~~~~~ 103 (171)
+|.-.+..-++..++..++..--+.-.+ +..+|.|...-. .+| |.++...|.||.-...|+++...
T Consensus 4 NGqPv~VEANvnaPLh~v~akALe~sgNvgQP~ENWElkDe~G-~vl-D~~kKveD~GftngvkLFLsLKA 72 (76)
T PF10790_consen 4 NGQPVQVEANVNAPLHPVRAKALEQSGNVGQPPENWELKDESG-QVL-DVNKKVEDFGFTNGVKLFLSLKA 72 (76)
T ss_pred CCCceeeecCCCCcchHHHHHHHhhccccCCCcccceeeccCC-cEe-eccchhhhccccccceEEEEeec
Confidence 6777788888888888776654333222 445788876442 344 67788899999999999998763
Done!