Query psy16998
Match_columns 98
No_of_seqs 102 out of 269
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 19:07:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16998.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16998hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1769|consensus 100.0 8.7E-33 1.9E-37 188.7 8.7 70 27-97 18-87 (99)
2 COG5227 SMT3 Ubiquitin-like pr 100.0 3.2E-29 6.9E-34 170.3 7.3 86 8-97 6-91 (103)
3 cd01763 Sumo Small ubiquitin-r 99.8 9.5E-21 2.1E-25 124.4 8.2 72 25-97 7-78 (87)
4 PF11976 Rad60-SLD: Ubiquitin- 99.8 1.8E-19 3.9E-24 112.8 4.7 68 30-97 1-68 (72)
5 cd01806 Nedd8 Nebb8-like ubiq 98.8 2.7E-08 5.8E-13 61.8 6.2 67 30-97 1-67 (76)
6 cd01809 Scythe_N Ubiquitin-lik 98.4 1.2E-06 2.5E-11 53.9 6.0 67 30-97 1-67 (72)
7 smart00213 UBQ Ubiquitin homol 98.2 5E-06 1.1E-10 49.4 6.1 63 30-94 1-63 (64)
8 cd01812 BAG1_N Ubiquitin-like 98.1 7E-06 1.5E-10 50.5 5.2 66 30-97 1-66 (71)
9 cd01807 GDX_N ubiquitin-like d 98.0 2.4E-05 5.2E-10 49.2 5.9 66 31-97 2-67 (74)
10 cd01769 UBL Ubiquitin-like dom 98.0 3E-05 6.4E-10 46.5 5.8 62 34-96 2-63 (69)
11 PTZ00044 ubiquitin; Provisiona 97.9 4.6E-05 9.9E-10 47.6 6.0 65 31-96 2-66 (76)
12 cd01803 Ubiquitin Ubiquitin. U 97.9 5.5E-05 1.2E-09 46.7 6.2 65 31-96 2-66 (76)
13 cd01798 parkin_N amino-termina 97.9 4.1E-05 8.8E-10 47.6 5.4 65 32-97 1-65 (70)
14 cd01805 RAD23_N Ubiquitin-like 97.7 0.00018 3.8E-09 45.0 6.1 65 31-96 2-68 (77)
15 PF00240 ubiquitin: Ubiquitin 97.6 0.00017 3.6E-09 44.1 5.0 59 37-96 3-61 (69)
16 cd01810 ISG15_repeat2 ISG15 ub 97.5 0.00037 8E-09 43.8 5.3 65 32-97 1-65 (74)
17 cd01791 Ubl5 UBL5 ubiquitin-li 97.5 0.00069 1.5E-08 43.3 6.6 66 30-96 2-67 (73)
18 cd01792 ISG15_repeat1 ISG15 ub 97.4 0.00069 1.5E-08 43.3 5.6 66 30-96 3-70 (80)
19 cd01802 AN1_N ubiquitin-like d 97.2 0.0017 3.7E-08 44.0 6.7 70 27-97 25-94 (103)
20 cd01808 hPLIC_N Ubiquitin-like 97.1 0.0024 5.1E-08 39.7 5.7 65 30-96 1-65 (71)
21 cd01793 Fubi Fubi ubiquitin-li 97.0 0.0033 7.2E-08 39.4 5.8 63 31-96 2-64 (74)
22 cd01804 midnolin_N Ubiquitin-l 97.0 0.004 8.6E-08 39.8 6.3 65 30-96 2-66 (78)
23 cd00196 UBQ Ubiquitin-like pro 96.9 0.0036 7.8E-08 34.1 5.0 50 36-86 4-53 (69)
24 PF11470 TUG-UBL1: GLUT4 regul 96.7 0.0024 5.3E-08 40.5 3.5 52 34-86 1-52 (65)
25 cd01797 NIRF_N amino-terminal 96.7 0.0072 1.6E-07 38.8 5.7 65 31-96 2-68 (78)
26 cd01794 DC_UbP_C dendritic cel 96.6 0.0067 1.5E-07 38.2 5.3 62 32-94 1-62 (70)
27 cd01796 DDI1_N DNA damage indu 96.4 0.0095 2.1E-07 37.3 5.1 63 33-96 2-66 (71)
28 cd01799 Hoil1_N Ubiquitin-like 96.2 0.019 4.2E-07 36.7 5.6 64 31-96 2-69 (75)
29 cd01800 SF3a120_C Ubiquitin-li 95.6 0.033 7.2E-07 35.1 4.6 59 38-97 6-64 (76)
30 TIGR00601 rad23 UV excision re 95.3 0.051 1.1E-06 44.6 5.9 66 30-96 1-69 (378)
31 KOG0005|consensus 94.3 0.059 1.3E-06 34.7 3.1 63 31-94 2-64 (70)
32 PF08817 YukD: WXG100 protein 93.2 0.29 6.2E-06 31.1 4.9 69 29-97 2-76 (79)
33 cd06409 PB1_MUG70 The MUG70 pr 93.1 0.42 9.2E-06 31.9 5.8 44 32-75 3-48 (86)
34 cd01790 Herp_N Homocysteine-re 92.3 0.8 1.7E-05 30.0 6.3 60 29-89 1-64 (79)
35 smart00455 RBD Raf-like Ras-bi 91.1 1.3 2.8E-05 28.1 6.0 45 32-77 2-46 (70)
36 smart00295 B41 Band 4.1 homolo 90.6 1.7 3.6E-05 30.7 7.0 48 28-75 2-49 (207)
37 KOG0010|consensus 90.3 0.49 1.1E-05 40.5 4.6 67 28-96 14-80 (493)
38 PLN02560 enoyl-CoA reductase 89.6 1.3 2.7E-05 35.5 6.2 65 31-96 2-77 (308)
39 PF11543 UN_NPL4: Nuclear pore 89.2 1.2 2.6E-05 28.9 4.8 47 28-76 3-49 (80)
40 cd01789 Alp11_N Ubiquitin-like 88.2 3.6 7.7E-05 26.5 6.6 65 31-96 3-75 (84)
41 cd01813 UBP_N UBP ubiquitin pr 87.6 2.8 6E-05 26.4 5.7 56 38-94 8-66 (74)
42 PF00789 UBX: UBX domain; Int 86.9 5.6 0.00012 24.8 7.0 63 26-89 3-70 (82)
43 PF09379 FERM_N: FERM N-termin 86.3 2.5 5.3E-05 26.0 4.9 41 35-75 2-42 (80)
44 smart00666 PB1 PB1 domain. Pho 82.7 7.3 0.00016 24.0 5.9 45 30-76 2-46 (81)
45 cd01814 NTGP5 Ubiquitin-like N 82.0 3.5 7.6E-05 29.0 4.5 62 28-90 3-72 (113)
46 cd06407 PB1_NLP A PB1 domain i 81.5 7.5 0.00016 25.3 5.8 44 31-75 2-45 (82)
47 cd01801 Tsc13_N Ubiquitin-like 79.2 7.7 0.00017 24.2 5.1 49 48-97 21-72 (77)
48 PF00788 RA: Ras association ( 79.2 7.4 0.00016 24.1 5.1 35 31-65 4-42 (93)
49 cd01766 Ufm1 Urm1-like ubiquit 77.7 9.6 0.00021 25.3 5.3 66 29-94 2-70 (82)
50 cd01760 RBD Ubiquitin-like dom 77.5 12 0.00025 24.0 5.6 37 32-68 2-38 (72)
51 PF03671 Ufm1: Ubiquitin fold 77.3 7.7 0.00017 25.6 4.7 48 43-90 19-66 (76)
52 cd01772 SAKS1_UBX SAKS1-like U 75.6 18 0.00038 22.9 6.3 68 29-96 4-74 (79)
53 cd01818 TIAM1_RBD Ubiquitin do 75.0 9.2 0.0002 25.3 4.7 36 33-68 3-38 (77)
54 PF02196 RBD: Raf-like Ras-bin 74.7 16 0.00035 22.9 5.7 37 32-68 3-39 (71)
55 cd01777 SNX27_RA Ubiquitin dom 72.9 13 0.00028 25.0 5.1 66 30-96 2-75 (87)
56 smart00166 UBX Domain present 72.8 20 0.00044 22.4 6.5 55 28-83 3-59 (80)
57 cd01770 p47_UBX p47-like ubiqu 72.4 22 0.00048 22.7 7.0 66 29-94 4-72 (79)
58 cd06396 PB1_NBR1 The PB1 domai 71.4 13 0.00028 24.5 4.8 36 30-66 1-38 (81)
59 cd01774 Faf1_like2_UBX Faf1 ik 68.6 29 0.00064 22.5 6.5 46 28-75 3-48 (85)
60 cd01811 OASL_repeat1 2'-5' oli 67.0 24 0.00052 23.5 5.3 44 30-75 1-44 (80)
61 PHA01623 hypothetical protein 66.8 6.4 0.00014 24.0 2.4 27 41-67 13-39 (56)
62 cd05992 PB1 The PB1 domain is 63.9 30 0.00066 21.0 5.7 44 30-75 1-45 (81)
63 PF00564 PB1: PB1 domain; Int 62.6 33 0.00072 21.0 5.7 45 30-75 2-46 (84)
64 cd01767 UBX UBX (ubiquitin reg 62.1 35 0.00076 21.1 6.6 62 30-93 3-69 (77)
65 cd01768 RA RA (Ras-associating 61.1 32 0.0007 21.4 5.0 35 32-66 2-39 (87)
66 KOG0006|consensus 57.8 20 0.00044 30.0 4.5 47 40-87 14-60 (446)
67 PF10623 PilI: Plasmid conjuga 57.5 21 0.00046 23.8 3.8 50 27-80 6-55 (83)
68 PF13881 Rad60-SLD_2: Ubiquiti 57.0 60 0.0013 22.2 6.9 67 29-95 2-75 (111)
69 PF11548 Receptor_IA-2: Protei 56.8 13 0.00027 25.3 2.7 22 27-51 35-56 (91)
70 cd02986 DLP Dim1 family, Dim1- 56.7 15 0.00032 25.6 3.1 38 41-83 47-84 (114)
71 cd01815 BMSC_UbP_N Ubiquitin-l 56.5 14 0.00031 24.0 2.8 48 49-97 20-70 (75)
72 cd06408 PB1_NoxR The PB1 domai 52.4 68 0.0015 21.4 6.7 45 29-76 2-46 (86)
73 PRK08364 sulfur carrier protei 51.9 55 0.0012 20.1 5.4 48 29-82 4-51 (70)
74 PF14560 Ubiquitin_2: Ubiquiti 51.5 60 0.0013 20.5 6.5 45 30-75 2-48 (87)
75 cd06406 PB1_P67 A PB1 domain i 50.5 67 0.0014 21.2 5.3 43 31-76 4-46 (80)
76 COG2080 CoxS Aerobic-type carb 50.0 27 0.00059 25.7 3.7 57 29-88 3-65 (156)
77 cd01817 RGS12_RBD Ubiquitin do 49.2 72 0.0016 20.7 6.6 55 33-87 3-57 (73)
78 PF08722 Tn7_Tnp_TnsA_N: TnsA 48.5 30 0.00064 21.9 3.3 35 33-67 38-83 (88)
79 PF13019 Telomere_Sde2: Telome 48.1 82 0.0018 23.4 6.0 51 30-80 1-56 (162)
80 PF09631 Sen15: Sen15 protein; 46.5 28 0.00061 23.0 3.1 23 27-49 72-94 (101)
81 cd01795 USP48_C USP ubiquitin- 45.7 54 0.0012 22.9 4.4 45 40-85 15-59 (107)
82 PF02362 B3: B3 DNA binding do 45.2 73 0.0016 19.9 4.8 51 28-78 32-87 (100)
83 KOG0001|consensus 43.6 58 0.0013 18.1 6.0 57 32-89 2-58 (75)
84 PF13670 PepSY_2: Peptidase pr 42.8 58 0.0013 20.4 4.0 25 26-50 52-76 (83)
85 cd01771 Faf1_UBX Faf1 UBX doma 42.3 90 0.002 19.9 6.5 45 28-74 3-47 (80)
86 KOG1363|consensus 42.1 64 0.0014 27.5 5.2 55 20-76 374-428 (460)
87 PRK13198 ureB urease subunit b 41.2 41 0.0009 25.0 3.5 73 1-74 9-100 (158)
88 PF08620 RPAP1_C: RPAP1-like, 40.0 15 0.00032 23.8 0.9 11 70-80 2-12 (73)
89 PF13860 FlgD_ig: FlgD Ig-like 39.5 95 0.0021 19.4 5.1 47 26-89 23-70 (81)
90 KOG4248|consensus 37.2 49 0.0011 31.3 4.0 65 30-96 3-67 (1143)
91 KOG0003|consensus 36.8 29 0.00062 24.7 2.0 62 34-96 5-66 (128)
92 PF05486 SRP9-21: Signal recog 36.3 95 0.002 20.0 4.3 33 26-58 37-70 (79)
93 PRK10877 protein disulfide iso 34.6 22 0.00049 26.8 1.3 33 56-90 191-224 (232)
94 PF13462 Thioredoxin_4: Thiore 34.1 24 0.00053 23.6 1.3 33 56-90 125-157 (162)
95 KOG3483|consensus 31.9 1.1E+02 0.0024 20.6 4.1 62 27-88 11-75 (94)
96 KOG3309|consensus 31.5 1.6E+02 0.0034 21.9 5.2 38 26-67 40-77 (159)
97 PF10114 PocR: Sensory domain 31.5 60 0.0013 22.5 3.0 31 51-84 9-39 (173)
98 smart00314 RA Ras association 31.4 1.3E+02 0.0029 18.7 7.0 60 32-91 5-73 (90)
99 PHA02697 hypothetical protein; 29.4 1.2E+02 0.0026 24.0 4.5 51 40-94 78-129 (255)
100 cd06398 PB1_Joka2 The PB1 doma 29.4 1.7E+02 0.0037 19.3 5.8 45 31-76 2-51 (91)
101 PF06793 UPF0262: Uncharacteri 28.6 1.3E+02 0.0028 22.4 4.4 35 26-60 59-93 (158)
102 PF05688 DUF824: Salmonella re 28.5 64 0.0014 19.2 2.3 27 26-52 13-42 (47)
103 cd00754 MoaD Ubiquitin domain 28.3 1.4E+02 0.003 17.9 4.6 40 41-81 17-60 (80)
104 COG4806 RhaA L-rhamnose isomer 28.1 45 0.00098 27.7 2.1 20 48-67 380-399 (419)
105 PF06134 RhaA: L-rhamnose isom 27.6 55 0.0012 27.7 2.5 20 48-67 379-398 (417)
106 PF08308 PEGA: PEGA domain; I 27.5 55 0.0012 19.5 2.0 24 70-95 12-35 (71)
107 COG3906 Uncharacterized protei 27.1 40 0.00087 23.5 1.4 16 32-47 16-31 (105)
108 PTZ00490 Ferredoxin superfamil 27.0 1.9E+02 0.0041 20.7 4.9 29 26-54 32-60 (143)
109 PF05932 CesT: Tir chaperone p 26.8 1.2E+02 0.0025 19.0 3.5 26 54-79 1-31 (119)
110 PF14977 FAM194: FAM194 protei 26.6 62 0.0013 24.8 2.5 21 26-46 119-139 (208)
111 PF07377 DUF1493: Protein of u 26.0 39 0.00085 22.7 1.2 20 53-73 45-64 (111)
112 PF12436 USP7_ICP0_bdg: ICP0-b 25.5 2.7E+02 0.0059 21.2 5.9 45 29-74 176-223 (249)
113 KOG0011|consensus 25.0 1.7E+02 0.0036 24.3 4.8 57 31-88 2-60 (340)
114 cd05484 retropepsin_like_LTR_2 24.8 1.7E+02 0.0037 18.1 4.0 50 29-81 2-54 (91)
115 PF02814 UreE_N: UreE urease a 24.5 1.2E+02 0.0026 18.3 3.1 26 28-53 27-52 (65)
116 PLN02593 adrenodoxin-like ferr 24.4 1.9E+02 0.004 19.7 4.4 34 30-67 1-34 (117)
117 PRK02853 hypothetical protein; 24.2 1.7E+02 0.0037 21.8 4.4 34 26-59 62-95 (161)
118 PF12436 USP7_ICP0_bdg: ICP0-b 24.0 2.8E+02 0.0061 21.1 5.7 68 27-95 68-145 (249)
119 KOG0439|consensus 23.8 98 0.0021 22.5 3.1 23 29-51 28-50 (218)
120 PF10302 DUF2407: DUF2407 ubiq 23.8 2.3E+02 0.005 18.9 5.6 55 29-84 2-59 (97)
121 COG3577 Predicted aspartyl pro 23.6 1E+02 0.0022 24.0 3.1 37 38-75 113-149 (215)
122 PF04110 APG12: Ubiquitin-like 23.2 2.3E+02 0.0051 18.7 5.1 47 42-89 18-66 (87)
123 PF13510 Fer2_4: 2Fe-2S iron-s 23.0 50 0.0011 21.0 1.2 14 69-82 2-15 (82)
124 PRK13703 conjugal pilus assemb 22.8 1.4E+02 0.0031 23.2 4.0 39 41-82 146-188 (248)
125 KOG3439|consensus 22.2 2.9E+02 0.0064 19.5 7.0 53 28-81 29-85 (116)
126 cd06404 PB1_aPKC PB1 domain is 21.8 2.5E+02 0.0055 18.6 5.7 45 30-75 1-45 (83)
127 PHA02994 hypothetical protein; 21.0 2.2E+02 0.0047 22.2 4.5 52 40-95 65-117 (218)
128 PRK08452 flagellar protein Fla 20.9 2.2E+02 0.0048 20.0 4.2 39 26-65 80-118 (124)
129 PF00635 Motile_Sperm: MSP (Ma 20.8 1.3E+02 0.0028 19.0 2.8 24 28-51 20-43 (109)
130 PRK11675 LexA regulated protei 20.5 1E+02 0.0022 20.8 2.4 29 39-67 48-76 (90)
131 COG5569 Uncharacterized conser 20.3 70 0.0015 22.3 1.6 41 26-76 50-95 (108)
132 PF04194 PDCD2_C: Programmed c 20.3 1.1E+02 0.0024 21.9 2.7 42 48-89 52-93 (164)
133 KOG2523|consensus 20.2 85 0.0018 23.8 2.1 50 28-80 57-111 (181)
134 PF03479 DUF296: Domain of unk 20.1 2.3E+02 0.005 19.0 4.1 28 40-67 2-29 (120)
135 COG5417 Uncharacterized small 20.0 2.8E+02 0.0061 18.4 5.8 69 30-98 7-79 (81)
No 1
>KOG1769|consensus
Probab=99.98 E-value=8.7e-33 Score=188.67 Aligned_cols=70 Identities=27% Similarity=0.300 Sum_probs=67.7
Q ss_pred CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
+.||+|||++|++++++||||++|+|+|||+|||+|+|+++ ++|||+|||+||++++||++|+|=++|..
T Consensus 18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~-~s~RFlFdG~rI~~~~TP~~L~mEd~D~I 87 (99)
T KOG1769|consen 18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSM-NSLRFLFDGQRIRETHTPADLEMEDGDEI 87 (99)
T ss_pred cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCcc-ceEEEEECCcCcCCCCChhhhCCcCCcEE
Confidence 68999999999999999999999999999999999999998 79999999999999999999999999864
No 2
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=3.2e-29 Score=170.27 Aligned_cols=86 Identities=20% Similarity=0.166 Sum_probs=76.6
Q ss_pred CcCCCCCCCCCCCCCCCCCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcC
Q psy16998 8 SYQTSKPPMKSSSADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGN 87 (98)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~ 87 (98)
+-++.|+. -..++++..+||+|||.+|||++++|+||++|+|+|||+|||.|+|.+. +++||||||.||+.++||.
T Consensus 6 ~~~e~kt~---~~p~vkp~t~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m-~slRfL~dG~rI~~dqTP~ 81 (103)
T COG5227 6 SGSEFKTN---ENPLVKPITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNM-SSLRFLFDGKRIDLDQTPG 81 (103)
T ss_pred cchhhccc---cCccccccccccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCc-ceeEEEEcceecCCCCChh
Confidence 44555653 1447888889999999999999999999999999999999999999997 7999999999999999999
Q ss_pred ceeeccCCcC
Q psy16998 88 SFYCVNSGTS 97 (98)
Q Consensus 88 ~L~~~~~~~~ 97 (98)
+|.|-|.+-.
T Consensus 82 dldmEdnd~i 91 (103)
T COG5227 82 DLDMEDNDEI 91 (103)
T ss_pred hcCCccchHH
Confidence 9999988754
No 3
>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=99.84 E-value=9.5e-21 Score=124.42 Aligned_cols=72 Identities=24% Similarity=0.306 Sum_probs=68.9
Q ss_pred CCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 25 DNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 25 ~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
+++.+|+|+|++++|..+.|+|+++++|.+||++||++.|+++ ..+||+|||.+|..++||++|+|-|+++.
T Consensus 7 ~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~-~~~rf~f~G~~L~~~~T~~~l~m~d~d~I 78 (87)
T cd01763 7 EISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSM-NSVRFLFDGQRIRDNQTPDDLGMEDGDEI 78 (87)
T ss_pred CCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCc-cceEEEECCeECCCCCCHHHcCCCCCCEE
Confidence 4678999999999999999999999999999999999999998 69999999999999999999999999874
No 4
>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=99.78 E-value=1.8e-19 Score=112.79 Aligned_cols=68 Identities=28% Similarity=0.308 Sum_probs=62.3
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
|+|+|++++|..+.|+|+++|+|.+||++||++.|++..+.++|.|||.+|++++||.+|+|-|+++.
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~I 68 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTI 68 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEE
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEE
Confidence 78999999999999999999999999999999999987358999999999999999999999999874
No 5
>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=98.77 E-value=2.7e-08 Score=61.85 Aligned_cols=67 Identities=13% Similarity=0.200 Sum_probs=61.9
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
+.|.|+..+|..+.+.|.++.....|...++++.|+++ ...||.|+|..+..+.|..++.+.|+.+.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~-~~qrL~~~g~~L~d~~tl~~~~i~~g~~i 67 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPP-QQQRLIYSGKQMNDDKTAADYKLEGGSVL 67 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCCh-hhEEEEECCeEccCCCCHHHcCCCCCCEE
Confidence 36888899999999999999999999999999999998 68999999999999999999999888763
No 6
>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=98.40 E-value=1.2e-06 Score=53.87 Aligned_cols=67 Identities=19% Similarity=0.160 Sum_probs=61.2
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
|+|.|+..+|..+.|.|.++.....|.+..+++.|+++ ...++.|+|..+..+.|-.+..+-++.+.
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~~g~~L~d~~~L~~~~i~~~~~l 67 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPV-EQQRLIYSGRVLKDDETLSEYKVEDGHTI 67 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCH-HHeEEEECCEECCCcCcHHHCCCCCCCEE
Confidence 67889999999999999999999999999999999988 68999999999999999999888777653
No 7
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=98.24 E-value=5e-06 Score=49.35 Aligned_cols=63 Identities=17% Similarity=0.168 Sum_probs=55.3
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS 94 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~ 94 (98)
+.|.|+..+ ....|.|..++....|...++++.|+++ ...+++|+|..+..+.|..++.+-|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~-~~~~L~~~g~~L~d~~tL~~~~i~~~ 63 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPV-EQQRLIYKGKVLEDDRTLADYNIQDG 63 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCH-HHEEEEECCEECCCCCCHHHcCCcCC
Confidence 457777777 6788999999999999999999999987 68999999999999889888877664
No 8
>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=98.13 E-value=7e-06 Score=50.47 Aligned_cols=66 Identities=12% Similarity=0.117 Sum_probs=58.5
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
|+|+|+.. |....+.|.++..+..|+...+++.|+++ ...|++|+|..+..+.|..++.+-++.+.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~~g~~l~d~~~L~~~~i~~g~~l 66 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEP-RDQKLIFKGKERDDAETLDMSGVKDGSKV 66 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCCh-HHeEEeeCCcccCccCcHHHcCCCCCCEE
Confidence 67788775 77778999999999999999999999998 68999999999998889999988887653
No 9
>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=98.00 E-value=2.4e-05 Score=49.19 Aligned_cols=66 Identities=15% Similarity=0.087 Sum_probs=59.7
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
.|.|+..+|..+.+.|.++.....|....|++.|+.+ ...|+.|.|+.+..+.|-.+...-++.|.
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~-~~q~L~~~G~~L~d~~~L~~~~i~~~~~l 67 (74)
T cd01807 2 FLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPE-EQQRLLFKGKALADDKRLSDYSIGPNAKL 67 (74)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCH-HHeEEEECCEECCCCCCHHHCCCCCCCEE
Confidence 4677778899999999999999999999999999998 68999999999999999999888777653
No 10
>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=97.98 E-value=3e-05 Score=46.48 Aligned_cols=62 Identities=11% Similarity=0.110 Sum_probs=54.4
Q ss_pred EeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 34 VLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 34 V~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
|+..+|..+.|.+..++.+..|++.++++.|+++ ..++++|+|..+..+.|-.++...++.+
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~-~~~~l~~~g~~l~d~~~l~~~~v~~~~~ 63 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPP-EQQRLIYAGKILKDDKTLSDYGIQDGST 63 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcCh-HHEEEEECCcCCCCcCCHHHCCCCCCCE
Confidence 5566899999999999999999999999999988 6899999999998888888777766654
No 11
>PTZ00044 ubiquitin; Provisional
Probab=97.91 E-value=4.6e-05 Score=47.64 Aligned_cols=65 Identities=9% Similarity=0.109 Sum_probs=58.8
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
.|.|+..+|..+.+.|.++.....|....+++.|+++ ...|+.|+|..+..+.|-+++.+-++.|
T Consensus 2 ~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~-~~q~L~~~g~~L~d~~~l~~~~i~~~~~ 66 (76)
T PTZ00044 2 QILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDV-KQIRLIYSGKQMSDDLKLSDYKVVPGST 66 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCH-HHeEEEECCEEccCCCcHHHcCCCCCCE
Confidence 5677889999999999999999999999999999988 6899999999999888988888777655
No 12
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=97.90 E-value=5.5e-05 Score=46.74 Aligned_cols=65 Identities=11% Similarity=0.133 Sum_probs=58.6
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
.|.|+..+|..+.+.|.++.....|+...+++.|+++ ...|+.|+|..+..+.|-.++..-++.|
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~-~~q~L~~~g~~L~d~~~L~~~~i~~~~~ 66 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLSDYNIQKEST 66 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCH-HHeEEEECCEECCCCCcHHHcCCCCCCE
Confidence 5778888999999999999999999999999999988 6899999999999998888887777655
No 13
>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=97.88 E-value=4.1e-05 Score=47.57 Aligned_cols=65 Identities=14% Similarity=0.066 Sum_probs=57.8
Q ss_pred EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
|.|+...|..+.+.|.++.....|.+..+++.|+++ ...|+.|.|..+..+.|..+...-++.|.
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~-~~q~Li~~G~~L~d~~~l~~~~i~~~stl 65 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPP-DQLRVIFAGKELRNTTTIQECDLGQQSIL 65 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCH-HHeEEEECCeECCCCCcHHHcCCCCCCEE
Confidence 356678899999999999999999999999999988 68999999999999999998877766653
No 14
>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=97.70 E-value=0.00018 Score=44.97 Aligned_cols=65 Identities=11% Similarity=0.092 Sum_probs=57.7
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcC--CCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVEN--KPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl--~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
.|.|+.-+|..+.+.|..++...-|...++++.|+ .+ ...++.|+|..+..+.|-.++..-++++
T Consensus 2 ~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~-~~q~L~~~G~~L~d~~~L~~~~i~~~~~ 68 (77)
T cd01805 2 KITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPP-EQQKLIYSGKILKDDTTLEEYKIDEKDF 68 (77)
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCCh-hHeEEEECCEEccCCCCHHHcCCCCCCE
Confidence 46677788999999999999999999999999999 77 6899999999999888888888777765
No 15
>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=97.62 E-value=0.00017 Score=44.11 Aligned_cols=59 Identities=12% Similarity=0.139 Sum_probs=53.6
Q ss_pred cCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 37 SDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 37 qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
.+|..+.|.|..+.....|.+..+++.|+++ ...++.|+|+.+..+.|-.++..-++.+
T Consensus 3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~-~~~~L~~~G~~L~d~~tL~~~~i~~~~~ 61 (69)
T PF00240_consen 3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPP-EQQRLIYNGKELDDDKTLSDYGIKDGST 61 (69)
T ss_dssp TTSEEEEEEEETTSBHHHHHHHHHHHHTSTG-GGEEEEETTEEESTTSBTGGGTTSTTEE
T ss_pred CCCcEEEEEECCCCCHHHhhhhccccccccc-ccceeeeeeecccCcCcHHHcCCCCCCE
Confidence 5788999999999999999999999999998 6999999999998888988888777654
No 16
>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=97.47 E-value=0.00037 Score=43.81 Aligned_cols=65 Identities=17% Similarity=0.159 Sum_probs=58.8
Q ss_pred EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
|.|+...|..+.+.|.++.....|....+++.|+.+ ...++.|+|..+..+.|-.+..+-++.|+
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~-~~q~L~~~G~~L~D~~tL~~~~i~~~~tl 65 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQA-DQFWLSFEGRPMEDEHPLGEYGLKPGCTV 65 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCH-HHeEEEECCEECCCCCCHHHcCCCCCCEE
Confidence 457788999999999999999999999999999987 68999999999999999999888887764
No 17
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=97.47 E-value=0.00069 Score=43.30 Aligned_cols=66 Identities=12% Similarity=0.108 Sum_probs=59.5
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
+.|.|++..|..+...|.++.....|.+..+++.|+++ ...|+.|.|..+..+.|-.+..+-|+.|
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~-~~qrLi~~Gk~L~D~~tL~~ygi~~~st 67 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRP-EKIVLKKWYTIFKDHISLGDYEIHDGMN 67 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCh-HHEEEEeCCcCCCCCCCHHHcCCCCCCE
Confidence 67899998999999999999999999999999999998 6899999999988888888888777665
No 18
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=97.36 E-value=0.00069 Score=43.32 Aligned_cols=66 Identities=14% Similarity=0.077 Sum_probs=58.1
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeee--eeCCcccCCCCCcCceeeccCCc
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMP--MGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rF--lfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
|+|.|+.-.|..+.+.|.++.....|.+..+++.|+.+ ...|+ .|+|..+..+.|-.++..-++.|
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~-~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~ 70 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPA-FQQRLAHLDSREVLQDGVPLVSQGLGPGST 70 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCH-HHEEEEeccCCCCCCCCCCHHHcCCCCCCE
Confidence 77888888999999999999999999999999999987 68999 89999999888877776666654
No 19
>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=97.23 E-value=0.0017 Score=44.03 Aligned_cols=70 Identities=9% Similarity=-0.014 Sum_probs=62.7
Q ss_pred CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
.+.+.|.|+...|..+.+.|.++....-|...-+++.|+.+ ...|+.|.|..+..+.|-++...-++.|.
T Consensus 25 ~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~-~~QrLi~~Gk~L~D~~tL~dy~I~~~stL 94 (103)
T cd01802 25 YDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPV-AQQHLIWNNMELEDEYCLNDYNISEGCTL 94 (103)
T ss_pred CCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCCh-HHEEEEECCEECCCCCcHHHcCCCCCCEE
Confidence 35688899999999999999999999999999999999988 68999999999999999888877666653
No 20
>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=97.06 E-value=0.0024 Score=39.72 Aligned_cols=65 Identities=14% Similarity=0.152 Sum_probs=55.0
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
|+|.|+...|.. .+.|.++.....|....+++.|+.. ..+|+.|.|.-+..+.|-.++.+-++.|
T Consensus 1 ~~i~vk~~~g~~-~l~v~~~~TV~~lK~~I~~~~~i~~-~~~~Li~~Gk~L~d~~tL~~~~i~~~st 65 (71)
T cd01808 1 IKVTVKTPKDKE-EIEIAEDASVKDFKEAVSKKFKANQ-EQLVLIFAGKILKDTDTLTQHNIKDGLT 65 (71)
T ss_pred CEEEEEcCCCCE-EEEECCCChHHHHHHHHHHHhCCCH-HHEEEEECCeEcCCCCcHHHcCCCCCCE
Confidence 456777777864 8999999999999999999999987 6899999999999888877777666554
No 21
>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=96.98 E-value=0.0033 Score=39.41 Aligned_cols=63 Identities=13% Similarity=0.041 Sum_probs=54.4
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
+|.|++ ++.+.+.|.++.....|...-+++.|+.+ ...|+.|.|..+..+.|-.+...-++.|
T Consensus 2 qi~vk~--~~~~~l~v~~~~tV~~lK~~i~~~~gip~-~~q~Li~~Gk~L~D~~tL~~~~i~~~~t 64 (74)
T cd01793 2 QLFVRA--QNTHTLEVTGQETVSDIKAHVAGLEGIDV-EDQVLLLAGVPLEDDATLGQCGVEELCT 64 (74)
T ss_pred EEEEEC--CCEEEEEECCcCcHHHHHHHHHhhhCCCH-HHEEEEECCeECCCCCCHHHcCCCCCCE
Confidence 466666 36788999999999999999999999988 6899999999999999998877666554
No 22
>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=96.97 E-value=0.004 Score=39.78 Aligned_cols=65 Identities=12% Similarity=0.119 Sum_probs=55.1
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
++|.|+...|....+.|-++.....|.+..+++.|+.+ ...|+.|.|..+..+ |=.+...-|+.|
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~-~~qrL~~~Gk~L~d~-~L~~~gi~~~~~ 66 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPK-ERLALLHRETRLSSG-KLQDLGLGDGSK 66 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCCh-HHEEEEECCcCCCCC-cHHHcCCCCCCE
Confidence 57888888899999999999999999999999999988 689999999988876 766655555443
No 23
>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=96.91 E-value=0.0036 Score=34.09 Aligned_cols=50 Identities=14% Similarity=0.161 Sum_probs=44.5
Q ss_pred ccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCc
Q psy16998 36 SSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGG 86 (98)
Q Consensus 36 ~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP 86 (98)
-.+|..+.+.+..++.+..|.+..+++.|..+ ..+++.++|..+....+.
T Consensus 4 ~~~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~-~~~~l~~~~~~~~~~~~~ 53 (69)
T cd00196 4 LNDGKTVELLVPSGTTVADLKEKLAKKLGLPP-EQQRLLVNGKILPDSLTL 53 (69)
T ss_pred ecCCCEEEEEcCCCCcHHHHHHHHHHHHCcCh-HHeEEEECCeECCCCCcH
Confidence 34788999999999999999999999999887 689999999999887764
No 24
>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=96.69 E-value=0.0024 Score=40.53 Aligned_cols=52 Identities=10% Similarity=0.084 Sum_probs=37.8
Q ss_pred EeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCc
Q psy16998 34 VLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGG 86 (98)
Q Consensus 34 V~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP 86 (98)
|...+++...+||-++|.|..+.+.-|+++|++. ....+.+++..|.....-
T Consensus 1 vi~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~-~~~~L~h~~k~ldlslp~ 52 (65)
T PF11470_consen 1 VICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDP-SSYDLKHNNKPLDLSLPF 52 (65)
T ss_dssp EE-TTS-EEEE---TTSBHHHHHHHHHHHTT--G-GG-EEEETTEEESSS-BH
T ss_pred CCccCCcEEEEEECCCCCHHHHHHHHHHHcCCCc-cceEEEECCEEeccccce
Confidence 4567899999999999999999999999999998 589999999888765543
No 25
>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=96.67 E-value=0.0072 Score=38.83 Aligned_cols=65 Identities=14% Similarity=0.086 Sum_probs=56.7
Q ss_pred EEEEeccCCCE-EEEE-EcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 31 KLKVLSSDSNE-IHFR-VKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 31 ~lkV~~qdg~e-v~Fk-IK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
.|.|+...|.. +.+. +.++.....|...-+++.|+++ ...|+.|.|..+..+.|-.+..+-++.|
T Consensus 2 ~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~-~~QrLi~~Gk~L~D~~tL~~y~i~~~~~ 68 (78)
T cd01797 2 WIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEP-ECQRLFYRGKQMEDGHTLFDYNVGLNDI 68 (78)
T ss_pred EEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCH-HHeEEEeCCEECCCCCCHHHcCCCCCCE
Confidence 46777788987 4674 8899999999999999999988 6899999999999999998888877765
No 26
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=96.64 E-value=0.0067 Score=38.24 Aligned_cols=62 Identities=18% Similarity=0.135 Sum_probs=54.5
Q ss_pred EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998 32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS 94 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~ 94 (98)
|||+.-.|+.+.+.|.++.....|...-+++.|+++ ...|+.|.|+.+..+.|-.+...-++
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~-~~q~Li~~G~~L~D~~~l~~~~i~~~ 62 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDP-CCQRWFFSGKLLTDKTRLQETKIQKD 62 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCH-HHeEEEECCeECCCCCCHHHcCCCCC
Confidence 467778899999999999999999999999999988 68999999999999999887654443
No 27
>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=96.44 E-value=0.0095 Score=37.30 Aligned_cols=63 Identities=6% Similarity=-0.001 Sum_probs=51.5
Q ss_pred EEecc-CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCC-CcCceeeccCCc
Q psy16998 33 KVLSS-DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTH-GGNSFYCVNSGT 96 (98)
Q Consensus 33 kV~~q-dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~-TP~~L~~~~~~~ 96 (98)
.|+.. .|+.+.+.|.++.....|+..-+++.|+++ ...|+.|+|..+..+. |-.+...-++++
T Consensus 2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~-~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~ 66 (71)
T cd01796 2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPA-SQQQLIYNGRELVDNKRLLALYGVKDGDL 66 (71)
T ss_pred EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCH-HHeEEEECCeEccCCcccHHHcCCCCCCE
Confidence 34456 688889999999999999999999999988 6899999999997774 445666656554
No 28
>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=96.20 E-value=0.019 Score=36.74 Aligned_cols=64 Identities=16% Similarity=0.040 Sum_probs=52.2
Q ss_pred EEEEec--cCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccC-CCCCcCceeec-cCCc
Q psy16998 31 KLKVLS--SDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFG-QTHGGNSFYCV-NSGT 96 (98)
Q Consensus 31 ~lkV~~--qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~-~~~TP~~L~~~-~~~~ 96 (98)
++.|.+ ..|..+.+.|.++.....|...-+++.|+++ ...|+ |+|.++. .+.|-.++.+- +|+|
T Consensus 2 ~~~~~~~~~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~-~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~ 69 (75)
T cd01799 2 NVSVEDAQSHTVTIWLTVRPDMTVAQLKDKVFLDYGFPP-AVQRW-VIGQRLARDQETLYSHGIRTNGDS 69 (75)
T ss_pred EEEEeccccCCCeEEEEECCCCcHHHHHHHHHHHHCcCH-HHEEE-EcCCeeCCCcCCHHHcCCCCCCCE
Confidence 444444 3477889999999999999999999999998 58899 9999996 55788888877 5555
No 29
>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=95.56 E-value=0.033 Score=35.11 Aligned_cols=59 Identities=14% Similarity=0.166 Sum_probs=52.6
Q ss_pred CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 38 DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 38 dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
+|..+.+.|.++....-|........|+.+ ...+++|.|..+..+.|-.++.+-++.+.
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~-~~q~L~~~G~~L~d~~tL~~~~i~~g~~l 64 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPA-GKQKLQYEGIFIKDSNSLAYYNLANGTII 64 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCH-HHEEEEECCEEcCCCCcHHHcCCCCCCEE
Confidence 577778999999999999999999999988 68999999999999999999988887763
No 30
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.28 E-value=0.051 Score=44.61 Aligned_cols=66 Identities=6% Similarity=0.054 Sum_probs=57.0
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhc---CCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVE---NKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~g---l~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
++|.|+.-.|..+.+.|..+.....|++..+++.| +.. ...|+.|.|..+..+.|-.++..-++++
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~-~~QkLIy~GkiL~Dd~tL~dy~I~e~~~ 69 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPV-AQQKLIYSGKILSDDKTVREYKIKEKDF 69 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCCh-hHeEEEECCEECCCCCcHHHcCCCCCCE
Confidence 35778888899999999999999999999999998 877 5899999999999998888876656554
No 31
>KOG0005|consensus
Probab=94.30 E-value=0.059 Score=34.67 Aligned_cols=63 Identities=14% Similarity=0.223 Sum_probs=56.6
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS 94 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~ 94 (98)
.|||+.-.|.+|-.-|-++.+..++.+..-++-|+.+ ..-|+.|-|...+.+.|+++....-|
T Consensus 2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp-~qqrli~~gkqm~DD~tA~~Y~~~~G 64 (70)
T KOG0005|consen 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPP-QQQRLIYAGKQMNDDKTAAHYNLLGG 64 (70)
T ss_pred eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCc-hhhhhhhccccccccccHHHhhhccc
Confidence 4788888999999999999999999999999999998 68999999999999999988765433
No 32
>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=93.17 E-value=0.29 Score=31.11 Aligned_cols=69 Identities=9% Similarity=0.074 Sum_probs=50.7
Q ss_pred ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCC--c---eeeee-eCCcccCCCCCcCceeeccCCcC
Q psy16998 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM--Y---KAMPM-GTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~--~---s~rFl-fDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
+|+|.|...+|..+-+.+-.+.+++.|+..-.+..+.... . ..++- -+|.++.+++|-++....||+.+
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L 76 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVL 76 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EE
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEE
Confidence 6788888866899999999999999999999998877221 1 35666 78999999999999999999875
No 33
>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=93.07 E-value=0.42 Score=31.89 Aligned_cols=44 Identities=14% Similarity=0.175 Sum_probs=38.5
Q ss_pred EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCC--ceeeeee
Q psy16998 32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM--YKAMPMG 75 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~--~s~rFlf 75 (98)
+|++++.|..+.|++.++--+..|+..-++|.|.+.. +.+.+.|
T Consensus 3 FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 3 FKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred EEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 6788999999999999999999999999999999852 3566666
No 34
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=92.35 E-value=0.8 Score=29.97 Aligned_cols=60 Identities=13% Similarity=0.026 Sum_probs=50.2
Q ss_pred ceEEEEeccCCCEEEEEE--cCCCchHHHHHHHHHHhc--CCCCceeeeeeCCcccCCCCCcCce
Q psy16998 29 YIKLKVLSSDSNEIHFRV--KMTTPMGKLKKSYSERVE--NKPMYKAMPMGTGLPFGQTHGGNSF 89 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkI--K~~T~L~KLm~aYc~r~g--l~~~~s~rFlfDG~rI~~~~TP~~L 89 (98)
.|+|.|+..++...-|.| ..+.....|.+.-++..+ -++ ...|+.|-|+-+..++|=.+.
T Consensus 1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~-~~QrLIy~GKiLkD~~tL~~~ 64 (79)
T cd01790 1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLE-QDQRLIYSGKLLPDHLKLRDV 64 (79)
T ss_pred CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCCh-hHeEEEEcCeeccchhhHHHH
Confidence 488999999999877777 899999999999998875 334 589999999999888777665
No 35
>smart00455 RBD Raf-like Ras-binding domain.
Probab=91.06 E-value=1.3 Score=28.07 Aligned_cols=45 Identities=13% Similarity=0.052 Sum_probs=37.4
Q ss_pred EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCC
Q psy16998 32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTG 77 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG 77 (98)
++|.=+||..+..++|++..+..+...-|+++|+++. .....+-|
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~-~~~v~~~g 46 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPE-CCVVRLRG 46 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHH-HEEEEEcC
Confidence 4566689999999999999999999999999999984 45544433
No 36
>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=90.64 E-value=1.7 Score=30.66 Aligned_cols=48 Identities=17% Similarity=0.068 Sum_probs=40.4
Q ss_pred cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
..+.|+|.-.||..+.|.|..+|.-..|.+.-|++.|+.....+.+.+
T Consensus 2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~ 49 (207)
T smart00295 2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQF 49 (207)
T ss_pred CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEE
Confidence 467888988999999999999999999999999999996544444443
No 37
>KOG0010|consensus
Probab=90.31 E-value=0.49 Score=40.46 Aligned_cols=67 Identities=13% Similarity=0.167 Sum_probs=59.7
Q ss_pred cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
..|+|+|+..+. ...|.|-.+..++.|++.-+++.+.++ ..+++.|-|+-+..++|-.+...-|+-|
T Consensus 14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~-dqlvLIfaGrILKD~dTL~~~gI~Dg~T 80 (493)
T KOG0010|consen 14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPP-DQLVLIYAGRILKDDDTLKQYGIQDGHT 80 (493)
T ss_pred ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCCh-hHeeeeecCccccChhhHHHcCCCCCcE
Confidence 569999999877 669999999999999999999999998 5899999999999888988877777655
No 38
>PLN02560 enoyl-CoA reductase
Probab=89.59 E-value=1.3 Score=35.45 Aligned_cols=65 Identities=22% Similarity=0.277 Sum_probs=49.9
Q ss_pred EEEEeccCCCEE---EEEEcCCCchHHHHHHHHHHhcC-CCCceeeeeeC---Cc----ccCCCCCcCceeeccCCc
Q psy16998 31 KLKVLSSDSNEI---HFRVKMTTPMGKLKKSYSERVEN-KPMYKAMPMGT---GL----PFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 31 ~lkV~~qdg~ev---~FkIK~~T~L~KLm~aYc~r~gl-~~~~s~rFlfD---G~----rI~~~~TP~~L~~~~~~~ 96 (98)
.|.|+...|..+ .+.|.+++....|.++++++.+. .+ ...|+.++ |. .+..+.|-.++..-++.|
T Consensus 2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~-~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gst 77 (308)
T PLN02560 2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYP-SRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGT 77 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCCh-hheEEEEecCCCCcCccccCCCCCHHhcCCCCCce
Confidence 466667778886 68999999999999999999886 55 57999983 43 556666777777666654
No 39
>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=89.16 E-value=1.2 Score=28.89 Aligned_cols=47 Identities=19% Similarity=0.198 Sum_probs=30.9
Q ss_pred cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT 76 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD 76 (98)
+.+-|||++.||.. .+.|.++..+..|++...+..+++. .++.+..|
T Consensus 3 ~~milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~-~~~~L~~~ 49 (80)
T PF11543_consen 3 SSMILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPD-SSQSLSKD 49 (80)
T ss_dssp ---EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---T-TT---BSS
T ss_pred ccEEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCC-cceEEEec
Confidence 46789999999966 7789999999999999999999986 45554333
No 40
>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=88.16 E-value=3.6 Score=26.49 Aligned_cols=65 Identities=15% Similarity=0.054 Sum_probs=46.5
Q ss_pred EEEEecc-CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeee-eeCCcc-----c-CCCCCcCceeeccCCc
Q psy16998 31 KLKVLSS-DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMP-MGTGLP-----F-GQTHGGNSFYCVNSGT 96 (98)
Q Consensus 31 ~lkV~~q-dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rF-lfDG~r-----I-~~~~TP~~L~~~~~~~ 96 (98)
+|.|... ....+..|+-++.....|...=....|+++ ...|+ +|+|.. + .++.+=.++.+.||.+
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~-~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~ 75 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPA-SSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCR 75 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCc-cceEEEEEcCCCCeEeecCCCccEeeeccCCCCCE
Confidence 3444432 355567889999999999999999999998 68999 689984 3 2333556666666543
No 41
>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=87.64 E-value=2.8 Score=26.43 Aligned_cols=56 Identities=13% Similarity=0.062 Sum_probs=44.2
Q ss_pred CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee---CCcccCCCCCcCceeeccC
Q psy16998 38 DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG---TGLPFGQTHGGNSFYCVNS 94 (98)
Q Consensus 38 dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf---DG~rI~~~~TP~~L~~~~~ 94 (98)
.|....+.|-.+..+..|...-+++.|+.+ ..-+++| -|.-+..+.|-.++..-++
T Consensus 8 ~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~-~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g 66 (74)
T cd01813 8 GGQEYSVTTLSEDTVLDLKQFIKTLTGVLP-ERQKLLGLKVKGKPAEDDVKISALKLKPN 66 (74)
T ss_pred CCEEEEEEECCCCCHHHHHHHHHHHHCCCH-HHEEEEeecccCCcCCCCcCHHHcCCCCC
Confidence 456667899999999999999999999998 5899996 6776666666555544443
No 42
>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=86.90 E-value=5.6 Score=24.78 Aligned_cols=63 Identities=6% Similarity=0.018 Sum_probs=44.3
Q ss_pred CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCce-eeee--eCCcccCCCC--CcCce
Q psy16998 26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYK-AMPM--GTGLPFGQTH--GGNSF 89 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s-~rFl--fDG~rI~~~~--TP~~L 89 (98)
+...++|+|+=.||..+.-+..++.++.-|++.-........ .. +++. |-.+.|..++ |=.++
T Consensus 3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~-~~~f~L~~~~Pr~~l~~~~~~tl~e~ 70 (82)
T PF00789_consen 3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPE-ESDFELITAFPRRELTDEDSKTLEEA 70 (82)
T ss_dssp TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTT-TSSEEEEESSSTEECCSTTTSBTCCC
T ss_pred CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCC-CccEEEEeCCCCcCCCccccccHHHh
Confidence 346788889899999999999999999999965544444443 22 5653 5566666665 44444
No 43
>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=86.26 E-value=2.5 Score=26.03 Aligned_cols=41 Identities=15% Similarity=-0.051 Sum_probs=35.4
Q ss_pred eccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 35 LSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 35 ~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
.=.||..+.|.|.+++.-+.|++.-|++.|+....-+.+.|
T Consensus 2 ~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~ 42 (80)
T PF09379_consen 2 RLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQY 42 (80)
T ss_dssp EESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE
T ss_pred CCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEE
Confidence 34689999999999999999999999999997655666666
No 44
>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=82.74 E-value=7.3 Score=24.04 Aligned_cols=45 Identities=9% Similarity=0.049 Sum_probs=35.4
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT 76 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD 76 (98)
|+|||.- .|....|.+.+...+..|...-+++.++.. ..+++.|-
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~-~~~~l~Y~ 46 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDN-QSFTLKYQ 46 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCC-CCeEEEEE
Confidence 4566654 444559999999999999999999999974 46777764
No 45
>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=81.99 E-value=3.5 Score=29.00 Aligned_cols=62 Identities=16% Similarity=0.121 Sum_probs=52.7
Q ss_pred cceEEEEeccCCCEE-EEEEcCCCchHHHHHHHHHHhc-------CCCCceeeeeeCCcccCCCCCcCcee
Q psy16998 28 EYIKLKVLSSDSNEI-HFRVKMTTPMGKLKKSYSERVE-------NKPMYKAMPMGTGLPFGQTHGGNSFY 90 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev-~FkIK~~T~L~KLm~aYc~r~g-------l~~~~s~rFlfDG~rI~~~~TP~~L~ 90 (98)
+.|-||.+-.||..| -|++.+++....|...-.+..+ ..+ ..+++.|-|.-+..+.|-.+..
T Consensus 3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~-~~qKLIysGKiLeD~~TL~d~~ 72 (113)
T cd01814 3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTV-NEVKLISAGKILENSKTVGECR 72 (113)
T ss_pred ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCH-HHeEEEeCCeecCCCCcHHHhC
Confidence 567788888999998 9999999999999999997774 336 5899999999999988866654
No 46
>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=81.55 E-value=7.5 Score=25.29 Aligned_cols=44 Identities=18% Similarity=0.172 Sum_probs=33.7
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
+||+.= .|.-+.|++.++..+..|.+.-++|.+++..+.+.+-|
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 455532 45667999999999999999999999986424566655
No 47
>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=79.22 E-value=7.7 Score=24.24 Aligned_cols=49 Identities=10% Similarity=-0.013 Sum_probs=38.2
Q ss_pred CCCchHHHHHHHHHHhcC-CCCceeeee--eCCcccCCCCCcCceeeccCCcC
Q psy16998 48 MTTPMGKLKKSYSERVEN-KPMYKAMPM--GTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 48 ~~T~L~KLm~aYc~r~gl-~~~~s~rFl--fDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
.++....|.++++++.+. ++ +-.|+. +.|..|..+.|-.++..-|+.|.
T Consensus 21 ~~aTV~dlk~~i~~~~~~~~~-~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~l 72 (77)
T cd01801 21 GDATIADLKKLIAKSSPQLTV-NRQSLRLEPKGKSLKDDDTLVDLGVGAGATL 72 (77)
T ss_pred CCccHHHHHHHHHHHcCCCCc-ceeEEEeCCCCcccCCcccHhhcCCCCCCEE
Confidence 567899999999999764 44 456675 78999988888888888777653
No 48
>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=79.16 E-value=7.4 Score=24.12 Aligned_cols=35 Identities=17% Similarity=0.168 Sum_probs=33.0
Q ss_pred EEEEeccCCC----EEEEEEcCCCchHHHHHHHHHHhcC
Q psy16998 31 KLKVLSSDSN----EIHFRVKMTTPMGKLKKSYSERVEN 65 (98)
Q Consensus 31 ~lkV~~qdg~----ev~FkIK~~T~L~KLm~aYc~r~gl 65 (98)
.|||-..++. ...++|-.+|.-+.|..+-+++.++
T Consensus 4 ~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l 42 (93)
T PF00788_consen 4 VLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGL 42 (93)
T ss_dssp EEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTT
T ss_pred EEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 5788888888 9999999999999999999999999
No 49
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=77.65 E-value=9.6 Score=25.34 Aligned_cols=66 Identities=14% Similarity=0.236 Sum_probs=51.8
Q ss_pred ceEEEEeccCCCEEEE---EEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998 29 YIKLKVLSSDSNEIHF---RVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS 94 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~F---kIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~ 94 (98)
++++||.-.....+-| .|--.+||--+.+--|+.+.+.+..+.-..-||.-|++.+|....-+-.|
T Consensus 2 KVtFkitltSdp~lpfkvlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhg 70 (82)
T cd01766 2 KVTFKITLTSDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHG 70 (82)
T ss_pred ceEEEEEecCCCCCcceEEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecC
Confidence 3556665544444444 56778999999999999999999888999999999999999887655444
No 50
>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=77.52 E-value=12 Score=23.98 Aligned_cols=37 Identities=8% Similarity=0.079 Sum_probs=33.7
Q ss_pred EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCC
Q psy16998 32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~ 68 (98)
++|.=+||......|++...++-+...-|+++|+++.
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~ 38 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPE 38 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHH
Confidence 4566689999999999999999999999999999874
No 51
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 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-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=77.34 E-value=7.7 Score=25.58 Aligned_cols=48 Identities=15% Similarity=0.221 Sum_probs=40.4
Q ss_pred EEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCcee
Q psy16998 43 HFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFY 90 (98)
Q Consensus 43 ~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~ 90 (98)
.|.|--.++|..+.+--|+.+.+.+..+.-..-||.-|++.+|.-+.-
T Consensus 19 v~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vf 66 (76)
T PF03671_consen 19 VISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVF 66 (76)
T ss_dssp EEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHH
T ss_pred EEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhH
Confidence 678889999999999999999999988999999999999999976543
No 52
>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=75.61 E-value=18 Score=22.93 Aligned_cols=68 Identities=10% Similarity=0.034 Sum_probs=46.1
Q ss_pred ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCC---CCcCceeeccCCc
Q psy16998 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQT---HGGNSFYCVNSGT 96 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~---~TP~~L~~~~~~~ 96 (98)
..+|+|+=.||..+.-+...+++|..|++.-....+-.....+.-.|=-..+..+ .|=.+|..+.+.+
T Consensus 4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~ 74 (79)
T cd01772 4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNGGPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAV 74 (79)
T ss_pred EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCCCCEEEEeCCCCeECCcccccCCHHHCCCCCceE
Confidence 4567777799999999999999999999888765543222334444445555443 4667776666554
No 53
>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=75.02 E-value=9.2 Score=25.29 Aligned_cols=36 Identities=17% Similarity=0.171 Sum_probs=32.6
Q ss_pred EEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCC
Q psy16998 33 KVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68 (98)
Q Consensus 33 kV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~ 68 (98)
.|-=+||..+...|++...+.-+..+-|.+++++++
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~ 38 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPM 38 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChh
Confidence 355589999999999999999999999999999873
No 54
>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=74.75 E-value=16 Score=22.92 Aligned_cols=37 Identities=8% Similarity=0.066 Sum_probs=30.7
Q ss_pred EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCC
Q psy16998 32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPM 68 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~ 68 (98)
++|.=++|+.+...||++..++-....-|+++|+++.
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~ 39 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPE 39 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CC
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHH
Confidence 4555689999999999999999999999999999984
No 55
>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=72.88 E-value=13 Score=25.00 Aligned_cols=66 Identities=9% Similarity=0.114 Sum_probs=52.3
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceee----eeeC----CcccCCCCCcCceeeccCCc
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAM----PMGT----GLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~r----FlfD----G~rI~~~~TP~~L~~~~~~~ 96 (98)
+.|+|-=.||..|..+|+++-.=..++++-|.+.|++.. ..+ |+.- =+++.+..-|-.|.-.|+.+
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e-~~~YFaLFev~~~~f~RKL~dfE~Ph~ly~~ny~s 75 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSY-TQNYFALFEVINHSFVRKLAPNEFPHKLYVQNYTS 75 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHH-HHhheeeeEEecceEEEeccCccCCceEEEEEeec
Confidence 456777789999999999999999999999999999752 332 2221 36788888999998888765
No 56
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=72.79 E-value=20 Score=22.37 Aligned_cols=55 Identities=9% Similarity=0.042 Sum_probs=38.4
Q ss_pred cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee--eCCcccCCC
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM--GTGLPFGQT 83 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl--fDG~rI~~~ 83 (98)
...+|.|+=.||..+.-+...+.++..|++......+... ..++|. |-.+.+..+
T Consensus 3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~-~~f~L~t~~Prk~l~~~ 59 (80)
T smart00166 3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGN-DPFTLNSPFPRRTFTKD 59 (80)
T ss_pred CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCC-CCEEEEeCCCCcCCccc
Confidence 4567777779999999999999999999998755454433 245553 445555443
No 57
>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=72.42 E-value=22 Score=22.67 Aligned_cols=66 Identities=5% Similarity=-0.035 Sum_probs=43.1
Q ss_pred ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee--eCCcccCCCC-CcCceeeccC
Q psy16998 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM--GTGLPFGQTH-GGNSFYCVNS 94 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl--fDG~rI~~~~-TP~~L~~~~~ 94 (98)
..+|.|+-.||+.+.-+...+.+++.|++.--...+-.....+.++ |=.+.+..++ |=.++..+++
T Consensus 4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s 72 (79)
T cd01770 4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNA 72 (79)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCc
Confidence 4667777799999999999999999888765544332111345554 6666666543 5555555543
No 58
>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=71.36 E-value=13 Score=24.53 Aligned_cols=36 Identities=17% Similarity=0.177 Sum_probs=30.8
Q ss_pred eEEEEeccCCCEEEEEEcC--CCchHHHHHHHHHHhcCC
Q psy16998 30 IKLKVLSSDSNEIHFRVKM--TTPMGKLKKSYSERVENK 66 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~--~T~L~KLm~aYc~r~gl~ 66 (98)
|+||| ...|..+.|++.+ ++.+..|...-..|.+++
T Consensus 1 V~vKa-ty~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~ 38 (81)
T cd06396 1 VNLKV-TYNGESQSFLVSDSENTTWASVEAMVKVSFGLN 38 (81)
T ss_pred CEEEE-EECCeEEEEEecCCCCCCHHHHHHHHHHHhCCC
Confidence 46666 3567888999999 889999999999999997
No 59
>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=68.58 E-value=29 Score=22.50 Aligned_cols=46 Identities=11% Similarity=0.124 Sum_probs=34.3
Q ss_pred cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
..++|.|+=.+|+.+.-|...+.+++-|++....+ +-.+ ..+++..
T Consensus 3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~-~~f~L~t 48 (85)
T cd01774 3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETP-EKFQIVT 48 (85)
T ss_pred ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCC-CcEEEec
Confidence 46777777899999999999999999999887433 3333 3455544
No 60
>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=66.98 E-value=24 Score=23.46 Aligned_cols=44 Identities=16% Similarity=0.114 Sum_probs=34.1
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
|.+.|.--.+....|+|.+.++.+||...--+..|.. +.-|+-|
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~--g~qrLsf 44 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCS--GLQRLSF 44 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCcc--cceEEEe
Confidence 4566655556778999999999999999988888874 3455555
No 61
>PHA01623 hypothetical protein
Probab=66.83 E-value=6.4 Score=24.02 Aligned_cols=27 Identities=15% Similarity=0.178 Sum_probs=23.8
Q ss_pred EEEEEEcCCCchHHHHHHHHHHhcCCC
Q psy16998 41 EIHFRVKMTTPMGKLKKSYSERVENKP 67 (98)
Q Consensus 41 ev~FkIK~~T~L~KLm~aYc~r~gl~~ 67 (98)
.+.|.|+..-.|.+-++.||.+.|+..
T Consensus 13 ~~r~sVrldeel~~~Ld~y~~~~g~~r 39 (56)
T PHA01623 13 KAVFGIYMDKDLKTRLKVYCAKNNLQL 39 (56)
T ss_pred ceeEEEEeCHHHHHHHHHHHHHcCCCH
Confidence 468888889999999999999999864
No 62
>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=63.93 E-value=30 Score=20.99 Aligned_cols=44 Identities=14% Similarity=0.103 Sum_probs=33.5
Q ss_pred eEEEEeccCCCEEEEEEc-CCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 30 IKLKVLSSDSNEIHFRVK-MTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK-~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
|+|||.-. |....|.+. .++.+..|...-+++.++.. ..+++.|
T Consensus 1 ~~vK~~~~-~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~-~~~~l~y 45 (81)
T cd05992 1 VRVKVKYG-GEIRRFVVVSRSISFEDLRSKIAEKFGLDA-VSFKLKY 45 (81)
T ss_pred CcEEEEec-CCCEEEEEecCCCCHHHHHHHHHHHhCCCC-CcEEEEe
Confidence 34566443 556799999 99999999999999999963 3455555
No 63
>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=62.62 E-value=33 Score=20.97 Aligned_cols=45 Identities=9% Similarity=0.002 Sum_probs=33.9
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
|.||+.-.++....|.+..+..+..|...-+++.+... ..+++.|
T Consensus 2 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~-~~~~l~Y 46 (84)
T PF00564_consen 2 VRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLD-EDFQLKY 46 (84)
T ss_dssp EEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTST-SSEEEEE
T ss_pred EEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCC-ccEEEEe
Confidence 45666444333334899999999999999999999973 4677777
No 64
>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=62.07 E-value=35 Score=21.06 Aligned_cols=62 Identities=11% Similarity=0.005 Sum_probs=40.9
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee--eCCcccCC---CCCcCceeecc
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM--GTGLPFGQ---THGGNSFYCVN 93 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl--fDG~rI~~---~~TP~~L~~~~ 93 (98)
.+|+|+=.||..+.-+...+.++..|++.--.... +. ..+++. |-.+.+.. +.|=.++..++
T Consensus 3 t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~-~~-~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~ 69 (77)
T cd01767 3 TKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGP-PA-EPFTLMTSFPRRVLTDLDYELTLQEAGLVN 69 (77)
T ss_pred EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCC-CC-CCEEEEeCCCCccCCCCCccCcHHHcCCcc
Confidence 56777779999999999999999999876543332 22 345544 44555654 44555555553
No 65
>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=61.08 E-value=32 Score=21.40 Aligned_cols=35 Identities=17% Similarity=0.206 Sum_probs=32.4
Q ss_pred EEEeccC---CCEEEEEEcCCCchHHHHHHHHHHhcCC
Q psy16998 32 LKVLSSD---SNEIHFRVKMTTPMGKLKKSYSERVENK 66 (98)
Q Consensus 32 lkV~~qd---g~ev~FkIK~~T~L~KLm~aYc~r~gl~ 66 (98)
|||-.++ +....+.|-++|.-..|...-.++.+++
T Consensus 2 ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~ 39 (87)
T cd01768 2 LRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLKKFGLD 39 (87)
T ss_pred EEEeCCcCCCccEEEEEECCCCCHHHHHHHHHHHhCCc
Confidence 6777777 8889999999999999999999999997
No 66
>KOG0006|consensus
Probab=57.76 E-value=20 Score=29.97 Aligned_cols=47 Identities=13% Similarity=0.075 Sum_probs=41.4
Q ss_pred CEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcC
Q psy16998 40 NEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGN 87 (98)
Q Consensus 40 ~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~ 87 (98)
..+..-|+.+|.+.-|.+..+.++|+.+ ..+|..|-|..+..+-|-.
T Consensus 14 h~l~v~v~~~t~I~~lke~Vak~~gvp~-D~L~viFaGKeLs~~ttv~ 60 (446)
T KOG0006|consen 14 HGLPVEVDSDTSIFQLKEVVAKRQGVPA-DQLRVIFAGKELSNDTTVQ 60 (446)
T ss_pred CceeEEEecCCCHHHHHHHHHHhhCCCh-hheEEEEeccccccCceee
Confidence 3467788999999999999999999998 5899999999998877655
No 67
>PF10623 PilI: Plasmid conjugative transfer protein PilI; InterPro: IPR018897 The thin pilus of plasmid R64 belongs to the type IV family and is required for liquid matings. PilI is one of 14 genes that have been identified as being involved in biogenesis of the R64 thin pilus [].
Probab=57.45 E-value=21 Score=23.84 Aligned_cols=50 Identities=10% Similarity=0.095 Sum_probs=38.9
Q ss_pred CcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCccc
Q psy16998 27 VEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPF 80 (98)
Q Consensus 27 ~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI 80 (98)
+..+.|-|.+-++.+-.|-++.++-+.+|...||.--+ .-+..+=|+++|
T Consensus 6 ~grl~VLVv~n~c~~kL~~~~~~~D~~~i~r~f~TpdN----~lV~V~~~nr~l 55 (83)
T PF10623_consen 6 PGRLQVLVVSNHCERKLFDTKPDNDPDKIARRFCTPDN----CLVCVLQDNRFL 55 (83)
T ss_pred CCeEEEEEEeCCcceeEeecCCCCCHHHHHhhccCcCC----eEEEEEeCCceE
Confidence 46899999999999999999999999999999996432 234444444444
No 68
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=57.04 E-value=60 Score=22.20 Aligned_cols=67 Identities=15% Similarity=0.027 Sum_probs=48.7
Q ss_pred ceEEEEeccCCC-EEEEEEcCCCchHHHHHHHHHHhcCCC------CceeeeeeCCcccCCCCCcCceeeccCC
Q psy16998 29 YIKLKVLSSDSN-EIHFRVKMTTPMGKLKKSYSERVENKP------MYKAMPMGTGLPFGQTHGGNSFYCVNSG 95 (98)
Q Consensus 29 ~I~lkV~~qdg~-ev~FkIK~~T~L~KLm~aYc~r~gl~~------~~s~rFlfDG~rI~~~~TP~~L~~~~~~ 95 (98)
.|+||.+=.+|. ...|..-.+|....|.+.--..---++ .+.+|+++-|+=+..+.|=.++...-+.
T Consensus 2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~ 75 (111)
T PF13881_consen 2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGE 75 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTS
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCC
Confidence 578888888999 679999999999999988876542222 2579999999999988888877554443
No 69
>PF11548 Receptor_IA-2: Protein-tyrosine phosphatase receptor IA-2; InterPro: IPR021613 IA-2 is a protein-tyrosine phosphatase receptor that upon exocytosis, the cytoplasmic domain is cleaved and moves to the nucleus where it enhances transcription of the insulin gene. The mature exodomain of IA-2 participates in adhesion to the extracellular matrix and is self-proteolyzed in vitro by reactive oxygen species which may be a new shedding mechanism. ; PDB: 2QT7_B 3N01_B 3N4W_B 3NG8_A.
Probab=56.81 E-value=13 Score=25.26 Aligned_cols=22 Identities=23% Similarity=0.464 Sum_probs=16.1
Q ss_pred CcceEEEEeccCCCEEEEEEcCCCc
Q psy16998 27 VEYIKLKVLSSDSNEIHFRVKMTTP 51 (98)
Q Consensus 27 ~~~I~lkV~~qdg~ev~FkIK~~T~ 51 (98)
+..++|+| +|.+|.|||.++.+
T Consensus 35 ~~F~~i~V---~g~avTFrv~~N~~ 56 (91)
T PF11548_consen 35 SSFINISV---VGPAVTFRVRPNNK 56 (91)
T ss_dssp GGEEEEEE---ETTEEEEEE---TT
T ss_pred ccceeeee---cCceEEEEeccCcC
Confidence 46789998 78999999999875
No 70
>cd02986 DLP Dim1 family, Dim1-like protein (DLP) subfamily; DLP is a novel protein which shares 38% sequence identity to Dim1. Like Dim1, it is also implicated in pre-mRNA splicing and cell cycle progression. DLP is located in the nucleus and has been shown to interact with the U5 small nuclear ribonucleoprotein particle (snRNP)-specific 102kD protein (or Prp6). Dim1 protein, also known as U5 snRNP-specific 15kD protein is a component of U5 snRNP, which pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5] tri-snRNP complex required for pre-mRNA splicing. Dim1 adopts a thioredoxin fold but does not contain the redox active CXXC motif.
Probab=56.74 E-value=15 Score=25.64 Aligned_cols=38 Identities=11% Similarity=0.082 Sum_probs=24.7
Q ss_pred EEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCC
Q psy16998 41 EIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQT 83 (98)
Q Consensus 41 ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~ 83 (98)
.++++|-.. + ...+++++++...-++.|++||+.|.-+
T Consensus 47 ~~f~kVDVD----e-v~dva~~y~I~amPtfvffkngkh~~~d 84 (114)
T cd02986 47 ASIYLVDVD----K-VPVYTQYFDISYIPSTIFFFNGQHMKVD 84 (114)
T ss_pred eEEEEEecc----c-cHHHHHhcCceeCcEEEEEECCcEEEEe
Confidence 446666644 1 2347888887522367799999998533
No 71
>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=56.46 E-value=14 Score=23.96 Aligned_cols=48 Identities=10% Similarity=0.038 Sum_probs=38.1
Q ss_pred CCchHHHHHHHHHHhc--C-CCCceeeeeeCCcccCCCCCcCceeeccCCcC
Q psy16998 49 TTPMGKLKKSYSERVE--N-KPMYKAMPMGTGLPFGQTHGGNSFYCVNSGTS 97 (98)
Q Consensus 49 ~T~L~KLm~aYc~r~g--l-~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~ 97 (98)
+.....|....+++.+ + ++ ...|+.|.|..+..+.|-.+..+-++.|.
T Consensus 20 ~~TV~~LK~kI~~~~~egi~~~-dqQrLIy~GKiL~D~~TL~dygI~~gstl 70 (75)
T cd01815 20 GYQVSTLKQLIAAQLPDSLPDP-ELIDLIHCGRKLKDDQTLDFYGIQSGSTI 70 (75)
T ss_pred cCcHHHHHHHHHHhhccCCCCh-HHeEEEeCCcCCCCCCcHHHcCCCCCCEE
Confidence 3456778888888864 5 35 57999999999999999988888777663
No 72
>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=52.38 E-value=68 Score=21.36 Aligned_cols=45 Identities=11% Similarity=0.098 Sum_probs=36.6
Q ss_pred ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT 76 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD 76 (98)
.|+|||. ..|..+.+.|-+++.|..|.+.-.++.++.. .|+.-|=
T Consensus 2 ~ikVKv~-~~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~~--~~~iKyk 46 (86)
T cd06408 2 KIRVKVH-AQDDTRYIMIGPDTGFADFEDKIRDKFGFKR--RLKIKMK 46 (86)
T ss_pred cEEEEEE-ecCcEEEEEcCCCCCHHHHHHHHHHHhCCCC--ceEEEEE
Confidence 5788886 4566889999999999999999999999953 5665553
No 73
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=51.86 E-value=55 Score=20.13 Aligned_cols=48 Identities=13% Similarity=0.099 Sum_probs=35.7
Q ss_pred ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCC
Q psy16998 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQ 82 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~ 82 (98)
.|+|+|.+.. .+..+.+...+.+..|.+.. +++. ..+.+..||+-+..
T Consensus 4 mm~v~vng~~-~~~~~~~~~~~tv~~ll~~l----~~~~-~~v~v~vNg~iv~~ 51 (70)
T PRK08364 4 MIRVKVIGRG-IEKEIEWRKGMKVADILRAV----GFNT-ESAIAKVNGKVALE 51 (70)
T ss_pred EEEEEEeccc-cceEEEcCCCCcHHHHHHHc----CCCC-ccEEEEECCEECCC
Confidence 3788886654 34567778888888887554 7876 57999999999854
No 74
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=51.50 E-value=60 Score=20.47 Aligned_cols=45 Identities=20% Similarity=0.188 Sum_probs=37.1
Q ss_pred eEEEEeccCC--CEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 30 IKLKVLSSDS--NEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 30 I~lkV~~qdg--~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
|+|.|..... ..+..|+-++..+..|...-....|+++ ...|+.+
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~-~~m~L~l 48 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPP-SDMRLQL 48 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-T-TTEEEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCc-ccEEEEE
Confidence 6788877665 4789999999999999999999999998 5677665
No 75
>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=50.47 E-value=67 Score=21.19 Aligned_cols=43 Identities=14% Similarity=0.023 Sum_probs=36.3
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT 76 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD 76 (98)
.|||.=+. .|-.+|.+..++.-|.+.-++|.++.. ..+.+.|-
T Consensus 4 vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl~~-e~i~LsYk 46 (80)
T cd06406 4 VVKVHFKY--TVAIQVARGLSYATLLQKISSKLELPA-EHITLSYK 46 (80)
T ss_pred EEEEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCCCc-hhcEEEec
Confidence 47776665 899999999999999999999999965 46777764
No 76
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=49.96 E-value=27 Score=25.74 Aligned_cols=57 Identities=14% Similarity=0.074 Sum_probs=43.5
Q ss_pred ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCC------CceeeeeeCCcccCCCCCcCc
Q psy16998 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKP------MYKAMPMGTGLPFGQTHGGNS 88 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~------~~s~rFlfDG~rI~~~~TP~~ 88 (98)
.|+++| +|..+...+-+.|+|..+...+-.-.|... -+.-..++||++|+.--||+.
T Consensus 3 ~i~ltv---NG~~~~~~~~p~~~Ll~~LRd~l~ltgtk~GC~~g~CGACtVlvDG~~v~SCl~~a~ 65 (156)
T COG2080 3 PITLTV---NGEPVELDVDPRTPLLDVLRDELGLTGTKKGCGHGQCGACTVLVDGEAVNSCLTLAV 65 (156)
T ss_pred cEEEEE---CCeEEEEEeCCCChHHHHHHHhcCCCCcCCCCCCccCCceEEEECCeEehHHHHHHH
Confidence 577887 888999999999999998876654444322 245788999999988777754
No 77
>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=49.20 E-value=72 Score=20.74 Aligned_cols=55 Identities=9% Similarity=-0.022 Sum_probs=43.1
Q ss_pred EEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcC
Q psy16998 33 KVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGN 87 (98)
Q Consensus 33 kV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~ 87 (98)
+|.=+||+.-...+++...++-+..--|++.|+.+..-.-|+..|...=..+|+-
T Consensus 3 rV~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~~~qD~ 57 (73)
T cd01817 3 RVILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLVLDQDS 57 (73)
T ss_pred EEECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccccCCcc
Confidence 3445799999999999999999999999999999865566777554555555543
No 78
>PF08722 Tn7_Tnp_TnsA_N: TnsA endonuclease N terminal; InterPro: IPR014833 The Tn7 transposase is composed of proteins TnsA and TnsB. DNA breakage at the 5'-end of the transposon is carried out by TnsA, and breakage and joining at the 3'-end is carried out by TnsB. The N-terminal domain of TnsA is catalytic. ; PDB: 1F1Z_B 1T0F_B.
Probab=48.47 E-value=30 Score=21.90 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=24.3
Q ss_pred EEeccCC---CEEEEEEcCCCchHH--------HHHHHHHHhcCCC
Q psy16998 33 KVLSSDS---NEIHFRVKMTTPMGK--------LKKSYSERVENKP 67 (98)
Q Consensus 33 kV~~qdg---~ev~FkIK~~T~L~K--------Lm~aYc~r~gl~~ 67 (98)
-|.-.+| ..+.+-||+...|.+ +...||+++|+++
T Consensus 38 lv~~~~g~~~~~~~ieVK~~~~l~~~~~~~k~~~~~~y~~~~g~~f 83 (88)
T PF08722_consen 38 LVTYRDGNGKKPVAIEVKPSSELEKPRTKEKLEIEREYWEEQGIPF 83 (88)
T ss_dssp EEEESSS--SSEEEEEE--GGGGGSHHHHHHHHHHHHHHHHCT--E
T ss_pred EEEEccCCcceEEEEEEccHHHhcChhHHHHHHHHHHHHHHcCCeE
Confidence 3444566 889999999999987 6678999999864
No 79
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=48.10 E-value=82 Score=23.36 Aligned_cols=51 Identities=22% Similarity=0.188 Sum_probs=40.5
Q ss_pred eEEEEeccCC----CEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC-Cccc
Q psy16998 30 IKLKVLSSDS----NEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT-GLPF 80 (98)
Q Consensus 30 I~lkV~~qdg----~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD-G~rI 80 (98)
|+|=|..-+| ..+.|.+-.+|.+.-|++....+.++.....+.|.+. |..|
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l 56 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQL 56 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCee
Confidence 6788888899 6899999999999999999999999976433444443 3344
No 80
>PF09631 Sen15: Sen15 protein; InterPro: IPR018593 The Sen15 subunit of the tRNA intron-splicing endonuclease is one of the two structural subunits of this heterotetrameric enzyme. Residues 36-157 of this subunit possess a novel homodimeric fold. Each monomer consists of three alpha-helices and a mixed antiparallel/parallel beta-sheet. Two monomers of Sen15 fold with two monomers of Sen34, one of the two catalytic subunits, to form an alpha2-beta2 tetramer as part of the functional endonuclease assembly []. ; PDB: 2GW6_B.
Probab=46.53 E-value=28 Score=23.03 Aligned_cols=23 Identities=17% Similarity=0.320 Sum_probs=16.1
Q ss_pred CcceEEEEeccCCCEEEEEEcCC
Q psy16998 27 VEYIKLKVLSSDSNEIHFRVKMT 49 (98)
Q Consensus 27 ~~~I~lkV~~qdg~ev~FkIK~~ 49 (98)
..+|.|-+.+.||.-|+++|-..
T Consensus 72 ~~ri~LAiv~~DsTiVYY~i~~G 94 (101)
T PF09631_consen 72 PKRILLAIVDDDSTIVYYKIHDG 94 (101)
T ss_dssp --EEEEEEE-TTS-EEEEEEE--
T ss_pred CcEEEEEEEcCCCCEEEEEEeCC
Confidence 68999999999999999998643
No 81
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=45.70 E-value=54 Score=22.92 Aligned_cols=45 Identities=13% Similarity=0.113 Sum_probs=38.1
Q ss_pred CEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCC
Q psy16998 40 NEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHG 85 (98)
Q Consensus 40 ~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~T 85 (98)
.++...|..++.+..|..---++.++.+ ..=+++|||+-+..+..
T Consensus 15 ~~~~L~V~~~~TVg~LK~lImQ~f~V~P-~dQkL~~dG~~L~DDsr 59 (107)
T cd01795 15 GEKALLVSANQTLKELKIQIMHAFSVAP-FDQNLSIDGKILSDDCA 59 (107)
T ss_pred CCceEEeCccccHHHHHHHHHHHhcCCc-ccceeeecCceeccCCc
Confidence 3678889999999999999999999988 57899999996665553
No 82
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=45.19 E-value=73 Score=19.89 Aligned_cols=51 Identities=8% Similarity=-0.050 Sum_probs=35.9
Q ss_pred cceEEEEeccCCCEEEEEE--cCCC---chHHHHHHHHHHhcCCCCceeeeeeCCc
Q psy16998 28 EYIKLKVLSSDSNEIHFRV--KMTT---PMGKLKKSYSERVENKPMYKAMPMGTGL 78 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkI--K~~T---~L~KLm~aYc~r~gl~~~~s~rFlfDG~ 78 (98)
..+.|.+.+.+|..-.+++ .... -|..=...||+..+|.....+.|.++|.
T Consensus 32 ~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~n~L~~GD~~~F~~~~~ 87 (100)
T PF02362_consen 32 KSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLKEGDVCVFELIGN 87 (100)
T ss_dssp --CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--TT-EEEEEE-SS
T ss_pred CCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCCCCCEEEEEEecC
Confidence 4567888889998877777 4444 3667789999999999988899998863
No 83
>KOG0001|consensus
Probab=43.63 E-value=58 Score=18.09 Aligned_cols=57 Identities=12% Similarity=0.121 Sum_probs=43.8
Q ss_pred EEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCce
Q psy16998 32 LKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSF 89 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L 89 (98)
+.|....|..+.+.+...-.+.-+....+...|... ..-++.|-|..+..+.|=.+.
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~-~~q~~~~~~~~l~d~~~l~~~ 58 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPV-DQQRLIFGGKPLEDGRTLADY 58 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCC-eeEEEEECCEECcCCCcHHHh
Confidence 345557899999999999999999888888889987 467777777777766444433
No 84
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=42.80 E-value=58 Score=20.40 Aligned_cols=25 Identities=12% Similarity=0.182 Sum_probs=20.7
Q ss_pred CCcceEEEEeccCCCEEEEEEcCCC
Q psy16998 26 NVEYIKLKVLSSDSNEIHFRVKMTT 50 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev~FkIK~~T 50 (98)
+...+.+++.+.+|+.+.++|-+.|
T Consensus 52 ~~g~yev~~~~~dG~~~ev~vD~~t 76 (83)
T PF13670_consen 52 DDGCYEVEARDKDGKKVEVYVDPAT 76 (83)
T ss_pred CCCEEEEEEEECCCCEEEEEEcCCC
Confidence 3446888999999999999998766
No 85
>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=42.33 E-value=90 Score=19.93 Aligned_cols=45 Identities=16% Similarity=0.053 Sum_probs=34.9
Q ss_pred cceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM 74 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl 74 (98)
+.++|.|+=.+|+.+.-+-..+.+|.-|++..-. .|-+. ..++++
T Consensus 3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~-~~~~~-~~f~L~ 47 (80)
T cd01771 3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVAS-KGYPI-DEYKLL 47 (80)
T ss_pred CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCC-CCEEEe
Confidence 4567788889999999999999999999987754 46554 356654
No 86
>KOG1363|consensus
Probab=42.12 E-value=64 Score=27.48 Aligned_cols=55 Identities=9% Similarity=0.020 Sum_probs=39.8
Q ss_pred CCCCCCCCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998 20 SADGGDNVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT 76 (98)
Q Consensus 20 ~~~~~~~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD 76 (98)
.|+...+.+.|+|.|+-.+|....-+.++++++.-|++-+-..- ..+ ..+.|..+
T Consensus 374 ~EP~a~~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~~-~~~-~e~~~~~~ 428 (460)
T KOG1363|consen 374 PEPSASEEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSNG-FHP-EEYSLNTS 428 (460)
T ss_pred CCCCcCcccceeeEEECCCCCeeeeeeecccchhHHHHHHHhcc-CCc-hhhccccC
Confidence 34434467899999999999999999999999999887665544 333 24444433
No 87
>PRK13198 ureB urease subunit beta; Reviewed
Probab=41.17 E-value=41 Score=24.97 Aligned_cols=73 Identities=21% Similarity=0.278 Sum_probs=44.9
Q ss_pred CCCCCCCCcCCC-CCCCCCCCCCC---------C--CCCcceEEEEeccC------CCEE-EEEEcCCCchHHHHHHHHH
Q psy16998 1 MADNSSVSYQTS-KPPMKSSSADG---------G--DNVEYIKLKVLSSD------SNEI-HFRVKMTTPMGKLKKSYSE 61 (98)
Q Consensus 1 ~~~~~~~~~~~~-~~~~~~~~~~~---------~--~~~~~I~lkV~~qd------g~ev-~FkIK~~T~L~KLm~aYc~ 61 (98)
.|++|||++.+. +++.+++.... . ..-+.|+|+|.+.- |+.. +|.+.+...|.+ -.||--
T Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~pGei~~~~g~I~lN~gr~~~~l~V~NtGDRPIQVGSHyHF~EvN~aL~FDR-~~A~G~ 87 (158)
T PRK13198 9 IAEDSSMSAKKSTKDSKEQNTPLGGLVLAETPITFNENKPVTKVKVRNTGDRPIQVGSHFHFFEVNRALEFDR-AAAYGK 87 (158)
T ss_pred ehhhccCcccccCCCcccccCCCceEEeCCCCeEeCCCCcEEEEEEEeCCCCceEeccccchhhcCccccccH-hhhcCc
Confidence 367778776644 33333332111 1 13468899998743 4444 456776666654 368888
Q ss_pred HhcCCCCceeeee
Q psy16998 62 RVENKPMYKAMPM 74 (98)
Q Consensus 62 r~gl~~~~s~rFl 74 (98)
|..+....++||-
T Consensus 88 RLdIPAGTAVRFE 100 (158)
T PRK13198 88 RLNISSTTAIRFE 100 (158)
T ss_pred ccccCCCCeEeeC
Confidence 8888887888884
No 88
>PF08620 RPAP1_C: RPAP1-like, C-terminal; InterPro: IPR013929 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the C-terminal region that contains the motif GLHHH. This region is conserved from yeast to humans.
Probab=39.99 E-value=15 Score=23.84 Aligned_cols=11 Identities=9% Similarity=-0.312 Sum_probs=10.3
Q ss_pred eeeeeeCCccc
Q psy16998 70 KAMPMGTGLPF 80 (98)
Q Consensus 70 s~rFlfDG~rI 80 (98)
.+||-|+|..|
T Consensus 2 ~~RFdf~G~l~ 12 (73)
T PF08620_consen 2 ELRFDFDGNLL 12 (73)
T ss_pred CccccCCCCEe
Confidence 58999999999
No 89
>PF13860 FlgD_ig: FlgD Ig-like domain; PDB: 3C12_A 3OSV_A.
Probab=39.48 E-value=95 Score=19.38 Aligned_cols=47 Identities=4% Similarity=0.012 Sum_probs=28.9
Q ss_pred CCcceEEEEeccCCCEE-EEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCce
Q psy16998 26 NVEYIKLKVLSSDSNEI-HFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSF 89 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev-~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L 89 (98)
....++|.|.+..|+.| .+.+. .+.. ....|.+||..-.+..-|+-.
T Consensus 23 ~a~~v~v~I~d~~G~~V~t~~~~----------------~~~~-G~~~~~WdG~d~~G~~~~~G~ 70 (81)
T PF13860_consen 23 DADNVTVTIYDSNGQVVRTISLG----------------SQSA-GEHSFTWDGKDDDGNPVPDGT 70 (81)
T ss_dssp SCEEEEEEEEETTS-EEEEEEEE----------------ECSS-EEEEEEE-SB-TTS-B--SEE
T ss_pred cccEEEEEEEcCCCCEEEEEEcC----------------CcCC-ceEEEEECCCCCCcCCCCCCC
Confidence 34578999999999887 33332 1233 579999999998888766644
No 90
>KOG4248|consensus
Probab=37.16 E-value=49 Score=31.29 Aligned_cols=65 Identities=12% Similarity=0.096 Sum_probs=57.9
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
+||+|+.-|..+-.|.|---...+.+++.-....++.. ..=|+.|-|+-+..+++-.+... ||-+
T Consensus 3 ~~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s-~~qr~i~~grvl~~~k~vq~~~v-dgk~ 67 (1143)
T KOG4248|consen 3 PNVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPS-EKQRLIYQGRVLQDDKKVQEYNV-DGKV 67 (1143)
T ss_pred cceeeeecccceeEEEechHHHHHHHHHHHHHhccccc-ccceeeecceeeccchhhhhccC-CCeE
Confidence 56889999999999999999999999999999999986 68999999999999999888776 6644
No 91
>KOG0003|consensus
Probab=36.76 E-value=29 Score=24.74 Aligned_cols=62 Identities=11% Similarity=0.132 Sum_probs=51.5
Q ss_pred EeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCCc
Q psy16998 34 VLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSGT 96 (98)
Q Consensus 34 V~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~~ 96 (98)
|+.-.|..++..+-++-...-|.-..-++-|+++ ...|+.|+|..+....|-++..|---+|
T Consensus 5 ~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~-~~~~L~~~~k~LED~~Tla~Y~i~~~~T 66 (128)
T KOG0003|consen 5 VKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPP-DQQRLIFAGKQLEDGRTLADYNIQKEST 66 (128)
T ss_pred EEEeeCceEEEEecccchHHHHHHHhccccCCCH-HHHHHHhcccccccCCcccccCccchhh
Confidence 3445688899999999999999888888889998 6899999999999988988877754444
No 92
>PF05486 SRP9-21: Signal recognition particle 9 kDa protein (SRP9); InterPro: IPR008832 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the 9 kDa SRP9 component. Both SRP9 and SRP14 have the same (beta)-alpha-beta(3)-alpha fold. The heterodimer has pseudo two-fold symmetry and is saddle-like, consisting of a curved six-stranded beta-sheet that has four helices packed on the convex side and an exposed concave surface lined with positively charged residues. The SRP9/SRP14 heterodimer is essential for SRP RNA binding, mediating the pausing of synthesis of ribosome associated nascent polypeptides that have been engaged by the targeting domain of SRP [].; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0045900 negative regulation of translational elongation, 0048500 signal recognition particle; PDB: 1E8O_A 1RY1_C.
Probab=36.30 E-value=95 Score=20.03 Aligned_cols=33 Identities=9% Similarity=0.176 Sum_probs=24.8
Q ss_pred CCcceEEEEeccC-CCEEEEEEcCCCchHHHHHH
Q psy16998 26 NVEYIKLKVLSSD-SNEIHFRVKMTTPMGKLKKS 58 (98)
Q Consensus 26 ~~~~I~lkV~~qd-g~ev~FkIK~~T~L~KLm~a 58 (98)
....|.|||.+.. |..+.||..+..-+++|..+
T Consensus 37 ~~~~l~lK~td~~~g~clKykT~k~~dv~Rl~~~ 70 (79)
T PF05486_consen 37 PTGKLVLKTTDPHSGVCLKYKTDKAKDVSRLESF 70 (79)
T ss_dssp TTTBEEEEEE-SS---EEEEEE-SGGGHHHHHHH
T ss_pred CCceEEEEEeCCCceeEEEEEeCHHHHHHHHHHH
Confidence 4679999999854 77999999999999999864
No 93
>PRK10877 protein disulfide isomerase II DsbC; Provisional
Probab=34.64 E-value=22 Score=26.81 Aligned_cols=33 Identities=6% Similarity=-0.055 Sum_probs=26.3
Q ss_pred HHHHHHHhcCCCCceeeeee-CCcccCCCCCcCcee
Q psy16998 56 KKSYSERVENKPMYKAMPMG-TGLPFGQTHGGNSFY 90 (98)
Q Consensus 56 m~aYc~r~gl~~~~s~rFlf-DG~rI~~~~TP~~L~ 90 (98)
..++|++.|+. ++=.|+| ||+.|.+..+|++|+
T Consensus 191 ~~~la~~lgi~--gTPtiv~~~G~~~~G~~~~~~L~ 224 (232)
T PRK10877 191 HYALGVQFGVQ--GTPAIVLSNGTLVPGYQGPKEMK 224 (232)
T ss_pred hHHHHHHcCCc--cccEEEEcCCeEeeCCCCHHHHH
Confidence 46778899986 3556667 999999998988875
No 94
>PF13462 Thioredoxin_4: Thioredoxin; PDB: 3FEU_A 3HZ8_A 3DVW_A 3A3T_E 3GMF_A 1Z6M_A 3GYK_C 3BCK_A 3BD2_A 3BCI_A ....
Probab=34.10 E-value=24 Score=23.56 Aligned_cols=33 Identities=3% Similarity=-0.177 Sum_probs=25.9
Q ss_pred HHHHHHHhcCCCCceeeeeeCCcccCCCCCcCcee
Q psy16998 56 KKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFY 90 (98)
Q Consensus 56 m~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~ 90 (98)
...++.+.|+. .+=.|+.||+++.+..|+++|.
T Consensus 125 ~~~~~~~~~i~--~tPt~~inG~~~~~~~~~~~l~ 157 (162)
T PF13462_consen 125 DSQLARQLGIT--GTPTFFINGKYVVGPYTIEELK 157 (162)
T ss_dssp HHHHHHHHT-S--SSSEEEETTCEEETTTSHHHHH
T ss_pred HHHHHHHcCCc--cccEEEECCEEeCCCCCHHHHH
Confidence 34677888885 4778999999999888988875
No 95
>KOG3483|consensus
Probab=31.89 E-value=1.1e+02 Score=20.59 Aligned_cols=62 Identities=13% Similarity=0.183 Sum_probs=48.1
Q ss_pred CcceEEEEeccCCCEE---EEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCc
Q psy16998 27 VEYIKLKVLSSDSNEI---HFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNS 88 (98)
Q Consensus 27 ~~~I~lkV~~qdg~ev---~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~ 88 (98)
+.++..||.-...-++ +|.|--+|+|--+.+--++.+.+....+.-..-||.-|++-+|...
T Consensus 11 g~kv~fk~tltsdpklpfkv~svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agn 75 (94)
T KOG3483|consen 11 GSKVSFKITLTSDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGN 75 (94)
T ss_pred cceeEEEEEeccCCCCccceecCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccc
Confidence 3455556554444444 4556789999999999999999988788889999999999998754
No 96
>KOG3309|consensus
Probab=31.52 E-value=1.6e+02 Score=21.94 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=29.2
Q ss_pred CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCC
Q psy16998 26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKP 67 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~ 67 (98)
..+.|||..++.||.++..+.|-.-.+-.+ +.+.|++.
T Consensus 40 ~~e~i~Itfv~~dG~~~~i~g~vGdtlLd~----ah~n~idl 77 (159)
T KOG3309|consen 40 KVEDIKITFVDPDGEEIKIKGKVGDTLLDA----AHENNLDL 77 (159)
T ss_pred CCceEEEEEECCCCCEEEeeeecchHHHHH----HHHcCCCc
Confidence 445699999999999999999987766544 44556665
No 97
>PF10114 PocR: Sensory domain found in PocR; InterPro: IPR018771 This entry is thought to act as a sensory domain in histidine kinases catalysing the reaction: ATP + protein L-histidine = ADP + protein N- phospho-L-histidine.
Probab=31.52 E-value=60 Score=22.47 Aligned_cols=31 Identities=16% Similarity=0.244 Sum_probs=24.9
Q ss_pred chHHHHHHHHHHhcCCCCceeeeeeCCcccCCCC
Q psy16998 51 PMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTH 84 (98)
Q Consensus 51 ~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~ 84 (98)
.|++|+++|++-.|+. .+-+-.+|+.|....
T Consensus 9 ~lq~i~~~fs~~tgl~---~~i~d~~G~~l~~~~ 39 (173)
T PF10114_consen 9 ELQEIQDSFSKATGLS---IVIVDPDGNPLTQPS 39 (173)
T ss_pred HHHHHHHHHHHHHCCc---EEEEeCCCCEEeeCC
Confidence 4789999999999994 467789999994443
No 98
>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=31.44 E-value=1.3e+02 Score=18.68 Aligned_cols=60 Identities=15% Similarity=0.122 Sum_probs=43.4
Q ss_pred EEEeccC---CCEEEEEEcCCCchHHHHHHHHHHhcCCC---Cceeeeee-CC--cccCCCCCcCceee
Q psy16998 32 LKVLSSD---SNEIHFRVKMTTPMGKLKKSYSERVENKP---MYKAMPMG-TG--LPFGQTHGGNSFYC 91 (98)
Q Consensus 32 lkV~~qd---g~ev~FkIK~~T~L~KLm~aYc~r~gl~~---~~s~rFlf-DG--~rI~~~~TP~~L~~ 91 (98)
|||-..+ +....+.|.++|.-..|...-.++.+++. .+.+--.. +| +.|.++.-|-.+.+
T Consensus 5 lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~e~Pl~~~~ 73 (90)
T smart00314 5 LRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDDENPLQLQK 73 (90)
T ss_pred EEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCCCcceEehh
Confidence 6666666 88899999999999999999999999964 12333333 44 55666666655543
No 99
>PHA02697 hypothetical protein; Provisional
Probab=29.43 E-value=1.2e+02 Score=24.04 Aligned_cols=51 Identities=12% Similarity=0.173 Sum_probs=38.7
Q ss_pred CEEEEEEcC-CCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccC
Q psy16998 40 NEIHFRVKM-TTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNS 94 (98)
Q Consensus 40 ~ev~FkIK~-~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~ 94 (98)
.-|+|++|. ++...+||+.+-++.+-. -++-|.=||--+.+ .|-.+-++||
T Consensus 78 hVVFFqakQv~isVeeLY~~~~enl~~~--~~LYFVrD~L~fDG--sPPsFK~Vdg 129 (255)
T PHA02697 78 HVVLFKASVVDWRVEELFLGFGEKLGGL--DALYFVADGFYVDA--SPSRFKPVDG 129 (255)
T ss_pred EEEEEEeeeeceeHHHHHHHHHhcCCCc--eEEEEEecceEecc--CCCccccccc
Confidence 457999985 778999999999766543 36877777777666 6778888876
No 100
>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=29.39 E-value=1.7e+02 Score=19.27 Aligned_cols=45 Identities=18% Similarity=0.076 Sum_probs=33.8
Q ss_pred EEEEeccCCCEEEEEEcC-----CCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998 31 KLKVLSSDSNEIHFRVKM-----TTPMGKLKKSYSERVENKPMYKAMPMGT 76 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~-----~T~L~KLm~aYc~r~gl~~~~s~rFlfD 76 (98)
.|||.= +|.-..|++-. +..+..|.+--+++..+..+..+.+.|-
T Consensus 2 ~vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~ 51 (91)
T cd06398 2 VVKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYT 51 (91)
T ss_pred EEEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEE
Confidence 456533 45566899984 6999999999999999976556777663
No 101
>PF06793 UPF0262: Uncharacterised protein family (UPF0262); InterPro: IPR008321 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=28.59 E-value=1.3e+02 Score=22.37 Aligned_cols=35 Identities=14% Similarity=0.221 Sum_probs=27.0
Q ss_pred CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHH
Q psy16998 26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYS 60 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc 60 (98)
...++-+-|.+.+|..+.=-+-.-|||++|++-|-
T Consensus 59 ~d~RLvfdI~~e~~~~~~~~~LsL~PfRrvikDYf 93 (158)
T PF06793_consen 59 QDNRLVFDIRDEDGEPLATHHLSLTPFRRVIKDYF 93 (158)
T ss_pred EcCEEEEEecCCCCCEeeEEEeccccHHHHHHHHH
Confidence 45677777888888877555666899999999883
No 102
>PF05688 DUF824: Salmonella repeat of unknown function (DUF824); InterPro: IPR008542 This family consists of a series of repeated sequences (of around 180 residues) which are found in Salmonella typhimurium, Salmonella typhi and Escherichia coli. These repeats are almost always found with this entry. The repeats are associated with RatA and RatB, the coding sequences of which are found in the pathogeneicity island of Salmonella. The sequences may be determinants of pathogenicity [, ].
Probab=28.53 E-value=64 Score=19.19 Aligned_cols=27 Identities=11% Similarity=0.193 Sum_probs=18.6
Q ss_pred CCcceEEEEeccCCCEE---EEEEcCCCch
Q psy16998 26 NVEYIKLKVLSSDSNEI---HFRVKMTTPM 52 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev---~FkIK~~T~L 52 (98)
+.-.++|.|++..|+-+ .|.|++....
T Consensus 13 e~I~ltVt~kda~G~pv~n~~f~l~r~~~~ 42 (47)
T PF05688_consen 13 ETIPLTVTVKDANGNPVPNAPFTLTRGDAK 42 (47)
T ss_pred CeEEEEEEEECCCCCCcCCceEEEEecCcc
Confidence 44566677777778654 8999887643
No 103
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=28.30 E-value=1.4e+02 Score=17.89 Aligned_cols=40 Identities=13% Similarity=0.063 Sum_probs=31.7
Q ss_pred EEEEEEcCCCchHHHHHHHHHHhcC----CCCceeeeeeCCcccC
Q psy16998 41 EIHFRVKMTTPMGKLKKSYSERVEN----KPMYKAMPMGTGLPFG 81 (98)
Q Consensus 41 ev~FkIK~~T~L~KLm~aYc~r~gl----~~~~s~rFlfDG~rI~ 81 (98)
++.+-+...+.+..|.+..+.+++- .. ..+++..||+.|.
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~-~~~~v~vNg~~v~ 60 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELL-ARVRIAVNGEYVR 60 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhh-hcEEEEECCeEcC
Confidence 4566676788999999999988642 23 4799999999998
No 104
>COG4806 RhaA L-rhamnose isomerase [Carbohydrate transport and metabolism]
Probab=28.12 E-value=45 Score=27.70 Aligned_cols=20 Identities=15% Similarity=0.210 Sum_probs=17.9
Q ss_pred CCCchHHHHHHHHHHhcCCC
Q psy16998 48 MTTPMGKLKKSYSERVENKP 67 (98)
Q Consensus 48 ~~T~L~KLm~aYc~r~gl~~ 67 (98)
++-|+.-+.+.||+|.|+.+
T Consensus 380 K~~P~~aiW~~yCe~~~VPv 399 (419)
T COG4806 380 KSLPWQAVWEMYCQRHDVPV 399 (419)
T ss_pred hcCCHHHHHHHHHHhcCCCc
Confidence 47789999999999999976
No 105
>PF06134 RhaA: L-rhamnose isomerase (RhaA); InterPro: IPR009308 This family consists of several bacterial L-rhamnose isomerase proteins (5.3.1.14 from EC). This enzyme interconverts L-rhamnose and L-rhamnulose. In some species, including Escherichia coli, this is the first step in rhamnose catabolism. Sequential steps are catalyzed by rhamnulose kinase (rhaB), then rhamnulose-1-phosphate aldolase (rhaD) to yield glycerone phosphate and (S)-lactaldehyde. ; GO: 0008740 L-rhamnose isomerase activity, 0030145 manganese ion binding, 0019299 rhamnose metabolic process; PDB: 1DE5_A 1D8W_D 1DE6_B 3P14_B 3UU0_B.
Probab=27.62 E-value=55 Score=27.73 Aligned_cols=20 Identities=25% Similarity=0.330 Sum_probs=17.6
Q ss_pred CCCchHHHHHHHHHHhcCCC
Q psy16998 48 MTTPMGKLKKSYSERVENKP 67 (98)
Q Consensus 48 ~~T~L~KLm~aYc~r~gl~~ 67 (98)
++.|+.-+.+.||.+.|+.+
T Consensus 379 K~~P~gaVwd~yC~~~~vP~ 398 (417)
T PF06134_consen 379 KSLPFGAVWDYYCERNGVPV 398 (417)
T ss_dssp CCSSHHHHHHHHHHHTTS-S
T ss_pred hcCCHHHHHHHHHHHcCCCC
Confidence 58899999999999999976
No 106
>PF08308 PEGA: PEGA domain; InterPro: IPR013229 This domain is found in both archaea and bacteria and has similarity to S-layer (surface layer) proteins. It is named after the characteristic PEGA sequence motif found in this domain. The secondary structure of this domain is predicted to be beta-strands.
Probab=27.45 E-value=55 Score=19.55 Aligned_cols=24 Identities=17% Similarity=0.045 Sum_probs=15.0
Q ss_pred eeeeeeCCcccCCCCCcCceeeccCC
Q psy16998 70 KAMPMGTGLPFGQTHGGNSFYCVNSG 95 (98)
Q Consensus 70 s~rFlfDG~rI~~~~TP~~L~~~~~~ 95 (98)
......||..++ .||-++..+..|
T Consensus 12 gA~V~vdg~~~G--~tp~~~~~l~~G 35 (71)
T PF08308_consen 12 GAEVYVDGKYIG--TTPLTLKDLPPG 35 (71)
T ss_pred CCEEEECCEEec--cCcceeeecCCc
Confidence 456667776666 666666655544
No 107
>COG3906 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.12 E-value=40 Score=23.50 Aligned_cols=16 Identities=25% Similarity=0.632 Sum_probs=12.9
Q ss_pred EEEeccCCCEEEEEEc
Q psy16998 32 LKVLSSDSNEIHFRVK 47 (98)
Q Consensus 32 lkV~~qdg~ev~FkIK 47 (98)
|.+.+++|+++.|.|-
T Consensus 16 itL~DE~GnE~lf~~L 31 (105)
T COG3906 16 ITLIDEDGNEVLFEIL 31 (105)
T ss_pred EEEECCCCceehhhee
Confidence 5678999999988653
No 108
>PTZ00490 Ferredoxin superfamily; Provisional
Probab=26.97 E-value=1.9e+02 Score=20.75 Aligned_cols=29 Identities=14% Similarity=0.130 Sum_probs=23.2
Q ss_pred CCcceEEEEeccCCCEEEEEEcCCCchHH
Q psy16998 26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGK 54 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~K 54 (98)
.+..++|.|.++||.+..+.+...+.|-.
T Consensus 32 ~~g~v~I~~~~~dG~~~~v~~~~G~sLLe 60 (143)
T PTZ00490 32 TPGKVKVCVKKRDGTHCDVEVPVGMSLMH 60 (143)
T ss_pred CCCcEEEEEEcCCCCEEEEEECCCccHHH
Confidence 45789999999999888888887766544
No 109
>PF05932 CesT: Tir chaperone protein (CesT) family; InterPro: IPR010261 This family consists of a number of bacterial sequences, which are highly similar to the Tir chaperone protein in Escherichia coli. In many Gram-negative bacteria, a key indicator of pathogenic potential is the possession of a specialised type III secretion system, which is utilised to deliver virulence effector proteins directly into the host cell cytosol. Many of the proteins secreted from such systems require small cytosolic chaperones to maintain the secreted substrates in a secretion-competent state. CesT serves a chaperone function for the enteropathogenic E. coli (EPEC) translocated intimin receptor (Tir) protein, which confers upon EPEC the ability to alter host cell morphology following intimate bacterial attachment [].; GO: 0009405 pathogenesis, 0050708 regulation of protein secretion, 0005737 cytoplasm; PDB: 1K3E_A 3KXY_E 1S28_C 1JYA_B 1K6Z_B 2BSH_A 2BSJ_B 2BHO_A 2BSI_B 3EPU_A ....
Probab=26.77 E-value=1.2e+02 Score=19.02 Aligned_cols=26 Identities=15% Similarity=-0.086 Sum_probs=17.7
Q ss_pred HHHHHHHHHhcCC-----CCceeeeeeCCcc
Q psy16998 54 KLKKSYSERVENK-----PMYKAMPMGTGLP 79 (98)
Q Consensus 54 KLm~aYc~r~gl~-----~~~s~rFlfDG~r 79 (98)
+|++.+|++.|++ .++...|.|||..
T Consensus 1 ~ll~~l~~~lgl~~l~~d~~g~~~l~~~~~~ 31 (119)
T PF05932_consen 1 QLLAELGERLGLPPLEFDEDGACSLTVDGDF 31 (119)
T ss_dssp HHHHHHHHHHTCSCEESSTTSEEEEEETTTE
T ss_pred CHHHHHHHHhCCCCCCCCCCCEEEEEECCeE
Confidence 6899999999992 1234566665543
No 110
>PF14977 FAM194: FAM194 protein
Probab=26.64 E-value=62 Score=24.75 Aligned_cols=21 Identities=38% Similarity=0.488 Sum_probs=17.9
Q ss_pred CCcceEEEEeccCCCEEEEEE
Q psy16998 26 NVEYIKLKVLSSDSNEIHFRV 46 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev~FkI 46 (98)
-+++|+|+|.+||.-.|.|.=
T Consensus 119 lN~~i~vri~~qd~I~itF~~ 139 (208)
T PF14977_consen 119 LNEQIKVRILSQDKISITFTA 139 (208)
T ss_pred ecCcEEEEEeccceEEEEEee
Confidence 578999999999998888753
No 111
>PF07377 DUF1493: Protein of unknown function (DUF1493); InterPro: IPR010862 This family consists of several bacterial proteins of around 115 residues in length. Members of this family are largely found in Salmonella and Yersinia species and several have been described as being putative cytoplasmic proteins. The function of this family is unknown.
Probab=26.02 E-value=39 Score=22.68 Aligned_cols=20 Identities=15% Similarity=0.032 Sum_probs=16.9
Q ss_pred HHHHHHHHHHhcCCCCceeee
Q psy16998 53 GKLKKSYSERVENKPMYKAMP 73 (98)
Q Consensus 53 ~KLm~aYc~r~gl~~~~s~rF 73 (98)
..||++|+++.+++. +.+.|
T Consensus 45 ~elm~~f~~~F~Vd~-~~f~~ 64 (111)
T PF07377_consen 45 EELMEDFFERFNVDL-SDFDF 64 (111)
T ss_pred HHHHHHHHHHhCCCc-CccCH
Confidence 469999999999998 56666
No 112
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=25.53 E-value=2.7e+02 Score=21.19 Aligned_cols=45 Identities=9% Similarity=0.169 Sum_probs=32.3
Q ss_pred ceEEEEecc---CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeee
Q psy16998 29 YIKLKVLSS---DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPM 74 (98)
Q Consensus 29 ~I~lkV~~q---dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFl 74 (98)
+|.|++... .+....+.+-+.....-|.++-+++.|+++ ..+||+
T Consensus 176 rv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~~dP-~~lr~~ 223 (249)
T PF12436_consen 176 RVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLNVDP-EHLRFF 223 (249)
T ss_dssp EEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHTS-G-GGEEEE
T ss_pred eEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCCh-HHEEEE
Confidence 556666552 234788999999999999999999999999 589987
No 113
>KOG0011|consensus
Probab=24.98 E-value=1.7e+02 Score=24.31 Aligned_cols=57 Identities=14% Similarity=0.081 Sum_probs=46.2
Q ss_pred EEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhc--CCCCceeeeeeCCcccCCCCCcCc
Q psy16998 31 KLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVE--NKPMYKAMPMGTGLPFGQTHGGNS 88 (98)
Q Consensus 31 ~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~g--l~~~~s~rFlfDG~rI~~~~TP~~ 88 (98)
+|.|+.=.+..+...|++...+.-|++.-..-+| ... ....+.|+|.-+..+-|-.+
T Consensus 2 ~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~-~~QkLIy~GkiL~D~~tv~E 60 (340)
T KOG0011|consen 2 KLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPA-EQQKLIYSGKILKDETTVGE 60 (340)
T ss_pred eeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCch-hhheeeecceeccCCcchhh
Confidence 4666677788889999999999999999999999 554 46789999988877665443
No 114
>cd05484 retropepsin_like_LTR_2 Retropepsins_like_LTR, pepsin-like aspartate proteases. Retropepsin of retrotransposons with long terminal repeats are pepsin-like aspartate proteases. While fungal and mammalian pepsins are bilobal proteins with structurally related N- and C-termini, retropepsins are half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and retropepsins function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. Retroviral aspartyl protease is synthesized as part of the POL polyprotein that contains an aspartyl protease, a reverse transcriptase, RNase H, and an integrase. The POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate peptidases is classif
Probab=24.80 E-value=1.7e+02 Score=18.15 Aligned_cols=50 Identities=14% Similarity=0.307 Sum_probs=34.9
Q ss_pred ceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCC---CCceeeeeeCCcccC
Q psy16998 29 YIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENK---PMYKAMPMGTGLPFG 81 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~---~~~s~rFlfDG~rI~ 81 (98)
+++++| +|..+.|-|--.....-|-..-+.+.|.. +...--..++|.++.
T Consensus 2 ~~~~~I---ng~~i~~lvDTGA~~svis~~~~~~lg~~~~~~~~~~v~~a~G~~~~ 54 (91)
T cd05484 2 TVTLLV---NGKPLKFQLDTGSAITVISEKTWRKLGSPPLKPTKKRLRTATGTKLS 54 (91)
T ss_pred EEEEEE---CCEEEEEEEcCCcceEEeCHHHHHHhCCCccccccEEEEecCCCEee
Confidence 466676 66788999998888888888888888853 212334456776644
No 115
>PF02814 UreE_N: UreE urease accessory protein, N-terminal domain; InterPro: IPR004029 Urease and other nickel metalloenzymes are synthesised as precursors devoid of the metalloenzyme active site. These precursors then undergo a complex post-translational maturation process that requires a number of accessory proteins. Members of this group are nickel-binding proteins required for urease metallocentre assembly []. They are believed to function as metallochaperones to deliver nickel to urease apoprotein [, ]. It has been shown by yeast two-hybrid analysis that UreE forms a dimeric complex with UreG in Helicobacter pylori []. The UreDFG-apoenzyme complex has also been shown to exist [, ] and is believed to be, with the addition of UreE, the assembly system for active urease []. The complexes, rather than the individual proteins, presumably bind to UreB via UreE/H recognition sites. The structure of Klebsiella aerogenes UreE reveals a unique two-domain architecture.The N-terminal domain is structurally related to a heat shock protein, while the C-terminal domain shows homology to the Atx1 copper metallochaperone [, ]. Significantly, the metal-binding sites in UreE and Atx1 are distinct in location and types of residues despite the relationship between these proteins and the mechanism for UreE activation of urease is proposed to be different from the thiol ligand exchange mechanism used by the copper metallochaperones. The N-terminal domain is termed the peptide-binding domain. Deletion of this domain does not eliminate enzymatic activity, and the truncated protein can still activate urease [].; GO: 0016151 nickel ion binding, 0006461 protein complex assembly, 0019627 urea metabolic process; PDB: 3NXZ_B 3TJA_B 3LA0_B 3TJ9_B 3NY0_A 3L9Z_A 3TJ8_A 1EAR_A 1EB0_A 1GMU_B ....
Probab=24.46 E-value=1.2e+02 Score=18.28 Aligned_cols=26 Identities=19% Similarity=0.287 Sum_probs=17.0
Q ss_pred cceEEEEeccCCCEEEEEEcCCCchH
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTTPMG 53 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T~L~ 53 (98)
.+=.+++...+|.+|-+.+.+.+.|+
T Consensus 27 ~k~r~r~~t~~G~ei~i~L~r~~~L~ 52 (65)
T PF02814_consen 27 QKRRLRLTTDDGREIGIDLPRGTVLR 52 (65)
T ss_dssp TSSEEEEE-TTS-EEEEE-SSTTT--
T ss_pred cceEEEEECCCCCEEEEECCCCcccC
Confidence 34457888899999999999887653
No 116
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=24.45 E-value=1.9e+02 Score=19.67 Aligned_cols=34 Identities=12% Similarity=0.202 Sum_probs=26.4
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCC
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKP 67 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~ 67 (98)
|+|.+++.+|.+..+.+.... .|+++ +.+.|+++
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~---tLl~a-~~~~gi~i 34 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGM---SLLEA-AHENDIEL 34 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCC---cHHHH-HHHcCCCC
Confidence 688888999999888888775 45555 77788865
No 117
>PRK02853 hypothetical protein; Provisional
Probab=24.22 E-value=1.7e+02 Score=21.78 Aligned_cols=34 Identities=15% Similarity=0.314 Sum_probs=25.1
Q ss_pred CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHH
Q psy16998 26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSY 59 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aY 59 (98)
....+-+-|.+.+|..+.--+-.-|||+++.+-|
T Consensus 62 ~~~rLvfdI~~e~~~~~~~~~LsL~PfRrvvKDY 95 (161)
T PRK02853 62 QENRLVFDIRREDGEPVATHILSLTPFRRVVKDY 95 (161)
T ss_pred ecCeeEEEecCCCCCeeeEEEeccccHHHHHHHH
Confidence 3456667777778877654455579999999888
No 118
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=24.04 E-value=2.8e+02 Score=21.08 Aligned_cols=68 Identities=13% Similarity=0.083 Sum_probs=41.6
Q ss_pred CcceEEEEeccCCCEE----EEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCC------cccCCCCCcCceeeccCC
Q psy16998 27 VEYIKLKVLSSDSNEI----HFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTG------LPFGQTHGGNSFYCVNSG 95 (98)
Q Consensus 27 ~~~I~lkV~~qdg~ev----~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG------~rI~~~~TP~~L~~~~~~ 95 (98)
.--|=||.=|.....+ |+-|.++.++..|....|++.|++.+..+.| |.- ..|....|-.+.|..|||
T Consensus 68 ~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~l-yEEi~~~~ie~i~~~~t~~~~el~~Gd 145 (249)
T PF12436_consen 68 DILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLL-YEEIKPNMIEPIDPNQTFEKAELQDGD 145 (249)
T ss_dssp EEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEE-EEEEETTEEEE--SSSBHHHTT--TTE
T ss_pred cEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEE-EEEeccceeeEcCCCCchhhcccCCCC
Confidence 3466677777777776 7889999999999999999999987544443 322 234555555555555544
No 119
>KOG0439|consensus
Probab=23.83 E-value=98 Score=22.51 Aligned_cols=23 Identities=26% Similarity=0.410 Sum_probs=19.6
Q ss_pred ceEEEEeccCCCEEEEEEcCCCc
Q psy16998 29 YIKLKVLSSDSNEIHFRVKMTTP 51 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK~~T~ 51 (98)
.-.|++.+.....+.||||-+++
T Consensus 28 ~~~l~l~N~t~~~vaFKvktT~p 50 (218)
T KOG0439|consen 28 KCSLTLKNPTKLRVAFKVKTTAP 50 (218)
T ss_pred EEEEEEecCCCCceEEEEEcCCC
Confidence 45678888899999999998876
No 120
>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=23.81 E-value=2.3e+02 Score=18.87 Aligned_cols=55 Identities=16% Similarity=0.233 Sum_probs=36.3
Q ss_pred ceEEEEeccCCCEEEEEEc--CCCchHHHHHHHHHHh-cCCCCceeeeeeCCcccCCCC
Q psy16998 29 YIKLKVLSSDSNEIHFRVK--MTTPMGKLKKSYSERV-ENKPMYKAMPMGTGLPFGQTH 84 (98)
Q Consensus 29 ~I~lkV~~qdg~ev~FkIK--~~T~L~KLm~aYc~r~-gl~~~~s~rFlfDG~rI~~~~ 84 (98)
+|+|++.+. --.+...|. .+|.-..|+..-=++. .-....-+||.|+|+-+....
T Consensus 2 ~l~IRFs~s-ipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t 59 (97)
T PF10302_consen 2 YLTIRFSDS-IPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHT 59 (97)
T ss_pred eEEEEECCC-CCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccc
Confidence 466777662 122566666 7788888877666666 222346799999999887543
No 121
>COG3577 Predicted aspartyl protease [General function prediction only]
Probab=23.57 E-value=1e+02 Score=24.02 Aligned_cols=37 Identities=11% Similarity=0.029 Sum_probs=33.1
Q ss_pred CCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 38 DSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 38 dg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
+|..|+|-|-.....--|=++=|+|.|++. +++.|-+
T Consensus 113 NGk~v~fLVDTGATsVal~~~dA~RlGid~-~~l~y~~ 149 (215)
T COG3577 113 NGKKVDFLVDTGATSVALNEEDARRLGIDL-NSLDYTI 149 (215)
T ss_pred CCEEEEEEEecCcceeecCHHHHHHhCCCc-cccCCce
Confidence 889999999999999999999999999998 5666654
No 122
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=23.23 E-value=2.3e+02 Score=18.75 Aligned_cols=47 Identities=9% Similarity=0.192 Sum_probs=29.6
Q ss_pred EEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCccc--CCCCCcCce
Q psy16998 42 IHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPF--GQTHGGNSF 89 (98)
Q Consensus 42 v~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI--~~~~TP~~L 89 (98)
-.|+|..+-++..|..--+++.++... .--|+|=.+.+ .+|+|-.+|
T Consensus 18 ~k~kI~~~~~f~~vi~fLrk~Lk~~~~-~slFlYin~sFaPspDe~vg~L 66 (87)
T PF04110_consen 18 KKFKISASQTFATVIAFLRKKLKLKPS-DSLFLYINNSFAPSPDETVGDL 66 (87)
T ss_dssp -EEEEETTSBTHHHHHHHHHHCT-----SS-EEEEEEEE---TTSBHHHH
T ss_pred cEEEECCCCchHHHHHHHHHHhCCccC-CeEEEEEcCccCCCchhHHHHH
Confidence 389999999999999999999998764 44455544444 344444444
No 123
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=22.95 E-value=50 Score=20.98 Aligned_cols=14 Identities=14% Similarity=-0.040 Sum_probs=11.4
Q ss_pred ceeeeeeCCcccCC
Q psy16998 69 YKAMPMGTGLPFGQ 82 (98)
Q Consensus 69 ~s~rFlfDG~rI~~ 82 (98)
..++|.|||+.+..
T Consensus 2 ~~v~i~idG~~v~~ 15 (82)
T PF13510_consen 2 KMVTITIDGKPVEV 15 (82)
T ss_dssp EEEEEEETTEEEEE
T ss_pred CEEEEEECCEEEEE
Confidence 36999999998854
No 124
>PRK13703 conjugal pilus assembly protein TraF; Provisional
Probab=22.84 E-value=1.4e+02 Score=23.20 Aligned_cols=39 Identities=8% Similarity=0.059 Sum_probs=27.4
Q ss_pred EEEEEEcCCCc----hHHHHHHHHHHhcCCCCceeeeeeCCcccCC
Q psy16998 41 EIHFRVKMTTP----MGKLKKSYSERVENKPMYKAMPMGTGLPFGQ 82 (98)
Q Consensus 41 ev~FkIK~~T~----L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~ 82 (98)
.++|=.+-+.+ +.-+.+.+++++|+++ +-+-+||..+..
T Consensus 146 GL~fFy~s~Cp~C~~~aPil~~fa~~yg~~v---~~VS~DG~~~p~ 188 (248)
T PRK13703 146 GLMFFYRGQDPIDGQLAQVINDFRDTYGLSV---IPVSVDGVINPL 188 (248)
T ss_pred eEEEEECCCCchhHHHHHHHHHHHHHhCCeE---EEEecCCCCCCC
Confidence 34444445554 5567799999999954 888899976644
No 125
>KOG3439|consensus
Probab=22.17 E-value=2.9e+02 Score=19.52 Aligned_cols=53 Identities=8% Similarity=0.147 Sum_probs=40.1
Q ss_pred cceEEEEeccCCCE----EEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeCCcccC
Q psy16998 28 EYIKLKVLSSDSNE----IHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFG 81 (98)
Q Consensus 28 ~~I~lkV~~qdg~e----v~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~ 81 (98)
.+|+|+.+.-.+.- -.|+|.++-.+.++..---++.+|+.+ .--|+|=.+.+.
T Consensus 29 ~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as-~slflYVN~sFA 85 (116)
T KOG3439|consen 29 RKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQAS-DSLFLYVNNSFA 85 (116)
T ss_pred ceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCccc-CeEEEEEcCccC
Confidence 56777776644433 389999999999999999999999874 566777655554
No 126
>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=21.83 E-value=2.5e+02 Score=18.64 Aligned_cols=45 Identities=4% Similarity=-0.006 Sum_probs=33.9
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeee
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMG 75 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlf 75 (98)
|+||+ ...|.-+.+.+..++.+..|.+--.+...+.....++.-|
T Consensus 1 i~~K~-~y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw 45 (83)
T cd06404 1 VRVKA-AYNGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKW 45 (83)
T ss_pred CeEEE-EecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEE
Confidence 45555 3578888999999999999998888888776544555444
No 127
>PHA02994 hypothetical protein; Provisional
Probab=20.95 E-value=2.2e+02 Score=22.24 Aligned_cols=52 Identities=23% Similarity=0.188 Sum_probs=39.7
Q ss_pred CEEEEEEcC-CCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCceeeccCC
Q psy16998 40 NEIHFRVKM-TTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSFYCVNSG 95 (98)
Q Consensus 40 ~ev~FkIK~-~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L~~~~~~ 95 (98)
.-|+|++|. +.+..+|++.+-+..+-+. ++-|.=||--+.+ .|-++-++|.+
T Consensus 65 ~vVFyq~kQlsisv~~Ly~~l~~~~~~~~--~iyFV~D~l~fDG--~PPsFr~v~~d 117 (218)
T PHA02994 65 ALVFYQVKQLSISVEKLYNSMMRNRIKPI--KIYFVRDNLAFDG--IPPSFRMVNID 117 (218)
T ss_pred EEEEEEEEEeeeeHHHHHHHHHhcCCCce--EEEEEeeceeecc--CCCcceeecch
Confidence 456999985 7889999999998666543 6777766666665 78888888875
No 128
>PRK08452 flagellar protein FlaG; Provisional
Probab=20.93 E-value=2.2e+02 Score=20.03 Aligned_cols=39 Identities=5% Similarity=0.075 Sum_probs=28.6
Q ss_pred CCcceEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcC
Q psy16998 26 NVEYIKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVEN 65 (98)
Q Consensus 26 ~~~~I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl 65 (98)
+...+-|+|.+.+..+|.=.| |.-.+-+|+...++..|+
T Consensus 80 ~~~~~vVkVvD~~T~eVIRqI-P~Ee~L~l~~~m~e~~Gl 118 (124)
T PRK08452 80 KIKGLVVSVKEANGGKVIREI-PSKEAIELMEYMRDVIGI 118 (124)
T ss_pred CCCcEEEEEEECCCCceeeeC-CCHHHHHHHHHHHHhhhh
Confidence 445788899998887864444 577778888888887776
No 129
>PF00635 Motile_Sperm: MSP (Major sperm protein) domain; InterPro: IPR000535 Major sperm proteins (MSP) are central components in molecular interactions underlying sperm motility in Caenorhabditis elegans, whose sperm employ an amoebae-like crawling motion using a MSP-containing lamellipod, rather than the flagellar-based swimming motion associated with other sperm. These proteins oligomerise to form an extensive filament system that extends from sperm villipoda, along the leading edge of the pseudopod. About 30 MSP isoforms may exist in C. elegans. MSPs form a fibrous network, whereby MSP dimers form helical subfilaments that coil around one another to produce filaments, which in turn form supercoils to produce bundles. The crystal structure of MSP from C. elegans reveals an immunoglobulin (Ig)-like seven-stranded beta sandwich fold []. ; GO: 0005198 structural molecule activity; PDB: 1MSP_A 3MSP_B 2BVU_B 2MSP_C 1Z9O_F 1Z9L_A 3IKK_A 1WIC_A 2CRI_A 2RR3_A ....
Probab=20.77 E-value=1.3e+02 Score=18.97 Aligned_cols=24 Identities=25% Similarity=0.505 Sum_probs=18.2
Q ss_pred cceEEEEeccCCCEEEEEEcCCCc
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTTP 51 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T~ 51 (98)
..-.|++.+.....|.||||-+.+
T Consensus 20 ~~~~l~l~N~s~~~i~fKiktt~~ 43 (109)
T PF00635_consen 20 QSCELTLTNPSDKPIAFKIKTTNP 43 (109)
T ss_dssp EEEEEEEEE-SSSEEEEEEEES-T
T ss_pred EEEEEEEECCCCCcEEEEEEcCCC
Confidence 577788888888899999996654
No 130
>PRK11675 LexA regulated protein; Provisional
Probab=20.51 E-value=1e+02 Score=20.77 Aligned_cols=29 Identities=7% Similarity=0.022 Sum_probs=24.8
Q ss_pred CCEEEEEEcCCCchHHHHHHHHHHhcCCC
Q psy16998 39 SNEIHFRVKMTTPMGKLKKSYSERVENKP 67 (98)
Q Consensus 39 g~ev~FkIK~~T~L~KLm~aYc~r~gl~~ 67 (98)
..-..+.||-+..+..-.+.||+..|+..
T Consensus 48 ~glKRveVKldedl~ekL~eyAe~~nitR 76 (90)
T PRK11675 48 RGLKRVELKLNADLVDALNELAEARNISR 76 (90)
T ss_pred cCceeEEEEECHHHHHHHHHHHHHcCCCH
Confidence 33458888889999999999999999975
No 131
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=20.31 E-value=70 Score=22.32 Aligned_cols=41 Identities=20% Similarity=0.144 Sum_probs=27.6
Q ss_pred CCcceEEEEeccC-----CCEEEEEEcCCCchHHHHHHHHHHhcCCCCceeeeeeC
Q psy16998 26 NVEYIKLKVLSSD-----SNEIHFRVKMTTPMGKLKKSYSERVENKPMYKAMPMGT 76 (98)
Q Consensus 26 ~~~~I~lkV~~qd-----g~ev~FkIK~~T~L~KLm~aYc~r~gl~~~~s~rFlfD 76 (98)
+..+|+|+=-.-+ +=...|+||..+.|++|.+ | ..+.|.|+
T Consensus 50 ~akKVTl~He~i~~l~mp~MTM~F~Vkd~a~lsglKe------G----dkV~fvfe 95 (108)
T COG5569 50 EAKKVTLHHEPIKNLNMPAMTMVFRVKDQAKLSGLKE------G----DKVEFVFE 95 (108)
T ss_pred ccceEEEeccchhhCCCcceEEEEEeccHHHhhcccc------C----CcEEEEEE
Confidence 5677877643322 3457999999999998743 2 35666664
No 132
>PF04194 PDCD2_C: Programmed cell death protein 2, C-terminal putative domain ; InterPro: IPR007320 PDCD2 is localized predominantly in the cytosol of cells situated at the opposite pole of the germinal centre from the centroblasts as well as in cells in the mantle zone. It has been shown to interact with BCL6, an evolutionarily conserved Kruppel-type zinc finger protein that functions as a strong transcriptional repressor and is required for germinal centre development. The rat homologue, Rp8, is associated with programmed cell death in thymocytes.; GO: 0005737 cytoplasm
Probab=20.30 E-value=1.1e+02 Score=21.91 Aligned_cols=42 Identities=12% Similarity=0.033 Sum_probs=35.3
Q ss_pred CCCchHHHHHHHHHHhcCCCCceeeeeeCCcccCCCCCcCce
Q psy16998 48 MTTPMGKLKKSYSERVENKPMYKAMPMGTGLPFGQTHGGNSF 89 (98)
Q Consensus 48 ~~T~L~KLm~aYc~r~gl~~~~s~rFlfDG~rI~~~~TP~~L 89 (98)
....-.+.|..|.+|....+..-||.-++|.+|-...++...
T Consensus 52 ~~~~~D~~f~~F~~rl~~~P~QvlRY~~gG~PLw~s~~~~~~ 93 (164)
T PF04194_consen 52 EEDEVDKAFLKFQKRLSRNPEQVLRYCRGGKPLWISSTPIPP 93 (164)
T ss_pred cccccCHHHHHHHHHHhcCCCeEEEECCCCeEEEecCCCCCc
Confidence 456777999999999999999999999999988777655543
No 133
>KOG2523|consensus
Probab=20.18 E-value=85 Score=23.77 Aligned_cols=50 Identities=16% Similarity=0.180 Sum_probs=32.8
Q ss_pred cceEEEEeccCCCEEEEEEcCCC--chHHHHHHHH---HHhcCCCCceeeeeeCCccc
Q psy16998 28 EYIKLKVLSSDSNEIHFRVKMTT--PMGKLKKSYS---ERVENKPMYKAMPMGTGLPF 80 (98)
Q Consensus 28 ~~I~lkV~~qdg~ev~FkIK~~T--~L~KLm~aYc---~r~gl~~~~s~rFlfDG~rI 80 (98)
+||.|-.. +|..++|+....- |=-+|..-|= -++.+|. +.++|+..|..|
T Consensus 57 d~i~L~s~--~G~~~fF~~~dg~~~PTLRllhk~p~~~~~~qvD~-GAIkfvlsGAnI 111 (181)
T KOG2523|consen 57 DHIELLSV--NGEVLFFCHRDGPYIPTLRLLHKYPFIFPHVQVDR-GAIKFVLSGANI 111 (181)
T ss_pred CeeEEEEe--CCEEEEEEecCCCccchhHHHhhCCCccceEEecC-cceeeeecCCce
Confidence 45655554 4888899988633 3334444432 3446886 699999999887
No 134
>PF03479 DUF296: Domain of unknown function (DUF296); InterPro: IPR005175 This putative conserved domain is found in proteins that contain AT-hook motifs IPR000637 from INTERPRO, suggesting a DNA-binding function for the proteins as a whole, however, the function of this domain is unknown. Overexpression of a protein containing this domain, Q9S7C9 from SWISSPROT, in Arabidopsis thaliana causes late flowering and modified leaf development []. ; PDB: 2DT4_A 2P6Y_A 3HWU_A 3HTN_A 2NMU_A 2H6L_A 2HX0_A.
Probab=20.15 E-value=2.3e+02 Score=19.00 Aligned_cols=28 Identities=4% Similarity=0.042 Sum_probs=24.4
Q ss_pred CEEEEEEcCCCchHHHHHHHHHHhcCCC
Q psy16998 40 NEIHFRVKMTTPMGKLKKSYSERVENKP 67 (98)
Q Consensus 40 ~ev~FkIK~~T~L~KLm~aYc~r~gl~~ 67 (98)
+.+.+|+.+...+..=+.+||++.++..
T Consensus 2 r~~~~rl~~Gedl~~~l~~~~~~~~i~~ 29 (120)
T PF03479_consen 2 RVFVIRLDPGEDLLESLEAFAREHGIRS 29 (120)
T ss_dssp EEEEEEEETTSBHHHHHHHHHHHHT-SS
T ss_pred cEEEEEECCCCHHHHHHHHHHHHCCCcE
Confidence 4578999999999999999999999964
No 135
>COG5417 Uncharacterized small protein [Function unknown]
Probab=20.00 E-value=2.8e+02 Score=18.44 Aligned_cols=69 Identities=10% Similarity=0.054 Sum_probs=53.6
Q ss_pred eEEEEeccCCCEEEEEEcCCCchHHHHHHHHHHhcCCC----CceeeeeeCCcccCCCCCcCceeeccCCcCC
Q psy16998 30 IKLKVLSSDSNEIHFRVKMTTPMGKLKKSYSERVENKP----MYKAMPMGTGLPFGQTHGGNSFYCVNSGTSE 98 (98)
Q Consensus 30 I~lkV~~qdg~ev~FkIK~~T~L~KLm~aYc~r~gl~~----~~s~rFlfDG~rI~~~~TP~~L~~~~~~~~~ 98 (98)
|++-.....|.+.-.++----|.+||.+--.+-..++. ...+|.+=-++-+.+++--.+.+.+|||-+|
T Consensus 7 VTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Le 79 (81)
T COG5417 7 VTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILE 79 (81)
T ss_pred EEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEE
Confidence 34444667899999999999999999999888776532 1357777778888888888888889988654
Done!