Query psy17656
Match_columns 85
No_of_seqs 113 out of 499
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 19:37:25 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17656.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17656hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3530|consensus 99.8 5.1E-21 1.1E-25 152.1 5.0 65 19-83 7-71 (616)
2 PF09379 FERM_N: FERM N-termin 99.8 2.7E-20 6E-25 113.0 6.4 57 27-83 1-58 (80)
3 KOG3531|consensus 99.7 2.4E-17 5.1E-22 135.4 7.2 68 16-83 33-100 (1036)
4 KOG3527|consensus 99.7 1.2E-17 2.6E-22 137.2 4.0 65 19-83 28-92 (975)
5 KOG3529|consensus 99.4 9E-14 1.9E-18 111.7 2.1 66 17-83 8-73 (596)
6 smart00295 B41 Band 4.1 homolo 99.3 3.8E-11 8.3E-16 82.1 8.2 63 21-83 2-65 (207)
7 KOG0792|consensus 99.2 1E-11 2.2E-16 104.3 5.6 63 21-83 21-84 (1144)
8 cd01777 SNX27_RA Ubiquitin dom 97.7 8.4E-05 1.8E-09 47.1 4.8 48 23-70 2-51 (87)
9 cd01760 RBD Ubiquitin-like dom 95.6 0.039 8.5E-07 33.5 4.8 45 24-69 1-45 (72)
10 smart00455 RBD Raf-like Ras-bi 95.6 0.081 1.8E-06 31.8 6.1 44 25-69 2-45 (70)
11 cd06407 PB1_NLP A PB1 domain i 95.6 0.1 2.3E-06 32.3 6.7 52 24-76 2-53 (82)
12 PF00788 RA: Ras association ( 95.4 0.18 3.9E-06 30.2 7.4 52 23-74 3-60 (93)
13 PF02196 RBD: Raf-like Ras-bin 95.4 0.071 1.5E-06 32.0 5.5 38 24-61 2-39 (71)
14 smart00666 PB1 PB1 domain. Pho 94.4 0.36 7.8E-06 28.6 6.7 50 23-74 2-51 (81)
15 PF11976 Rad60-SLD: Ubiquitin- 94.3 0.22 4.9E-06 28.9 5.6 48 23-70 1-48 (72)
16 PF00789 UBX: UBX domain; Int 94.3 0.29 6.2E-06 29.3 6.1 49 19-67 3-51 (82)
17 cd01763 Sumo Small ubiquitin-r 93.6 0.47 1E-05 29.1 6.2 42 18-59 7-48 (87)
18 cd06409 PB1_MUG70 The MUG70 pr 93.2 0.54 1.2E-05 29.6 6.1 51 26-76 4-56 (86)
19 cd01817 RGS12_RBD Ubiquitin do 92.4 0.4 8.6E-06 29.5 4.5 36 24-59 1-36 (73)
20 cd01806 Nedd8 Nebb8-like ubiq 92.3 0.48 1E-05 27.4 4.8 37 23-59 1-37 (76)
21 cd01768 RA RA (Ras-associating 92.3 1.1 2.3E-05 26.9 6.4 47 25-71 2-52 (87)
22 cd06408 PB1_NoxR The PB1 domai 92.2 1.3 2.8E-05 27.9 6.8 47 22-71 2-48 (86)
23 cd01787 GRB7_RA RA (RAS-associ 92.1 0.87 1.9E-05 28.7 5.9 45 23-67 3-47 (85)
24 smart00314 RA Ras association 91.7 1.1 2.3E-05 27.2 6.0 47 23-69 3-53 (90)
25 PF11470 TUG-UBL1: GLUT4 regul 91.4 0.71 1.5E-05 27.5 4.8 43 27-70 1-43 (65)
26 PF00564 PB1: PB1 domain; Int 91.4 1.7 3.6E-05 25.7 6.5 51 23-74 2-52 (84)
27 cd06396 PB1_NBR1 The PB1 domai 91.2 1.7 3.6E-05 27.1 6.4 50 24-77 2-53 (81)
28 cd01809 Scythe_N Ubiquitin-lik 90.5 1.4 3E-05 25.1 5.5 45 23-68 1-45 (72)
29 cd01818 TIAM1_RBD Ubiquitin do 90.5 0.77 1.7E-05 28.5 4.4 44 26-69 3-47 (77)
30 KOG3784|consensus 89.7 0.87 1.9E-05 36.0 5.2 50 21-70 106-157 (407)
31 cd06398 PB1_Joka2 The PB1 doma 89.5 2.9 6.2E-05 26.3 6.6 51 25-76 3-58 (91)
32 smart00213 UBQ Ubiquitin homol 89.5 1.9 4E-05 23.7 5.3 45 23-69 1-45 (64)
33 cd06397 PB1_UP1 Uncharacterize 88.9 2.3 5.1E-05 26.7 5.7 48 25-74 3-50 (82)
34 cd01807 GDX_N ubiquitin-like d 88.5 1.6 3.5E-05 25.6 4.7 38 23-60 1-38 (74)
35 cd05992 PB1 The PB1 domain is 87.0 4.4 9.4E-05 23.7 6.1 47 25-73 3-50 (81)
36 cd01805 RAD23_N Ubiquitin-like 86.6 2.7 5.8E-05 24.5 4.9 36 23-58 1-36 (77)
37 PF11543 UN_NPL4: Nuclear pore 86.5 2.1 4.5E-05 26.2 4.5 40 21-61 3-42 (80)
38 PTZ00044 ubiquitin; Provisiona 86.4 2.7 5.9E-05 24.4 4.8 37 23-59 1-37 (76)
39 cd01803 Ubiquitin Ubiquitin. U 86.3 2.6 5.7E-05 24.2 4.7 37 23-59 1-37 (76)
40 cd01792 ISG15_repeat1 ISG15 ub 86.3 3.1 6.8E-05 24.8 5.2 36 23-58 3-38 (80)
41 smart00166 UBX Domain present 86.0 5 0.00011 23.9 6.0 47 21-68 3-49 (80)
42 cd01770 p47_UBX p47-like ubiqu 85.8 5.1 0.00011 24.3 6.0 47 22-68 4-50 (79)
43 cd00196 UBQ Ubiquitin-like pro 85.0 3.4 7.3E-05 20.9 4.4 43 27-70 2-44 (69)
44 cd01804 midnolin_N Ubiquitin-l 84.1 4.8 0.0001 24.0 5.3 36 23-58 2-37 (78)
45 cd06406 PB1_P67 A PB1 domain i 83.5 7.6 0.00016 24.2 6.0 47 23-72 3-49 (80)
46 cd01767 UBX UBX (ubiquitin reg 83.2 6.8 0.00015 23.1 5.6 44 23-68 3-46 (77)
47 KOG3531|consensus 82.6 0.073 1.6E-06 45.5 -4.3 64 19-83 174-238 (1036)
48 COG5227 SMT3 Ubiquitin-like pr 79.8 7.7 0.00017 25.1 5.2 61 5-68 9-69 (103)
49 KOG2378|consensus 79.5 15 0.00032 30.1 7.8 64 16-81 229-292 (573)
50 PF14847 Ras_bdg_2: Ras-bindin 78.1 6.4 0.00014 25.5 4.5 37 24-60 2-38 (105)
51 cd01802 AN1_N ubiquitin-like d 78.1 10 0.00022 24.1 5.5 43 17-59 22-64 (103)
52 cd01774 Faf1_like2_UBX Faf1 ik 78.0 13 0.00029 22.8 6.3 46 21-68 3-48 (85)
53 PF13019 Telomere_Sde2: Telome 77.5 10 0.00023 26.5 5.7 47 23-69 1-51 (162)
54 cd01775 CYR1_RA Ubiquitin doma 75.0 20 0.00042 23.2 7.3 58 22-80 2-59 (97)
55 cd01798 parkin_N amino-termina 74.7 9.2 0.0002 22.0 4.3 35 26-60 2-36 (70)
56 cd01772 SAKS1_UBX SAKS1-like U 74.1 16 0.00034 21.9 5.3 36 22-57 4-39 (79)
57 cd01794 DC_UbP_C dendritic cel 70.1 15 0.00033 21.5 4.5 34 26-59 2-35 (70)
58 cd06404 PB1_aPKC PB1 domain is 68.8 26 0.00056 22.0 5.6 51 25-76 3-53 (83)
59 cd01812 BAG1_N Ubiquitin-like 68.8 17 0.00038 20.4 4.5 35 24-59 2-36 (71)
60 PF00240 ubiquitin: Ubiquitin 68.6 19 0.00041 20.2 5.0 31 29-59 2-32 (69)
61 cd01791 Ubl5 UBL5 ubiquitin-li 68.3 22 0.00049 21.0 5.2 36 23-58 2-37 (73)
62 cd01769 UBL Ubiquitin-like dom 67.5 17 0.00038 19.9 4.2 41 27-68 2-42 (69)
63 cd01771 Faf1_UBX Faf1 UBX doma 67.1 20 0.00043 21.8 4.7 44 22-67 4-47 (80)
64 KOG4261|consensus 66.7 4.5 9.8E-05 34.9 2.2 48 21-68 83-130 (1003)
65 cd01810 ISG15_repeat2 ISG15 ub 66.5 16 0.00035 21.2 4.1 42 26-68 2-43 (74)
66 TIGR01961 NuoC_fam NADH (or F4 59.4 6.3 0.00014 25.3 1.5 32 50-81 72-106 (121)
67 cd01813 UBP_N UBP ubiquitin pr 57.6 36 0.00078 20.1 4.5 35 24-59 2-36 (74)
68 cd01796 DDI1_N DNA damage indu 57.6 34 0.00074 19.8 4.4 35 26-60 2-37 (71)
69 PRK07735 NADH dehydrogenase su 56.9 6.9 0.00015 31.2 1.6 31 51-81 379-412 (430)
70 PRK15031 5-carboxymethyl-2-hyd 54.5 11 0.00024 25.1 2.0 46 21-69 60-106 (126)
71 cd00419 Ferrochelatase_C Ferro 53.6 26 0.00056 23.1 3.7 36 45-81 43-78 (135)
72 cd01808 hPLIC_N Ubiquitin-like 53.0 42 0.00091 19.2 5.1 44 24-69 2-45 (71)
73 PRK12494 NADH dehydrogenase su 52.9 6.7 0.00015 27.3 0.9 32 50-81 115-149 (172)
74 KOG0005|consensus 52.9 37 0.00079 20.4 3.9 48 23-70 1-52 (70)
75 cd01773 Faf1_like1_UBX Faf1 ik 47.4 66 0.0014 19.8 6.2 45 21-67 4-48 (82)
76 cd01797 NIRF_N amino-terminal 47.1 60 0.0013 19.3 5.0 46 23-69 1-48 (78)
77 cd01776 Rin1_RA Ubiquitin doma 44.9 69 0.0015 20.3 4.4 46 34-80 15-60 (87)
78 PF03603 DNA_III_psi: DNA poly 42.9 30 0.00065 23.0 2.7 47 24-70 28-75 (128)
79 KOG2689|consensus 42.3 63 0.0014 24.7 4.6 39 15-57 203-241 (290)
80 cd01800 SF3a120_C Ubiquitin-li 41.4 59 0.0013 18.9 3.7 30 30-59 5-34 (76)
81 cd02639 R3H_RRM R3H domain of 39.3 38 0.00081 19.7 2.5 28 35-62 18-47 (60)
82 PF02962 CHMI: 5-carboxymethyl 39.0 30 0.00064 22.9 2.3 46 21-69 59-105 (124)
83 PRK06074 NADH dehydrogenase su 38.8 15 0.00032 25.9 0.8 32 50-81 102-136 (189)
84 CHL00012 ndhJ NADH dehydrogena 38.7 23 0.00049 24.6 1.7 30 52-81 103-135 (158)
85 PF00329 Complex1_30kDa: Respi 37.8 67 0.0015 19.9 3.7 52 23-81 43-94 (103)
86 TIGR02582 cas_TM1809 CRISPR-as 37.7 68 0.0015 22.7 4.1 38 29-66 152-193 (204)
87 cd01790 Herp_N Homocysteine-re 37.7 97 0.0021 18.9 5.0 35 23-57 2-38 (79)
88 TIGR00601 rad23 UV excision re 37.0 81 0.0017 24.7 4.7 35 23-57 1-35 (378)
89 PF15016 DUF4520: Domain of un 35.8 1.1E+02 0.0024 19.1 4.4 22 21-42 47-68 (85)
90 PF14533 USP7_C2: Ubiquitin-sp 35.4 87 0.0019 22.1 4.3 29 33-61 34-62 (213)
91 cd06401 PB1_TFG The PB1 domain 34.6 1.2E+02 0.0025 18.9 5.8 49 25-74 3-54 (81)
92 PF08817 YukD: WXG100 protein 33.9 1E+02 0.0022 18.1 4.8 40 23-62 3-42 (79)
93 COG3232 HpaF 5-carboxymethyl-2 33.8 39 0.00084 22.8 2.1 30 40-69 76-106 (127)
94 PLN02560 enoyl-CoA reductase 33.5 1.8E+02 0.0039 22.0 6.0 46 24-69 2-50 (308)
95 KOG1363|consensus 32.7 1.2E+02 0.0027 24.4 5.2 50 17-68 378-427 (460)
96 cd01816 Raf_RBD Ubiquitin doma 32.4 1.2E+02 0.0027 18.6 4.5 35 25-59 2-36 (74)
97 KOG3751|consensus 30.2 1.4E+02 0.0031 25.0 5.2 41 19-59 185-225 (622)
98 PF14039 YusW: YusW-like prote 26.9 50 0.0011 20.8 1.7 33 36-68 55-88 (92)
99 PF00762 Ferrochelatase: Ferro 26.7 1.2E+02 0.0025 22.9 3.9 34 45-81 209-242 (316)
100 KOG0010|consensus 26.1 2.1E+02 0.0045 23.5 5.4 39 19-58 12-50 (493)
101 KOG1769|consensus 25.6 1.9E+02 0.0042 18.6 6.5 40 20-59 18-57 (99)
102 PF01337 Barstar: Barstar (bar 25.2 88 0.0019 18.6 2.6 27 37-65 3-29 (90)
103 PF00349 Hexokinase_1: Hexokin 24.9 2.4E+02 0.0053 19.9 5.1 37 21-57 74-118 (206)
104 PRK12435 ferrochelatase; Provi 24.2 91 0.002 23.5 3.0 33 46-81 200-233 (311)
105 cd01783 DAGK_delta_RA Ubiquiti 24.1 1.6E+02 0.0034 18.9 3.6 38 32-69 16-55 (97)
106 PRK07785 NADH dehydrogenase su 24.0 38 0.00083 25.0 0.9 31 51-81 167-200 (235)
107 PRK00745 4-oxalocrotonate taut 23.5 59 0.0013 17.9 1.5 40 25-67 4-43 (62)
108 PF00794 PI3K_rbd: PI3-kinase 23.4 1.9E+02 0.0041 17.8 6.4 52 19-70 13-70 (106)
109 KOG3309|consensus 22.6 2.8E+02 0.0061 19.4 5.4 38 15-55 36-73 (159)
110 PF02824 TGS: TGS domain; Int 22.4 1.6E+02 0.0034 16.5 3.7 28 25-54 1-28 (60)
111 PF09243 Rsm22: Mitochondrial 22.4 2.2E+02 0.0049 20.7 4.7 35 15-51 229-263 (274)
112 KOG3137|consensus 22.2 1.8E+02 0.004 21.7 4.1 44 21-71 198-241 (267)
113 cd03590 CLECT_DC-SIGN_like C-t 21.3 1.7E+02 0.0036 17.7 3.4 32 51-82 47-78 (126)
114 cd01779 Myosin_IXb_RA ubitquit 21.0 2.5E+02 0.0054 18.3 4.8 63 19-81 7-74 (105)
115 PF06100 Strep_67kDa_ant: Stre 21.0 72 0.0016 26.1 1.9 21 42-62 409-429 (500)
116 PF08299 Bac_DnaA_C: Bacterial 20.8 42 0.0009 19.6 0.5 20 46-65 3-22 (70)
117 KOG1364|consensus 20.7 1.5E+02 0.0033 23.2 3.6 52 19-70 274-325 (356)
118 PF13718 GNAT_acetyltr_2: GNAT 20.5 1.2E+02 0.0026 21.7 2.8 32 39-70 102-158 (196)
119 TIGR03045 PS_II_C550 cytochrom 20.4 69 0.0015 22.1 1.6 28 32-59 41-68 (159)
No 1
>KOG3530|consensus
Probab=99.83 E-value=5.1e-21 Score=152.05 Aligned_cols=65 Identities=38% Similarity=0.683 Sum_probs=62.3
Q ss_pred CCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCeeccccCCC
Q psy17656 19 KGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEMVNY 83 (85)
Q Consensus 19 ~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~K~ 83 (85)
..+.+.|+|.||||+.+.+++.++++|++|||+||.+|+|+|+|||||+|.|..++++||||.|+
T Consensus 7 ~k~~~~C~V~LLd~sdl~~~~pk~akGq~Lld~V~~~ldl~E~DYFGLry~D~~~~~hWLD~tK~ 71 (616)
T KOG3530|consen 7 SKKDVYCRVLLLDGSDLSINFPKTAKGQELLDYVFYHLDLIEKDYFGLRYQDSSKVRHWLDPTKS 71 (616)
T ss_pred CCcceEEEEEEecCccceeccCcccchHHHHHHHHHhhceeeeeccceeeechhhcceecCcchh
Confidence 44779999999999999999999999999999999999999999999999999999999999985
No 2
>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=99.82 E-value=2.7e-20 Score=113.02 Aligned_cols=57 Identities=39% Similarity=0.817 Sum_probs=54.0
Q ss_pred EEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE-ecCCCCeeccccCCC
Q psy17656 27 ITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY-DNKYDPQCWLEMVNY 83 (85)
Q Consensus 27 V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y-~d~~~~~~WLd~~K~ 83 (85)
|.||||+..+++++++++|++||++||++|+|.|.+||||+| .++++..+|||++|+
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~ 58 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKK 58 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSB
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCccc
Confidence 789999999999999999999999999999999999999999 788899999999985
No 3
>KOG3531|consensus
Probab=99.70 E-value=2.4e-17 Score=135.36 Aligned_cols=68 Identities=37% Similarity=0.648 Sum_probs=65.1
Q ss_pred CCCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCeeccccCCC
Q psy17656 16 KPLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEMVNY 83 (85)
Q Consensus 16 ~~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~K~ 83 (85)
+...++...+.|.+||++...|.|+.+|.|++||++||+||||+|.|||||+|.|.+++++|||+.|+
T Consensus 33 ~~~~gk~~~~~~~~~~~~~~~f~~~~ka~g~vll~~vc~~lnl~e~dyfglef~~~~~~~~wld~~kp 100 (1036)
T KOG3531|consen 33 PFHLGKICFFFCVMLDDTTEVFLVQHKAIGQVLLDQVCRHLNLVECDYFGLEFQDINGNHCWLDLEKP 100 (1036)
T ss_pred CccCCceEEEEEEEecCceeEEeecccccchHHHHHHHHhhceeeccccceeeccccCceEEecccch
Confidence 45688999999999999999999999999999999999999999999999999999999999999997
No 4
>KOG3527|consensus
Probab=99.69 E-value=1.2e-17 Score=137.24 Aligned_cols=65 Identities=48% Similarity=0.844 Sum_probs=62.6
Q ss_pred CCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCeeccccCCC
Q psy17656 19 KGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEMVNY 83 (85)
Q Consensus 19 ~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~K~ 83 (85)
.++...|+|.|||++.++|.++++++|++||+.||+||||+|+|||||.|.++..++.|||+.|+
T Consensus 28 ~~k~~~~~vtlld~s~~~~~~ek~~kg~~~~~~vc~~LnliEkdyfgl~~~~~~~~~~wlD~~k~ 92 (975)
T KOG3527|consen 28 VTKDAICKVTLLDGSEYSCDVEKHAKGQVLFDKVCEHLNLLEKDYFGLTYLTSSEQKNWLDPAKE 92 (975)
T ss_pred cCCCccceEEEeeCCcceeeeecccccchhHHHHhhccchhhhhhceeEEecCCCCccccccchh
Confidence 45889999999999999999999999999999999999999999999999999999999999985
No 5
>KOG3529|consensus
Probab=99.40 E-value=9e-14 Score=111.71 Aligned_cols=66 Identities=30% Similarity=0.479 Sum_probs=61.4
Q ss_pred CCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCeeccccCCC
Q psy17656 17 PLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEMVNY 83 (85)
Q Consensus 17 ~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~K~ 83 (85)
.+..+.+.|+|.++|+... |.++++.+|++||++||+++||.|++||||+|.|..++.+||.++|.
T Consensus 8 ~~~~~~~~~rv~~~d~e~~-~~i~~~~t~~~l~dlv~~~~glre~~yfgl~~~d~~~~~~wl~~d~~ 73 (596)
T KOG3529|consen 8 SKMTKPINVRVTTMDAELE-FAIQPKTTGKQLFDLVVKTIGLRESWYFGLQYTDSKGEPTWLKLDKK 73 (596)
T ss_pred ccccCCcceeeeehhhhhh-hhhCcchhHHHHHHHHhccCCCchhhhcccccccCCCCcchhhccch
Confidence 3566789999999998666 99999999999999999999999999999999999999999999874
No 6
>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=99.25 E-value=3.8e-11 Score=82.11 Aligned_cols=63 Identities=30% Similarity=0.676 Sum_probs=57.5
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCe-eccccCCC
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQ-CWLEMVNY 83 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~-~WLd~~K~ 83 (85)
+.+.|+|.++||+..++.+++.++++++++.||++++|.+..||||.+.+.++.. .||++.+.
T Consensus 2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~~~~F~L~~~~~~~~~~~~l~~~~~ 65 (207)
T smart00295 2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRESEYFGLQFEDPDEDLSHWLDPAKT 65 (207)
T ss_pred CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCccceeEEEEEcCCCCcCeeCCCccC
Confidence 5689999999999999999999999999999999999999999999999976555 89997653
No 7
>KOG0792|consensus
Probab=99.24 E-value=1e-11 Score=104.30 Aligned_cols=63 Identities=32% Similarity=0.601 Sum_probs=59.7
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceee-EEEecCCCCeeccccCCC
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFG-LTYDNKYDPQCWLEMVNY 83 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFG-L~y~d~~~~~~WLd~~K~ 83 (85)
..+.|++.|||++..+|++....+||++++.||++|+|.|++||| +.+.++.++..|||++|+
T Consensus 21 s~v~~~i~llds~~~eftls~es~gQ~~ld~V~qrL~~~e~~yFgl~~~~~k~~~~rWvdleK~ 84 (1144)
T KOG0792|consen 21 SCVVCRILLLDSDVVEFTLSSESTGQELLDAVAQRLELREKEYFGLLWSPDKPDQIRWVDLEKP 84 (1144)
T ss_pred ceEEEEEEecCCceEEEEEecCCCchhHHHHHhhhhcccccccccccccCCccCccceeccchh
Confidence 689999999999999999999999999999999999999999999 667778899999999985
No 8
>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=97.72 E-value=8.4e-05 Score=47.11 Aligned_cols=48 Identities=17% Similarity=0.272 Sum_probs=43.3
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCccc--ceeeEEEec
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLER--DYFGLTYDN 70 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~--dYFGL~y~d 70 (85)
...+|.|+||+.+.+.+..+....++|+.||+.|+|.+. .||+|--..
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~YFaLFev~ 51 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQNYFALFEVI 51 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhheeeeEEe
Confidence 568999999999999999999999999999999999754 699997654
No 9
>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=95.61 E-value=0.039 Score=33.55 Aligned_cols=45 Identities=13% Similarity=0.184 Sum_probs=37.6
Q ss_pred EEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEe
Q psy17656 24 VAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYD 69 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~ 69 (85)
.|+|.|+||+...+.+.+..+-.++++.+|+.-||.-..| .+...
T Consensus 1 ~~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~-~v~~~ 45 (72)
T cd01760 1 LCRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECC-DVFLL 45 (72)
T ss_pred CEEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHE-EEEEe
Confidence 3899999999999999999999999999999999864333 34443
No 10
>smart00455 RBD Raf-like Ras-binding domain.
Probab=95.57 E-value=0.081 Score=31.78 Aligned_cols=44 Identities=11% Similarity=0.120 Sum_probs=37.3
Q ss_pred EEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEe
Q psy17656 25 AHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYD 69 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~ 69 (85)
|+|.|+|++...+.+.+..+-.++++.+|+.-|| +.+.-.+...
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l-~~~~~~v~~~ 45 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGL-NPECCVVRLR 45 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCC-CHHHEEEEEc
Confidence 8999999999999999999999999999999998 3444444443
No 11
>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=95.56 E-value=0.1 Score=32.28 Aligned_cols=52 Identities=12% Similarity=0.109 Sum_probs=43.3
Q ss_pred EEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCee
Q psy17656 24 VAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQC 76 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~ 76 (85)
.+++..=+ ....|.+.+...=++|.+.|.+.+++.+..-|-|.|.|..|.++
T Consensus 2 ~vK~~~~~-d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Ddegd~v 53 (82)
T cd06407 2 RVKATYGE-EKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDDDEEWV 53 (82)
T ss_pred EEEEEeCC-eEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECCCCCeE
Confidence 46666644 47889999999999999999999999776899999999876543
No 12
>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=95.44 E-value=0.18 Score=30.24 Aligned_cols=52 Identities=12% Similarity=0.201 Sum_probs=43.9
Q ss_pred EEEEEEecCCC----EEEEEeccCccHhHHHHHHHhhcCC-cccceeeEE-EecCCCC
Q psy17656 23 EVAHITLLDGS----LLDVTIERKAKGEDLFDRVCDHLNL-LERDYFGLT-YDNKYDP 74 (85)
Q Consensus 23 ~~~~V~LLD~t----~~~~~v~~ka~G~~Ll~~Vc~~L~L-~E~dYFGL~-y~d~~~~ 74 (85)
..++|..-|++ ..++.|.+.++++++..++++.+++ .+...|.|. +....+.
T Consensus 3 ~~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~ 60 (93)
T PF00788_consen 3 GVLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGE 60 (93)
T ss_dssp EEEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTE
T ss_pred eEEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCE
Confidence 46889999998 8999999999999999999999999 677899996 5444343
No 13
>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=95.43 E-value=0.071 Score=32.04 Aligned_cols=38 Identities=16% Similarity=0.255 Sum_probs=32.4
Q ss_pred EEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCccc
Q psy17656 24 VAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLER 61 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~ 61 (85)
.|+|.|+|++...+.+.+..+-++.+..+|+.-+|.-.
T Consensus 2 ~~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~ 39 (71)
T PF02196_consen 2 TCRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPE 39 (71)
T ss_dssp EEEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CC
T ss_pred eEEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHH
Confidence 58999999999999999999999999999999888533
No 14
>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=94.41 E-value=0.36 Score=28.64 Aligned_cols=50 Identities=20% Similarity=0.302 Sum_probs=41.6
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDP 74 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~ 74 (85)
+.++|.. .+....+.+.+..+=.+|.+.|.+.+++.. .-|.|.|.|.+|.
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~-~~~~l~Y~Dedgd 51 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDN-QSFTLKYQDEDGD 51 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCC-CCeEEEEECCCCC
Confidence 4566776 566788999999999999999999999765 6689999997765
No 15
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=94.34 E-value=0.22 Score=28.90 Aligned_cols=48 Identities=13% Similarity=0.329 Sum_probs=41.5
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEec
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDN 70 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d 70 (85)
+.+.|...++....+.|.+.++=+.|++..|+..++....-|-|.|.+
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG 48 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDG 48 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETT
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECC
Confidence 467889999999999999999999999999999999886667777753
No 16
>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=94.27 E-value=0.29 Score=29.26 Aligned_cols=49 Identities=27% Similarity=0.314 Sum_probs=42.4
Q ss_pred CCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEE
Q psy17656 19 KGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLT 67 (85)
Q Consensus 19 ~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~ 67 (85)
......++|+++||+.+.-...+..+-++|++-|-.++...+...|-|.
T Consensus 3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~ 51 (82)
T PF00789_consen 3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELI 51 (82)
T ss_dssp TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEE
T ss_pred CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEE
Confidence 3466899999999999999999999999999999988887776667774
No 17
>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=93.56 E-value=0.47 Score=29.12 Aligned_cols=42 Identities=17% Similarity=0.166 Sum_probs=39.0
Q ss_pred CCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 18 LKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 18 ~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
..+..+.+.|..++|..+.|.|.+.++=+.|+++.|++-++.
T Consensus 7 ~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~ 48 (87)
T cd01763 7 EISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLS 48 (87)
T ss_pred CCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCC
Confidence 466789999999999999999999999999999999999984
No 18
>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=93.19 E-value=0.54 Score=29.57 Aligned_cols=51 Identities=12% Similarity=0.148 Sum_probs=42.1
Q ss_pred EEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcc--cceeeEEEecCCCCee
Q psy17656 26 HITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLE--RDYFGLTYDNKYDPQC 76 (85)
Q Consensus 26 ~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E--~dYFGL~y~d~~~~~~ 76 (85)
+..-+.|....|.+.+...=.+|...|.++|++.. ..-|.|.|.|.++.++
T Consensus 4 K~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~V 56 (86)
T cd06409 4 KFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDIV 56 (86)
T ss_pred EeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCEE
Confidence 33455678888999988888999999999999875 4799999999877654
No 19
>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=92.39 E-value=0.4 Score=29.47 Aligned_cols=36 Identities=22% Similarity=0.346 Sum_probs=33.4
Q ss_pred EEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 24 VAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
.|+|.|+||+...+.+.+..+=++++...|+.-||.
T Consensus 1 ~crV~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~ 36 (73)
T cd01817 1 LCRVILPDGSTTVVPTRPGESIRDLLSGLCEKRGIN 36 (73)
T ss_pred CcEEECCCCCeEEEEecCCCCHHHHHHHHHHHcCCC
Confidence 389999999999999999999999999999998885
No 20
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=92.33 E-value=0.48 Score=27.43 Aligned_cols=37 Identities=22% Similarity=0.329 Sum_probs=33.6
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
+.+.|..++|....+.+.+..+-.+|.+++++..++.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~ 37 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIP 37 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCC
Confidence 4678999999999999999999999999999998864
No 21
>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=92.27 E-value=1.1 Score=26.94 Aligned_cols=47 Identities=11% Similarity=0.232 Sum_probs=39.8
Q ss_pred EEEEecC---CCEEEEEeccCccHhHHHHHHHhhcCCc-ccceeeEEEecC
Q psy17656 25 AHITLLD---GSLLDVTIERKAKGEDLFDRVCDHLNLL-ERDYFGLTYDNK 71 (85)
Q Consensus 25 ~~V~LLD---~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~-E~dYFGL~y~d~ 71 (85)
++|..-| ++..++.|.+.++.++++..+.+..++. ....|.|.=.-.
T Consensus 2 ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~ 52 (87)
T cd01768 2 LRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLG 52 (87)
T ss_pred EEEeCCcCCCccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEEC
Confidence 4566666 8889999999999999999999999998 667888875543
No 22
>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=92.20 E-value=1.3 Score=27.89 Aligned_cols=47 Identities=11% Similarity=0.111 Sum_probs=41.7
Q ss_pred eEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecC
Q psy17656 22 IEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNK 71 (85)
Q Consensus 22 ~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~ 71 (85)
.+.++|+.-++ ...+.|.+...=++|.+.|.+.+++. +.|.++|.|.
T Consensus 2 ~ikVKv~~~~D-v~~i~v~~~i~f~dL~~kIrdkf~~~--~~~~iKykDE 48 (86)
T cd06408 2 KIRVKVHAQDD-TRYIMIGPDTGFADFEDKIRDKFGFK--RRLKIKMKDD 48 (86)
T ss_pred cEEEEEEecCc-EEEEEcCCCCCHHHHHHHHHHHhCCC--CceEEEEEcC
Confidence 36788887666 88889999999999999999999995 6999999998
No 23
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=92.09 E-value=0.87 Score=28.69 Aligned_cols=45 Identities=13% Similarity=0.267 Sum_probs=40.2
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEE
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLT 67 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~ 67 (85)
..|+|.+.||+...+.|....++.++.++.++.-.+.......|-
T Consensus 3 ~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~~~W~Lv 47 (85)
T cd01787 3 QVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDDSSWTLV 47 (85)
T ss_pred eEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCCCCeEEE
Confidence 579999999999999999999999999999999888777766664
No 24
>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=91.70 E-value=1.1 Score=27.17 Aligned_cols=47 Identities=13% Similarity=0.278 Sum_probs=38.9
Q ss_pred EEEEEEecC---CCEEEEEeccCccHhHHHHHHHhhcCCcc-cceeeEEEe
Q psy17656 23 EVAHITLLD---GSLLDVTIERKAKGEDLFDRVCDHLNLLE-RDYFGLTYD 69 (85)
Q Consensus 23 ~~~~V~LLD---~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E-~dYFGL~y~ 69 (85)
..++|..-| ++..++.|.+.++.++++.++.+..++.. ...|.|-=.
T Consensus 3 ~~lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~ 53 (90)
T smart00314 3 FVLRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEV 53 (90)
T ss_pred eEEEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEE
Confidence 356677666 88899999999999999999999999976 567777644
No 25
>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=91.44 E-value=0.71 Score=27.50 Aligned_cols=43 Identities=12% Similarity=0.274 Sum_probs=29.4
Q ss_pred EEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEec
Q psy17656 27 ITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDN 70 (85)
Q Consensus 27 V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d 70 (85)
|...++....+.+.|.+.=.++++++|++.++... -++|.|.+
T Consensus 1 vi~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~-~~~L~h~~ 43 (65)
T PF11470_consen 1 VICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPS-SYDLKHNN 43 (65)
T ss_dssp EE-TTS-EEEE---TTSBHHHHHHHHHHHTT--GG-G-EEEETT
T ss_pred CCccCCcEEEEEECCCCCHHHHHHHHHHHcCCCcc-ceEEEECC
Confidence 34567888999999999999999999999998654 66888754
No 26
>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=91.40 E-value=1.7 Score=25.67 Aligned_cols=51 Identities=14% Similarity=0.209 Sum_probs=42.8
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDP 74 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~ 74 (85)
+.+++..-++....+.+.+...=.+|.+.|.+.+++. ..-|.|.|.|.+|.
T Consensus 2 ~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~-~~~~~l~Y~D~dgD 52 (84)
T PF00564_consen 2 VRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLL-DEDFQLKYKDEDGD 52 (84)
T ss_dssp EEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTS-TSSEEEEEEETTSS
T ss_pred EEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCC-CccEEEEeeCCCCC
Confidence 5677777776556688999899999999999999988 67799999998773
No 27
>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=91.17 E-value=1.7 Score=27.14 Aligned_cols=50 Identities=10% Similarity=0.076 Sum_probs=39.9
Q ss_pred EEEEEecCCCEEEEEecc--CccHhHHHHHHHhhcCCcccceeeEEEecCCCCeec
Q psy17656 24 VAHITLLDGSLLDVTIER--KAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCW 77 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~--ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~W 77 (85)
.+++.. .|....|.+++ ...=.+|...|-..++|. -|.|.|.|.++.++=
T Consensus 2 ~vKaty-~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~---~f~lKYlDde~e~v~ 53 (81)
T cd06396 2 NLKVTY-NGESQSFLVSDSENTTWASVEAMVKVSFGLN---DIQIKYVDEENEEVS 53 (81)
T ss_pred EEEEEE-CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC---cceeEEEcCCCCEEE
Confidence 345555 44578889988 557899999999999998 999999998887553
No 28
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=90.55 E-value=1.4 Score=25.13 Aligned_cols=45 Identities=18% Similarity=0.268 Sum_probs=37.2
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
+.+.|..++|....+.+++..+-.+|-+++.+..++ ..+..-|.|
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi-~~~~q~L~~ 45 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGI-PVEQQRLIY 45 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCc-CHHHeEEEE
Confidence 467889999999999999999999999999999887 334445555
No 29
>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=90.46 E-value=0.77 Score=28.51 Aligned_cols=44 Identities=18% Similarity=0.289 Sum_probs=37.5
Q ss_pred EEEecCCCEEEEEeccCccHhHHHHHHHhhcCCccc-ceeeEEEe
Q psy17656 26 HITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLER-DYFGLTYD 69 (85)
Q Consensus 26 ~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~-dYFGL~y~ 69 (85)
.|.++||....+.|.+.-+..++|+.+|..=+|--. .|.-|.+.
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~Lrlk~~ 47 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYLRLKFL 47 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHheeEEEEE
Confidence 588999999999999999999999999999998644 45556655
No 30
>KOG3784|consensus
Probab=89.69 E-value=0.87 Score=35.96 Aligned_cols=50 Identities=20% Similarity=0.333 Sum_probs=43.7
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCccc--ceeeEEEec
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLER--DYFGLTYDN 70 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~--dYFGL~y~d 70 (85)
......|.++||+..++.+..+.+...+|..||..|++... -||||.-+.
T Consensus 106 ~~v~l~v~lpng~~i~i~~~~s~tt~~vl~~v~~kl~l~~e~i~~f~lFlvr 157 (407)
T KOG3784|consen 106 EEVELDVFLPNGEKITINCLVSDTASLVLKSVCRKLGLPDELIGYFGLFLVR 157 (407)
T ss_pred ceeEEEEEccCCceEEEEEEecccHHHHHHHHHhhcCCchHhhhheeeeEEe
Confidence 45677888999999999999999999999999999999732 599998764
No 31
>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=89.49 E-value=2.9 Score=26.33 Aligned_cols=51 Identities=18% Similarity=0.247 Sum_probs=40.3
Q ss_pred EEEEecCCCEEEEEecc-----CccHhHHHHHHHhhcCCcccceeeEEEecCCCCee
Q psy17656 25 AHITLLDGSLLDVTIER-----KAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQC 76 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~~-----ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~ 76 (85)
++|.. +|....|.++. ...-..|.+.|.+.++|..-.-|-|.|.|.+|...
T Consensus 3 vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~Dedgd~V 58 (91)
T cd06398 3 VKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDEDGDVV 58 (91)
T ss_pred EEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCEE
Confidence 45555 45566777774 57899999999999999887899999999877543
No 32
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=89.46 E-value=1.9 Score=23.71 Aligned_cols=45 Identities=11% Similarity=0.211 Sum_probs=35.8
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEe
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYD 69 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~ 69 (85)
+.+.|..++ ....+.+.+..+..+|..++++..++. .+.+-|.|.
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~-~~~~~L~~~ 45 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIP-VEQQRLIYK 45 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCC-HHHEEEEEC
Confidence 357888888 688999999999999999999999974 334555443
No 33
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction 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.
Probab=88.94 E-value=2.3 Score=26.66 Aligned_cols=48 Identities=19% Similarity=0.205 Sum_probs=35.3
Q ss_pred EEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCC
Q psy17656 25 AHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDP 74 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~ 74 (85)
.+|...++ ...|.++..-.=..|.+.++...+|.+-. ||+.|.|++|-
T Consensus 3 fKv~~~g~-~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~-~~vtYiDeD~D 50 (82)
T cd06397 3 FKSSFLGD-TRRIVFPDIPTWEALASKLENLYNLPEIK-VGVTYIDNDND 50 (82)
T ss_pred EEEEeCCc-eEEEecCCCccHHHHHHHHHHHhCCChhH-eEEEEEcCCCC
Confidence 35555554 44555555556677899999999999876 99999998754
No 34
>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=88.49 E-value=1.6 Score=25.60 Aligned_cols=38 Identities=26% Similarity=0.344 Sum_probs=34.2
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcc
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLE 60 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E 60 (85)
+.+.|..++|....++|.+..+-.+|-+++++.-|+..
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~ 38 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPE 38 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCH
Confidence 46788999999999999999999999999999998754
No 35
>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=86.99 E-value=4.4 Score=23.67 Aligned_cols=47 Identities=17% Similarity=0.249 Sum_probs=38.1
Q ss_pred EEEEecCCCEEEEEec-cCccHhHHHHHHHhhcCCcccceeeEEEecCCC
Q psy17656 25 AHITLLDGSLLDVTIE-RKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYD 73 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~-~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~ 73 (85)
+++..-+ ....+.+. ....=.+|.+.|++.+++.. .-|.+.|.|.+|
T Consensus 3 vK~~~~~-~~~~~~~~~~~~s~~~L~~~i~~~~~~~~-~~~~l~y~D~e~ 50 (81)
T cd05992 3 VKVKYGG-EIRRFVVVSRSISFEDLRSKIAEKFGLDA-VSFKLKYPDEDG 50 (81)
T ss_pred EEEEecC-CCEEEEEecCCCCHHHHHHHHHHHhCCCC-CcEEEEeeCCCC
Confidence 4555554 46777777 88889999999999999876 778999999877
No 36
>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=86.60 E-value=2.7 Score=24.47 Aligned_cols=36 Identities=6% Similarity=0.117 Sum_probs=32.8
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNL 58 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L 58 (85)
|.+.|..++|..+.+++++..+-.+|-+++++..++
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i 36 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGC 36 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCC
Confidence 467888999999999999999999999999999887
No 37
>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=86.47 E-value=2.1 Score=26.22 Aligned_cols=40 Identities=13% Similarity=0.314 Sum_probs=28.9
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCccc
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLER 61 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~ 61 (85)
+.+-++|+..|| ...+++++.++-.+|++.|.+.+++...
T Consensus 3 ~~milRvrS~dG-~~Rie~~~~~t~~~L~~kI~~~l~~~~~ 42 (80)
T PF11543_consen 3 SSMILRVRSKDG-MKRIEVSPSSTLSDLKEKISEQLSIPDS 42 (80)
T ss_dssp ---EEEEE-SSE-EEEEEE-TTSBHHHHHHHHHHHS---TT
T ss_pred ccEEEEEECCCC-CEEEEcCCcccHHHHHHHHHHHcCCCCc
Confidence 457899999999 6677899999999999999999998654
No 38
>PTZ00044 ubiquitin; Provisional
Probab=86.40 E-value=2.7 Score=24.45 Aligned_cols=37 Identities=11% Similarity=0.021 Sum_probs=33.5
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
+.+.|..++|....+.+++..+-.+|-.++++..++.
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~ 37 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGID 37 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCC
Confidence 3578899999999999999999999999999999974
No 39
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=86.34 E-value=2.6 Score=24.23 Aligned_cols=37 Identities=14% Similarity=0.213 Sum_probs=33.3
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
|.+.|..++|..+.+++++..+-.+|-.++.+..++.
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~ 37 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIP 37 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCC
Confidence 3578899999999999999999999999999998874
No 40
>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=86.28 E-value=3.1 Score=24.83 Aligned_cols=36 Identities=11% Similarity=0.234 Sum_probs=33.4
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNL 58 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L 58 (85)
+.+.|..+.|..+.+++++.++-.+|-+++.+..++
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i 38 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGV 38 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCC
Confidence 688999999999999999999999999999998886
No 41
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=85.99 E-value=5 Score=23.91 Aligned_cols=47 Identities=23% Similarity=0.175 Sum_probs=36.2
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
..-.+.|+++||+.+.-.+....+=++|++-|....+ .+..-|-|.-
T Consensus 3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~-~~~~~f~L~t 49 (80)
T smart00166 3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT-DGNDPFTLNS 49 (80)
T ss_pred CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc-CCCCCEEEEe
Confidence 5578999999999999999999998999999955443 3334466643
No 42
>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=85.82 E-value=5.1 Score=24.28 Aligned_cols=47 Identities=19% Similarity=0.169 Sum_probs=38.9
Q ss_pred eEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 22 IEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 22 ~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
.-.+.|+|+||+.+.-.+....+=++|++-|-.+.+-.+..-|.|..
T Consensus 4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t 50 (79)
T cd01770 4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMT 50 (79)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEec
Confidence 46789999999999999999999899999999877644556778864
No 43
>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=85.02 E-value=3.4 Score=20.92 Aligned_cols=43 Identities=19% Similarity=0.318 Sum_probs=33.7
Q ss_pred EEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEec
Q psy17656 27 ITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDN 70 (85)
Q Consensus 27 V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d 70 (85)
|.+.+++...+.+.+..+-.++++.+++..+ ...+.|-|.+..
T Consensus 2 v~~~~~~~~~~~~~~~~tv~~l~~~i~~~~~-~~~~~~~l~~~~ 44 (69)
T cd00196 2 VKLNDGKTVELLVPSGTTVADLKEKLAKKLG-LPPEQQRLLVNG 44 (69)
T ss_pred eEecCCCEEEEEcCCCCcHHHHHHHHHHHHC-cChHHeEEEECC
Confidence 4555888999999999999999999999988 444555665543
No 44
>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=84.12 E-value=4.8 Score=24.02 Aligned_cols=36 Identities=19% Similarity=0.297 Sum_probs=33.2
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNL 58 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L 58 (85)
+.+.|..+.|...++++++.++-.+|-+++.+..++
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~ 37 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKV 37 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCC
Confidence 678899999999999999999999999999988876
No 45
>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=83.50 E-value=7.6 Score=24.16 Aligned_cols=47 Identities=15% Similarity=0.287 Sum_probs=38.3
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKY 72 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~ 72 (85)
..++|+.=+ .+.+.+.+...=++|+++|++.|.|. .+--=|+|.+..
T Consensus 3 ~vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl~-~e~i~LsYkde~ 49 (80)
T cd06406 3 YVVKVHFKY--TVAIQVARGLSYATLLQKISSKLELP-AEHITLSYKSEA 49 (80)
T ss_pred eEEEEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCCC-chhcEEEeccCC
Confidence 567788765 77888999999999999999999996 333678898854
No 46
>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=83.19 E-value=6.8 Score=23.10 Aligned_cols=44 Identities=25% Similarity=0.184 Sum_probs=35.2
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
-.++|+|+||+.+.-.....++=++|++-|-.+..- ..-|.|..
T Consensus 3 t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~--~~~f~L~t 46 (77)
T cd01767 3 TKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP--AEPFTLMT 46 (77)
T ss_pred EEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC--CCCEEEEe
Confidence 468999999999999999999999999999766543 44466653
No 47
>KOG3531|consensus
Probab=82.62 E-value=0.073 Score=45.50 Aligned_cols=64 Identities=6% Similarity=-0.279 Sum_probs=52.4
Q ss_pred CCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEec-CCCCeeccccCCC
Q psy17656 19 KGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDN-KYDPQCWLEMVNY 83 (85)
Q Consensus 19 ~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d-~~~~~~WLd~~K~ 83 (85)
-++--.+.+..++.++ .+-+++.+.|+.+|..+|..+++++.+|||++|.- .-..+.|+|.+++
T Consensus 174 ~~d~~~l~~~~~~p~q-~~~~~ki~~~h~~hig~tpaesdl~~le~ar~~~~yg~~~h~a~D~Eg~ 238 (1036)
T KOG3531|consen 174 YLDREHLAHTRYLPNQ-DELEKKIMEFHQKHIGQTPAESDFQLLEIARRLDMYGIRLHPAKDREGT 238 (1036)
T ss_pred cccceeeeeeecCchH-HHHHHHHHHhhhhhhccCchhhhHHHHHHHHHHhhhccccchhhhcccc
Confidence 3444577888888877 77778889999999999999999999999999864 3356689998875
No 48
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=79.81 E-value=7.7 Score=25.08 Aligned_cols=61 Identities=16% Similarity=0.144 Sum_probs=44.3
Q ss_pred cccccCCCCCCCCCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 5 EIDTESAPPKTKPLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
|.+.+.+|..+ ...+.+..+|.--|++++.|.|.+.++-+-|++.-|++.| .+.+-|-.-|
T Consensus 9 e~kt~~~p~vk--p~t~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqG-K~m~slRfL~ 69 (103)
T COG5227 9 EFKTNENPLVK--PITKHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQG-KNMSSLRFLF 69 (103)
T ss_pred hhccccCcccc--ccccccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhC-cCcceeEEEE
Confidence 44555555423 2445688889889999999999999999999999998877 3444333333
No 49
>KOG2378|consensus
Probab=79.47 E-value=15 Score=30.10 Aligned_cols=64 Identities=16% Similarity=0.123 Sum_probs=52.3
Q ss_pred CCCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCeeccccC
Q psy17656 16 KPLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 16 ~~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~ 81 (85)
+.+.+..+.|.|-++|-|.+++.+.-.+..++++..|.+.++-.|. .-|-=...+|++.=|.|+
T Consensus 229 ~v~~sDev~~~vy~~Dhsy~tl~~~vs~svqEI~~~va~k~~~see--l~LV~v~s~GEkv~lqPn 292 (573)
T KOG2378|consen 229 PVRGSDEVFCIVYLPDHSYVTLRIRVSASVQEILEAVAEKLGYSEE--LILVKVSSSGEKVILQPN 292 (573)
T ss_pred CccCCCeeeEEEEecCceEEEEEeechhHHHHHHHHHHHHhccccc--eeEEEEccCCceeeecCC
Confidence 4567788999999999999999999999999999999999998765 334444567777766665
No 50
>PF14847 Ras_bdg_2: Ras-binding domain of Byr2; PDB: 1I35_A 1K8R_B.
Probab=78.07 E-value=6.4 Score=25.49 Aligned_cols=37 Identities=27% Similarity=0.328 Sum_probs=29.9
Q ss_pred EEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcc
Q psy17656 24 VAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLE 60 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E 60 (85)
.+.|.+-||+...+.|..=..|++++..|.+.+++.+
T Consensus 2 vi~~I~~dG~tk~VNV~~c~~a~eI~~rvLKKfg~~~ 38 (105)
T PF14847_consen 2 VIRFILEDGSTKTVNVSGCFNAQEIKRRVLKKFGLPE 38 (105)
T ss_dssp EEEEEETTTEEEEEE--S--HHHHHHHHHHHHHTSS-
T ss_pred EEEEECCCCcEEEEEECCCCCHHHHHHHHHHHcCCcc
Confidence 4678899999999999998899999999999999988
No 51
>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=78.06 E-value=10 Score=24.05 Aligned_cols=43 Identities=7% Similarity=-0.048 Sum_probs=37.7
Q ss_pred CCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 17 PLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 17 ~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
.+....+.+.|..+.|....+++++..+=.+|-++|.+.-++.
T Consensus 22 ~~~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip 64 (103)
T cd01802 22 LPFYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIP 64 (103)
T ss_pred eccCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCC
Confidence 3455679999999999999999999999999999999888763
No 52
>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=78.02 E-value=13 Score=22.79 Aligned_cols=46 Identities=9% Similarity=0.031 Sum_probs=36.2
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
....+.|+|+||+.+.-......+=++|++-|..+.. ..+-|.|.+
T Consensus 3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~~~--~~~~f~L~t 48 (85)
T cd01774 3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFSLKE--TPEKFQIVT 48 (85)
T ss_pred ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhCCC--CCCcEEEec
Confidence 4578999999999999999999999999999964332 334566654
No 53
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=77.54 E-value=10 Score=26.46 Aligned_cols=47 Identities=21% Similarity=0.306 Sum_probs=39.3
Q ss_pred EEEEEEecCC----CEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEe
Q psy17656 23 EVAHITLLDG----SLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYD 69 (85)
Q Consensus 23 ~~~~V~LLD~----t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~ 69 (85)
+.+-|..+|| ..+.+.+...++-.+|++.+...+...-...+-|.+.
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~ 51 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTN 51 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEe
Confidence 4678899999 6899999999999999999999999876654555554
No 54
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=75.00 E-value=20 Score=23.16 Aligned_cols=58 Identities=10% Similarity=0.140 Sum_probs=46.3
Q ss_pred eEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCeecccc
Q psy17656 22 IEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEM 80 (85)
Q Consensus 22 ~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~ 80 (85)
.+.++|.-.|+|-.++.+...++.++++.++-+...|.+..-|-|....++-.+. |+|
T Consensus 2 ~y~IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~l~Rv-L~p 59 (97)
T cd01775 2 SYCIRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHDLSRV-LRP 59 (97)
T ss_pred ceEEEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECCeeee-cCC
Confidence 4678999999999999999999999999999999999876666666554433333 444
No 55
>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=74.72 E-value=9.2 Score=21.96 Aligned_cols=35 Identities=11% Similarity=0.139 Sum_probs=31.4
Q ss_pred EEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcc
Q psy17656 26 HITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLE 60 (85)
Q Consensus 26 ~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E 60 (85)
.|..++|....+.+++..+-.++-+++++..|+..
T Consensus 2 ~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~ 36 (70)
T cd01798 2 YVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPP 36 (70)
T ss_pred EEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCH
Confidence 47788999999999999999999999999998743
No 56
>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=74.15 E-value=16 Score=21.89 Aligned_cols=36 Identities=22% Similarity=0.128 Sum_probs=31.4
Q ss_pred eEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcC
Q psy17656 22 IEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLN 57 (85)
Q Consensus 22 ~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~ 57 (85)
.-.+.|+|+||+.+.-.....++=+++++-|..+.+
T Consensus 4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~ 39 (79)
T cd01772 4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTG 39 (79)
T ss_pred EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCC
Confidence 457899999999999999999999999999987654
No 57
>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=70.14 E-value=15 Score=21.50 Aligned_cols=34 Identities=12% Similarity=0.130 Sum_probs=30.7
Q ss_pred EEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 26 HITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 26 ~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
+|.++.|....+++++..+=.+|-.++.+.-++.
T Consensus 2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~ 35 (70)
T cd01794 2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVD 35 (70)
T ss_pred eEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCC
Confidence 6889999999999999999999999999888863
No 58
>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=68.78 E-value=26 Score=21.96 Aligned_cols=51 Identities=18% Similarity=0.326 Sum_probs=41.4
Q ss_pred EEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCee
Q psy17656 25 AHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQC 76 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~ 76 (85)
+++.. .|..+.+.+++...=.+|-+.|-+-..+.+..-|.+.|.|..|-.+
T Consensus 3 ~K~~y-~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~ 53 (83)
T cd06404 3 VKAAY-NGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPC 53 (83)
T ss_pred EEEEe-cCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCce
Confidence 34443 4557888899999999999999999999999999999999877554
No 59
>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=68.76 E-value=17 Score=20.44 Aligned_cols=35 Identities=17% Similarity=0.100 Sum_probs=30.1
Q ss_pred EEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 24 VAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
.+.|... |...++++.+.++-.+|.+++.+..++.
T Consensus 2 ~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~ 36 (71)
T cd01812 2 RVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVE 36 (71)
T ss_pred EEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCC
Confidence 5677776 7788999999999999999999988863
No 60
>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=68.58 E-value=19 Score=20.24 Aligned_cols=31 Identities=13% Similarity=0.319 Sum_probs=28.5
Q ss_pred ecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 29 LLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 29 LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
.++|+.+.+++.+..+-.+|-++|.+..++.
T Consensus 2 ~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~ 32 (69)
T PF00240_consen 2 TLSGKTFTLEVDPDDTVADLKQKIAEETGIP 32 (69)
T ss_dssp ETTSEEEEEEEETTSBHHHHHHHHHHHHTST
T ss_pred CCCCcEEEEEECCCCCHHHhhhhcccccccc
Confidence 5789999999999999999999999999964
No 61
>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=68.28 E-value=22 Score=21.04 Aligned_cols=36 Identities=11% Similarity=-0.069 Sum_probs=32.2
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNL 58 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L 58 (85)
+.+.|.-+.|..+.+++++.++-.+|-+++.+.-++
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~ 37 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGT 37 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCC
Confidence 678888888999999999999999999999888774
No 62
>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=67.48 E-value=17 Score=19.87 Aligned_cols=41 Identities=12% Similarity=0.259 Sum_probs=32.2
Q ss_pred EEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 27 ITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 27 V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
|...+|....+.+.+.++..+|-+++.+..++. .+..-|.|
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~-~~~~~l~~ 42 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVP-PEQQRLIY 42 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcC-hHHEEEEE
Confidence 556688899999999999999999999998863 33345544
No 63
>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=67.14 E-value=20 Score=21.79 Aligned_cols=44 Identities=16% Similarity=0.181 Sum_probs=34.5
Q ss_pred eEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEE
Q psy17656 22 IEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLT 67 (85)
Q Consensus 22 ~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~ 67 (85)
...+.|+|+||+.++-.....++=++|++-|-.+ +- +.+-|-|.
T Consensus 4 ~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~-~~~~f~L~ 47 (80)
T cd01771 4 ISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GY-PIDEYKLL 47 (80)
T ss_pred eEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CC-CCCCEEEe
Confidence 4678999999999999999999999999999654 22 33456654
No 64
>KOG4261|consensus
Probab=66.74 E-value=4.5 Score=34.90 Aligned_cols=48 Identities=15% Similarity=0.400 Sum_probs=42.4
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
+....+|.+|||.+..+.+.-...+..|.=-||...||.+.+-++|--
T Consensus 83 k~r~lkvrmldg~vkti~vd~sq~v~~L~~~ic~~igItnyeeyslvr 130 (1003)
T KOG4261|consen 83 KQRPLKVRMLDGAVKTIMVDDSQPVSQLMMTICNKIGITNYEEYSLVR 130 (1003)
T ss_pred hcccceeeecccccceeeecccccHHHHHHHHHhccCccchhhhhhhH
Confidence 445778999999999999999999999999999999999988777753
No 65
>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=66.52 E-value=16 Score=21.20 Aligned_cols=42 Identities=14% Similarity=0.104 Sum_probs=33.8
Q ss_pred EEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 26 HITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 26 ~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
.|..++|....+++++..+-.+|-+++.+..++. .+-+-|.|
T Consensus 2 ~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~-~~~q~L~~ 43 (74)
T cd01810 2 LVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQ-ADQFWLSF 43 (74)
T ss_pred EEECCCCCEEEEEECCcChHHHHHHHHHHHhCCC-HHHeEEEE
Confidence 5788999999999999999999999999888863 33334444
No 66
>TIGR01961 NuoC_fam NADH (or F420H2) dehydrogenase, subunit C. This model describes the C subunit of the NADH dehydrogenase complex I in bacteria, as well as many instances of the corresponding mitochondrial subunit (NADH dehydrogenase subunit 9) and of the F420H2 dehydrogenase in Methanosarcina. Complex I contains subunits designated A-N. This C subunit often occurs as a fusion protein with the D subunit. This model excludes the NAD(P)H and plastoquinone-dependent form of chloroplasts and
Probab=59.41 E-value=6.3 Score=25.31 Aligned_cols=32 Identities=28% Similarity=0.365 Sum_probs=25.5
Q ss_pred HHHHhhcCCccc---ceeeEEEecCCCCeeccccC
Q psy17656 50 DRVCDHLNLLER---DYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 50 ~~Vc~~L~L~E~---dYFGL~y~d~~~~~~WLd~~ 81 (85)
..++...+..|. |.||+.|.++.+.+.||.++
T Consensus 72 s~i~p~A~~~EREi~DmfGi~f~Ghpd~rr~ll~~ 106 (121)
T TIGR01961 72 TSVFPTANWYERETYDMYGIVFDGHPDLRRILMPD 106 (121)
T ss_pred HHhhhcccHHHHHHHhhcCcEeCCCCCCccccCCC
Confidence 556666777776 79999999988888998864
No 67
>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=57.62 E-value=36 Score=20.08 Aligned_cols=35 Identities=17% Similarity=0.067 Sum_probs=28.8
Q ss_pred EEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 24 VAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
.+.|.. .+..+++++++.++..+|-+++++..++.
T Consensus 2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp 36 (74)
T cd01813 2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVL 36 (74)
T ss_pred EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCC
Confidence 344554 56788999999999999999999999964
No 68
>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=57.60 E-value=34 Score=19.79 Aligned_cols=35 Identities=3% Similarity=0.017 Sum_probs=30.8
Q ss_pred EEEec-CCCEEEEEeccCccHhHHHHHHHhhcCCcc
Q psy17656 26 HITLL-DGSLLDVTIERKAKGEDLFDRVCDHLNLLE 60 (85)
Q Consensus 26 ~V~LL-D~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E 60 (85)
.|.++ .|....+++++..+=.+|-.++.+.-|+..
T Consensus 2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~ 37 (71)
T cd01796 2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPA 37 (71)
T ss_pred EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCH
Confidence 57888 899999999999999999999999888743
No 69
>PRK07735 NADH dehydrogenase subunit C; Validated
Probab=56.93 E-value=6.9 Score=31.24 Aligned_cols=31 Identities=19% Similarity=0.201 Sum_probs=24.0
Q ss_pred HHHhhcCCccc---ceeeEEEecCCCCeeccccC
Q psy17656 51 RVCDHLNLLER---DYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 51 ~Vc~~L~L~E~---dYFGL~y~d~~~~~~WLd~~ 81 (85)
.|+-.-+..|+ |.||+.|.++.+.+.||.+.
T Consensus 379 ~I~P~AnW~EREa~DMFGI~FeGHPDLRRILLpd 412 (430)
T PRK07735 379 PLWKGANWPEREAYDLLGIVFKGHPNLSRILLPD 412 (430)
T ss_pred HhhccCChHHHHHHHHhCcccCCCCCCccCCCCC
Confidence 44555566665 79999999998999998774
No 70
>PRK15031 5-carboxymethyl-2-hydroxymuconate delta-isomerase; Provisional
Probab=54.47 E-value=11 Score=25.13 Aligned_cols=46 Identities=24% Similarity=0.426 Sum_probs=35.1
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcC-CcccceeeEEEe
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLN-LLERDYFGLTYD 69 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~-L~E~dYFGL~y~ 69 (85)
..+.+.+.++.|.. .-+++..|+.||+.+.+++. +.+..|++|...
T Consensus 60 ~Fihv~l~i~~GRs---~e~k~~l~~~l~~~l~~~~~~~~~~~~~~LS~E 106 (126)
T PRK15031 60 AFVHMTLKIGAGRS---LESRQEVGEMLFALIKAHFAALMESRYLALSFE 106 (126)
T ss_pred cEEEEEeeecCCCC---HHHHHHHHHHHHHHHHHHhhhhhcccceEEEEE
Confidence 46666777777655 23566779999999999988 679999998864
No 71
>cd00419 Ferrochelatase_C Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is ubiquitous in nature and widely distributed in bacteria and eukaryotes. Recently, some archaeal members have been identified. The oligomeric state of these enzymes varies depending on the presence of a dimerization motif at the C-terminus.
Probab=53.59 E-value=26 Score=23.14 Aligned_cols=36 Identities=28% Similarity=0.541 Sum_probs=27.2
Q ss_pred HhHHHHHHHhhcCCcccceeeEEEecCCCCeeccccC
Q psy17656 45 GEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 45 G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~ 81 (85)
-.+..++|.+.|++.+.. +.+.|++..+.--||.|+
T Consensus 43 ~~~~~~~v~~~l~~~~~~-~~~~fqS~~g~~~Wl~P~ 78 (135)
T cd00419 43 CEETARLVAERLGLPFDE-YELAYQSRFGPGEWLEPS 78 (135)
T ss_pred HHHHHHHHHHHhCCCCCC-EEEEecCCCCCCCCCCCC
Confidence 445567788888875544 579999877778999985
No 72
>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=52.98 E-value=42 Score=19.17 Aligned_cols=44 Identities=11% Similarity=0.218 Sum_probs=34.2
Q ss_pred EEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEe
Q psy17656 24 VAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYD 69 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~ 69 (85)
.+.|..+.|. ..+++++.++-.+|-+++.+..++ ..+-+=|-|.
T Consensus 2 ~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i-~~~~~~Li~~ 45 (71)
T cd01808 2 KVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKA-NQEQLVLIFA 45 (71)
T ss_pred EEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCC-CHHHEEEEEC
Confidence 4667788886 489999999999999999999885 5555555553
No 73
>PRK12494 NADH dehydrogenase subunit J; Provisional
Probab=52.92 E-value=6.7 Score=27.29 Aligned_cols=32 Identities=16% Similarity=0.253 Sum_probs=25.5
Q ss_pred HHHHhhcCCccc---ceeeEEEecCCCCeeccccC
Q psy17656 50 DRVCDHLNLLER---DYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 50 ~~Vc~~L~L~E~---dYFGL~y~d~~~~~~WLd~~ 81 (85)
..++...+..|+ |.||+.|.++.+.+.||.+.
T Consensus 115 t~i~p~A~w~EREi~DmfGI~FeGHPDlRriLlpe 149 (172)
T PRK12494 115 YWIWKGADWQERETYDMYGINFEGHPNLKRILMPE 149 (172)
T ss_pred hHhhhcCChHHHHHHHhcCceeCCCCCCccccCCC
Confidence 456666677766 79999999988889998764
No 74
>KOG0005|consensus
Probab=52.89 E-value=37 Score=20.41 Aligned_cols=48 Identities=21% Similarity=0.333 Sum_probs=38.6
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCccc----ceeeEEEec
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLER----DYFGLTYDN 70 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~----dYFGL~y~d 70 (85)
+.++|..|-+.++++++++..+-..+-+.|-+.-|+.-. -|-|-|..|
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~D 52 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMND 52 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccc
Confidence 357899999999999999999999999999888888633 366666544
No 75
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=47.45 E-value=66 Score=19.84 Aligned_cols=45 Identities=18% Similarity=0.172 Sum_probs=35.1
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEE
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLT 67 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~ 67 (85)
..-.+.|+++||+.++-......+=++|++-|..+ +. ..+-|.|.
T Consensus 4 ~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~~-g~-~~~~f~L~ 48 (82)
T cd01773 4 PKARLMLRYPDGKREQIALPEQAKLLALVRHVQSK-GY-PNERFELL 48 (82)
T ss_pred CeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CC-CCCCEEEe
Confidence 34578999999999999999999999999988864 22 44556654
No 76
>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=47.09 E-value=60 Score=19.27 Aligned_cols=46 Identities=24% Similarity=0.351 Sum_probs=34.7
Q ss_pred EEEEEEecCCCE-EEEE-eccCccHhHHHHHHHhhcCCcccceeeEEEe
Q psy17656 23 EVAHITLLDGSL-LDVT-IERKAKGEDLFDRVCDHLNLLERDYFGLTYD 69 (85)
Q Consensus 23 ~~~~V~LLD~t~-~~~~-v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~ 69 (85)
|.+.|..+.|.. ..++ +++..+=.++-+++.+..++ ..+-.-|.|.
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi-~~~~QrLi~~ 48 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNV-EPECQRLFYR 48 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCC-CHHHeEEEeC
Confidence 467889999987 5785 78889988999999998885 4444455543
No 77
>cd01776 Rin1_RA Ubiquitin domain of RIN1 RAS effector. Rin1_RA RIN1 is a RAS effector that binds with specificity and high affinity to activated RAS via its carboxy-terminal RA (RAS-associated) domain. RIN1 competes directly with RAF1 for RAS binding and is thought to divert signaling away from RAF and the MAPK pathway while also shunting RAS signals through alternate pathways. In addition, Rin1 and Rin2 are Rab5-binding proteins, binding preferentially to the GTP-bound form, that enhance the GDP-GTP exchange reaction on Rab5 that regulate the docking and fusion processes of endocytic vesicles. In addition to the RA domain, RIN1 and RIN2 have an SH2 (Src homology 2) domain, a proline-rich SH3 domain, and a Vps9 domain.
Probab=44.85 E-value=69 Score=20.26 Aligned_cols=46 Identities=9% Similarity=0.053 Sum_probs=36.7
Q ss_pred EEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCeecccc
Q psy17656 34 LLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEM 80 (85)
Q Consensus 34 ~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~ 80 (85)
..++.|.+.++.+++=.++.+...+.+.+-|||-..-. +..+=|.+
T Consensus 15 ~KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vd-g~~~qLad 60 (87)
T cd01776 15 GKTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVE-ETWQQLAP 60 (87)
T ss_pred eeeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEEC-CcEEEcCc
Confidence 46788999999999999999999999999999987743 33333443
No 78
>PF03603 DNA_III_psi: DNA polymerase III psi subunit; InterPro: IPR004615 DNA-directed DNA polymerase (2.7.7.7 from EC) catalyzes DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The enzyme also has 3' to 5' exonuclease activity. It has a core composed of alpha, epsilon and theta chains, that associate with a tau subunit which allows the core dimerization to form the PolIII' complex. PolIII' associates with the gamma complex (gamma, delta, delta', psi and chi chains) and with the beta chain. This family is the psi subunit, the small subunit of the DNA polymerase III holoenzyme in Escherichia coli and related species, whose exact function is not known. It appears to have a narrow taxonomic distribution, being restricted to the gammaproteobacteria.; GO: 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication; PDB: 1EM8_B 3GLI_O 3SXU_B.
Probab=42.89 E-value=30 Score=22.96 Aligned_cols=47 Identities=21% Similarity=0.243 Sum_probs=24.9
Q ss_pred EEEEEecCCCEEEEEeccCccH-hHHHHHHHhhcCCcccceeeEEEec
Q psy17656 24 VAHITLLDGSLLDVTIERKAKG-EDLFDRVCDHLNLLERDYFGLTYDN 70 (85)
Q Consensus 24 ~~~V~LLD~t~~~~~v~~ka~G-~~Ll~~Vc~~L~L~E~dYFGL~y~d 70 (85)
.+.|.++++..+-+..+..-.+ ..||..|.+.++|...++..|....
T Consensus 28 ~~~i~lp~~~rLliVs~~~p~~~~~L~~dVLrsl~L~~~q~~~ltpeq 75 (128)
T PF03603_consen 28 EIAISLPESCRLLIVSDELPQLDDPLFQDVLRSLKLTPEQVLHLTPEQ 75 (128)
T ss_dssp -S-----TT--EEEE-SS---TTSHHHHHHHHHTT--GGGEEEE-CCG
T ss_pred CccccCcccceEEEEeCCCCCccChHHHHHHHHcCCCHHHhhccCHHH
Confidence 6778888887776665554444 3399999999999988988887643
No 79
>KOG2689|consensus
Probab=42.33 E-value=63 Score=24.65 Aligned_cols=39 Identities=21% Similarity=0.200 Sum_probs=25.0
Q ss_pred CCCCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcC
Q psy17656 15 TKPLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLN 57 (85)
Q Consensus 15 ~~~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~ 57 (85)
.+++-...=.+.|+|+||+++.-++..+.+ |.+|-..+.
T Consensus 203 spp~~ys~crlQiRl~DG~Tl~~tF~a~E~----L~~VR~wVd 241 (290)
T KOG2689|consen 203 SPPTDYSQCRLQIRLPDGQTLTQTFNARET----LAAVRLWVD 241 (290)
T ss_pred CCCCcccceEEEEEcCCCCeeeeecCchhh----HHHHHHHHH
Confidence 333334566778899999998888776544 444444433
No 80
>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=41.42 E-value=59 Score=18.92 Aligned_cols=30 Identities=17% Similarity=0.280 Sum_probs=26.6
Q ss_pred cCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 30 LDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 30 LD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
|+|..+.+++++..+-.+|-+++-...++.
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip 34 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMP 34 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCC
Confidence 678899999999999999999998888863
No 81
>cd02639 R3H_RRM R3H domain of mainly fungal proteins which are associated with a RNA recognition motif (RRM) domain. Present in this group is the RNA-binding post-transcriptional regulator Cip2 (Csx1-interacting protein 2) involved in counteracting Csx1 function. Csx1 plays a central role in controlling gene expression during oxidative stress. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner.
Probab=39.33 E-value=38 Score=19.73 Aligned_cols=28 Identities=7% Similarity=0.115 Sum_probs=20.6
Q ss_pred EEEEecc--CccHhHHHHHHHhhcCCcccc
Q psy17656 35 LDVTIER--KAKGEDLFDRVCDHLNLLERD 62 (85)
Q Consensus 35 ~~~~v~~--ka~G~~Ll~~Vc~~L~L~E~d 62 (85)
.++..++ ...-+.++..+|..|||.+..
T Consensus 18 ~eL~Fp~~ls~~eRriih~la~~lGL~~~s 47 (60)
T cd02639 18 DELAFPSSLSPAERRIVHLLASRLGLNHVS 47 (60)
T ss_pred eEEEcCCCCCHHHHHHHHHHHHHcCCceEE
Confidence 3444444 455788999999999998874
No 82
>PF02962 CHMI: 5-carboxymethyl-2-hydroxymuconate isomerase; InterPro: IPR004220 5-carboxymethyl-2-hydroxymuconate isomerase transforms 5-carboxymethyl-2-hydroxy-muconic acid into 5-oxo-pent-3-ene-1,2,5-tricarboxylic acid during the third step of the homoprotocatechuate catabolic pathway []. Homoprotocatechuate (HPC; 3,4-dihydroxyphenylacetate) is catabolized to Krebs cycle intermediates via extradiol (meta-) cleavage and the necessary enzymes are chromosomally encoded in a variety of bacteria []. 5-carboxymethyl-2-hydroxymuconate isomerase is probably a dimer of two identical subunits []. A comparison of the N-terminal half of the isomerase/decarboxylase sequence from the pathway (both encoded by the gene hpcE), with the second half showed significant similarity. This suggests that a duplication may have occurred to produce a bifunctional gene [].; PDB: 3E6Q_H 1OTG_B.
Probab=38.97 E-value=30 Score=22.93 Aligned_cols=46 Identities=22% Similarity=0.346 Sum_probs=33.5
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCC-cccceeeEEEe
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNL-LERDYFGLTYD 69 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L-~E~dYFGL~y~ 69 (85)
..+.+.+.++.|.. .-+++..|+.||+.+.+++.- .+..|++|...
T Consensus 59 ~FvHv~l~il~GRs---~e~k~~l~~~l~~~l~~~~~~~~~~~~~~LsvE 105 (124)
T PF02962_consen 59 AFVHVTLRILAGRS---EEQKKALSEALLAVLKAHLAPLFAQRYLQLSVE 105 (124)
T ss_dssp EEEEEEEEEETT-----HHHHHHHHHHHHHHHHHHCCCHCCHSEEEEEEE
T ss_pred cEEEEEeeecCCCC---HHHHHHHHHHHHHHHHHHhhHhhcCCeeEEEEE
Confidence 46677777777765 335667799999999999884 67788888754
No 83
>PRK06074 NADH dehydrogenase subunit C; Provisional
Probab=38.83 E-value=15 Score=25.89 Aligned_cols=32 Identities=22% Similarity=0.343 Sum_probs=24.4
Q ss_pred HHHHhhcCCccc---ceeeEEEecCCCCeeccccC
Q psy17656 50 DRVCDHLNLLER---DYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 50 ~~Vc~~L~L~E~---dYFGL~y~d~~~~~~WLd~~ 81 (85)
..++...+-.|+ |.||+.|.++.+.+.||.+.
T Consensus 102 t~i~p~A~w~EREi~DmfGI~f~GhPdlrrlllpe 136 (189)
T PRK06074 102 VDIWPSANWYEREAYDLYGIVFEGHPDLRRILTDY 136 (189)
T ss_pred HHhhhccChHHHHHHHhhCceeCCCCCCccccCCC
Confidence 445555566665 79999999998999998764
No 84
>CHL00012 ndhJ NADH dehydrogenase subunit J
Probab=38.66 E-value=23 Score=24.64 Aligned_cols=30 Identities=30% Similarity=0.403 Sum_probs=21.4
Q ss_pred HHhhcCCccc---ceeeEEEecCCCCeeccccC
Q psy17656 52 VCDHLNLLER---DYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 52 Vc~~L~L~E~---dYFGL~y~d~~~~~~WLd~~ 81 (85)
++..-+-.|+ |.||+.|.++.+.+.||-++
T Consensus 103 i~p~A~w~ERE~~DmfGI~F~GhPdlrrillpe 135 (158)
T CHL00012 103 VWKSADFQERESYDMLGISYDNHPRLKRILMPE 135 (158)
T ss_pred hhhCCChHHHHHHHHcCcccCCCCCCccccCCC
Confidence 3333444444 79999999998888888764
No 85
>PF00329 Complex1_30kDa: Respiratory-chain NADH dehydrogenase, 30 Kd subunit; InterPro: IPR001268 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. The 30 kDa subunit from NADH:ubiquinone oxidoreductase is found in both eukaryotes and prokaryotes. In mammals and in Neurospora crassa, it is nuclear-encoded as a precursor form with a transit peptide, while in Paramecium (protein P1), in the Dictyostelium discoideum (Slime mold) it is mitochondrial-encoded and it is chloroplast-encoded in various higher plants. It is also present in bacteria.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0055114 oxidation-reduction process; PDB: 2YBB_5 3IAS_E 2FUG_E 3I9V_5 3M9S_E 3IAM_5 3MCR_A.
Probab=37.76 E-value=67 Score=19.87 Aligned_cols=52 Identities=15% Similarity=0.160 Sum_probs=28.3
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecCCCCeeccccC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~ 81 (85)
+.+++.+..+....=+|.+--.|...++.=+ .|.||+.|.++.+.+.||-++
T Consensus 43 ~~v~~~v~~~~~~ipSit~i~p~A~~~ERE~-------~DmfGI~f~GhPd~rrlll~~ 94 (103)
T PF00329_consen 43 VRVKVKVPRENPEIPSITPIFPAADWYEREI-------YDMFGIRFEGHPDLRRLLLPE 94 (103)
T ss_dssp EEEEEEE-TTS-EEE--TTT-TTHHHHHHHH-------HHHCHHECCT-CCGS-SSSST
T ss_pred EEEEEEeccCCCcccceeEEEcCceecCcHH-------HhhcCCEeCCCCCCccccCCC
Confidence 4555555433333334555556666666533 378999999987777887653
No 86
>TIGR02582 cas_TM1809 CRISPR-associated RAMP protein, Csm3 family. Members of this CRISPR-associated (cas) gene family are found in the mtube subtype of CRISPR/cas locus and designated Csm3, for CRISPR/cas Subtype Mtube, protein 3.
Probab=37.74 E-value=68 Score=22.73 Aligned_cols=38 Identities=29% Similarity=0.464 Sum_probs=27.1
Q ss_pred ecCCCEEEEEeccC----ccHhHHHHHHHhhcCCcccceeeE
Q psy17656 29 LLDGSLLDVTIERK----AKGEDLFDRVCDHLNLLERDYFGL 66 (85)
Q Consensus 29 LLD~t~~~~~v~~k----a~G~~Ll~~Vc~~L~L~E~dYFGL 66 (85)
.+-|+.+.|++.-. ..-.+.|..+..-|.+.|.+|+|=
T Consensus 152 VpaGa~F~f~i~~~~~~~~~~~~~~~~l~~~l~lle~~~LGg 193 (204)
T TIGR02582 152 VPAGAKFKFEIIYSVYEGDEEEEDFKNILEGLKLLEDDYLGG 193 (204)
T ss_pred eCCCCEEEEEEEEEecCChhHHHHHHHHHHHHHhhccCccCC
Confidence 56677776655321 224577899999999999999874
No 87
>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=37.66 E-value=97 Score=18.91 Aligned_cols=35 Identities=11% Similarity=-0.075 Sum_probs=29.4
Q ss_pred EEEEEEecCCCEEEEEe--ccCccHhHHHHHHHhhcC
Q psy17656 23 EVAHITLLDGSLLDVTI--ERKAKGEDLFDRVCDHLN 57 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v--~~ka~G~~Ll~~Vc~~L~ 57 (85)
+.+.|..+++...+|++ ++.++-.+|-+.+.+..+
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~ 38 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYP 38 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcC
Confidence 67889999999966666 789999999999988774
No 88
>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=36.97 E-value=81 Score=24.65 Aligned_cols=35 Identities=9% Similarity=0.149 Sum_probs=31.6
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcC
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLN 57 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~ 57 (85)
|.+.|..++|..+.++|++..+-.+|-.+|...-+
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g 35 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQG 35 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhC
Confidence 46889999999999999999999999999988766
No 89
>PF15016 DUF4520: Domain of unknown function (DUF4520)
Probab=35.79 E-value=1.1e+02 Score=19.07 Aligned_cols=22 Identities=23% Similarity=0.382 Sum_probs=19.0
Q ss_pred CeEEEEEEecCCCEEEEEeccC
Q psy17656 21 KIEVAHITLLDGSLLDVTIERK 42 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~k 42 (85)
..-.|++.++||++..+.++..
T Consensus 47 ~~~~c~l~~pDG~~~~i~i~~p 68 (85)
T PF15016_consen 47 ELGWCKLTFPDGQQVLIQIEHP 68 (85)
T ss_pred cCCEEEEEccCCCEEEEEccCC
Confidence 5568999999999999988876
No 90
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=35.42 E-value=87 Score=22.12 Aligned_cols=29 Identities=10% Similarity=0.276 Sum_probs=18.9
Q ss_pred CEEEEEeccCccHhHHHHHHHhhcCCccc
Q psy17656 33 SLLDVTIERKAKGEDLFDRVCDHLNLLER 61 (85)
Q Consensus 33 t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~ 61 (85)
+.+++.+.+.++-++|++.+.+.+++.|.
T Consensus 34 ~~~~~~vpk~~tV~Dll~~l~~k~~~~~~ 62 (213)
T PF14533_consen 34 QEYELLVPKTGTVSDLLEELQKKVGFSEE 62 (213)
T ss_dssp -EEEE--BTT-BHHHHHHHHHTT----TT
T ss_pred eEEEEEECCCCCHHHHHHHHHHHcCCCcC
Confidence 35788899999999999999999998765
No 91
>cd06401 PB1_TFG The PB1 domain found in TFG protein, an oncogenic gene product and fusion partner to nerve growth factor tyrosine kinase receptor TrkA and to the tyrosine kinase ALK. The PB1 domain is a modular domain mediating specific protein-protein interaction 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 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 PB1 domains of TFG represent a type I/II PB1 domain. The physiological function of TFG remains unknown.
Probab=34.61 E-value=1.2e+02 Score=18.93 Aligned_cols=49 Identities=12% Similarity=0.104 Sum_probs=34.6
Q ss_pred EEEEecCCCEEEEEeccC-ccHhHHHHHHHhhcCCc--ccceeeEEEecCCCC
Q psy17656 25 AHITLLDGSLLDVTIERK-AKGEDLFDRVCDHLNLL--ERDYFGLTYDNKYDP 74 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~~k-a~G~~Ll~~Vc~~L~L~--E~dYFGL~y~d~~~~ 74 (85)
+++.+-+| ...+.+... .+=.+|.+.|++-.+.. -.+.|.+.|.|++|-
T Consensus 3 iK~~~g~D-iR~~~~~~~~~t~~~L~~~v~~~F~~~~~~~~~flIKYkD~dGD 54 (81)
T cd06401 3 LKAQLGDD-IRRIPIHNEDITYDELLLMMQRVFRGKLGSSDDVLIKYKDEDGD 54 (81)
T ss_pred EEEEeCCe-EEEEeccCccccHHHHHHHHHHHhccccCCcccEEEEEECCCCC
Confidence 44555455 334666653 57888999998877744 458999999998764
No 92
>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=33.89 E-value=1e+02 Score=18.09 Aligned_cols=40 Identities=15% Similarity=0.221 Sum_probs=26.8
Q ss_pred EEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccc
Q psy17656 23 EVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERD 62 (85)
Q Consensus 23 ~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~d 62 (85)
..+.|..-+++++.+.+....+-.+|+..+.+.+++...+
T Consensus 3 ~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~ 42 (79)
T PF08817_consen 3 CRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDD 42 (79)
T ss_dssp EEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S--
T ss_pred EEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCC
Confidence 3455555455899999999999999999999999975443
No 93
>COG3232 HpaF 5-carboxymethyl-2-hydroxymuconate isomerase [Amino acid transport and metabolism]
Probab=33.79 E-value=39 Score=22.82 Aligned_cols=30 Identities=30% Similarity=0.715 Sum_probs=25.8
Q ss_pred ccCccHhHHHHHHHhhcC-CcccceeeEEEe
Q psy17656 40 ERKAKGEDLFDRVCDHLN-LLERDYFGLTYD 69 (85)
Q Consensus 40 ~~ka~G~~Ll~~Vc~~L~-L~E~dYFGL~y~ 69 (85)
+++..|..||..+..|+. +.+.-||+|.+.
T Consensus 76 ~rq~vge~Lf~~l~~~~A~l~a~r~lals~E 106 (127)
T COG3232 76 QRQEVGEALFAVLTAHFAPLFAQRYLALSFE 106 (127)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhccceeEEEE
Confidence 456779999999999987 789999999975
No 94
>PLN02560 enoyl-CoA reductase
Probab=33.52 E-value=1.8e+02 Score=21.99 Aligned_cols=46 Identities=13% Similarity=0.070 Sum_probs=34.4
Q ss_pred EEEEEecCCCEE---EEEeccCccHhHHHHHHHhhcCCcccceeeEEEe
Q psy17656 24 VAHITLLDGSLL---DVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYD 69 (85)
Q Consensus 24 ~~~V~LLD~t~~---~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~ 69 (85)
.+.|....|... +++++++++-.+|..++-+.-+....+=-.|.|.
T Consensus 2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~ 50 (308)
T PLN02560 2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLP 50 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEe
Confidence 456666667665 6889999999999999998877644444567765
No 95
>KOG1363|consensus
Probab=32.68 E-value=1.2e+02 Score=24.39 Aligned_cols=50 Identities=18% Similarity=0.192 Sum_probs=40.5
Q ss_pred CCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEE
Q psy17656 17 PLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTY 68 (85)
Q Consensus 17 ~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y 68 (85)
..-...+.+.|.+++|+...=.+.+..+=+.+|+.|..+. ...+.|++.+
T Consensus 378 a~~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~~--~~~~e~~~~~ 427 (460)
T KOG1363|consen 378 ASEEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSNG--FHPEEYSLNT 427 (460)
T ss_pred cCcccceeeEEECCCCCeeeeeeecccchhHHHHHHHhcc--CCchhhcccc
Confidence 4566789999999999999999998888888999999777 4445556554
No 96
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=32.36 E-value=1.2e+02 Score=18.56 Aligned_cols=35 Identities=11% Similarity=0.038 Sum_probs=30.6
Q ss_pred EEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 25 AHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
++++|++.+...+.+.+.-+-++.+....++=||.
T Consensus 2 ir~~LPnqQrT~V~vrpG~tl~daL~KaLk~R~l~ 36 (74)
T cd01816 2 IRVFLPNKQRTVVNVRPGMTLRDALAKALKVRGLQ 36 (74)
T ss_pred eeEECCCCCeEEEEecCCcCHHHHHHHHHHHcCCC
Confidence 68999999999999999888888888888887775
No 97
>KOG3751|consensus
Probab=30.24 E-value=1.4e+02 Score=24.99 Aligned_cols=41 Identities=12% Similarity=0.178 Sum_probs=34.9
Q ss_pred CCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 19 KGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 19 ~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
+-+-+.|+|..-||+...+.|+.+.+++++.++.++.-...
T Consensus 185 ~vrklvVKvfseDgasksL~Vder~tardV~~lL~eKnH~~ 225 (622)
T KOG3751|consen 185 KVRKLVVKVFSEDGASKSLLVDERMTARDVCQLLAEKNHCA 225 (622)
T ss_pred cccceeEEEEccCCceeeEeecccccHHHHHHHHHHhhhhh
Confidence 44568999999999999999999999999999887665543
No 98
>PF14039 YusW: YusW-like protein
Probab=26.91 E-value=50 Score=20.75 Aligned_cols=33 Identities=21% Similarity=0.412 Sum_probs=24.8
Q ss_pred EEEeccCccHhHHHHHHHhhcCCc-ccceeeEEE
Q psy17656 36 DVTIERKAKGEDLFDRVCDHLNLL-ERDYFGLTY 68 (85)
Q Consensus 36 ~~~v~~ka~G~~Ll~~Vc~~L~L~-E~dYFGL~y 68 (85)
.+.+++.+.=.++.++|...++|- +.+-|-|..
T Consensus 55 ~L~~~~~t~~~evi~~Vl~~f~Ld~dy~~felev 88 (92)
T PF14039_consen 55 ELSFDSDTSEEEVIDQVLKAFNLDPDYQEFELEV 88 (92)
T ss_pred hCCCCCCCChHHHHHHHHHHhCCCccceEEEEEE
Confidence 356777888899999999999997 444565544
No 99
>PF00762 Ferrochelatase: Ferrochelatase; InterPro: IPR001015 Synonym(s): Protohaem ferro-lyase, Iron chelatase, etc. Ferrochelatase catalyses the last step in haem biosynthesis: the chelation of a ferrous ion to proto-porphyrin IX, to form protohaem [, ]. In eukaryotic cells, it binds to the mitochondrial inner membrane with its active site on the matrix side of the membrane. The X-ray structure of Bacillus subtilis and human ferrochelatase have been solved [, ]. The human enzyme exists as a homodimer. Each subunit contains one [2Fe-2S] cluster. The monomer is folded into two similar domains, each with a four-stranded parallel beta-sheet flanked by an alpha-helix in a beta-alpha-beta motif that is reminiscent of the fold found in the periplasmic binding proteins. The topological similarity between the domains suggests that they have arisen from a gene duplication event. However, significant differences exist between the two domains, including an N-terminal section (residues 80-130) that forms part of the active site pocket, and a C-terminal extension (residues 390-423) that is involved in coordination of the [2Fe-2S] cluster and in stabilisation of the homodimer. Ferrochelatase seems to have a structurally conserved core region that is common to the enzyme from bacteria, plants and mammals. Porphyrin binds in the identified cleft; this cleft also includes the metal-binding site of the enzyme. It is likely that the structure of the cleft region will have different conformations upon substrate binding and release [].; GO: 0004325 ferrochelatase activity, 0006783 heme biosynthetic process; PDB: 2QD3_B 2HRE_C 3HCN_B 2PNJ_A 2QD1_C 1HRK_A 2QD4_B 3AQI_B 2HRC_B 3HCO_B ....
Probab=26.67 E-value=1.2e+02 Score=22.90 Aligned_cols=34 Identities=24% Similarity=0.534 Sum_probs=25.3
Q ss_pred HhHHHHHHHhhcCCcccceeeEEEecCCCCeeccccC
Q psy17656 45 GEDLFDRVCDHLNLLERDYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 45 G~~Ll~~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~ 81 (85)
..+-.+.|.++|++.+ +-+.|+..-|...||.|+
T Consensus 209 ~~~t~~~i~~~l~~~~---~~~~fQS~~g~~~WL~P~ 242 (316)
T PF00762_consen 209 CEETARLIAERLGLPE---WRLAFQSRFGPGEWLGPS 242 (316)
T ss_dssp HHHHHHHHHHHTTTSS---EEEEEES-SSSS-BSSSB
T ss_pred HHHHHHHHHHHcCCCc---eEEEEECCCCCCCCcccc
Confidence 3445577888998887 788999887888999875
No 100
>KOG0010|consensus
Probab=26.12 E-value=2.1e+02 Score=23.52 Aligned_cols=39 Identities=5% Similarity=0.089 Sum_probs=34.6
Q ss_pred CCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCC
Q psy17656 19 KGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNL 58 (85)
Q Consensus 19 ~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L 58 (85)
....+.|+|...++ ..+|.|...+.-++|-+.|..+.+.
T Consensus 12 ~~~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a 50 (493)
T KOG0010|consen 12 SASLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGA 50 (493)
T ss_pred ccceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCC
Confidence 33679999999999 9999999999999999999988854
No 101
>KOG1769|consensus
Probab=25.58 E-value=1.9e+02 Score=18.63 Aligned_cols=40 Identities=20% Similarity=0.278 Sum_probs=36.2
Q ss_pred CCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 20 GKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 20 ~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
+..+..+|.-=|++++.|.|...+.=.-|.+.-|++-||.
T Consensus 18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~ 57 (99)
T KOG1769|consen 18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLS 57 (99)
T ss_pred cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCc
Confidence 5788999999888889999999999999999999999874
No 102
>PF01337 Barstar: Barstar (barnase inhibitor); InterPro: IPR000468 Barstar is a small single chain protein. Barnase is the extracellular ribonuclease IPR001887 from INTERPRO of Bacillus amyloliquefaciens, and barstar its specific intracellular inhibitor [, ]. Expression of barstar is necessary to counter the lethal effect of expressed active barnase. The structure of the barnase-barstar complex is known [].; PDB: 2CX6_A 1B2U_F 1A19_A 1X1U_F 1B27_E 1X1W_F 1BGS_E 1X1Y_D 1B3S_D 1B2S_D ....
Probab=25.22 E-value=88 Score=18.65 Aligned_cols=27 Identities=30% Similarity=0.668 Sum_probs=17.6
Q ss_pred EEeccCccHhHHHHHHHhhcCCcccceee
Q psy17656 37 VTIERKAKGEDLFDRVCDHLNLLERDYFG 65 (85)
Q Consensus 37 ~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFG 65 (85)
++...=..-.++++.+-+.|++. +|||
T Consensus 3 idg~~i~~~~~~~~~l~~~l~fP--~yfG 29 (90)
T PF01337_consen 3 IDGRKIRDKEDFYDALAEALDFP--DYFG 29 (90)
T ss_dssp EECCC-SSHHHHHHHHHHHTT----TTSS
T ss_pred EeCCCCCCHHHHHHHHHHHcCCC--chhc
Confidence 33444445678889999999877 7888
No 103
>PF00349 Hexokinase_1: Hexokinase; InterPro: IPR022672 Hexokinase is an important enzyme that catalyses the ATP-dependent conversion of aldo- and keto-hexose sugars to the hexose-6-phosphate (H6P). The enzyme can catalyse this reaction on glucose, fructose, sorbitol and glucosamine, and as such is the first step in a number of metabolic pathways []. The addition of a phosphate group to the sugar acts to trap it in a cell, since the negatively charged phosphate cannot easily traverse the plasma membrane. The enzyme is widely distributed in eukaryotes. There are three isozymes of hexokinase in yeast (PI, PII and glucokinase): isozymes PI and PII phosphorylate both aldo- and keto-sugars; glucokinase is specific for aldo-hexoses. All three isozymes contain two domains []. Structural studies of yeast hexokinase reveal a well-defined catalytic pocket that binds ATP and hexose, allowing easy transfer of the phosphate from ATP to the sugar []. Vertebrates contain four hexokinase isozymes, designated I to IV, where types I to III contain a duplication of the two-domain yeast-type hexokinases. Both the N- and C-terminal halves bind hexose and H6P, though in types I an III only the C-terminal half supports catalysis, while both halves support catalysis in type II. The N-terminal half is the regulatory region. Type IV hexokinase is similar to the yeast enzyme in containing only the two domains, and is sometimes incorrectly referred to as glucokinase. The different vertebrate isozymes differ in their catalysis, localisation and regulation, thereby contributing to the different patterns of glucose metabolism in different tissues []. Whereas types I to III can phosphorylate a variety of hexose sugars and are inhibited by glucose-6-phosphate (G6P), type IV is specific for glucose and shows no G6P inhibition. Type I enzyme may have a catabolic function, producing H6P for energy production in glycolysis; it is bound to the mitochondrial membrane, which enables the coordination of glycolysis with the TCA cycle. Types II and III enzyme may have anabolic functions, providing H6P for glycogen or lipid synthesis. Type IV enzyme is found in the liver and pancreatic beta-cells, where it is controlled by insulin (activation) and glucagon (inhibition). In pancreatic beta-cells, type IV enzyme acts as a glucose sensor to modify insulin secretion. Mutations in type IV hexokinase have been associated with diabetes mellitus. Hexokinase (2.7.1.1 from EC), a fructose and glucose phosphorylating enzyme, contains two structurally similar domains represented by this family and PF03727 from PFAM. Some hexokinases have two copies of each of these domains. This entry represents the N-terminal domain.; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0005975 carbohydrate metabolic process; PDB: 3O1W_A 3O6W_A 3O4W_B 3O08_B 3O80_A 3O5B_A 3O8M_A 3O1B_A 1BG3_A 4DHY_A ....
Probab=24.92 E-value=2.4e+02 Score=19.86 Aligned_cols=37 Identities=27% Similarity=0.535 Sum_probs=24.8
Q ss_pred CeEEEEEEecCCCEEEEE-----ecc---CccHhHHHHHHHhhcC
Q psy17656 21 KIEVAHITLLDGSLLDVT-----IER---KAKGEDLFDRVCDHLN 57 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~-----v~~---ka~G~~Ll~~Vc~~L~ 57 (85)
+.+.|.|.|..+...+.. +.. ...|.+||+-|++++.
T Consensus 74 nlRv~~V~L~g~~~~~~~~~~~~ip~~~~~~~~~~lFd~ia~~i~ 118 (206)
T PF00349_consen 74 NLRVALVELSGNGKVEIEQEKYKIPEELMNGSGEELFDFIADCIA 118 (206)
T ss_dssp SEEEEEEEEESSSEEEEEEEEEE--HHHHTSBHHHHHHHHHHHHH
T ss_pred EEEEEEEEEcCCCCceeeeccccCChHHhcCCcccHHHHHHHHHH
Confidence 556777778777544432 222 4668999999998776
No 104
>PRK12435 ferrochelatase; Provisional
Probab=24.23 E-value=91 Score=23.48 Aligned_cols=33 Identities=18% Similarity=0.458 Sum_probs=24.2
Q ss_pred hHHHHHHHhhcCCcccceeeEEEecC-CCCeeccccC
Q psy17656 46 EDLFDRVCDHLNLLERDYFGLTYDNK-YDPQCWLEMV 81 (85)
Q Consensus 46 ~~Ll~~Vc~~L~L~E~dYFGL~y~d~-~~~~~WLd~~ 81 (85)
.+--..|++.|++.+ +-+.|+.. .+..-||.|+
T Consensus 200 ~~t~~~v~~~l~~~~---~~l~yQSr~~g~~~WL~P~ 233 (311)
T PRK12435 200 EETADLIAEQANVEH---YAIGWQSEGNTPDPWLGPD 233 (311)
T ss_pred HHHHHHHHHHcCCCC---CeEeeecCCCCCCCCCCCC
Confidence 344567888888753 67999987 3567899985
No 105
>cd01783 DAGK_delta_RA Ubiquitin-like domain of Diacylgylcerol kinase (DAGK). DAGK_delta_RA Diacylgylcerol kinase (DAGK) phosphorylates the second messenger diacylglycerol to phosphatidic acid as part of a protein kinase C pathway. Nine mammalian DAGK isotypes have been identified, which are classified into five subgroups according to their domain architecture and the DAGK-delta and -theta isozymes, which fall into one such group, contain an RA (Ras-associated) domain. DAGKs also contain a conserved catalytic domain (DAGKc), an assesory domain (DAGKa), and an array of conserved motifs that are likely to play a role in lipid-protein and protein-protein interactions in various DAG/PA-dependent signalling pathways.
Probab=24.06 E-value=1.6e+02 Score=18.91 Aligned_cols=38 Identities=13% Similarity=0.146 Sum_probs=30.1
Q ss_pred CCEEEEEeccCccHhHHHHHHHhhcCCcccc--eeeEEEe
Q psy17656 32 GSLLDVTIERKAKGEDLFDRVCDHLNLLERD--YFGLTYD 69 (85)
Q Consensus 32 ~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~d--YFGL~y~ 69 (85)
....++.|.+.++.+++...+.+.+||...+ .|-|.=+
T Consensus 16 ~~y~sv~V~~~tt~~dvv~eaL~kfGl~~~~~~~y~LvEV 55 (97)
T cd01783 16 VAYVSIRVNKDTTVQDVILEVLPLFGLQAECPESFRLIEV 55 (97)
T ss_pred cceEEEEecccchHHHHHHHHHHHhCcccCCccccEEEEE
Confidence 3456889999999999999999999996543 6666533
No 106
>PRK07785 NADH dehydrogenase subunit C; Provisional
Probab=23.97 E-value=38 Score=24.96 Aligned_cols=31 Identities=23% Similarity=0.258 Sum_probs=23.3
Q ss_pred HHHhhcCCccc---ceeeEEEecCCCCeeccccC
Q psy17656 51 RVCDHLNLLER---DYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 51 ~Vc~~L~L~E~---dYFGL~y~d~~~~~~WLd~~ 81 (85)
.|+-..+-.|+ |.||+.|.++.+.+.||-++
T Consensus 167 ~I~P~A~W~EREvyDmfGI~FeGHPDLRRiLlpd 200 (235)
T PRK07785 167 SVYPTNDWHERETYDFFGIVFDGHPALTRIEMPD 200 (235)
T ss_pred hhcccCCchHHHHHHhcCceeCCCCCCccccCCC
Confidence 34555566665 69999999998888998763
No 107
>PRK00745 4-oxalocrotonate tautomerase; Provisional
Probab=23.53 E-value=59 Score=17.88 Aligned_cols=40 Identities=15% Similarity=0.169 Sum_probs=26.9
Q ss_pred EEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEE
Q psy17656 25 AHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLT 67 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~ 67 (85)
++|.+..|.. .-++++.++.+.+.+++.+++.+.+.|=+-
T Consensus 4 i~I~~~~grs---~eqk~~l~~~it~~l~~~~~~p~~~v~V~i 43 (62)
T PRK00745 4 FHIELFEGRT---VEQKRKLVEEITRVTVETLGCPPESVDIII 43 (62)
T ss_pred EEEEEcCCCC---HHHHHHHHHHHHHHHHHHcCCChhHEEEEE
Confidence 4555555521 224456689999999999999887775443
No 108
>PF00794 PI3K_rbd: PI3-kinase family, ras-binding domain; InterPro: IPR000341 Phosphatidylinositol 3-kinase (PI3K) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. A subset of PI3Ks has the capacity to bind and be activated by the GTP-bound small GTPase p21Ras (Ras). PI3Ks are recognised as one of the principal effectors of Ras signalling to the cell-cycle control machinery. In the structure of the Ras-PI3K gamma complex, contacts between the two molecules are made primarily via the so-called switch I region of Ras and the PI3K RBD. The RBD fold comprises a five-stranded mixed beta-sheet, flanked by two alpha-helices. Interaction between Ras and the PI3K RBD is primarily polar in character and, as characterised by kinetic measurements, is reversible and transient [].; GO: 0016303 1-phosphatidylinositol-3-kinase activity, 0005942 phosphatidylinositol 3-kinase complex; PDB: 2RD0_A 3HIZ_A 3HHM_A 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2Y3A_A 3L54_A ....
Probab=23.39 E-value=1.9e+02 Score=17.81 Aligned_cols=52 Identities=8% Similarity=0.101 Sum_probs=38.3
Q ss_pred CCCeEEEEEEec-CCCEEEEEeccCccHhHHHHHHHhh----cCCcccc-eeeEEEec
Q psy17656 19 KGKIEVAHITLL-DGSLLDVTIERKAKGEDLFDRVCDH----LNLLERD-YFGLTYDN 70 (85)
Q Consensus 19 ~~~~~~~~V~LL-D~t~~~~~v~~ka~G~~Ll~~Vc~~----L~L~E~d-YFGL~y~d 70 (85)
....+.+.|... ++...+|.++..++..+|+.++... ++..+.. =|-|+...
T Consensus 13 ~~~~i~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G 70 (106)
T PF00794_consen 13 QNNKIKVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCG 70 (106)
T ss_dssp SSSEEEEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETT
T ss_pred CCCeEEEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecC
Confidence 456799999999 5667889999999999999998777 3444444 67887763
No 109
>KOG3309|consensus
Probab=22.57 E-value=2.8e+02 Score=19.41 Aligned_cols=38 Identities=18% Similarity=0.203 Sum_probs=27.8
Q ss_pred CCCCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhh
Q psy17656 15 TKPLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDH 55 (85)
Q Consensus 15 ~~~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~ 55 (85)
.+.++...+.+.-...||.+..+.... |..||+.+-++
T Consensus 36 ~~~~~~e~i~Itfv~~dG~~~~i~g~v---GdtlLd~ah~n 73 (159)
T KOG3309|consen 36 KGPRKVEDIKITFVDPDGEEIKIKGKV---GDTLLDAAHEN 73 (159)
T ss_pred cCCCCCceEEEEEECCCCCEEEeeeec---chHHHHHHHHc
Confidence 344556668888889999887776655 88898887643
No 110
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=22.41 E-value=1.6e+02 Score=16.51 Aligned_cols=28 Identities=18% Similarity=0.237 Sum_probs=18.6
Q ss_pred EEEEecCCCEEEEEeccCccHhHHHHHHHh
Q psy17656 25 AHITLLDGSLLDVTIERKAKGEDLFDRVCD 54 (85)
Q Consensus 25 ~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~ 54 (85)
++|.++||+..+ +...++..++-..+-.
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~ 28 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHS 28 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSH
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCH
Confidence 478899999887 5555666655444433
No 111
>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Rsm22 has been identified as a mitochondrial small ribosomal subunit [] and is a methyltransferase. In Schizosaccharomyces pombe (Fission yeast), Rsm22 is tandemly fused to Cox11 (a factor required for copper insertion into cytochrome oxidase) and the two proteins are proteolytically cleaved after import into the mitochondria []. This entry consists of mitochondrial Rsm22 and homologous sequences from bacteria.; GO: 0008168 methyltransferase activity, 0006412 translation
Probab=22.38 E-value=2.2e+02 Score=20.71 Aligned_cols=35 Identities=17% Similarity=0.302 Sum_probs=28.6
Q ss_pred CCCCCCCeEEEEEEecCCCEEEEEeccCccHhHHHHH
Q psy17656 15 TKPLKGKIEVAHITLLDGSLLDVTIERKAKGEDLFDR 51 (85)
Q Consensus 15 ~~~~~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~ 51 (85)
.|.+.++...|.|-..||......|.+ ..| .+|..
T Consensus 229 ~p~~~~~hv~~~~C~~~G~l~~~~v~K-~~g-~~y~~ 263 (274)
T PF09243_consen 229 PPLKRKGHVICDLCTPDGQLERVVVTK-RHG-ELYRC 263 (274)
T ss_pred hhhccCCcEEEEEECCCCCEEEEEEcc-cch-HHHHH
Confidence 556788899999999999888888888 566 77664
No 112
>KOG3137|consensus
Probab=22.16 E-value=1.8e+02 Score=21.70 Aligned_cols=44 Identities=20% Similarity=0.237 Sum_probs=37.8
Q ss_pred CeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEecC
Q psy17656 21 KIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDNK 71 (85)
Q Consensus 21 ~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d~ 71 (85)
+...+.|.-+|-+-..|.++.+.-..-+|..-|+||. |.-|.|+
T Consensus 198 R~q~V~i~g~D~~Ger~~~~aSgw~ARI~QHE~DHL~-------G~Lf~Dk 241 (267)
T KOG3137|consen 198 RPQSVKIDGRDITGERFSISASGWPARIFQHEYDHLE-------GVLFFDK 241 (267)
T ss_pred ccceEEEeeecCCCCEEEEecccchHHHHHhHhhhhc-------ceeeeee
Confidence 4578888899988888899988888899999999998 8888875
No 113
>cd03590 CLECT_DC-SIGN_like C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR). CLECT_DC-SIGN_like: C-type lectin-like domain (CTLD) of the type found in human dendritic cell (DC)-specific intercellular adhesion molecule 3-grabbing non-integrin (DC-SIGN) and the related receptor, DC-SIGN receptor (DC-SIGNR). This group also contains proteins similar to hepatic asialoglycoprotein receptor (ASGP-R) and langerin in human. These proteins are type II membrane proteins with a CTLD ectodomain. CTLD refers to a domain homologous to the carbohydrate-recognition domains (CRDs) of the C-type lectins. DC-SIGN is thought to mediate the initial contact between dendritic cells and resting T cells, and may also mediate the rolling of DCs on epithelium. DC-SIGN and DC-SIGNR bind to oligosaccharides present on human tissues, as well as, on path
Probab=21.32 E-value=1.7e+02 Score=17.66 Aligned_cols=32 Identities=13% Similarity=0.179 Sum_probs=21.8
Q ss_pred HHHhhcCCcccceeeEEEecCCCCeeccccCC
Q psy17656 51 RVCDHLNLLERDYFGLTYDNKYDPQCWLEMVN 82 (85)
Q Consensus 51 ~Vc~~L~L~E~dYFGL~y~d~~~~~~WLd~~K 82 (85)
.|...+.-...-+.||......+...|+|-..
T Consensus 47 ~l~~~~~~~~~~WiGl~~~~~~~~~~W~dg~~ 78 (126)
T cd03590 47 FISKILSGNRSYWIGLSDEETEGEWKWVDGTP 78 (126)
T ss_pred HHHHHhCCCCCEEEeeecCCCcCCeEecCCCC
Confidence 33344434456788999887778889988654
No 114
>cd01779 Myosin_IXb_RA ubitquitin-like domain of Myosin_IXb_RA. Myosin_IXb_RA RasGTP binding domain from guanine nucleotide exchange factors. In some proteins the domain acts as a RasGTP effector (AF6, canoe and RalGDS, for example), but in other cases it may not bind to RasGTP at all.
Probab=21.04 E-value=2.5e+02 Score=18.27 Aligned_cols=63 Identities=19% Similarity=0.188 Sum_probs=39.5
Q ss_pred CCCeEEEEEE--ecCCCEEEE--EeccCccHhHHHHHHHhhcCCc-ccceeeEEEecCCCCeeccccC
Q psy17656 19 KGKIEVAHIT--LLDGSLLDV--TIERKAKGEDLFDRVCDHLNLL-ERDYFGLTYDNKYDPQCWLEMV 81 (85)
Q Consensus 19 ~~~~~~~~V~--LLD~t~~~~--~v~~ka~G~~Ll~~Vc~~L~L~-E~dYFGL~y~d~~~~~~WLd~~ 81 (85)
....+...|. ++-+++..| .+.+.+++.++.+.|...|+|. -+-|-=.+.....++-.=|+|.
T Consensus 7 ~~~~~~l~IyP~~~a~~~~~C~v~a~k~sTAa~VI~~~i~~L~Ld~tk~YvLaEVkEsGgEEwvL~p~ 74 (105)
T cd01779 7 EDAEYHLHIYPQLIAESTISCRVTATKDSTAADVIDDVIASLQLDGTKCYVLAEVKESGGEEWVLDPT 74 (105)
T ss_pred ccccEEEEEccCCCCCCceEeEeEeccCCcHHHHHHHHHHHhCcCccccEEEEEeeccCCeeeecCcc
Confidence 3344444443 444555554 4568889999999999999995 4466666665443433335554
No 115
>PF06100 Strep_67kDa_ant: Streptococcal 67 kDa myosin-cross-reactive antigen like family ; InterPro: IPR010354 Members of this family are thought to have structural features in common with the beta chain of the class II antigens, as well as myosin, and may play an important role in the pathogenesis [].
Probab=21.01 E-value=72 Score=26.11 Aligned_cols=21 Identities=19% Similarity=0.518 Sum_probs=18.4
Q ss_pred CccHhHHHHHHHhhcCCcccc
Q psy17656 42 KAKGEDLFDRVCDHLNLLERD 62 (85)
Q Consensus 42 ka~G~~Ll~~Vc~~L~L~E~d 62 (85)
.++|++++..+|.||++.+..
T Consensus 409 eCtG~EIl~ElL~HLg~~~~~ 429 (500)
T PF06100_consen 409 ECTGEEILTELLYHLGFPDDE 429 (500)
T ss_pred hCChHHHHHHHHHhcCCChhh
Confidence 678999999999999997643
No 116
>PF08299 Bac_DnaA_C: Bacterial dnaA protein helix-turn-helix; InterPro: IPR013159 This entry represents the C-terminal domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication. DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; GO: 0005524 ATP binding, 0043565 sequence-specific DNA binding, 0006270 DNA-dependent DNA replication initiation, 0006275 regulation of DNA replication; PDB: 2HCB_B 3R8F_C 1L8Q_A 3PVP_B 3PVV_A 1J1V_A.
Probab=20.76 E-value=42 Score=19.65 Aligned_cols=20 Identities=20% Similarity=0.341 Sum_probs=13.9
Q ss_pred hHHHHHHHhhcCCcccceee
Q psy17656 46 EDLFDRVCDHLNLLERDYFG 65 (85)
Q Consensus 46 ~~Ll~~Vc~~L~L~E~dYFG 65 (85)
.++++.||++.|+...|..|
T Consensus 3 ~~Ii~~Va~~~~v~~~~i~s 22 (70)
T PF08299_consen 3 EDIIEAVAEYFGVSVEDIRS 22 (70)
T ss_dssp HHHHHHHHHHTT--HHHHHS
T ss_pred HHHHHHHHHHHCCCHHHHhC
Confidence 46889999999987776554
No 117
>KOG1364|consensus
Probab=20.68 E-value=1.5e+02 Score=23.25 Aligned_cols=52 Identities=12% Similarity=0.166 Sum_probs=42.3
Q ss_pred CCCeEEEEEEecCCCEEEEEeccCccHhHHHHHHHhhcCCcccceeeEEEec
Q psy17656 19 KGKIEVAHITLLDGSLLDVTIERKAKGEDLFDRVCDHLNLLERDYFGLTYDN 70 (85)
Q Consensus 19 ~~~~~~~~V~LLD~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~E~dYFGL~y~d 70 (85)
++..-.++|+++||+.....+-+.-+-+.|+.-+..|..=.+++-|-|-..-
T Consensus 274 ~svvt~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~ 325 (356)
T KOG1364|consen 274 RSVVTSIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAI 325 (356)
T ss_pred ccceeEEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecc
Confidence 3445558999999998777777777899999999999998889999887643
No 118
>PF13718 GNAT_acetyltr_2: GNAT acetyltransferase 2; PDB: 2ZPA_B.
Probab=20.52 E-value=1.2e+02 Score=21.66 Aligned_cols=32 Identities=19% Similarity=0.388 Sum_probs=21.5
Q ss_pred eccCccHhHHHHHHHhhcC-------------------------CcccceeeEEEec
Q psy17656 39 IERKAKGEDLFDRVCDHLN-------------------------LLERDYFGLTYDN 70 (85)
Q Consensus 39 v~~ka~G~~Ll~~Vc~~L~-------------------------L~E~dYFGL~y~d 70 (85)
++....|..+++.+-++.. -...||+|-.|--
T Consensus 102 ~q~~G~Gs~lL~~l~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~vDylGtSFG~ 158 (196)
T PF13718_consen 102 LQRMGYGSRLLQQLEQYAEGKIPSLSEQDKEKLPPLLSKLSDRRPPGVDYLGTSFGA 158 (196)
T ss_dssp C-SSSHHHHHHHHHHHT-----------------------------S-SEEEEEEE-
T ss_pred hhcCCHHHHHHHHHHHHHhhhcccccccccccccccccccccccccCCCEEEeccCC
Confidence 3456679999999999994 5678999999853
No 119
>TIGR03045 PS_II_C550 cytochrome c-550. Members of this protein family are cytochrome c-550, the PsbV extrinsic protein of photosystem II, from both Cyanobacteria and chloroplasts. A paralog to this protein, PsbV2, is found in some species in addition to PsbV itself.
Probab=20.38 E-value=69 Score=22.14 Aligned_cols=28 Identities=25% Similarity=0.520 Sum_probs=22.2
Q ss_pred CCEEEEEeccCccHhHHHHHHHhhcCCc
Q psy17656 32 GSLLDVTIERKAKGEDLFDRVCDHLNLL 59 (85)
Q Consensus 32 ~t~~~~~v~~ka~G~~Ll~~Vc~~L~L~ 59 (85)
|.+..|+-+.-+.|+.||+..|..-...
T Consensus 41 g~~~~~~~~~~~~Gk~lF~~~Ca~CH~~ 68 (159)
T TIGR03045 41 GETVTLTEEQVKRGKRLFNTACGTCHVG 68 (159)
T ss_pred CCeEEeChHhHHHHHHHHHHHHHHhCCC
Confidence 4677777777788999999999876653
Done!