Query 034423
Match_columns 95
No_of_seqs 101 out of 279
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 02:42:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034423.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034423hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01612 APG12_C Ubiquitin-like 100.0 6.7E-41 1.5E-45 219.8 10.5 84 12-95 1-87 (87)
2 PF04110 APG12: Ubiquitin-like 100.0 3.3E-39 7.1E-44 212.4 7.3 84 12-95 1-87 (87)
3 KOG3439 Protein conjugation fa 100.0 2.4E-37 5.1E-42 211.0 10.4 92 4-95 22-116 (116)
4 cd01611 GABARAP Ubiquitin doma 100.0 7.4E-33 1.6E-37 188.9 10.1 82 13-95 27-112 (112)
5 KOG1654 Microtubule-associated 100.0 2.5E-31 5.4E-36 181.4 8.8 82 13-95 31-116 (116)
6 PF02991 Atg8: Autophagy prote 100.0 2E-30 4.3E-35 175.2 8.6 82 13-95 19-104 (104)
7 PTZ00380 microtubule-associate 99.9 5.7E-27 1.2E-31 162.2 8.7 67 27-95 40-111 (121)
8 PF04106 APG5: Autophagy prote 95.9 0.0099 2.1E-07 43.7 3.5 80 8-88 106-194 (197)
9 PF11976 Rad60-SLD: Ubiquitin- 92.8 0.5 1.1E-05 28.4 5.4 47 27-74 11-60 (72)
10 PF11816 DUF3337: Domain of un 90.6 2.7 5.9E-05 33.0 8.8 79 11-90 213-328 (331)
11 KOG1209 1-Acyl dihydroxyaceton 90.0 0.71 1.5E-05 36.0 4.9 55 26-81 54-112 (289)
12 cd00196 UBQ Ubiquitin-like pro 87.5 2.8 6E-05 21.9 6.0 44 25-68 6-51 (69)
13 cd01763 Sumo Small ubiquitin-r 86.9 5.9 0.00013 25.1 7.4 64 6-74 5-70 (87)
14 PF03671 Ufm1: Ubiquitin fold 86.3 6.9 0.00015 25.2 7.2 71 12-84 2-75 (76)
15 PF13019 Telomere_Sde2: Telome 86.1 4.5 9.8E-05 29.5 6.8 74 15-88 3-81 (162)
16 cd06406 PB1_P67 A PB1 domain i 85.7 4.9 0.00011 26.1 6.1 54 31-85 15-74 (80)
17 PF08154 NLE: NLE (NUC135) dom 84.3 6.3 0.00014 23.9 5.9 52 12-63 1-56 (65)
18 smart00213 UBQ Ubiquitin homol 84.1 5.7 0.00012 22.4 5.5 45 28-73 11-57 (64)
19 PF10302 DUF2407: DUF2407 ubiq 82.8 11 0.00024 24.9 8.1 76 12-91 2-95 (97)
20 PF09138 Urm1: Urm1 (Ubiquitin 82.5 0.74 1.6E-05 30.8 1.3 37 12-50 1-44 (96)
21 PF11543 UN_NPL4: Nuclear pore 79.2 2.7 5.8E-05 26.8 3.0 46 11-61 3-50 (80)
22 PF00240 ubiquitin: Ubiquitin 77.0 7.2 0.00016 22.9 4.3 45 29-74 8-54 (69)
23 KOG2660 Locus-specific chromos 73.8 7.4 0.00016 31.3 4.8 72 20-92 157-235 (331)
24 PF08825 E2_bind: E2 binding d 70.7 0.94 2E-05 29.4 -0.8 53 32-87 2-69 (84)
25 PLN02799 Molybdopterin synthas 68.8 4.7 0.0001 24.9 2.2 54 12-65 3-62 (82)
26 PF02597 ThiS: ThiS family; I 67.8 8.7 0.00019 22.9 3.2 39 28-66 13-55 (77)
27 cd00565 ThiS ThiaminS ubiquiti 67.8 12 0.00026 22.2 3.8 41 26-68 4-44 (65)
28 PRK06437 hypothetical protein; 65.1 8.6 0.00019 23.4 2.8 35 29-65 13-47 (67)
29 cd01810 ISG15_repeat2 ISG15 ub 63.4 30 0.00066 20.8 5.2 56 30-88 12-69 (74)
30 TIGR01683 thiS thiamine biosyn 60.9 16 0.00035 21.6 3.4 41 26-68 3-43 (64)
31 PRK08364 sulfur carrier protei 60.7 35 0.00076 20.7 5.3 47 12-65 4-50 (70)
32 cd00754 MoaD Ubiquitin domain 57.9 17 0.00038 21.7 3.3 37 29-65 18-60 (80)
33 KOG2976 Protein involved in au 57.5 66 0.0014 25.4 7.0 50 36-88 212-273 (278)
34 cd01766 Ufm1 Urm1-like ubiquit 55.3 50 0.0011 21.5 5.1 72 12-85 2-76 (82)
35 cd01812 BAG1_N Ubiquitin-like 53.4 43 0.00094 19.5 6.3 43 29-72 12-56 (71)
36 PRK05863 sulfur carrier protei 52.7 31 0.00067 20.6 3.7 43 26-70 5-47 (65)
37 cd01807 GDX_N ubiquitin-like d 52.4 38 0.00083 20.3 4.2 52 30-86 14-69 (74)
38 cd01798 parkin_N amino-termina 52.0 44 0.00095 19.7 4.3 55 29-86 11-67 (70)
39 PRK13669 hypothetical protein; 51.5 16 0.00034 23.6 2.4 28 53-80 45-74 (78)
40 PF02824 TGS: TGS domain; Int 50.2 21 0.00046 21.1 2.7 30 33-62 13-42 (60)
41 cd01796 DDI1_N DNA damage indu 49.1 57 0.0012 19.6 5.1 55 29-86 12-69 (71)
42 cd01803 Ubiquitin Ubiquitin. U 48.9 50 0.0011 19.3 4.3 54 30-88 14-71 (76)
43 COG0386 BtuE Glutathione perox 45.8 19 0.00042 26.3 2.3 37 54-91 26-66 (162)
44 PRK06083 sulfur carrier protei 45.3 36 0.00079 21.8 3.4 40 27-68 24-63 (84)
45 PRK00865 glutamate racemase; P 44.0 48 0.001 24.9 4.4 38 41-78 19-56 (261)
46 PRK11130 moaD molybdopterin sy 43.9 29 0.00062 21.5 2.7 36 29-64 17-60 (81)
47 cd01776 Rin1_RA Ubiquitin doma 42.2 53 0.0011 21.7 3.8 41 29-69 16-62 (87)
48 TIGR01682 moaD molybdopterin c 42.1 40 0.00087 20.6 3.1 36 30-65 19-60 (80)
49 cd01769 UBL Ubiquitin-like dom 42.0 64 0.0014 18.1 6.8 54 30-88 11-68 (69)
50 PF00255 GSHPx: Glutathione pe 41.3 31 0.00068 23.1 2.7 37 55-91 23-62 (108)
51 PF09358 UBA_e1_C: Ubiquitin-a 41.0 50 0.0011 22.5 3.7 47 30-78 36-94 (125)
52 cd01668 TGS_RelA_SpoT TGS_RelA 40.0 62 0.0014 17.9 3.5 38 28-65 8-45 (60)
53 cd01793 Fubi Fubi ubiquitin-li 38.2 89 0.0019 18.7 4.3 46 27-73 9-56 (74)
54 PF07929 PRiA4_ORF3: Plasmid p 37.8 1.4E+02 0.0031 20.9 5.9 39 20-59 12-52 (179)
55 PRK08053 sulfur carrier protei 36.5 73 0.0016 18.9 3.6 41 26-68 5-45 (66)
56 PRK05659 sulfur carrier protei 36.5 75 0.0016 18.5 3.6 40 27-68 6-45 (66)
57 PF07293 DUF1450: Protein of u 36.3 36 0.00078 21.8 2.3 27 53-79 45-73 (78)
58 cd06408 PB1_NoxR The PB1 domai 36.3 93 0.002 20.3 4.3 62 12-78 2-67 (86)
59 KOG3483 Uncharacterized conser 35.0 1.3E+02 0.0029 19.7 5.1 69 11-80 12-82 (94)
60 PF05990 DUF900: Alpha/beta hy 34.3 1.2E+02 0.0025 22.5 5.1 47 41-89 3-55 (233)
61 COG3977 Alanine-alpha-ketoisov 34.0 60 0.0013 26.7 3.6 47 37-86 312-367 (417)
62 cd01799 Hoil1_N Ubiquitin-like 33.8 1.2E+02 0.0025 18.7 4.7 43 30-73 16-60 (75)
63 cd01806 Nedd8 Nebb8-like ubiq 33.5 1E+02 0.0022 17.9 6.0 55 30-89 14-72 (76)
64 KOG1651 Glutathione peroxidase 32.9 48 0.001 24.4 2.7 37 54-90 35-75 (171)
65 PF11827 DUF3347: Protein of u 32.0 43 0.00093 24.1 2.3 25 66-90 116-140 (174)
66 cd03485 MutL_Trans_hPMS_1_like 32.0 46 0.001 22.4 2.4 28 52-79 48-78 (132)
67 PF10209 DUF2340: Uncharacteri 32.0 77 0.0017 22.1 3.5 36 13-50 1-40 (122)
68 cd01804 midnolin_N Ubiquitin-l 31.7 1.3E+02 0.0027 18.4 7.4 58 29-90 14-73 (78)
69 KOG4146 Ubiquitin-like protein 31.5 1.3E+02 0.0029 20.3 4.5 46 12-57 6-58 (101)
70 PF15130 DUF4566: Domain of un 31.4 92 0.002 23.9 4.1 33 28-60 153-193 (241)
71 cd01764 Urm1 Urm1-like ubuitin 31.3 68 0.0015 20.8 3.0 16 35-50 27-42 (94)
72 cd01794 DC_UbP_C dendritic cel 30.0 1.3E+02 0.0028 18.1 4.1 45 28-73 10-56 (70)
73 cd00329 TopoII_MutL_Trans MutL 29.5 53 0.0011 20.1 2.2 27 52-78 43-72 (107)
74 cd00079 HELICc Helicase superf 29.5 1.4E+02 0.0031 18.4 6.2 47 37-89 12-61 (131)
75 TIGR00067 glut_race glutamate 29.1 1.2E+02 0.0025 22.9 4.3 37 41-77 12-48 (251)
76 KOG1610 Corticosteroid 11-beta 28.9 75 0.0016 25.6 3.4 40 23-62 75-114 (322)
77 PF12053 DUF3534: Domain of un 28.6 1.4E+02 0.003 21.3 4.4 68 12-92 2-83 (145)
78 PF00076 RRM_1: RNA recognitio 27.9 83 0.0018 17.4 2.7 23 57-80 1-24 (70)
79 PF05717 TnpB_IS66: IS66 Orf2 27.6 79 0.0017 21.1 2.9 25 38-62 16-44 (107)
80 cd01808 hPLIC_N Ubiquitin-like 27.4 1.4E+02 0.003 17.6 7.0 53 30-87 13-69 (71)
81 cd01775 CYR1_RA Ubiquitin doma 27.3 1.4E+02 0.0031 20.0 4.1 31 31-61 17-52 (97)
82 cd06407 PB1_NLP A PB1 domain i 27.1 88 0.0019 19.8 2.9 35 27-61 10-48 (82)
83 cd03078 GST_N_Metaxin1_like GS 26.7 82 0.0018 19.1 2.7 28 19-49 45-72 (73)
84 COG5227 SMT3 Ubiquitin-like pr 26.5 1.5E+02 0.0033 20.0 4.0 59 11-74 23-83 (103)
85 smart00666 PB1 PB1 domain. Pho 26.1 1.5E+02 0.0033 17.6 7.8 68 12-86 3-78 (81)
86 cd00659 Topo_IB_C DNA topoisom 25.1 2.3E+02 0.0051 21.2 5.3 62 11-78 84-145 (218)
87 PTZ00044 ubiquitin; Provisiona 25.1 1.6E+02 0.0034 17.4 4.2 54 29-87 13-70 (76)
88 KOG0010 Ubiquitin-like protein 25.0 2.2E+02 0.0049 24.3 5.6 60 12-82 15-78 (493)
89 PF14877 mIF3: Mitochondrial t 24.6 1.7E+02 0.0037 21.7 4.4 39 28-66 132-171 (181)
90 cd01809 Scythe_N Ubiquitin-lik 24.5 1.5E+02 0.0033 17.0 4.4 44 29-73 13-58 (72)
91 PRK07440 hypothetical protein; 24.3 1.5E+02 0.0032 18.0 3.5 38 29-68 12-49 (70)
92 PF09593 Pathogen_betaC1: Beta 23.9 81 0.0017 21.8 2.4 25 12-37 25-49 (117)
93 COG1325 Predicted exosome subu 23.5 1.3E+02 0.0028 21.7 3.5 53 30-94 58-110 (149)
94 PLN02788 phenylalanine-tRNA sy 23.5 1.1E+02 0.0023 25.3 3.4 36 15-50 305-341 (402)
95 smart00148 PLCXc Phospholipase 23.3 1.2E+02 0.0026 20.6 3.2 31 33-63 65-98 (135)
96 PRK12551 ATP-dependent Clp pro 22.9 1.5E+02 0.0032 21.8 3.8 53 25-80 22-81 (196)
97 cd03483 MutL_Trans_MLH1 MutL_T 22.9 78 0.0017 21.2 2.2 27 52-78 47-75 (127)
98 PRK06944 sulfur carrier protei 22.5 1.7E+02 0.0037 16.8 3.6 40 26-68 5-44 (65)
99 PF11324 DUF3126: Protein of u 22.3 1.2E+02 0.0026 18.8 2.8 24 40-63 3-38 (63)
100 cd06892 PX_SNX5_like The phosp 22.1 2E+02 0.0042 20.4 4.2 43 5-50 9-51 (141)
101 KOG1158 NADP/FAD dependent oxi 22.0 2.5E+02 0.0053 24.7 5.5 76 11-92 480-566 (645)
102 PF12251 zf-SNAP50_C: snRNA-ac 21.7 1E+02 0.0022 22.6 2.8 37 29-65 2-48 (196)
103 TIGR01687 moaD_arch MoaD famil 21.7 2E+02 0.0044 17.5 4.1 35 31-66 20-67 (88)
104 PHA03359 UL17 tegument protein 21.3 70 0.0015 28.3 2.1 19 77-95 381-400 (686)
105 TIGR00601 rad23 UV excision re 21.3 3.7E+02 0.008 21.9 6.1 59 29-90 13-76 (378)
106 PF13085 Fer2_3: 2Fe-2S iron-s 21.1 2E+02 0.0043 19.3 3.9 36 15-50 5-42 (110)
107 PF11069 DUF2870: Protein of u 21.1 80 0.0017 21.3 1.9 21 8-28 24-44 (98)
108 cd01617 DCX Ubiquitin-like dom 21.0 2.2E+02 0.0047 17.6 4.5 36 15-51 3-40 (80)
109 PF10568 Tom37: Outer mitochon 20.8 98 0.0021 19.0 2.2 26 19-47 46-72 (72)
110 cd03482 MutL_Trans_MutL MutL_T 20.8 89 0.0019 20.8 2.2 29 52-80 43-73 (123)
111 PF02192 PI3K_p85B: PI3-kinase 20.5 2.2E+02 0.0048 18.0 3.8 32 31-62 4-46 (78)
112 PF01650 Peptidase_C13: Peptid 20.1 1.5E+02 0.0032 22.6 3.4 27 35-61 78-115 (256)
113 PTZ00110 helicase; Provisional 20.0 5.2E+02 0.011 21.5 7.3 60 23-88 347-407 (545)
No 1
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=100.00 E-value=6.7e-41 Score=219.81 Aligned_cols=84 Identities=49% Similarity=0.913 Sum_probs=82.2
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc---CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEEEe
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIVNY 88 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi~Y 88 (95)
||+|||+|+|++|+|+|+||+||+++||++|+.+||||| +++|||+||||+|+|++|++||+||++|++||||||+|
T Consensus 1 kv~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~LY~~~~~dGfLyi~Y 80 (87)
T cd01612 1 KVTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNLYRCFGTNGELIVSY 80 (87)
T ss_pred CeEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHHHHhcCCCCEEEEEE
Confidence 799999999999999999999999999999999999999 67999999999999999999999999996699999999
Q ss_pred cCCcccC
Q 034423 89 ACSMAWG 95 (95)
Q Consensus 89 s~~~afG 95 (95)
|+++|||
T Consensus 81 s~~~afG 87 (87)
T cd01612 81 CKTVAFG 87 (87)
T ss_pred eCccccC
Confidence 9999999
No 2
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=100.00 E-value=3.3e-39 Score=212.36 Aligned_cols=84 Identities=57% Similarity=0.983 Sum_probs=67.6
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc---CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEEEe
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIVNY 88 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi~Y 88 (95)
||+|||+++|+||+|+++||+|+++++|+.++.||||+| ++|+||+||||+|+|+||+++|+||+||+.||.|+|+|
T Consensus 1 KV~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L~~~f~~~~~Liv~Y 80 (87)
T PF04110_consen 1 KVTVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDLYRCFGTNGELIVSY 80 (87)
T ss_dssp EEEEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHHHHHH-BTTBEEEEE
T ss_pred CEEEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHHHHHhCCCCEEEEEE
Confidence 899999999999999999999999999999999999999 58999999999999999999999999999999999999
Q ss_pred cCCcccC
Q 034423 89 ACSMAWG 95 (95)
Q Consensus 89 s~~~afG 95 (95)
|.++|||
T Consensus 81 s~t~A~G 87 (87)
T PF04110_consen 81 SKTPAWG 87 (87)
T ss_dssp ESSS---
T ss_pred ecccccC
Confidence 9999999
No 3
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.4e-37 Score=210.97 Aligned_cols=92 Identities=52% Similarity=0.934 Sum_probs=87.4
Q ss_pred CCCCCCCCcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhcC---CceEEEEEcCccCCCcccHHHHHHHHhCC
Q 034423 4 TDSPSSTRKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLG---RETLFVYVNSAFSPNPDELVIDLYNNFGF 80 (95)
Q Consensus 4 ~~~~~~~~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L~---~~slFlyVnn~f~P~~d~~v~~LY~~~k~ 80 (95)
.++|+...||.|||+++|++|+|+++||+|+.++||+.++.||||+|+ +++|||||||+|+|+||+.+|+||+||+.
T Consensus 22 ~~~~~~~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~cf~~ 101 (116)
T KOG3439|consen 22 SASEKNIRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYECFGT 101 (116)
T ss_pred ccCCCCcceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHHhcCC
Confidence 344555589999999999999999999999999999999999999994 99999999999999999999999999999
Q ss_pred CCEEEEEecCCcccC
Q 034423 81 DGKLIVNYACSMAWG 95 (95)
Q Consensus 81 dG~Lyi~Ys~~~afG 95 (95)
||.|+++||.++|||
T Consensus 102 d~~Lvl~Yc~s~A~G 116 (116)
T KOG3439|consen 102 DGKLVLNYCISVAWG 116 (116)
T ss_pred CCEEEEEEeeecccC
Confidence 999999999999999
No 4
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=100.00 E-value=7.4e-33 Score=188.94 Aligned_cols=82 Identities=21% Similarity=0.404 Sum_probs=77.1
Q ss_pred EEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc---CCceEEEEEcCccCCCcccHHHHHHHHhCC-CCEEEEEe
Q 034423 13 VVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSPNPDELVIDLYNNFGF-DGKLIVNY 88 (95)
Q Consensus 13 V~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f~P~~d~~v~~LY~~~k~-dG~Lyi~Y 88 (95)
|+|.-.+.|++|+|+++||+||+++||++|+.+||+|| +++|||||||| .+|++|++||+||++|+| ||||||+|
T Consensus 27 VIvE~~~~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~-~~p~~~~~~~~lY~~~kd~DGfLyl~Y 105 (112)
T cd01611 27 VIVERYPKSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNN-SLPPTSATMSQLYEEHKDEDGFLYMTY 105 (112)
T ss_pred EEEEEcCCCCcccccCceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECC-ccCCchhHHHHHHHHhCCCCCEEEEEE
Confidence 44444678999999999999999999999999999999 79999999999 599999999999999999 99999999
Q ss_pred cCCcccC
Q 034423 89 ACSMAWG 95 (95)
Q Consensus 89 s~~~afG 95 (95)
|+++|||
T Consensus 106 s~~~tfG 112 (112)
T cd01611 106 SSEETFG 112 (112)
T ss_pred eccccCC
Confidence 9999999
No 5
>KOG1654 consensus Microtubule-associated anchor protein involved in autophagy and membrane trafficking [Cytoskeleton]
Probab=99.97 E-value=2.5e-31 Score=181.40 Aligned_cols=82 Identities=22% Similarity=0.417 Sum_probs=78.2
Q ss_pred EEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc---CCceEEEEEcCccCCCcccHHHHHHHHhCC-CCEEEEEe
Q 034423 13 VVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSPNPDELVIDLYNNFGF-DGKLIVNY 88 (95)
Q Consensus 13 V~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f~P~~d~~v~~LY~~~k~-dG~Lyi~Y 88 (95)
|.|..++.+++|.|+|+|||||+++|++||+.+||||| +++++|+||||. +|..+.+|++||+.+|| ||||||.|
T Consensus 31 VIvEk~~~~~lp~lDK~KyLVP~dltvgqfi~iIRkRiqL~~~kA~flfVn~~-~p~ts~~ms~~Ye~~kdeDgFLYm~Y 109 (116)
T KOG1654|consen 31 VIVEKAGKSQLPDLDKKKYLVPDDLTVGQFIKIIRKRIQLSPEKAFFLFVNNT-SPPTSATMSALYEEEKDEDGFLYMTY 109 (116)
T ss_pred EEEEecccccCcccccceeeccccccHHHHHHHHHHHhccChhHeEEEEEcCc-CCcchhhHHHHHHhhcccCcEEEEEe
Confidence 66778899999999999999999999999999999999 899999999997 66669999999999999 99999999
Q ss_pred cCCcccC
Q 034423 89 ACSMAWG 95 (95)
Q Consensus 89 s~~~afG 95 (95)
|++++||
T Consensus 110 s~e~tfG 116 (116)
T KOG1654|consen 110 SGENTFG 116 (116)
T ss_pred ccccccC
Confidence 9999999
No 6
>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....
Probab=99.97 E-value=2e-30 Score=175.16 Aligned_cols=82 Identities=23% Similarity=0.435 Sum_probs=70.7
Q ss_pred EEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc---CCceEEEEEcCccCCCcccHHHHHHHHhCC-CCEEEEEe
Q 034423 13 VVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSPNPDELVIDLYNNFGF-DGKLIVNY 88 (95)
Q Consensus 13 V~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f~P~~d~~v~~LY~~~k~-dG~Lyi~Y 88 (95)
|+|.-.+.+++|.|+|+||+||.++|++||+..||+|| ++++||+|||| .+|+.+.+||+||+.||| ||||||+|
T Consensus 19 VIvEr~~~s~lp~ldk~KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~-~lp~~s~tm~elY~~~kdeDGFLY~~Y 97 (104)
T PF02991_consen 19 VIVERYPKSKLPDLDKKKFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNN-TLPSTSSTMGELYEKYKDEDGFLYMTY 97 (104)
T ss_dssp EEEEE-TTSSS---SSSEEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTT-BESSTTSBHHHHHHHHB-TTSSEEEEE
T ss_pred EEEEEccCCChhhcCccEEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcC-cccchhhHHHHHHHHhCCCCCeEEEEe
Confidence 34444556779999999999999999999999999999 88999999999 599999999999999999 99999999
Q ss_pred cCCcccC
Q 034423 89 ACSMAWG 95 (95)
Q Consensus 89 s~~~afG 95 (95)
|++++||
T Consensus 98 s~e~tFG 104 (104)
T PF02991_consen 98 SSEETFG 104 (104)
T ss_dssp ESSSSBC
T ss_pred ccccccC
Confidence 9999999
No 7
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=99.94 E-value=5.7e-27 Score=162.17 Aligned_cols=67 Identities=18% Similarity=0.263 Sum_probs=64.0
Q ss_pred eeeeE-EecCCchHHHHHHHHHhhc---CCceEEEEEcCccCCCcccHHHHHHHHhCC-CCEEEEEecCCcccC
Q 034423 27 KQAKF-KISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSPNPDELVIDLYNNFGF-DGKLIVNYACSMAWG 95 (95)
Q Consensus 27 ~k~Kf-lV~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f~P~~d~~v~~LY~~~k~-dG~Lyi~Ys~~~afG 95 (95)
+|+|| +||+++|++||+.+||+|| +++ +||||||+ +|+++++||+||+.||| ||||||+||++++||
T Consensus 40 dK~KfllVP~d~tV~qF~~iIRkrl~l~~~k-~flfVnn~-lp~~s~~mg~lYe~~KDeDGFLYi~Ys~e~tFG 111 (121)
T PTZ00380 40 SKVHFLALPRDATVAELEAAVRQALGTSAKK-VTLAIEGS-TPAVTATVGDIADACKRDDGFLYVSVRTEQAMG 111 (121)
T ss_pred CceEEEEcCCCCcHHHHHHHHHHHcCCChhH-EEEEECCc-cCCccchHHHHHHHhcCCCCeEEEEEccccccc
Confidence 79999 6999999999999999999 566 99999995 99999999999999999 999999999999999
No 8
>PF04106 APG5: Autophagy protein Apg5 ; InterPro: IPR007239 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents autophagy protein 5 (Apg5).; GO: 0006914 autophagy, 0005737 cytoplasm; PDB: 2DYM_G 2DYO_A.
Probab=95.86 E-value=0.0099 Score=43.74 Aligned_cols=80 Identities=20% Similarity=0.247 Sum_probs=40.3
Q ss_pred CCCCcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhcC--------CceEEEEEcCccCCCcccHHHHHHHHhC
Q 034423 8 SSTRKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLG--------RETLFVYVNSAFSPNPDELVIDLYNNFG 79 (95)
Q Consensus 8 ~~~~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L~--------~~slFlyVnn~f~P~~d~~v~~LY~~~k 79 (95)
...+.|=||+.-.++.|.+...--....+-+-..+-..|+..|+ ..-..++|++ ..++.|+.+..||+++.
T Consensus 106 ~~~r~IPiRiy~~~~~~~iQ~~i~~~~~~g~~~TL~d~L~~~lp~~f~s~~~~~~~~~iihG-I~ipldtpl~~l~~~l~ 184 (197)
T PF04106_consen 106 SKFRHIPIRIYLPGSVPVIQPPIPPIKEDGQPQTLGDALSELLPELFPSSDEPELARVIIHG-IEIPLDTPLQWLYENLS 184 (197)
T ss_dssp SS-SB--EEEEE-SS--EE----B----TT---BTGGGHHHHHTTT--T------EEEEETT-EEE-TTSBHHHHHHHH-
T ss_pred CCcceeEEEEEeCCCcceEecccccccCCCCcCcHHHHHHHhChhhcccccCccccEEEEeC-eeCCCCCcHHHHHHHcc
Confidence 34467777877777666665544333333333333344444442 2457789999 48888999999999999
Q ss_pred C-CCEEEEEe
Q 034423 80 F-DGKLIVNY 88 (95)
Q Consensus 80 ~-dG~Lyi~Y 88 (95)
- ||||||.=
T Consensus 185 ~~D~FLhivv 194 (197)
T PF04106_consen 185 YPDGFLHIVV 194 (197)
T ss_dssp -TTS-EEEEE
T ss_pred CCCCeEEEEE
Confidence 8 99999963
No 9
>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=92.80 E-value=0.5 Score=28.41 Aligned_cols=47 Identities=26% Similarity=0.443 Sum_probs=37.2
Q ss_pred eeeeEEecCCchHHHHHHHHHhhc--CC-ceEEEEEcCccCCCcccHHHHH
Q 034423 27 KQAKFKISGSDKFAKVIEFLCRHL--GR-ETLFVYVNSAFSPNPDELVIDL 74 (95)
Q Consensus 27 ~k~KflV~~~~t~~~~~~~LRk~L--~~-~slFlyVnn~f~P~~d~~v~~L 74 (95)
+.-.|.|..+.+++.++...+++. +. +++-++.++. ...++.+++++
T Consensus 11 ~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~-~L~~~~T~~~~ 60 (72)
T PF11976_consen 11 KEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGK-RLDPNDTPEDL 60 (72)
T ss_dssp EEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTE-EE-TTSCHHHH
T ss_pred CEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCE-EcCCCCCHHHC
Confidence 367899999999999999999998 55 7788888875 45666677664
No 10
>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.
Probab=90.64 E-value=2.7 Score=33.00 Aligned_cols=79 Identities=18% Similarity=0.279 Sum_probs=64.9
Q ss_pred CcEEEEeeeCC--CCCceeee-----------------eEEecCCchHHHHHHHHHhhc-----------------CCce
Q 034423 11 RKVVVHFRATG--GAPILKQA-----------------KFKISGSDKFAKVIEFLCRHL-----------------GRET 54 (95)
Q Consensus 11 ~KV~v~~~~~g--~~P~L~k~-----------------KflV~~~~t~~~~~~~LRk~L-----------------~~~s 54 (95)
.||...+.|-. ..|.+++- |.-.+.-+.+..++.++-.|| +++.
T Consensus 213 ~Ki~F~L~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~ 292 (331)
T PF11816_consen 213 PKISFVLQPWDGSLPPNLKPDGKSQKKIKLPPLSEGNSRLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEW 292 (331)
T ss_pred CeeEEEEeecCCCCccccCCCccccccccccccccccceecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCce
Confidence 69999999943 34566665 888899999999999998888 2567
Q ss_pred EEEEEcCccCCCcccHHHHHHHH-hCCCCEEEEEecC
Q 034423 55 LFVYVNSAFSPNPDELVIDLYNN-FGFDGKLIVNYAC 90 (95)
Q Consensus 55 lFlyVnn~f~P~~d~~v~~LY~~-~k~dG~Lyi~Ys~ 90 (95)
|=|+||+. ...++.+++++=.. +|..|-|.+.|..
T Consensus 293 lEl~C~gq-vL~~~mtLaTVr~~~WK~~~di~L~YR~ 328 (331)
T PF11816_consen 293 LELLCNGQ-VLPPDMTLATVRTFIWKSSGDIVLHYRR 328 (331)
T ss_pred EEEEeCCe-EcCCcCCHHHHHHhhccCCCeEEEEEEe
Confidence 88999997 66778899999887 6779999999964
No 11
>KOG1209 consensus 1-Acyl dihydroxyacetone phosphate reductase and related dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism]
Probab=90.01 E-value=0.71 Score=36.00 Aligned_cols=55 Identities=18% Similarity=0.189 Sum_probs=49.3
Q ss_pred eeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcC----ccCCCcccHHHHHHHHhCCC
Q 034423 26 LKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNS----AFSPNPDELVIDLYNNFGFD 81 (95)
Q Consensus 26 L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn----~f~P~~d~~v~~LY~~~k~d 81 (95)
|+..|.-|++++.+.+|..++|+. +..+|-+.+|| +..|..|.+++++=+||+.+
T Consensus 54 l~~~kLDV~~~~~V~~v~~evr~~-~~Gkld~L~NNAG~~C~~Pa~d~~i~ave~~f~vN 112 (289)
T KOG1209|consen 54 LKPYKLDVSKPEEVVTVSGEVRAN-PDGKLDLLYNNAGQSCTFPALDATIAAVEQCFKVN 112 (289)
T ss_pred CeeEEeccCChHHHHHHHHHHhhC-CCCceEEEEcCCCCCcccccccCCHHHHHhhhccc
Confidence 678899999999999999999998 77889999998 45689999999999999974
No 12
>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=87.50 E-value=2.8 Score=21.93 Aligned_cols=44 Identities=20% Similarity=0.197 Sum_probs=34.1
Q ss_pred ceeeeeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcc
Q 034423 25 ILKQAKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPD 68 (95)
Q Consensus 25 ~L~k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d 68 (95)
.-...++.++.+.|+++++..|.++. +.+...|++|....+...
T Consensus 6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~ 51 (69)
T cd00196 6 DGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSL 51 (69)
T ss_pred CCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCC
Confidence 34556788889999999999999887 666788888886555444
No 13
>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=86.91 E-value=5.9 Score=25.07 Aligned_cols=64 Identities=14% Similarity=0.206 Sum_probs=45.1
Q ss_pred CCCCCCcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHH
Q 034423 6 SPSSTRKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDL 74 (95)
Q Consensus 6 ~~~~~~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~L 74 (95)
..+...+|+|.++.. .-+...|.|..+.++..++..++.+- +.+++-|+-++. .-..+.+.+++
T Consensus 5 ~~~~~~~i~I~v~~~----~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~-~L~~~~T~~~l 70 (87)
T cd01763 5 KGEISEHINLKVKGQ----DGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQ-RIRDNQTPDDL 70 (87)
T ss_pred CCCCCCeEEEEEECC----CCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCe-ECCCCCCHHHc
Confidence 344447899998664 33456799999999999999998888 444444444554 45566677765
No 14
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=86.27 E-value=6.9 Score=25.25 Aligned_cols=71 Identities=15% Similarity=0.284 Sum_probs=51.1
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc---CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEE
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKL 84 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~L 84 (95)
||+++.-- ++=|-+-=+.+.||++..|..+++|-.... +.+|.-+--++ .--.|.++.|+++-+|+.+=.|
T Consensus 2 kvtfKI~l-tsDp~~p~kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG-~GInP~QTag~vflKhGseLrl 75 (76)
T PF03671_consen 2 KVTFKITL-TSDPKLPYKVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDG-VGINPQQTAGNVFLKHGSELRL 75 (76)
T ss_dssp EEEEEEEE-STSSTS-EEEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS--EE-TTSBHHHHHHHT-SEEEE
T ss_pred cEEEEEEE-ccCCCCcceEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCC-cccccchhhhhhHhhcCcEeee
Confidence 66666554 446788889999999999999999998888 55664333333 3568889999999999875443
No 15
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=86.15 E-value=4.5 Score=29.45 Aligned_cols=74 Identities=14% Similarity=0.208 Sum_probs=50.8
Q ss_pred EEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc--CCc-eEEEEEc--CccCCCcccHHHHHHHHhCCCCEEEEEe
Q 034423 15 VHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL--GRE-TLFVYVN--SAFSPNPDELVIDLYNNFGFDGKLIVNY 88 (95)
Q Consensus 15 v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L--~~~-slFlyVn--n~f~P~~d~~v~~LY~~~k~dG~Lyi~Y 88 (95)
|........+--.-.-+-+|.+.|++.+...|..++ +.+ .++|+++ ....+..+..++++...-.+.+++.+.-
T Consensus 3 Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~l 81 (162)
T PF13019_consen 3 VLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLRL 81 (162)
T ss_pred EEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEEE
Confidence 333333333233555678999999999999999999 323 3677775 3456778888999988777656666543
No 16
>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=85.73 E-value=4.9 Score=26.08 Aligned_cols=54 Identities=15% Similarity=0.201 Sum_probs=42.9
Q ss_pred EEecCCchHHHHHHHHHhhc--CCceEEEEEc----CccCCCcccHHHHHHHHhCCCCEEE
Q 034423 31 FKISGSDKFAKVIEFLCRHL--GRETLFVYVN----SAFSPNPDELVIDLYNNFGFDGKLI 85 (95)
Q Consensus 31 flV~~~~t~~~~~~~LRk~L--~~~slFlyVn----n~f~P~~d~~v~~LY~~~k~dG~Ly 85 (95)
..||.+.+++++..-|++|| +.+.+-|.-- +.+.|-.|+.|.+.|.+=+ ||-|-
T Consensus 15 Irvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkde~s~~~v~l~d~dle~aws~~~-~~~lT 74 (80)
T cd06406 15 IQVARGLSYATLLQKISSKLELPAEHITLSYKSEASGEDVILSDTNMEDVWSQAK-DGCLT 74 (80)
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCchhcEEEeccCCCCCccCcChHHHHHHHHhhc-CCeEE
Confidence 47899999999999999999 6778887442 3466778999999999877 55443
No 17
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=84.34 E-value=6.3 Score=23.93 Aligned_cols=52 Identities=13% Similarity=0.151 Sum_probs=38.9
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc-C-C--ceEEEEEcCcc
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL-G-R--ETLFVYVNSAF 63 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L-~-~--~slFlyVnn~f 63 (95)
+|.|+|.....-..+...-+.||.+.+..++-..+.+-| . . -..=+|||+.+
T Consensus 1 qv~v~F~t~~~~~~~~~~~~~VP~~~t~~~Ls~LvN~LL~~~~~~vpfdF~i~~~~ 56 (65)
T PF08154_consen 1 QVQVQFVTEDGEYEVPGTPISVPSNITRKELSELVNQLLDDEEEPVPFDFLINGEE 56 (65)
T ss_pred CEEEEEEcCCCCccCCCCCEEEeCCCCHHHHHHHHHHHhccCCCCCcEEEEECCEE
Confidence 478899774443477778899999999999999998888 2 2 23345788764
No 18
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=84.05 E-value=5.7 Score=22.44 Aligned_cols=45 Identities=13% Similarity=0.124 Sum_probs=31.9
Q ss_pred eeeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHH
Q 034423 28 QAKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVID 73 (95)
Q Consensus 28 k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~ 73 (95)
...+.|+.+.|++++...|.++. +.+.+=|+.|+. ....+.++++
T Consensus 11 ~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~-~L~d~~tL~~ 57 (64)
T smart00213 11 TITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGK-VLEDDRTLAD 57 (64)
T ss_pred eEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCE-ECCCCCCHHH
Confidence 44688999999999999998887 555555666765 3444555543
No 19
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=82.83 E-value=11 Score=24.86 Aligned_cols=76 Identities=9% Similarity=0.093 Sum_probs=48.1
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc----CCceEEEEEcCccCCCcccHHHHHHHHh---------
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL----GRETLFVYVNSAFSPNPDELVIDLYNNF--------- 78 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L----~~~slFlyVnn~f~P~~d~~v~~LY~~~--------- 78 (95)
-++|||.. ++|+|.=.- --+.+.|+.++.+.||.++ .+..|=+--++..++... .++..-...
T Consensus 2 ~l~IRFs~--sipDl~L~I-~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t-~l~~~l~~~~~~~~~~~g 77 (97)
T PF10302_consen 2 YLTIRFSD--SIPDLPLDI-PSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHT-DLSSELKLPTARSSKGKG 77 (97)
T ss_pred eEEEEECC--CCCCceeec-CCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccc-hhhhhhccccccCccccC
Confidence 48999977 788843211 1448899999999999999 234554444666555444 444443333
Q ss_pred CC-C----CEEEEEecCC
Q 034423 79 GF-D----GKLIVNYACS 91 (95)
Q Consensus 79 k~-d----G~Lyi~Ys~~ 91 (95)
+. + ...||+.|..
T Consensus 78 k~~~~~~~~~~yIhCsIG 95 (97)
T PF10302_consen 78 KAPERQEAPRIYIHCSIG 95 (97)
T ss_pred cCccCCCCCeEEEEEecc
Confidence 11 2 4888888754
No 20
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=82.50 E-value=0.74 Score=30.78 Aligned_cols=37 Identities=30% Similarity=0.615 Sum_probs=25.6
Q ss_pred cEEEEeeeCCCCCce----eeeeEEec---CCchHHHHHHHHHhhc
Q 034423 12 KVVVHFRATGGAPIL----KQAKFKIS---GSDKFAKVIEFLCRHL 50 (95)
Q Consensus 12 KV~v~~~~~g~~P~L----~k~KflV~---~~~t~~~~~~~LRk~L 50 (95)
||+|.| .|.+-.| ++.+..+| ...|+++++.+||+.+
T Consensus 1 ~i~vEF--~GGlE~Lf~~~k~h~v~l~~~~~~~ti~~Li~~l~~nl 44 (96)
T PF09138_consen 1 KITVEF--SGGLELLFGNQKKHKVSLPSDGEPATIKDLIDYLRDNL 44 (96)
T ss_dssp EEEEEE--ETTCGGGTTT-SEEEEEE-SSCSC-BHHHHHHHHCCCT
T ss_pred CEEEEE--cCcHHHHhCCceeEEEEcCCCCCCcCHHHHHHHHHHhc
Confidence 577888 3444433 33356777 8899999999999988
No 21
>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=79.22 E-value=2.7 Score=26.78 Aligned_cols=46 Identities=13% Similarity=0.275 Sum_probs=29.4
Q ss_pred CcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc--CCceEEEEEcC
Q 034423 11 RKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNS 61 (95)
Q Consensus 11 ~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn 61 (95)
+++.||+++.-+. ....++++.|++++..-|...+ +..+.-||.|.
T Consensus 3 ~~milRvrS~dG~-----~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~ 50 (80)
T PF11543_consen 3 SSMILRVRSKDGM-----KRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDR 50 (80)
T ss_dssp ---EEEEE-SSEE-----EEEEE-TTSBHHHHHHHHHHHS---TTT---BSSG
T ss_pred ccEEEEEECCCCC-----EEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecC
Confidence 4788898875433 4457999999999999999999 55577777764
No 22
>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=76.99 E-value=7.2 Score=22.88 Aligned_cols=45 Identities=13% Similarity=0.129 Sum_probs=36.3
Q ss_pred eeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHH
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDL 74 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~L 74 (95)
-.+.|+.+.|++++-..|..+. +.+..-|+.|+..+ ..+.+++++
T Consensus 8 ~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L-~d~~tL~~~ 54 (69)
T PF00240_consen 8 FTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKEL-DDDKTLSDY 54 (69)
T ss_dssp EEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEE-STTSBTGGG
T ss_pred EEEEECCCCCHHHhhhhcccccccccccceeeeeeecc-cCcCcHHHc
Confidence 4578999999999999998888 77778888888744 777777654
No 23
>KOG2660 consensus Locus-specific chromosome binding proteins [Function unknown]
Probab=73.82 E-value=7.4 Score=31.35 Aligned_cols=72 Identities=11% Similarity=0.142 Sum_probs=55.4
Q ss_pred CCCCCceeeeeEEecCCchHHHHHHHHHhhcCC----ceEEEEEcCccCCCcccHHHHHHHHhCC---CCEEEEEecCCc
Q 034423 20 TGGAPILKQAKFKISGSDKFAKVIEFLCRHLGR----ETLFVYVNSAFSPNPDELVIDLYNNFGF---DGKLIVNYACSM 92 (95)
Q Consensus 20 ~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L~~----~slFlyVnn~f~P~~d~~v~~LY~~~k~---dG~Lyi~Ys~~~ 92 (95)
.+.++.|.++=...++..|+..+.+|||+++.+ -.+=+.+|+. +..-+.++.+++.-+.. ||-|.+.|...+
T Consensus 157 ~~~~k~l~~~fvrcsa~~Tv~hlkkfl~~k~~~~~~~~~idi~~~d~-~l~~~~TLk~i~~~~~~~~r~~pL~l~y~v~p 235 (331)
T KOG2660|consen 157 KDTLKDLVRRFLRCSAAATVNHLKKFLRKKMDNLSNKSEIDILCEEE-LLGDYYTLKDIAYAYRWRSRDPPLPLRYRVKP 235 (331)
T ss_pred cccccccccceEeccHHHHHHHHHHHHHHHhccccchhhheeecCCc-cccchhhhhhhhhhhcccccCCcceeEecccc
Confidence 455666664445678999999999999999942 2355678875 66778899999888776 899999998554
No 24
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=70.73 E-value=0.94 Score=29.37 Aligned_cols=53 Identities=23% Similarity=0.383 Sum_probs=36.6
Q ss_pred EecCCchHHHHHHHHHhh--c---------CCceEEE-EE---cCccCCCcccHHHHHHHHhCCCCEEEEE
Q 034423 32 KISGSDKFAKVIEFLCRH--L---------GRETLFV-YV---NSAFSPNPDELVIDLYNNFGFDGKLIVN 87 (95)
Q Consensus 32 lV~~~~t~~~~~~~LRk~--L---------~~~slFl-yV---nn~f~P~~d~~v~~LY~~~k~dG~Lyi~ 87 (95)
.|+++.|+++|+..|..+ + ++.+||+ .+ ....-|+.+.+|.+| .+++..++|+
T Consensus 2 ~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL---~~~g~ei~Vt 69 (84)
T PF08825_consen 2 EVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL---LSDGEEITVT 69 (84)
T ss_dssp EESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT---HHSSEEEEEE
T ss_pred CcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH---hcCCCEEEEE
Confidence 588999999999999888 4 3456555 11 123467778888888 3445577764
No 25
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=68.79 E-value=4.7 Score=24.95 Aligned_cols=54 Identities=11% Similarity=0.172 Sum_probs=35.2
Q ss_pred cEEEEeeeC-CCCCceeeeeEEecCCchHHHHHHHHHhhcC---C--ceEEEEEcCccCC
Q 034423 12 KVVVHFRAT-GGAPILKQAKFKISGSDKFAKVIEFLCRHLG---R--ETLFVYVNSAFSP 65 (95)
Q Consensus 12 KV~v~~~~~-g~~P~L~k~KflV~~~~t~~~~~~~LRk~L~---~--~slFlyVnn~f~P 65 (95)
+|+|+|-+. .++--.+...+.++...|+++++..|..+-| . ..+-+.||+.+++
T Consensus 3 ~i~V~~fa~~re~~g~~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~ 62 (82)
T PLN02799 3 EIKVLFFARARELTGVSDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT 62 (82)
T ss_pred EEEEEehHHHHHHhCCCeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC
Confidence 466766441 1111234456778899999999999966541 1 3466899998754
No 26
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=67.84 E-value=8.7 Score=22.88 Aligned_cols=39 Identities=18% Similarity=0.376 Sum_probs=33.4
Q ss_pred eeeEEecCCchHHHHHHHHHhhcC----CceEEEEEcCccCCC
Q 034423 28 QAKFKISGSDKFAKVIEFLCRHLG----RETLFVYVNSAFSPN 66 (95)
Q Consensus 28 k~KflV~~~~t~~~~~~~LRk~L~----~~slFlyVnn~f~P~ 66 (95)
.....++...|+++++..|..+.+ .+.+-+.||+..++.
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~ 55 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD 55 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC
Confidence 466789999999999999999884 378999999987776
No 27
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=67.82 E-value=12 Score=22.18 Aligned_cols=41 Identities=17% Similarity=0.276 Sum_probs=32.3
Q ss_pred eeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcc
Q 034423 26 LKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPD 68 (95)
Q Consensus 26 L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d 68 (95)
+..+.+.++...|+.+++..|. ++.+.+-+-||+.++|..+
T Consensus 4 iNg~~~~~~~~~tv~~ll~~l~--~~~~~i~V~vNg~~v~~~~ 44 (65)
T cd00565 4 VNGEPREVEEGATLAELLEELG--LDPRGVAVALNGEIVPRSE 44 (65)
T ss_pred ECCeEEEcCCCCCHHHHHHHcC--CCCCcEEEEECCEEcCHHH
Confidence 5567788999999999988775 5556777889998877653
No 28
>PRK06437 hypothetical protein; Provisional
Probab=65.05 E-value=8.6 Score=23.42 Aligned_cols=35 Identities=23% Similarity=0.196 Sum_probs=28.0
Q ss_pred eeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCC
Q 034423 29 AKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSP 65 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P 65 (95)
+.+-++...|+++++..| .++.+.+-+.+|+..+|
T Consensus 13 ~~~~i~~~~tv~dLL~~L--gi~~~~vaV~vNg~iv~ 47 (67)
T PRK06437 13 KTIEIDHELTVNDIIKDL--GLDEEEYVVIVNGSPVL 47 (67)
T ss_pred eEEEcCCCCcHHHHHHHc--CCCCccEEEEECCEECC
Confidence 446778889999999876 35667888899998887
No 29
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=63.40 E-value=30 Score=20.80 Aligned_cols=56 Identities=5% Similarity=0.159 Sum_probs=38.3
Q ss_pred eEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEEEe
Q 034423 30 KFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIVNY 88 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi~Y 88 (95)
-+.|.++.|++++-..|..+- +.+..-|+.++. ....+.++++ | .-+++..|++.-
T Consensus 12 ~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~-~L~D~~tL~~-~-~i~~~~tl~l~~ 69 (74)
T cd01810 12 IYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGR-PMEDEHPLGE-Y-GLKPGCTVFMNL 69 (74)
T ss_pred EEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCE-ECCCCCCHHH-c-CCCCCCEEEEEE
Confidence 378899999999999997765 555555666775 4556677766 3 233366777653
No 30
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=60.95 E-value=16 Score=21.61 Aligned_cols=41 Identities=20% Similarity=0.297 Sum_probs=31.9
Q ss_pred eeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcc
Q 034423 26 LKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPD 68 (95)
Q Consensus 26 L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d 68 (95)
+..+.+.++...|+.+++..|. ++.+.+-+-+|+.++|..+
T Consensus 3 iNg~~~~~~~~~tv~~ll~~l~--~~~~~v~v~vN~~iv~~~~ 43 (64)
T TIGR01683 3 VNGEPVEVEDGLTLAALLESLG--LDPRRVAVAVNGEIVPRSE 43 (64)
T ss_pred ECCeEEEcCCCCcHHHHHHHcC--CCCCeEEEEECCEEcCHHH
Confidence 5567888999999999988764 3457788899998887543
No 31
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=60.70 E-value=35 Score=20.66 Aligned_cols=47 Identities=15% Similarity=0.193 Sum_probs=34.7
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCC
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSP 65 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P 65 (95)
+++|++.... ....+.+++..|+++++.-| .++.+.+-+-+|+.++|
T Consensus 4 mm~v~vng~~-----~~~~~~~~~~~tv~~ll~~l--~~~~~~v~v~vNg~iv~ 50 (70)
T PRK08364 4 MIRVKVIGRG-----IEKEIEWRKGMKVADILRAV--GFNTESAIAKVNGKVAL 50 (70)
T ss_pred EEEEEEeccc-----cceEEEcCCCCcHHHHHHHc--CCCCccEEEEECCEECC
Confidence 4667775543 33567788999999998876 35567789999998775
No 32
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=57.86 E-value=17 Score=21.74 Aligned_cols=37 Identities=8% Similarity=0.192 Sum_probs=29.2
Q ss_pred eeEEecCCchHHHHHHHHHhhcC------CceEEEEEcCccCC
Q 034423 29 AKFKISGSDKFAKVIEFLCRHLG------RETLFVYVNSAFSP 65 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L~------~~slFlyVnn~f~P 65 (95)
..+-++...|+++++..|..+.+ .+.+-++||+..++
T Consensus 18 ~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~ 60 (80)
T cd00754 18 EELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR 60 (80)
T ss_pred EEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC
Confidence 45677778999999999988753 35677899998766
No 33
>KOG2976 consensus Protein involved in autophagy and nutrient starvation [Posttranslational modification, protein turnover, chaperones]
Probab=57.51 E-value=66 Score=25.37 Aligned_cols=50 Identities=22% Similarity=0.336 Sum_probs=38.7
Q ss_pred CchHHHHHHHHHhhcC-----------CceEEEEEcCccCCCcccHHHHHHHHhCC-CCEEEEEe
Q 034423 36 SDKFAKVIEFLCRHLG-----------RETLFVYVNSAFSPNPDELVIDLYNNFGF-DGKLIVNY 88 (95)
Q Consensus 36 ~~t~~~~~~~LRk~L~-----------~~slFlyVnn~f~P~~d~~v~~LY~~~k~-dG~Lyi~Y 88 (95)
+-..+.+=.+|.+|++ ++- +-|.+ .-+...+.+..||++..- ||||+|+-
T Consensus 212 d~~~stlge~l~d~~~~s~~s~d~~~~~~~--viihG-Iei~l~tpL~~l~~~L~ypD~FLHI~l 273 (278)
T KOG2976|consen 212 DGSLSTLGEFLKDRLPDSLDSKDDINGNDP--VIIHG-IEIPLHTPLYWLYSNLSYPDGFLHIVL 273 (278)
T ss_pred chhhhhhhHHHHhhcccccCccccccccCc--eEEec-ccccccchHHHHHhhccCCCcceEEEE
Confidence 5556677777888881 233 67777 578888999999999998 99999974
No 34
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=55.32 E-value=50 Score=21.47 Aligned_cols=72 Identities=21% Similarity=0.351 Sum_probs=52.5
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc---CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEE
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL---GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLI 85 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Ly 85 (95)
||+.+.--.+ -|-|--+...||++..|..+++|--... +..| =+--|.-.--+|.++-|++|-+|+.+-.|+
T Consensus 2 KVtFkitltS-dp~lpfkvlsVpE~aPftAvlkfaAEeFkv~~~Ts-AiiTndGvGINP~qtAGnvflkhgselrli 76 (82)
T cd01766 2 KVTFKITLTS-DPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATS-AIITNDGIGINPAQTAGNVFLKHGSELRLI 76 (82)
T ss_pred ceEEEEEecC-CCCCcceEEeccccCchHHHHHHHHHhcCCCccce-eEEecCccccChhhcccceeeecCCEeeec
Confidence 5666554433 4677778889999999999999998887 3344 344454456688899999999888766554
No 35
>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=53.44 E-value=43 Score=19.45 Aligned_cols=43 Identities=12% Similarity=0.125 Sum_probs=28.4
Q ss_pred eeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHH
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVI 72 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~ 72 (95)
..+.|+.+.|+++|..-|.++- +.+..=|+.+.. ....+.+++
T Consensus 12 ~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~-~l~d~~~L~ 56 (71)
T cd01812 12 HDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGK-ERDDAETLD 56 (71)
T ss_pred EEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCc-ccCccCcHH
Confidence 3467999999999999998776 544445556654 233344443
No 36
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=52.69 E-value=31 Score=20.61 Aligned_cols=43 Identities=14% Similarity=0.241 Sum_probs=33.9
Q ss_pred eeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcccH
Q 034423 26 LKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPDEL 70 (95)
Q Consensus 26 L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d~~ 70 (95)
+.-..+.+++..|+.+++..+ .++.+.+-+=+|+.++|..+..
T Consensus 5 vNG~~~~~~~~~tl~~ll~~l--~~~~~~vav~~N~~iv~r~~~~ 47 (65)
T PRK05863 5 VNEEQVEVDEQTTVAALLDSL--GFPEKGIAVAVDWSVLPRSDWA 47 (65)
T ss_pred ECCEEEEcCCCCcHHHHHHHc--CCCCCcEEEEECCcCcChhHhh
Confidence 345567888899999998865 4467889999999988987754
No 37
>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=52.36 E-value=38 Score=20.29 Aligned_cols=52 Identities=13% Similarity=0.302 Sum_probs=35.6
Q ss_pred eEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCC--CCEEEE
Q 034423 30 KFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGF--DGKLIV 86 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~--dG~Lyi 86 (95)
.+-|+.+.|++++...|..+- +.+..-|+.++. ....+.+++ .|+. +..|.+
T Consensus 14 ~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~-~L~d~~~L~----~~~i~~~~~l~l 69 (74)
T cd01807 14 SLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGK-ALADDKRLS----DYSIGPNAKLNL 69 (74)
T ss_pred EEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCE-ECCCCCCHH----HCCCCCCCEEEE
Confidence 468999999999999998886 555566677775 345555554 3444 445544
No 38
>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=51.98 E-value=44 Score=19.75 Aligned_cols=55 Identities=9% Similarity=0.118 Sum_probs=37.7
Q ss_pred eeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEE
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIV 86 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi 86 (95)
..+.|.++.|++++-..|..+. +.+..-|+.++..+ ..+.++++ |. =+++-.|++
T Consensus 11 ~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L-~d~~~l~~-~~-i~~~stl~l 67 (70)
T cd01798 11 FPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKEL-RNTTTIQE-CD-LGQQSILHA 67 (70)
T ss_pred EEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeEC-CCCCcHHH-cC-CCCCCEEEE
Confidence 3467889999999999998886 66667777777643 55667766 31 122445554
No 39
>PRK13669 hypothetical protein; Provisional
Probab=51.47 E-value=16 Score=23.63 Aligned_cols=28 Identities=36% Similarity=0.565 Sum_probs=23.1
Q ss_pred ceEEEEEcC--ccCCCcccHHHHHHHHhCC
Q 034423 53 ETLFVYVNS--AFSPNPDELVIDLYNNFGF 80 (95)
Q Consensus 53 ~slFlyVnn--~f~P~~d~~v~~LY~~~k~ 80 (95)
...|-+||+ ..++++|+.+..+|+.=+.
T Consensus 45 ~~~FAlVng~~V~a~t~eeL~~kI~~~i~e 74 (78)
T PRK13669 45 EGLFALVNGEVVEGETPEELVENIYAHLEE 74 (78)
T ss_pred cCceEEECCeEeecCCHHHHHHHHHHHHhh
Confidence 689999998 4578999999999987543
No 40
>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=50.19 E-value=21 Score=21.10 Aligned_cols=30 Identities=13% Similarity=0.159 Sum_probs=27.8
Q ss_pred ecCCchHHHHHHHHHhhcCCceEEEEEcCc
Q 034423 33 ISGSDKFAKVIEFLCRHLGRETLFVYVNSA 62 (95)
Q Consensus 33 V~~~~t~~~~~~~LRk~L~~~slFlyVnn~ 62 (95)
++...|+.++-+-|...|...+++..||+.
T Consensus 13 ~~~g~T~~d~A~~I~~~l~~~~~~A~Vng~ 42 (60)
T PF02824_consen 13 LPEGSTVLDVAYSIHSSLAKRAVAAKVNGQ 42 (60)
T ss_dssp EETTBBHHHHHHHHSHHHHHCEEEEEETTE
T ss_pred CCCCCCHHHHHHHHCHHHHhheeEEEEcCE
Confidence 889999999999999999888999999984
No 41
>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=49.11 E-value=57 Score=19.57 Aligned_cols=55 Identities=5% Similarity=-0.024 Sum_probs=34.5
Q ss_pred eeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcc-cHHHHHHHHhCCCCEEEE
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPD-ELVIDLYNNFGFDGKLIV 86 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d-~~v~~LY~~~k~dG~Lyi 86 (95)
....|++++|++++...|..+- |.+..-|+.++.-+ ..+ .++++ | .-+++.+|++
T Consensus 12 ~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L-~D~~~~L~~-~-gi~~~~~l~l 69 (71)
T cd01796 12 FSLDVDPDLELENFKALCEAESGIPASQQQLIYNGREL-VDNKRLLAL-Y-GVKDGDLVVL 69 (71)
T ss_pred EEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEc-cCCcccHHH-c-CCCCCCEEEE
Confidence 3478999999999999998776 66666666666522 333 23332 2 2233566665
No 42
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=48.85 E-value=50 Score=19.33 Aligned_cols=54 Identities=9% Similarity=0.120 Sum_probs=36.0
Q ss_pred eEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCC--CCEEEEEe
Q 034423 30 KFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGF--DGKLIVNY 88 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~--dG~Lyi~Y 88 (95)
.+.|+++.|++++-..|.++. +.+..=|+.++. ....+.++++ |+. +..+++..
T Consensus 14 ~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~-~L~d~~~L~~----~~i~~~~~i~l~~ 71 (76)
T cd01803 14 TLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGK-QLEDGRTLSD----YNIQKESTLHLVL 71 (76)
T ss_pred EEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCE-ECCCCCcHHH----cCCCCCCEEEEEE
Confidence 478999999999999998887 544444556765 3445555554 454 44666654
No 43
>COG0386 BtuE Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=45.82 E-value=19 Score=26.30 Aligned_cols=37 Identities=24% Similarity=0.567 Sum_probs=28.2
Q ss_pred eEEEEEcC----ccCCCcccHHHHHHHHhCCCCEEEEEecCC
Q 034423 54 TLFVYVNS----AFSPNPDELVIDLYNNFGFDGKLIVNYACS 91 (95)
Q Consensus 54 slFlyVnn----~f~P~~d~~v~~LY~~~k~dG~Lyi~Ys~~ 91 (95)
.+-|-||- -|.|.- +.+..||+.|++.||-++-+-..
T Consensus 26 kVlLIVNtASkCGfTpQY-egLe~Ly~ky~~~Gf~VLgFPcN 66 (162)
T COG0386 26 KVLLIVNTASKCGFTPQY-EGLEALYKKYKDKGFEVLGFPCN 66 (162)
T ss_pred cEEEEEEcccccCCcHhH-HHHHHHHHHHhhCCcEEEecccc
Confidence 46677873 256644 48999999999999999987543
No 44
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=45.33 E-value=36 Score=21.81 Aligned_cols=40 Identities=18% Similarity=0.279 Sum_probs=32.0
Q ss_pred eeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcc
Q 034423 27 KQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPD 68 (95)
Q Consensus 27 ~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d 68 (95)
.-+.+.++...|+.+++..+ .++.+.+-+=+|+.++|..+
T Consensus 24 NG~~~~~~~~~tl~~LL~~l--~~~~~~vAVevNg~iVpr~~ 63 (84)
T PRK06083 24 NDQSIQVDISSSLAQIIAQL--SLPELGCVFAINNQVVPRSE 63 (84)
T ss_pred CCeEEEcCCCCcHHHHHHHc--CCCCceEEEEECCEEeCHHH
Confidence 34567888899999999876 45677888899999998765
No 45
>PRK00865 glutamate racemase; Provisional
Probab=44.03 E-value=48 Score=24.92 Aligned_cols=38 Identities=16% Similarity=0.129 Sum_probs=29.2
Q ss_pred HHHHHHHhhcCCceEEEEEcCccCCCcccHHHHHHHHh
Q 034423 41 KVIEFLCRHLGRETLFVYVNSAFSPNPDELVIDLYNNF 78 (95)
Q Consensus 41 ~~~~~LRk~L~~~slFlyVnn~f~P~~d~~v~~LY~~~ 78 (95)
.+++-||++||++++.-|-++...|-.+.+-.++.+..
T Consensus 19 tvl~~i~~~lp~~~~iY~~D~~~~PYG~ks~~~i~~~~ 56 (261)
T PRK00865 19 TVLREIRRLLPDEHIIYVGDTARFPYGEKSEEEIRERT 56 (261)
T ss_pred HHHHHHHHHCCCCCEEEEecCCCCCCCCCCHHHHHHHH
Confidence 56788999999988777777888998877766665543
No 46
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=43.88 E-value=29 Score=21.48 Aligned_cols=36 Identities=11% Similarity=0.164 Sum_probs=25.4
Q ss_pred eeEEecC-CchHHHHHHHHHhhc-------CCceEEEEEcCccC
Q 034423 29 AKFKISG-SDKFAKVIEFLCRHL-------GRETLFVYVNSAFS 64 (95)
Q Consensus 29 ~KflV~~-~~t~~~~~~~LRk~L-------~~~slFlyVnn~f~ 64 (95)
....++. ..|+++++..|.++- ....+-++||..+.
T Consensus 17 ~~~~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~ 60 (81)
T PRK11130 17 DALELAADFPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLV 60 (81)
T ss_pred ceEEecCCCCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEc
Confidence 4455654 479999999997764 23456789998654
No 47
>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=42.22 E-value=53 Score=21.72 Aligned_cols=41 Identities=15% Similarity=0.213 Sum_probs=31.4
Q ss_pred eeEEecCCchHHHHHHHHHhhc-----CCceEEEEEcC-ccCCCccc
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL-----GRETLFVYVNS-AFSPNPDE 69 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L-----~~~slFlyVnn-~f~P~~d~ 69 (95)
+-..|+++.|..++-...-.+. .+=+||+|+++ .+..++|+
T Consensus 16 KTL~V~P~~tt~~vc~lcA~Kf~V~qPe~y~LFl~vdg~~~qLadd~ 62 (87)
T cd01776 16 KTLLVRPYITTEDVCQLCAEKFKVTQPEEYSLFLFVEETWQQLAPDT 62 (87)
T ss_pred eeeecCCCCcHHHHHHHHHHHhccCChhheeEEEEECCcEEEcCccc
Confidence 3468999999999999998888 34589999996 34445554
No 48
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=42.12 E-value=40 Score=20.56 Aligned_cols=36 Identities=17% Similarity=0.313 Sum_probs=28.5
Q ss_pred eEEecCC-chHHHHHHHHHhhcC-----CceEEEEEcCccCC
Q 034423 30 KFKISGS-DKFAKVIEFLCRHLG-----RETLFVYVNSAFSP 65 (95)
Q Consensus 30 KflV~~~-~t~~~~~~~LRk~L~-----~~slFlyVnn~f~P 65 (95)
.+.++.+ .|+++++..|..+.+ ...+.+.||+..++
T Consensus 19 ~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~ 60 (80)
T TIGR01682 19 TLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVT 60 (80)
T ss_pred EEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcC
Confidence 5667777 899999999988863 25678999998766
No 49
>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=41.99 E-value=64 Score=18.12 Aligned_cols=54 Identities=15% Similarity=0.206 Sum_probs=35.9
Q ss_pred eEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCC--CCEEEEEe
Q 034423 30 KFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGF--DGKLIVNY 88 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~--dG~Lyi~Y 88 (95)
.+.++.+.|++++-..|.++. +.+.+=+..|+..+ ..+.++++ ++. +..+++..
T Consensus 11 ~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l-~d~~~l~~----~~v~~~~~i~v~~ 68 (69)
T cd01769 11 ELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKIL-KDDKTLSD----YGIQDGSTLHLVL 68 (69)
T ss_pred EEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCC-CCcCCHHH----CCCCCCCEEEEEE
Confidence 467899999999999998887 44444445577644 44555543 443 56677654
No 50
>PF00255 GSHPx: Glutathione peroxidase; InterPro: IPR000889 Glutathione peroxidase (GSHPx) (1.11.1.9 from EC) is an enzyme that catalyses the reduction of hydroxyperoxides by glutathione [, ]. Its main function is to protect against the damaging effect of endogenously formed hydroxyperoxides. In higher vertebrates, several forms of GSHPx are known, including a ubiquitous cytosolic form (GSHPx-1), a gastrointestinal cytosolic form (GSHPx-GI), a plasma secreted form (GSHPx-P), and an epididymal secretory form (GSHPx-EP). In addition to these characterised forms, the sequence of a protein of unknown function [] has been shown to be evolutionary related to those of GSHPx's. In filarial nematode parasites, the major soluble cuticular protein (gp29) is a secreted GSHPx, which may provide a mechanism of resistance to the immune reaction of the mammalian host by neutralising the products of the oxidative burst of leukocytes []. The Escherichia coli protein btuE, a periplasmic protein involved in vitamin B12 transport, is evolutionarily related to GSHPxs, although the significance of this relationship is unclear. The structure of bovine seleno-glutathione peroxidase has been determined []. The protein belongs to the alpha-beta class, with a 3 layer(aba) sandwich architecture. The catalyic site of GSHPx contains a conserved residue which is either a cysteine or, in many eukaryotic GSHPx, a selenocysteine []. ; GO: 0004602 glutathione peroxidase activity, 0006979 response to oxidative stress, 0055114 oxidation-reduction process; PDB: 3E0U_A 2VUP_A 2RM5_A 2RM6_A 3DWV_B 2P31_B 2R37_B 1GP1_B 2F8A_B 3KIJ_C ....
Probab=41.27 E-value=31 Score=23.12 Aligned_cols=37 Identities=19% Similarity=0.387 Sum_probs=25.5
Q ss_pred EEEEEcC-ccCCC--cccHHHHHHHHhCCCCEEEEEecCC
Q 034423 55 LFVYVNS-AFSPN--PDELVIDLYNNFGFDGKLIVNYACS 91 (95)
Q Consensus 55 lFlyVnn-~f~P~--~d~~v~~LY~~~k~dG~Lyi~Ys~~ 91 (95)
+-|.||= +.+.- .=+.+.+||+.|+++|+.+|.+-..
T Consensus 23 v~LIVNvAs~Cg~t~qy~~L~~L~~ky~~~gl~ILaFPcn 62 (108)
T PF00255_consen 23 VLLIVNVASKCGYTKQYKQLNELYEKYKDKGLEILAFPCN 62 (108)
T ss_dssp EEEEEEEESSSTTHHHHHHHHHHHHHHGGGTEEEEEEEBS
T ss_pred EEEEEecccccCCccccHHHHHHHHHHhcCCeEEEeeehH
Confidence 4566662 11222 3348899999999999999988643
No 51
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=41.00 E-value=50 Score=22.52 Aligned_cols=47 Identities=13% Similarity=0.374 Sum_probs=31.0
Q ss_pred eEEecCCchHHHHHHHHHhhcCC-------ceEEEEEcCcc-----CCCcccHHHHHHHHh
Q 034423 30 KFKISGSDKFAKVIEFLCRHLGR-------ETLFVYVNSAF-----SPNPDELVIDLYNNF 78 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L~~-------~slFlyVnn~f-----~P~~d~~v~~LY~~~ 78 (95)
+|.|..++|+++|+..++++-+- ..-.||.. | .-..+..|.+|++.=
T Consensus 36 r~~v~~~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~--f~~~~~~~rl~~~i~elv~~v 94 (125)
T PF09358_consen 36 RIEVNGDMTLQELIDYFKEKYGLEVTMLSQGVSLLYSS--FPPPKHKERLKMPISELVEEV 94 (125)
T ss_dssp EEEEES--BHHHHHHHHHHTTS-EEEEEEETTEEEEET--T-HHHHHHHTTSBHHHHHHHH
T ss_pred EEEEcCCCCHHHHHHHHHHHhCceEEEEEeCCEEEEec--CChhhhHHHhCCcHHHHHHHh
Confidence 57888899999999999998622 22344532 3 124567899999964
No 52
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=40.01 E-value=62 Score=17.91 Aligned_cols=38 Identities=11% Similarity=0.163 Sum_probs=28.8
Q ss_pred eeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCC
Q 034423 28 QAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSP 65 (95)
Q Consensus 28 k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P 65 (95)
.+.+.++...|+.+++.-+...++.+.+-..+|+...+
T Consensus 8 g~~~~~~~~~t~~~~~~~~~~~~~~~~va~~vng~~vd 45 (60)
T cd01668 8 GEIIELPAGATVLDFAYAIHTEIGNRCVGAKVNGKLVP 45 (60)
T ss_pred CCEEEcCCCCCHHHHHHHHChHhhhheEEEEECCEECC
Confidence 34577899999999887776666667788889987554
No 53
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=38.22 E-value=89 Score=18.67 Aligned_cols=46 Identities=7% Similarity=0.151 Sum_probs=34.5
Q ss_pred eeeeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHH
Q 034423 27 KQAKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVID 73 (95)
Q Consensus 27 ~k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~ 73 (95)
+...+.|.++.|++++-..|..+- +.+..-|+.++. ....+.++++
T Consensus 9 ~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk-~L~D~~tL~~ 56 (74)
T cd01793 9 NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGV-PLEDDATLGQ 56 (74)
T ss_pred CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCe-ECCCCCCHHH
Confidence 456789999999999999997775 556666666775 4556667766
No 54
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=37.76 E-value=1.4e+02 Score=20.88 Aligned_cols=39 Identities=13% Similarity=0.342 Sum_probs=25.0
Q ss_pred CCCCCceeeeeEEecCCchHHHHHHHHHhhc--CCceEEEEE
Q 034423 20 TGGAPILKQAKFKISGSDKFAKVIEFLCRHL--GRETLFVYV 59 (95)
Q Consensus 20 ~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyV 59 (95)
.+.-|.+= +.+.||++.|+.+|-.+|..-+ .+..||-|.
T Consensus 12 ~~~~p~iw-Rri~Vp~~~tl~~Lh~~Iq~afgw~~~HL~~F~ 52 (179)
T PF07929_consen 12 KGSKPPIW-RRIEVPADITLADLHEVIQAAFGWDDDHLYEFF 52 (179)
T ss_dssp TT-SS-EE-EEEEEETT-BHHHHHHHHHHHTT----S-EEEE
T ss_pred cCCCCCeE-EEEEECCCCCHHHHHHHHHHHhCcCCCEeEEEE
Confidence 44455553 4568999999999999999998 666677654
No 55
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=36.50 E-value=73 Score=18.91 Aligned_cols=41 Identities=10% Similarity=0.195 Sum_probs=30.6
Q ss_pred eeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcc
Q 034423 26 LKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPD 68 (95)
Q Consensus 26 L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d 68 (95)
+.-+.+.++...|+.+++..|.- +.+.+=+=||+.++|..+
T Consensus 5 vNg~~~~~~~~~tl~~ll~~l~~--~~~~vaVavN~~iv~r~~ 45 (66)
T PRK08053 5 FNDQPMQCAAGQTVHELLEQLNQ--LQPGAALAINQQIIPREQ 45 (66)
T ss_pred ECCeEEEcCCCCCHHHHHHHcCC--CCCcEEEEECCEEeChHH
Confidence 45567888899999998876532 345677899999888654
No 56
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=36.47 E-value=75 Score=18.50 Aligned_cols=40 Identities=15% Similarity=0.199 Sum_probs=30.2
Q ss_pred eeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcc
Q 034423 27 KQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPD 68 (95)
Q Consensus 27 ~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d 68 (95)
+-+.+.+++..|+.+++..+ .++.+.+-+-+|..+.|..+
T Consensus 6 NG~~~~~~~~~tl~~lL~~l--~~~~~~vav~vNg~iv~r~~ 45 (66)
T PRK05659 6 NGEPRELPDGESVAALLARE--GLAGRRVAVEVNGEIVPRSQ 45 (66)
T ss_pred CCeEEEcCCCCCHHHHHHhc--CCCCCeEEEEECCeEeCHHH
Confidence 44567888889999998765 34667778889998888654
No 57
>PF07293 DUF1450: Protein of unknown function (DUF1450); InterPro: IPR009910 This entry consists of several hypothetical bacterial proteins of around 80 residues in length representing two families. Members contain four highly conserved cysteine residues and their function is unknown.
Probab=36.30 E-value=36 Score=21.81 Aligned_cols=27 Identities=19% Similarity=0.315 Sum_probs=22.1
Q ss_pred ceEEEEEcC--ccCCCcccHHHHHHHHhC
Q 034423 53 ETLFVYVNS--AFSPNPDELVIDLYNNFG 79 (95)
Q Consensus 53 ~slFlyVnn--~f~P~~d~~v~~LY~~~k 79 (95)
...|.+||+ ..++++++.+..+++.=+
T Consensus 45 ~~pFAlVnG~~V~A~t~eeL~~kI~~~i~ 73 (78)
T PF07293_consen 45 KKPFALVNGEIVAAETAEELLEKIKEKIE 73 (78)
T ss_pred CCccEEECCEEEecCCHHHHHHHHHHHHh
Confidence 689999998 347899999999988654
No 58
>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=36.25 E-value=93 Score=20.29 Aligned_cols=62 Identities=13% Similarity=0.149 Sum_probs=37.6
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhcC-CceEEE-EEcC-ccCC-CcccHHHHHHHHh
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLG-RETLFV-YVNS-AFSP-NPDELVIDLYNNF 78 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L~-~~slFl-yVnn-~f~P-~~d~~v~~LY~~~ 78 (95)
||+|.....|++ .-..||++.+|.+|..-||.+++ .+.+-+ |.+. -.++ +.+.-+....+..
T Consensus 2 ~ikVKv~~~~Dv-----~~i~v~~~i~f~dL~~kIrdkf~~~~~~~iKykDEGD~iti~sq~DLd~Ai~~a 67 (86)
T cd06408 2 KIRVKVHAQDDT-----RYIMIGPDTGFADFEDKIRDKFGFKRRLKIKMKDDGDMITMGDQDDLDMAIDTA 67 (86)
T ss_pred cEEEEEEecCcE-----EEEEcCCCCCHHHHHHHHHHHhCCCCceEEEEEcCCCCccccCHHHHHHHHHHH
Confidence 455555556654 34589999999999999999993 345444 5542 2222 3333444444433
No 59
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.04 E-value=1.3e+02 Score=19.72 Aligned_cols=69 Identities=20% Similarity=0.302 Sum_probs=51.1
Q ss_pred CcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCC
Q 034423 11 RKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGF 80 (95)
Q Consensus 11 ~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~ 80 (95)
.||..++.-. +-|.|.-+.+-||.+..|-.+++|--... |...-=+.-|.-.--.+.++-|++|=+++.
T Consensus 12 ~kv~fk~tlt-sdpklpfkv~svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agnvflkhgs 82 (94)
T KOG3483|consen 12 SKVSFKITLT-SDPKLPFKVLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGS 82 (94)
T ss_pred ceeEEEEEec-cCCCCccceecCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccceeeccCC
Confidence 5777766554 46888889999999999999999998877 333333445654566778888888877765
No 60
>PF05990 DUF900: Alpha/beta hydrolase of unknown function (DUF900); InterPro: IPR010297 This domain is associated with proteins of unknown function, which are hydrolase-like.
Probab=34.26 E-value=1.2e+02 Score=22.47 Aligned_cols=47 Identities=17% Similarity=0.451 Sum_probs=30.4
Q ss_pred HHHHHHHhhc---CCceEEEEEcCccCCCccc---HHHHHHHHhCCCCEEEEEec
Q 034423 41 KVIEFLCRHL---GRETLFVYVNSAFSPNPDE---LVIDLYNNFGFDGKLIVNYA 89 (95)
Q Consensus 41 ~~~~~LRk~L---~~~slFlyVnn~f~P~~d~---~v~~LY~~~k~dG~Lyi~Ys 89 (95)
.|...++++| +.+.+.+||++ |--+.++ ..++|....+-+| ..|.||
T Consensus 3 ~~~~~~~~~l~~~~~~~vlvfVHG-yn~~f~~a~~r~aql~~~~~~~~-~~i~Fs 55 (233)
T PF05990_consen 3 AFQAQLNQRLAKSPDKEVLVFVHG-YNNSFEDALRRAAQLAHDLGFPG-VVILFS 55 (233)
T ss_pred HHHHHHHHHHhhCCCCeEEEEEeC-CCCCHHHHHHHHHHHHHHhCCCc-eEEEEE
Confidence 4666777777 67899999986 2333333 5566666666566 555554
No 61
>COG3977 Alanine-alpha-ketoisovalerate (or valine-pyruvate) aminotransferase [Amino acid transport and metabolism]
Probab=34.02 E-value=60 Score=26.71 Aligned_cols=47 Identities=23% Similarity=0.368 Sum_probs=35.1
Q ss_pred chHHHHHHHHHhhc---------CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEE
Q 034423 37 DKFAKVIEFLCRHL---------GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIV 86 (95)
Q Consensus 37 ~t~~~~~~~LRk~L---------~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi 86 (95)
..+++.+..||+.| ++.++|+..==.=+|-.+ .+||+.-|..|.|.|
T Consensus 312 ~~~q~~~~~l~~~lp~~~~~iHkpEGAIFlWLWf~dLPItt---~~LYq~LKa~Gvl~V 367 (417)
T COG3977 312 NRVQTTIAILRRYLPEYRCLIHKPEGAIFLWLWFKDLPITT---EELYQRLKARGVLMV 367 (417)
T ss_pred HHHHHHHHHHHHhcCccceeeecCCcceeehhhhccCCCCH---HHHHHHHHhCeEEEe
Confidence 35788899999998 567898865311167655 478999999998886
No 62
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=33.85 E-value=1.2e+02 Score=18.72 Aligned_cols=43 Identities=5% Similarity=-0.040 Sum_probs=26.5
Q ss_pred eEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHH
Q 034423 30 KFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVID 73 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~ 73 (95)
.+-|++++|++++-..|..+. +.+..-||-+.. +-..+.++++
T Consensus 16 ~l~v~~~~TV~~lK~kI~~~~gip~~~QrL~~G~~-L~dD~~tL~~ 60 (75)
T cd01799 16 WLTVRPDMTVAQLKDKVFLDYGFPPAVQRWVIGQR-LARDQETLYS 60 (75)
T ss_pred EEEECCCCcHHHHHHHHHHHHCcCHHHEEEEcCCe-eCCCcCCHHH
Confidence 378899999999999887776 433333444332 2223356644
No 63
>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=33.47 E-value=1e+02 Score=17.94 Aligned_cols=55 Identities=16% Similarity=0.179 Sum_probs=35.9
Q ss_pred eEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCC--CCEEEEEec
Q 034423 30 KFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGF--DGKLIVNYA 89 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~--dG~Lyi~Ys 89 (95)
.+.|+.+.|++++-..|..+. +.+..=|+.++. ....+.++++ |+. +..|++...
T Consensus 14 ~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~-~L~d~~tl~~----~~i~~g~~i~l~~~ 72 (76)
T cd01806 14 EIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGK-QMNDDKTAAD----YKLEGGSVLHLVLA 72 (76)
T ss_pred EEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCe-EccCCCCHHH----cCCCCCCEEEEEEE
Confidence 378999999999999998876 433333445664 3455666655 344 456766543
No 64
>KOG1651 consensus Glutathione peroxidase [Posttranslational modification, protein turnover, chaperones]
Probab=32.92 E-value=48 Score=24.44 Aligned_cols=37 Identities=19% Similarity=0.429 Sum_probs=28.0
Q ss_pred eEEEEEcC----ccCCCcccHHHHHHHHhCCCCEEEEEecC
Q 034423 54 TLFVYVNS----AFSPNPDELVIDLYNNFGFDGKLIVNYAC 90 (95)
Q Consensus 54 slFlyVnn----~f~P~~d~~v~~LY~~~k~dG~Lyi~Ys~ 90 (95)
.+-|.||= -+.++.=..+..||+.|++.|+-++.+--
T Consensus 35 kV~LiVNVAS~Cg~T~~~Y~~l~~L~~ky~~~Gl~ILaFPC 75 (171)
T KOG1651|consen 35 KVVLIVNVASQCGLTESQYTELNELYEKYKDQGLEILAFPC 75 (171)
T ss_pred eEEEEEEcccccccchhcchhHHHHHHHHhhCCeEEEEecc
Confidence 45567763 23455557899999999999999998754
No 65
>PF11827 DUF3347: Protein of unknown function (DUF3347); InterPro: IPR021782 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 169 to 570 amino acids in length.
Probab=32.04 E-value=43 Score=24.06 Aligned_cols=25 Identities=40% Similarity=0.611 Sum_probs=20.6
Q ss_pred CcccHHHHHHHHhCCCCEEEEEecC
Q 034423 66 NPDELVIDLYNNFGFDGKLIVNYAC 90 (95)
Q Consensus 66 ~~d~~v~~LY~~~k~dG~Lyi~Ys~ 90 (95)
..++.|-+|-+.+..++.||+.||-
T Consensus 116 ~lS~~~~~l~~~~~~~~~ly~~~CP 140 (174)
T PF11827_consen 116 SLSEAMIDLVKAFGSSGTLYVQYCP 140 (174)
T ss_pred HHHHHHHHHHHhcCCCCcEEEEECC
Confidence 4556788889999669999999994
No 66
>cd03485 MutL_Trans_hPMS_1_like MutL_Trans_hPMS1_like: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to human PSM1 (hPSM1) and yeast MLH2. hPSM1 and yMLH2 are members of the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. PMS1 forms a heterodimer with MLH1. The MLH1-PMS1 complex functions in meiosis. Loss of yMLH2 results in a small but significant decrease in spore viability and a significant increase in gene conversion frequencies. A role for hMLH1-hPMS1 in DNA mismatch repair has not been established. Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families, however there is no convincing evidence to support hPMS1 having a role in HNPCC predisposition.
Probab=31.96 E-value=46 Score=22.37 Aligned_cols=28 Identities=21% Similarity=0.233 Sum_probs=19.3
Q ss_pred CceEEEEEcCccC---CCcccHHHHHHHHhC
Q 034423 52 RETLFVYVNSAFS---PNPDELVIDLYNNFG 79 (95)
Q Consensus 52 ~~slFlyVnn~f~---P~~d~~v~~LY~~~k 79 (95)
.+..|+|||+..+ +.....+.+.|+.+-
T Consensus 48 ~~~q~~fVN~R~v~~~~~l~k~i~~~y~~~~ 78 (132)
T cd03485 48 SDGKFISVNSRPVSLGKDIGKLLRQYYSSAY 78 (132)
T ss_pred CCcEEEEECCeecccchHHHHHHHHHHHHHh
Confidence 5778999999744 223456777777655
No 67
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=31.95 E-value=77 Score=22.12 Aligned_cols=36 Identities=8% Similarity=0.133 Sum_probs=23.4
Q ss_pred EEEEeeeCCCCCc--eeeeeEE-ecC-CchHHHHHHHHHhhc
Q 034423 13 VVVHFRATGGAPI--LKQAKFK-ISG-SDKFAKVIEFLCRHL 50 (95)
Q Consensus 13 V~v~~~~~g~~P~--L~k~Kfl-V~~-~~t~~~~~~~LRk~L 50 (95)
|+||+ +.+.|. ++.-.+. |+- ++|+.+|+..+++++
T Consensus 1 iTVRl--IkSFeyRn~K~~Vl~~vdL~~~Tv~~l~~~v~~~I 40 (122)
T PF10209_consen 1 ITVRL--IKSFEYRNVKNLVLHNVDLKDTTVKDLKEQVKQDI 40 (122)
T ss_pred CEEEE--EecccCCceeeeeeecCCcccCcHHHHHHHHHHHH
Confidence 35555 455543 2222233 554 899999999999999
No 68
>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=31.68 E-value=1.3e+02 Score=18.42 Aligned_cols=58 Identities=14% Similarity=0.165 Sum_probs=36.3
Q ss_pred eeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEEEecC
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIVNYAC 90 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi~Ys~ 90 (95)
.-+.|+.+.|++++-..|.++. +.+..-|..++..+ .|+++++. .-+++..|++.-+-
T Consensus 14 ~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L--~d~~L~~~--gi~~~~~i~l~~~~ 73 (78)
T cd01804 14 FDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRL--SSGKLQDL--GLGDGSKLTLVPTV 73 (78)
T ss_pred EEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCC--CCCcHHHc--CCCCCCEEEEEeec
Confidence 4578999999999999997775 44444454545322 23344431 22336788886554
No 69
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=31.49 E-value=1.3e+02 Score=20.26 Aligned_cols=46 Identities=17% Similarity=0.250 Sum_probs=28.8
Q ss_pred cEEEEeeeCCCCCceeeeeEEecC-----CchHHHHHHHHHhhc--CCceEEE
Q 034423 12 KVVVHFRATGGAPILKQAKFKISG-----SDKFAKVIEFLCRHL--GRETLFV 57 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~-----~~t~~~~~~~LRk~L--~~~slFl 57 (95)
.|.|+|-.-.++--=++++-++.- ..|++.++.+|.+++ ..+++|+
T Consensus 6 ~vkvef~Gg~dllfn~~k~~~~~l~~~e~~~tvgdll~yi~~~~ie~r~~lFi 58 (101)
T KOG4146|consen 6 EVKVEFLGGLDLLFNKQKIHLTRLEVGESPATVGDLLDYIFGKYIETRDSLFI 58 (101)
T ss_pred eEEEEEcCceeeeECCeEEEEEecccCCCcccHHHHHHHHHHHHhcCCcceEe
Confidence 577888665555333334444443 368999999999977 3445444
No 70
>PF15130 DUF4566: Domain of unknown function (DUF4566)
Probab=31.40 E-value=92 Score=23.87 Aligned_cols=33 Identities=24% Similarity=0.539 Sum_probs=25.5
Q ss_pred eeeEEecCCchHHHHHHHHHhh------c--CCceEEEEEc
Q 034423 28 QAKFKISGSDKFAKVIEFLCRH------L--GRETLFVYVN 60 (95)
Q Consensus 28 k~KflV~~~~t~~~~~~~LRk~------L--~~~slFlyVn 60 (95)
+.||..-.-.-=.|+++.+-++ | |++++|+||.
T Consensus 153 q~kFeFhh~dyekQ~lh~lsrkdk~g~VlnNP~QsvFlfid 193 (241)
T PF15130_consen 153 QQKFEFHHGDYEKQFLHVLSRKDKPGAVLNNPEQSVFLFID 193 (241)
T ss_pred hhheeeccchHHHHHHHHHhcccCCCceecCCCceEEEEEe
Confidence 4566666666667999988766 2 8999999995
No 71
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=31.27 E-value=68 Score=20.75 Aligned_cols=16 Identities=6% Similarity=0.362 Sum_probs=13.9
Q ss_pred CCchHHHHHHHHHhhc
Q 034423 35 GSDKFAKVIEFLCRHL 50 (95)
Q Consensus 35 ~~~t~~~~~~~LRk~L 50 (95)
...|+++++..|+.+.
T Consensus 27 ~~~tV~dll~~L~~~~ 42 (94)
T cd01764 27 KPVTVGDLLDYVASNL 42 (94)
T ss_pred CCCcHHHHHHHHHHhC
Confidence 4679999999998887
No 72
>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=30.05 E-value=1.3e+02 Score=18.11 Aligned_cols=45 Identities=9% Similarity=0.042 Sum_probs=30.5
Q ss_pred eeeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHH
Q 034423 28 QAKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVID 73 (95)
Q Consensus 28 k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~ 73 (95)
...+.|+++.|++++-..|..+- +.+..=|+.++. ....+.++++
T Consensus 10 ~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~-~L~D~~~l~~ 56 (70)
T cd01794 10 DVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGK-LLTDKTRLQE 56 (70)
T ss_pred EEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCe-ECCCCCCHHH
Confidence 34578999999999999987775 433333344553 4566677776
No 73
>cd00329 TopoII_MutL_Trans MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch
Probab=29.53 E-value=53 Score=20.05 Aligned_cols=27 Identities=19% Similarity=0.265 Sum_probs=17.8
Q ss_pred CceEEEEEcCccCC---CcccHHHHHHHHh
Q 034423 52 RETLFVYVNSAFSP---NPDELVIDLYNNF 78 (95)
Q Consensus 52 ~~slFlyVnn~f~P---~~d~~v~~LY~~~ 78 (95)
.+..|+|||+.... ..-..+.+.|...
T Consensus 43 ~~~~~~fvN~r~v~~~~~~~~~i~~~~~~~ 72 (107)
T cd00329 43 KDRQFSFVNGRPVREGGTHVKAVREAYTRA 72 (107)
T ss_pred CCcEEEEEcCeEEcCCHHHHHHHHHHHHHH
Confidence 46789999997555 2333455666665
No 74
>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process
Probab=29.45 E-value=1.4e+02 Score=18.36 Aligned_cols=47 Identities=15% Similarity=0.226 Sum_probs=27.5
Q ss_pred chHHHHHHHHHhhc-CCceEEEEEcCccCCCcccHHHHHHHHhCC--CCEEEEEec
Q 034423 37 DKFAKVIEFLCRHL-GRETLFVYVNSAFSPNPDELVIDLYNNFGF--DGKLIVNYA 89 (95)
Q Consensus 37 ~t~~~~~~~LRk~L-~~~slFlyVnn~f~P~~d~~v~~LY~~~k~--dG~Lyi~Ys 89 (95)
.+...+...+++.. +.+.+.+|+++. ..+..+++.++. .+.++++.+
T Consensus 12 ~k~~~i~~~i~~~~~~~~~~lvf~~~~------~~~~~~~~~l~~~~~~~~~~~~~ 61 (131)
T cd00079 12 EKLEALLELLKEHLKKGGKVLIFCPSK------KMLDELAELLRKPGIKVAALHGD 61 (131)
T ss_pred HHHHHHHHHHHhcccCCCcEEEEeCcH------HHHHHHHHHHHhcCCcEEEEECC
Confidence 56777777777766 455666777653 345555555553 444555443
No 75
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=29.12 E-value=1.2e+02 Score=22.87 Aligned_cols=37 Identities=11% Similarity=0.083 Sum_probs=27.1
Q ss_pred HHHHHHHhhcCCceEEEEEcCccCCCcccHHHHHHHH
Q 034423 41 KVIEFLCRHLGRETLFVYVNSAFSPNPDELVIDLYNN 77 (95)
Q Consensus 41 ~~~~~LRk~L~~~slFlyVnn~f~P~~d~~v~~LY~~ 77 (95)
.+.+-||+++|++.+..|-++...|-.+.+-+++.+.
T Consensus 12 tv~~~l~~~~p~~~~iy~~D~~~~PYG~ks~~~i~~~ 48 (251)
T TIGR00067 12 SVLKEIRKQLPKEHYIYVGDTKRFPYGEKSPEFILEY 48 (251)
T ss_pred HHHHHHHHHCCCCCEEEEecCCCCCCCCCCHHHHHHH
Confidence 4677899999988876666788899777665555443
No 76
>KOG1610 consensus Corticosteroid 11-beta-dehydrogenase and related short chain-type dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=28.91 E-value=75 Score=25.59 Aligned_cols=40 Identities=23% Similarity=0.527 Sum_probs=34.5
Q ss_pred CCceeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCc
Q 034423 23 APILKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSA 62 (95)
Q Consensus 23 ~P~L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~ 62 (95)
-|.|.-----|.++.++.+..+++++.|+++.|.=-|||+
T Consensus 75 s~rl~t~~LDVT~~esi~~a~~~V~~~l~~~gLwglVNNA 114 (322)
T KOG1610|consen 75 SPRLRTLQLDVTKPESVKEAAQWVKKHLGEDGLWGLVNNA 114 (322)
T ss_pred CCcceeEeeccCCHHHHHHHHHHHHHhcccccceeEEecc
Confidence 4556666677889999999999999999888899999997
No 77
>PF12053 DUF3534: Domain of unknown function (DUF3534); InterPro: IPR021922 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 150 amino acids in length. This domain is found associated with PF00595 from PFAM. This domain has a conserved GILD sequence motif. ; PDB: 2NS5_A.
Probab=28.58 E-value=1.4e+02 Score=21.33 Aligned_cols=68 Identities=24% Similarity=0.362 Sum_probs=37.6
Q ss_pred cEEEEeeeCCCCCceeeeeEEec---CCchHHHHHHHHHhhc-------CCceEEE----EEcCccCCCcccHHHHHHHH
Q 034423 12 KVVVHFRATGGAPILKQAKFKIS---GSDKFAKVIEFLCRHL-------GRETLFV----YVNSAFSPNPDELVIDLYNN 77 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~---~~~t~~~~~~~LRk~L-------~~~slFl----yVnn~f~P~~d~~v~~LY~~ 77 (95)
||+|+| |+ .+..|| +++++.+++.---+|. ++..+.+ +-... +..+|..+.++-+
T Consensus 2 kvtV~f---g~------~~vvVPC~dg~~tV~~L~~~A~~RY~K~~~~~~~~~v~V~~l~~~dgg-iLd~DD~l~dV~d- 70 (145)
T PF12053_consen 2 KVTVCF---GR------TRVVVPCGDGQLTVRDLIQQALRRYRKAKEKDPDYWVVVHHLEYTDGG-ILDPDDVLCDVVD- 70 (145)
T ss_dssp EEEEEE---TT------EEEEEEESSS---HHHHHHHHHHHHHHHTT--TTS-EEEEEEE-SSS--EE-TTS-HHHHS--
T ss_pred eEEEEe---CC------eEEEEEeCCCCccHHHHHHHHhHhHHHhhccCCCceEEEeeEEecCCc-eeccccceeEecc-
Confidence 788887 33 345555 5688999887654444 2333333 23343 6778889999888
Q ss_pred hCCCCEEEEEecCCc
Q 034423 78 FGFDGKLIVNYACSM 92 (95)
Q Consensus 78 ~k~dG~Lyi~Ys~~~ 92 (95)
|..+|.-.|..+.
T Consensus 71 --d~d~liAvydEq~ 83 (145)
T PF12053_consen 71 --DRDQLIAVYDEQE 83 (145)
T ss_dssp --TTEEEEEEEEE--
T ss_pred --Chhhhheeecccc
Confidence 5678888886643
No 78
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=27.90 E-value=83 Score=17.37 Aligned_cols=23 Identities=30% Similarity=0.707 Sum_probs=11.4
Q ss_pred EEEcCccCC-CcccHHHHHHHHhCC
Q 034423 57 VYVNSAFSP-NPDELVIDLYNNFGF 80 (95)
Q Consensus 57 lyVnn~f~P-~~d~~v~~LY~~~k~ 80 (95)
|||+| +-+ ..++.+.+++..|+.
T Consensus 1 l~v~n-lp~~~t~~~l~~~f~~~g~ 24 (70)
T PF00076_consen 1 LYVGN-LPPDVTEEELRDFFSQFGK 24 (70)
T ss_dssp EEEES-ETTTSSHHHHHHHHHTTST
T ss_pred cEEcC-CCCcCCHHHHHHHHHHhhh
Confidence 67888 222 223345555555544
No 79
>PF05717 TnpB_IS66: IS66 Orf2 like protein; InterPro: IPR008878 Thess proteins are found in insertion sequences related to IS66. The function of these proteins is uncertain, but they are probably essential for transposition []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=27.56 E-value=79 Score=21.06 Aligned_cols=25 Identities=20% Similarity=0.297 Sum_probs=19.5
Q ss_pred hHHHHHHHHHhhc----CCceEEEEEcCc
Q 034423 38 KFAKVIEFLCRHL----GRETLFVYVNSA 62 (95)
Q Consensus 38 t~~~~~~~LRk~L----~~~slFlyVnn~ 62 (95)
.+.-+...++..+ -+.++|+|+|..
T Consensus 16 g~dgL~~lV~~~~~~dp~~g~~fvF~nr~ 44 (107)
T PF05717_consen 16 GIDGLAALVREELGLDPFSGDLFVFCNRR 44 (107)
T ss_pred ChhHHHHHHHHhhcCCCCcceEEEEEecc
Confidence 3667888888888 356899999963
No 80
>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=27.39 E-value=1.4e+02 Score=17.59 Aligned_cols=53 Identities=8% Similarity=0.153 Sum_probs=35.4
Q ss_pred eEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCC--CCEEEEE
Q 034423 30 KFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGF--DGKLIVN 87 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~--dG~Lyi~ 87 (95)
.+-|..+.|++++-.-|.++. +.+.+-+.-++..+ ..+.++++ |+. +..|+|.
T Consensus 13 ~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L-~d~~tL~~----~~i~~~stl~l~ 69 (71)
T cd01808 13 EIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKIL-KDTDTLTQ----HNIKDGLTVHLV 69 (71)
T ss_pred EEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEc-CCCCcHHH----cCCCCCCEEEEE
Confidence 588999999999999997776 44555454456533 34455544 344 6677765
No 81
>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=27.28 E-value=1.4e+02 Score=19.98 Aligned_cols=31 Identities=13% Similarity=0.195 Sum_probs=25.8
Q ss_pred EEecCCchHHHHHHHHHhhc-----CCceEEEEEcC
Q 034423 31 FKISGSDKFAKVIEFLCRHL-----GRETLFVYVNS 61 (95)
Q Consensus 31 flV~~~~t~~~~~~~LRk~L-----~~~slFlyVnn 61 (95)
+..|-+.|+++++..|.|+. .+-.|++.+|+
T Consensus 17 ls~~l~tTv~eli~~L~rK~~l~~~~ny~l~l~~~~ 52 (97)
T cd01775 17 LSCPLNTTVSELIPQLAKKFYLPSGGNYQLSLKKHD 52 (97)
T ss_pred EEcCCcCcHHHHHHHHHHhhcCCCCCCeEEEEEECC
Confidence 56788899999999998888 34578999986
No 82
>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=27.06 E-value=88 Score=19.84 Aligned_cols=35 Identities=11% Similarity=0.360 Sum_probs=27.1
Q ss_pred eeeeEEecCCchHHHHHHHHHhhcC-C--ceEEE-EEcC
Q 034423 27 KQAKFKISGSDKFAKVIEFLCRHLG-R--ETLFV-YVNS 61 (95)
Q Consensus 27 ~k~KflV~~~~t~~~~~~~LRk~L~-~--~slFl-yVnn 61 (95)
+..-|.++++.++.++..-|++|++ . +.+-| |+.+
T Consensus 10 d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Dd 48 (82)
T cd06407 10 EKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKYLDD 48 (82)
T ss_pred eEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEEECC
Confidence 3567899999999999999999993 2 34444 7764
No 83
>cd03078 GST_N_Metaxin1_like GST_N family, Metaxin subfamily, Metaxin 1-like proteins; composed of metaxins 1 and 3, and similar proteins including Tom37 from fungi. Mammalian metaxin (or metaxin 1) and the fungal protein Tom37 are components of preprotein import complexes of the mitochondrial outer membrane. Metaxin extends to the cytosol and is anchored to the mitochondrial membrane through its C-terminal domain. In mice, metaxin is required for embryonic development. Like the murine gene, the human metaxin gene is located downstream to the glucocerebrosidase (GBA) pseudogene and is convergently transcribed. Inherited deficiency of GBA results in Gaucher disease, which presents many diverse clinical phenotypes. Alterations in the metaxin gene, in addition to GBA mutations, may be associated with Gaucher disease. Genome sequencing shows that a third metaxin gene also exists in zebrafish, Xenopus, chicken and mammals.
Probab=26.74 E-value=82 Score=19.05 Aligned_cols=28 Identities=43% Similarity=0.651 Sum_probs=18.7
Q ss_pred eCCCCCceeeeeEEecCCchHHHHHHHHHhh
Q 034423 19 ATGGAPILKQAKFKISGSDKFAKVIEFLCRH 49 (95)
Q Consensus 19 ~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~ 49 (95)
|.|.+|.|+-..-+|+.. ..++.+|+++
T Consensus 45 p~gkLP~l~~~~~~i~d~---~~Ii~~L~~~ 72 (73)
T cd03078 45 PTGKLPALLTSGTKISGP---EKIIEYLRKQ 72 (73)
T ss_pred CCCccCEEEECCEEecCh---HHHHHHHHHc
Confidence 468899887776666654 5566666653
No 84
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=26.47 E-value=1.5e+02 Score=19.99 Aligned_cols=59 Identities=19% Similarity=0.296 Sum_probs=39.4
Q ss_pred CcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHH
Q 034423 11 RKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDL 74 (95)
Q Consensus 11 ~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~L 74 (95)
++|.+++..-++. ---|+|..+-+|..++..-.+|- ..++|=+.+|.. --.+|++-++|
T Consensus 23 ~hinLkvv~qd~t----elfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~-rI~~dqTP~dl 83 (103)
T COG5227 23 KHINLKVVDQDGT----ELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGK-RIDLDQTPGDL 83 (103)
T ss_pred cccceEEecCCCC----EEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcce-ecCCCCChhhc
Confidence 4565655432222 23599999999999999998888 346666666653 45666666654
No 85
>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=26.15 E-value=1.5e+02 Score=17.64 Aligned_cols=68 Identities=15% Similarity=0.274 Sum_probs=48.4
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhcCC---ceEEEEEcC---ccCCCcccHHHHHHHHhCC--CCE
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLGR---ETLFVYVNS---AFSPNPDELVIDLYNNFGF--DGK 83 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L~~---~slFlyVnn---~f~P~~d~~v~~LY~~~k~--dG~ 83 (95)
+|.+++ .+ +...+.++.+.++.+|..-|+++++. .-..-|.++ -...+.|+-+...++.++. .+.
T Consensus 3 ~vK~~~--~~-----~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~~~~~~~ 75 (81)
T smart00666 3 DVKLRY--GG-----ETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLEEAIEEYDSLGSKK 75 (81)
T ss_pred cEEEEE--CC-----EEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHHHHHHHHHHcCCce
Confidence 466666 22 46778999999999999999999933 334458863 3345778888888888875 344
Q ss_pred EEE
Q 034423 84 LIV 86 (95)
Q Consensus 84 Lyi 86 (95)
|-|
T Consensus 76 l~l 78 (81)
T smart00666 76 LRL 78 (81)
T ss_pred EEE
Confidence 443
No 86
>cd00659 Topo_IB_C DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of replication, transcription, and recombination. Unlike Topo IA enzymes, Topo IB enzymes do not require a single-stranded region of DNA or metal ions for their function. The type IB family of DNA topoisomerases includes eukaryotic nuclear topoisomerase I, topoisomerases of poxviruses and bacterial versions of Topo IB. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their C-terminal catalytic domain and the overall reaction mechanism with tyrosine recombinases. The C-terminal catalytic domain in topoisomerases is linked to a divergent N-terminal domain that shows no sequence or structure similarity to the N-terminal domains of tyrosine recombinases.
Probab=25.10 E-value=2.3e+02 Score=21.17 Aligned_cols=62 Identities=13% Similarity=0.173 Sum_probs=40.0
Q ss_pred CcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcccHHHHHHHHh
Q 034423 11 RKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPDELVIDLYNNF 78 (95)
Q Consensus 11 ~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d~~v~~LY~~~ 78 (95)
..|.++|...++. +....|..+-.+..++.-+++++|++.||-|.+- -|=.+..|-+-.+.+
T Consensus 84 ~~i~f~F~GK~g~----~~~~~v~d~~~l~~~l~~~~~k~pg~~LF~y~~~--~~v~s~~vN~yl~e~ 145 (218)
T cd00659 84 NVVRFDFLGKDSI----RYENEVEVEPRLFKNLRKFLDKLPGDDLFQYLQV--DRLNSSKLNAYLREF 145 (218)
T ss_pred CEEEEEEECCCCc----EEEEEECChHHHHHHHHHHHHcCCcHHhhccCCC--CcCCHHHHHHHHHHH
Confidence 4688888887764 2334555556788888777776789999999832 344444555444433
No 87
>PTZ00044 ubiquitin; Provisional
Probab=25.05 E-value=1.6e+02 Score=17.37 Aligned_cols=54 Identities=7% Similarity=0.064 Sum_probs=33.6
Q ss_pred eeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHHHHHHhCC--CCEEEEE
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVIDLYNNFGF--DGKLIVN 87 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~LY~~~k~--dG~Lyi~ 87 (95)
..+.|+++.|++++-..|..+. +.+..=|+.++.. ...+.+++ .|+. +-.+.+.
T Consensus 13 ~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~-L~d~~~l~----~~~i~~~~~i~l~ 70 (76)
T PTZ00044 13 QSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQ-MSDDLKLS----DYKVVPGSTIHMV 70 (76)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEE-ccCCCcHH----HcCCCCCCEEEEE
Confidence 4578999999999999998887 4443334455543 34454554 3443 4455443
No 88
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=24.96 E-value=2.2e+02 Score=24.27 Aligned_cols=60 Identities=13% Similarity=0.383 Sum_probs=42.0
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc--CCceE-EEEEcCccCCCcccHHHHHHHHhCC-CC
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL--GRETL-FVYVNSAFSPNPDELVIDLYNNFGF-DG 82 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L--~~~sl-FlyVnn~f~P~~d~~v~~LY~~~k~-dG 82 (95)
+|.|+.|...+ |.-|.|+.+.+|.+|..-|-++- +.|.+ -+|.+. +...++++. .|+. ||
T Consensus 15 ~irV~Vkt~~d-----k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGr--ILKD~dTL~----~~gI~Dg 78 (493)
T KOG0010|consen 15 LIRVTVKTPKD-----KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGR--ILKDDDTLK----QYGIQDG 78 (493)
T ss_pred eeEEEEecCCc-----ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCc--cccChhhHH----HcCCCCC
Confidence 56666655442 78899999999999999998888 44444 456655 456665553 4666 66
No 89
>PF14877 mIF3: Mitochondrial translation initiation factor
Probab=24.62 E-value=1.7e+02 Score=21.65 Aligned_cols=39 Identities=18% Similarity=0.261 Sum_probs=31.3
Q ss_pred eeeEEecCCchHHHHHHHHHhhc-CCceEEEEEcCccCCC
Q 034423 28 QAKFKISGSDKFAKVIEFLCRHL-GRETLFVYVNSAFSPN 66 (95)
Q Consensus 28 k~KflV~~~~t~~~~~~~LRk~L-~~~slFlyVnn~f~P~ 66 (95)
+-+|.|+.++--.|=-.-|.++| +.+.+++||++.-.+.
T Consensus 132 ~isW~Is~~DL~~QK~~EI~~~LkKG~kv~iyi~dK~~~~ 171 (181)
T PF14877_consen 132 KISWQISPDDLKNQKANEIEKRLKKGEKVNIYIDDKDNSN 171 (181)
T ss_pred EEEEeechHHHHHHHHHHHHHHHhCCCeEEEEEcCCCCCC
Confidence 34589998888888888899999 7889999998643443
No 90
>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=24.49 E-value=1.5e+02 Score=16.98 Aligned_cols=44 Identities=11% Similarity=0.101 Sum_probs=29.5
Q ss_pred eeEEecCCchHHHHHHHHHhhc--CCceEEEEEcCccCCCcccHHHH
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL--GRETLFVYVNSAFSPNPDELVID 73 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L--~~~slFlyVnn~f~P~~d~~v~~ 73 (95)
..+.++.+.|++++-.-|.++. +.+..=|..++. .-..+.++++
T Consensus 13 ~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~-~L~d~~~L~~ 58 (72)
T cd01809 13 HTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGR-VLKDDETLSE 58 (72)
T ss_pred EEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCE-ECCCcCcHHH
Confidence 4588999999999999998887 433334445765 3334445544
No 91
>PRK07440 hypothetical protein; Provisional
Probab=24.29 E-value=1.5e+02 Score=18.01 Aligned_cols=38 Identities=11% Similarity=0.050 Sum_probs=29.4
Q ss_pred eeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcc
Q 034423 29 AKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPD 68 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d 68 (95)
+...++...|+.+++..+ .++.+.+-+=+|+.++|..+
T Consensus 12 ~~~~~~~~~tl~~lL~~l--~~~~~~vav~~N~~iv~r~~ 49 (70)
T PRK07440 12 ETRTCSSGTSLPDLLQQL--GFNPRLVAVEYNGEILHRQF 49 (70)
T ss_pred EEEEcCCCCCHHHHHHHc--CCCCCeEEEEECCEEeCHHH
Confidence 357888899999988754 34667888999999888654
No 92
>PF09593 Pathogen_betaC1: Beta-satellite pathogenicity beta C1 protein; InterPro: IPR018583 Cotton leaf-curl disease - CLCuD - is of major economic importance in cotton-growing areas of the far-east. The infectious agent appears to be a single-stranded DNA molecule of approx 1350 nucleotides in length, which, when inoculated with the Begomovirus into cotton, induces symptoms typical of CLCuD. This molecule requires the Begomovirus for replication and encapsidation []. DNA beta encodes a single protein, betaC1. The intracellular distribution of betaC1 is consistent with the hypothesis that it has a role in transporting the DNA A of Begomovirus from the nuclear site of replication to the plasmodesmatal exit sites of the infected cell. The DNA beta-encoded protein, betaC1, is the determinant of both pathogenicity and suppression of gene silencing [].
Probab=23.88 E-value=81 Score=21.78 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=18.4
Q ss_pred cEEEEeeeCCCCCceeeeeEEecCCc
Q 034423 12 KVVVHFRATGGAPILKQAKFKISGSD 37 (95)
Q Consensus 12 KV~v~~~~~g~~P~L~k~KflV~~~~ 37 (95)
.|.+++-+ .+-|.|-|++|.||=+.
T Consensus 25 ~V~i~l~S-T~sP~l~k~~f~IpY~~ 49 (117)
T PF09593_consen 25 FVHIQLFS-TRSPALIKKKFIIPYTH 49 (117)
T ss_pred EEEEEEEE-CCChHHheEEEEEeccC
Confidence 35556555 45799999999998653
No 93
>COG1325 Predicted exosome subunit [Translation, ribosomal structure and biogenesis]
Probab=23.55 E-value=1.3e+02 Score=21.73 Aligned_cols=53 Identities=21% Similarity=0.282 Sum_probs=37.7
Q ss_pred eEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEEEecCCccc
Q 034423 30 KFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIVNYACSMAW 94 (95)
Q Consensus 30 KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi~Ys~~~af 94 (95)
-..+.......+|.+.||.+++++-. +..++++=+..-++|.||+-+..+.|+
T Consensus 58 ~~~l~~~~~~~~flk~i~e~l~~ed~------------~~l~~~le~rvD~~g~lylRfDKQ~Ay 110 (149)
T COG1325 58 EVRLERSREARKFLKKLRELLGEEDR------------EYLLETLEERVDENGVLYLRFDKQKAY 110 (149)
T ss_pred EEEecCcHHHHHHHHHHHHhcChHHH------------HHHHHhhHhccCCCceEEEEEchHhhh
Confidence 34667777899999999999854321 345566666666688899888777664
No 94
>PLN02788 phenylalanine-tRNA synthetase
Probab=23.49 E-value=1.1e+02 Score=25.31 Aligned_cols=36 Identities=19% Similarity=0.109 Sum_probs=31.5
Q ss_pred EEeeeCCCCCceeeee-EEecCCchHHHHHHHHHhhc
Q 034423 15 VHFRATGGAPILKQAK-FKISGSDKFAKVIEFLCRHL 50 (95)
Q Consensus 15 v~~~~~g~~P~L~k~K-flV~~~~t~~~~~~~LRk~L 50 (95)
++|+|.+.-|...+-- |.|+.+.+.+++...+|+-.
T Consensus 305 ~~fkp~SkfP~v~RDiSf~v~~~v~~~~i~~~Ir~~~ 341 (402)
T PLN02788 305 VKFKPYSKYPPCYKDISFWISDEFTENNLCEVVRGIA 341 (402)
T ss_pred cccCcCCCCCCcceeEEEEECCCCCHHHHHHHHHHhC
Confidence 4799999999776654 99999999999999999965
No 95
>smart00148 PLCXc Phospholipase C, catalytic domain (part); domain X. Phosphoinositide-specific phospholipases C. These enzymes contain 2 regions (X and Y) which together form a TIM barrel-like structure containing the active site residues. Phospholipase C enzymes (PI-PLC) act as signal transducers that generate two second messengers, inositol-1,4,5-trisphosphate and diacylglycerol. The bacterial enzyme [6] appears to be a homologue of the mammalian PLCs.
Probab=23.26 E-value=1.2e+02 Score=20.62 Aligned_cols=31 Identities=10% Similarity=0.106 Sum_probs=25.8
Q ss_pred ecCCchHHHHHHHHHhhc---CCceEEEEEcCcc
Q 034423 33 ISGSDKFAKVIEFLCRHL---GRETLFVYVNSAF 63 (95)
Q Consensus 33 V~~~~t~~~~~~~LRk~L---~~~slFlyVnn~f 63 (95)
+....+|.+++.-|++-| +++.|.|-+++..
T Consensus 65 ~~~~~~~~dvL~~i~~fl~~~p~e~VIl~l~~~~ 98 (135)
T smart00148 65 FTLPIKLSEVLEAIKDFAFVTSPYPVILSLENHC 98 (135)
T ss_pred ccccEEHHHHHHHHHHHHHhCCCCcEEEeehhhC
Confidence 345678999999999999 7889999998753
No 96
>PRK12551 ATP-dependent Clp protease proteolytic subunit; Reviewed
Probab=22.89 E-value=1.5e+02 Score=21.77 Aligned_cols=53 Identities=11% Similarity=0.291 Sum_probs=31.1
Q ss_pred ceeeeeEEecCCchHHHHHHHHHhhc------CCceEEEEEcCccCCCccc-HHHHHHHHhCC
Q 034423 25 ILKQAKFKISGSDKFAKVIEFLCRHL------GRETLFVYVNSAFSPNPDE-LVIDLYNNFGF 80 (95)
Q Consensus 25 ~L~k~KflV~~~~t~~~~~~~LRk~L------~~~slFlyVnn~f~P~~d~-~v~~LY~~~k~ 80 (95)
-++++...+....+-..--.++..-+ +++.+++|||+ |-.+- .--.+|+.-+.
T Consensus 22 l~~~Riifl~~~i~~~~a~~ii~~Ll~l~~~~~~~~I~l~INS---pGG~v~~g~aIyd~m~~ 81 (196)
T PRK12551 22 LLRERIIFLGEPVTSDSANRIVAQLLFLEAEDPEKDIYLYINS---PGGSVYDGLGIFDTMQH 81 (196)
T ss_pred HhcCcEEEECCeecHHHHHHHHHHHHHhhccCCCCCEEEEEeC---CCcchhhHHHHHHHHHh
Confidence 35666677776666554444444444 46789999986 53332 22346665554
No 97
>cd03483 MutL_Trans_MLH1 MutL_Trans_MLH1: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to yeast and human MLH1 (MutL homologue 1). This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. MLH1 forms heterodimers with PMS2, PMS1 and MLH3. These three complexes have distinct functions in meiosis. hMLH1-hPMS2 also participates in the repair of all DNA mismatch repair (MMR) substrates. Roles for hMLH1-hPMS1 or hMLH1-hMLH3 in MMR have not been established. Cells lacking hMLH1 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 causes predisposition to HNPCC, Muir-Torre syndrome and Turcot syndrome (HNPCC variant). Mutation in hMLH1 accounts for a large fraction of HNPCC families.
Probab=22.89 E-value=78 Score=21.24 Aligned_cols=27 Identities=11% Similarity=0.422 Sum_probs=18.1
Q ss_pred CceEEEEEcCccCC--CcccHHHHHHHHh
Q 034423 52 RETLFVYVNSAFSP--NPDELVIDLYNNF 78 (95)
Q Consensus 52 ~~slFlyVnn~f~P--~~d~~v~~LY~~~ 78 (95)
.+..|+|||+..+- .....+.+.|+.+
T Consensus 47 ~~~q~~fVNgR~V~~~~l~~aI~~~Y~~~ 75 (127)
T cd03483 47 KIIFILFINNRLVECSALRRAIENVYANY 75 (127)
T ss_pred CceEEEEEcCCEecCHHHHHHHHHHHHHh
Confidence 46799999997332 3344566677766
No 98
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=22.46 E-value=1.7e+02 Score=16.84 Aligned_cols=40 Identities=18% Similarity=0.252 Sum_probs=29.3
Q ss_pred eeeeeEEecCCchHHHHHHHHHhhcCCceEEEEEcCccCCCcc
Q 034423 26 LKQAKFKISGSDKFAKVIEFLCRHLGRETLFVYVNSAFSPNPD 68 (95)
Q Consensus 26 L~k~KflV~~~~t~~~~~~~LRk~L~~~slFlyVnn~f~P~~d 68 (95)
++-+.+.++...|+++++..+.-+ ..+=+-+|+.++|..+
T Consensus 5 vNg~~~~~~~~~tl~~ll~~l~~~---~~~~v~vN~~~v~~~~ 44 (65)
T PRK06944 5 LNQQTLSLPDGATVADALAAYGAR---PPFAVAVNGDFVARTQ 44 (65)
T ss_pred ECCEEEECCCCCcHHHHHHhhCCC---CCeEEEECCEEcCchh
Confidence 455677888889999999877542 3455789998888653
No 99
>PF11324 DUF3126: Protein of unknown function (DUF3126); InterPro: IPR021473 This family of proteins with unknown function appear to be restricted to Alphaproteobacteria.
Probab=22.33 E-value=1.2e+02 Score=18.81 Aligned_cols=24 Identities=25% Similarity=0.499 Sum_probs=17.7
Q ss_pred HHHHHHHHhhc------------CCceEEEEEcCcc
Q 034423 40 AKVIEFLCRHL------------GRETLFVYVNSAF 63 (95)
Q Consensus 40 ~~~~~~LRk~L------------~~~slFlyVnn~f 63 (95)
..+..+||+.+ +.+|.=+|+|+.|
T Consensus 3 ~klq~yLr~~f~n~~i~v~~rpk~~dsaEV~~g~Ef 38 (63)
T PF11324_consen 3 KKLQAYLRRTFGNPGITVKARPKKDDSAEVYIGDEF 38 (63)
T ss_pred HHHHHHHHHHhCCCceEEEcCCCCCCceEEEeCCEE
Confidence 56788899988 2467778888754
No 100
>cd06892 PX_SNX5_like The phosphoinositide binding Phox Homology domain of Sorting Nexins 5 and 6. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. Members of this subfamily include SNX5, SNX6, and similar proteins. They contain a Bin/Amphiphysin/Rvs (BAR) domain, which detects membrane curvature, C-terminal to the PX domain, similar to other sorting nexins including SNX1-2. The PX-BAR structural unit helps determine the specific membrane-targeting of som
Probab=22.14 E-value=2e+02 Score=20.44 Aligned_cols=43 Identities=19% Similarity=0.301 Sum_probs=34.7
Q ss_pred CCCCCCCcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc
Q 034423 5 DSPSSTRKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL 50 (95)
Q Consensus 5 ~~~~~~~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L 50 (95)
|+...-.||.-......++|..++..|.|... ++.|+. |+.+|
T Consensus 9 da~~~~~~V~Y~V~TkT~l~~f~~~e~sV~RR--~sDF~w-L~~~L 51 (141)
T cd06892 9 DALSERDKVKFTVHTKTTLPTFQKPEFSVTRQ--HEEFVW-LHDTL 51 (141)
T ss_pred cccccCCeEEEEEEeccCCccccCCeeEEEec--cHHHHH-HHHHH
Confidence 44444478998988889999999999998775 677776 88888
No 101
>KOG1158 consensus NADP/FAD dependent oxidoreductase [Energy production and conversion]
Probab=21.99 E-value=2.5e+02 Score=24.73 Aligned_cols=76 Identities=16% Similarity=0.271 Sum_probs=53.4
Q ss_pred CcEEEEeeeCCCCCceeeeeEEecCCchHHHHHHHHHhhc--CC------ceEEEEEcCccCCCcccHHHHHHHHhCC--
Q 034423 11 RKVVVHFRATGGAPILKQAKFKISGSDKFAKVIEFLCRHL--GR------ETLFVYVNSAFSPNPDELVIDLYNNFGF-- 80 (95)
Q Consensus 11 ~KV~v~~~~~g~~P~L~k~KflV~~~~t~~~~~~~LRk~L--~~------~slFlyVnn~f~P~~d~~v~~LY~~~k~-- 80 (95)
.+-..|+.+..++|+| .|-.--=++=|.-||++|+ .+ ....||.+-. -+..|..-.+.++.|++
T Consensus 480 ~~s~frlp~dp~~PiI-----MIGpGTGiAPFRgFlq~r~~~~~~~~~~~~~~~Lf~GcR-~~~~d~LY~eE~~~~~~~~ 553 (645)
T KOG1158|consen 480 GKSMFRLPSDPSTPII-----MIGPGTGIAPFRGFLQERLFLKQQGPKFGGGMWLFFGCR-NSDEDYLYREEWEEYKKAG 553 (645)
T ss_pred cccceecCCCCCCcEE-----EEcCCCcchhhHHHHHHHHHhhhcCccCCcceEEEEeCC-CchHHHHHHHHHHHHHhcC
Confidence 3444555555555554 6666667889999999998 22 2268898765 57777788888888865
Q ss_pred -CCEEEEEecCCc
Q 034423 81 -DGKLIVNYACSM 92 (95)
Q Consensus 81 -dG~Lyi~Ys~~~ 92 (95)
...|.+.||-++
T Consensus 554 ~l~~l~~A~SReq 566 (645)
T KOG1158|consen 554 ILTRLDVAFSREQ 566 (645)
T ss_pred cchhheeeeeccC
Confidence 456889998876
No 102
>PF12251 zf-SNAP50_C: snRNA-activating protein of 50kDa MW C terminal; InterPro: IPR022042 This domain family is found in eukaryotes, and is typically between 196 and 207 amino acids in length. There is a conserved CEH sequence motif. SNAP50 is part of the snRNA-activating protein complex which activates RNA polymerases II and III. There is a cysteine-histidine cluster which contains two possible zinc finger motifs.
Probab=21.71 E-value=1e+02 Score=22.63 Aligned_cols=37 Identities=14% Similarity=0.309 Sum_probs=25.7
Q ss_pred eeEEecCCchHHHHHHHHHhhc----------CCceEEEEEcCccCC
Q 034423 29 AKFKISGSDKFAKVIEFLCRHL----------GRETLFVYVNSAFSP 65 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~L----------~~~slFlyVnn~f~P 65 (95)
..|+|-+++|..++..-|.-.- ...|=|+|||++|=+
T Consensus 2 qe~~vLgsQtLteLrD~i~C~~D~~~~~~~~~~~~s~fffIe~tFY~ 48 (196)
T PF12251_consen 2 QEFLVLGSQTLTELRDKISCPSDQQPFGLAKDKYPSSFFFIEGTFYN 48 (196)
T ss_pred CEEEEecCCCHHHHhhCcCCCCCCccccccccCCCCeEEEECCEeec
Confidence 4688999999888665553222 245778999987754
No 103
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=21.68 E-value=2e+02 Score=17.50 Aligned_cols=35 Identities=11% Similarity=0.181 Sum_probs=25.5
Q ss_pred EEecCCchHHHHHHHHHhhcCC-------------ceEEEEEcCccCCC
Q 034423 31 FKISGSDKFAKVIEFLCRHLGR-------------ETLFVYVNSAFSPN 66 (95)
Q Consensus 31 flV~~~~t~~~~~~~LRk~L~~-------------~slFlyVnn~f~P~ 66 (95)
+-++ ..|+++++..|..+.+. ..+=++||+..+..
T Consensus 20 v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~ 67 (88)
T TIGR01687 20 IEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDW 67 (88)
T ss_pred EEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCc
Confidence 4445 78999999999877631 24668999976654
No 104
>PHA03359 UL17 tegument protein; Provisional
Probab=21.33 E-value=70 Score=28.30 Aligned_cols=19 Identities=32% Similarity=0.781 Sum_probs=16.5
Q ss_pred HhCC-CCEEEEEecCCcccC
Q 034423 77 NFGF-DGKLIVNYACSMAWG 95 (95)
Q Consensus 77 ~~k~-dG~Lyi~Ys~~~afG 95 (95)
||.. ..|.+|+|....|||
T Consensus 381 hy~Tg~~fvVVsYenS~awG 400 (686)
T PHA03359 381 HYNTGEPFVVVSYENSVAWG 400 (686)
T ss_pred cccCCCcEEEEEeccccccC
Confidence 4555 789999999999998
No 105
>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=21.30 E-value=3.7e+02 Score=21.86 Aligned_cols=59 Identities=10% Similarity=0.055 Sum_probs=38.6
Q ss_pred eeEEecCCchHHHHHHHHHhh-----cCCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEEEecC
Q 034423 29 AKFKISGSDKFAKVIEFLCRH-----LGRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIVNYAC 90 (95)
Q Consensus 29 ~KflV~~~~t~~~~~~~LRk~-----L~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi~Ys~ 90 (95)
..+.|..+.||.+|...|..+ ++.+..=|..++. ....|.++++ | .-+++++|++.=+.
T Consensus 13 ~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~Gk-iL~Dd~tL~d-y-~I~e~~~Ivvmv~k 76 (378)
T TIGR00601 13 FKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGK-ILSDDKTVRE-Y-KIKEKDFVVVMVSK 76 (378)
T ss_pred EEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCE-ECCCCCcHHH-c-CCCCCCEEEEEecc
Confidence 345688999999999999766 4334455556665 4566667765 2 12337788876554
No 106
>PF13085 Fer2_3: 2Fe-2S iron-sulfur cluster binding domain; PDB: 3P4Q_N 1KFY_N 3CIR_N 3P4R_B 2B76_N 1KF6_B 3P4P_N 3P4S_B 1L0V_B 1ZOY_B ....
Probab=21.11 E-value=2e+02 Score=19.33 Aligned_cols=36 Identities=8% Similarity=0.267 Sum_probs=28.1
Q ss_pred EEeeeC--CCCCceeeeeEEecCCchHHHHHHHHHhhc
Q 034423 15 VHFRAT--GGAPILKQAKFKISGSDKFAKVIEFLCRHL 50 (95)
Q Consensus 15 v~~~~~--g~~P~L~k~KflV~~~~t~~~~~~~LRk~L 50 (95)
.|+.|. ++.|..+.-.+-+...+|+-+.+..|+..+
T Consensus 5 ~R~~~~~~~~~~~~~~y~v~~~~~~tVLd~L~~Ik~~~ 42 (110)
T PF13085_consen 5 FRFDPESDEGEPYYQEYEVPVEPGMTVLDALNYIKEEQ 42 (110)
T ss_dssp EE--TTSTTSS-EEEEEEEEGGSTSBHHHHHHHHHHHT
T ss_pred EEcCCCCCCCCCeEEEEEecCCCCCcHHHHHHHHHhcc
Confidence 466673 368888888888899999999999999998
No 107
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=21.11 E-value=80 Score=21.27 Aligned_cols=21 Identities=19% Similarity=0.485 Sum_probs=15.9
Q ss_pred CCCCcEEEEeeeCCCCCceee
Q 034423 8 SSTRKVVVHFRATGGAPILKQ 28 (95)
Q Consensus 8 ~~~~KV~v~~~~~g~~P~L~k 28 (95)
|..+||+|.+.+.|.-|.-+.
T Consensus 24 NEKtKiivKl~~~g~g~P~RE 44 (98)
T PF11069_consen 24 NEKTKIIVKLQKRGQGPPPRE 44 (98)
T ss_pred CcceeEEEEeccCCCCCCCCC
Confidence 556899999999887665443
No 108
>cd01617 DCX Ubiquitin-like domain of DCX. DCX The ubiquitin-like DCX domain is present in tandem within the N-terminal half of the doublecortin protein. Doublecortin is expressed in migrating neurons. Mutations in the gene encoding doublecortin cause lissencephaly in males and 'double-cortex syndrome' in females.
Probab=21.02 E-value=2.2e+02 Score=17.59 Aligned_cols=36 Identities=14% Similarity=0.247 Sum_probs=28.4
Q ss_pred EEeeeCCCCCceeeeeEEecCC--chHHHHHHHHHhhcC
Q 034423 15 VHFRATGGAPILKQAKFKISGS--DKFAKVIEFLCRHLG 51 (95)
Q Consensus 15 v~~~~~g~~P~L~k~KflV~~~--~t~~~~~~~LRk~L~ 51 (95)
|.|-.+|+... +..++.|++. .+|.+|+.-|.+.|.
T Consensus 3 I~~~rNGD~~~-~g~~~~i~~~~~~sfd~lL~~lt~~l~ 40 (80)
T cd01617 3 VVVYRNGDPFF-KGVRLLVNRRRFKSFDALLDDLTEKVQ 40 (80)
T ss_pred EEEEECCCCCC-CCEEEEEChhhhCCHHHHHHHHHHHhC
Confidence 44555676654 7788999996 589999999999993
No 109
>PF10568 Tom37: Outer mitochondrial membrane transport complex protein; InterPro: IPR019564 Tom37 is one of the outer membrane proteins that make up the TOM complex for guiding cytosolic mitochondrial beta-barrel proteins from the cytosol across the outer mitochondrial membrane into the intramembrane space. In conjunction with Tom70, it guides peptides without an mitochondrial targeting sequence (MTS) into Tom40, the protein that forms the passage through the outer membrane []. It has homology with metaxin, also part of the outer mitochondrial membrane beta-barrel protein transport complex []. This entry represents outer mitochondrial membrane transport complex proteins Tom37 and metaxin.; GO: 0006626 protein targeting to mitochondrion, 0005741 mitochondrial outer membrane
Probab=20.85 E-value=98 Score=19.03 Aligned_cols=26 Identities=31% Similarity=0.498 Sum_probs=16.1
Q ss_pred eCCCCCceee-eeEEecCCchHHHHHHHHH
Q 034423 19 ATGGAPILKQ-AKFKISGSDKFAKVIEFLC 47 (95)
Q Consensus 19 ~~g~~P~L~k-~KflV~~~~t~~~~~~~LR 47 (95)
|.|.+|.|.. ..-.|. .+..++.+||
T Consensus 46 ptg~LP~L~~~~~~~vs---g~~~Iv~yL~ 72 (72)
T PF10568_consen 46 PTGELPALIDSGGTWVS---GFRNIVEYLR 72 (72)
T ss_pred CCCCCCEEEECCCcEEE---CHHHHHHhhC
Confidence 3578898877 444444 4666666664
No 110
>cd03482 MutL_Trans_MutL MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from the ATP-binding site to the DNA breakage/reunion regions of the enzymes. It has been suggested that during initiation of DNA mismatch repair in E. coli, the mismatch recognition protein MutS recruits MutL in the presence of ATP. The MutS(ATP)-MutL ternary complex formed, then recruits the latent endonuclease MutH. Prokaryotic MutS and MutL are homodimers.
Probab=20.82 E-value=89 Score=20.82 Aligned_cols=29 Identities=17% Similarity=0.245 Sum_probs=18.6
Q ss_pred CceEEEEEcCccC--CCcccHHHHHHHHhCC
Q 034423 52 RETLFVYVNSAFS--PNPDELVIDLYNNFGF 80 (95)
Q Consensus 52 ~~slFlyVnn~f~--P~~d~~v~~LY~~~k~ 80 (95)
.+..|+|||+... +.....+.+.|+.+.-
T Consensus 43 ~~~q~ifVN~R~V~~~~l~~ai~~~y~~~~~ 73 (123)
T cd03482 43 ADIQYFYVNGRMVRDKLISHAVRQAYSDVLH 73 (123)
T ss_pred CCcEEEEEcCcEECChHHHHHHHHHHHHhcc
Confidence 4678999999733 2334456666766543
No 111
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=20.51 E-value=2.2e+02 Score=18.03 Aligned_cols=32 Identities=16% Similarity=0.278 Sum_probs=24.1
Q ss_pred EEecCCchHHHHHHHHHhhc-----------CCceEEEEEcCc
Q 034423 31 FKISGSDKFAKVIEFLCRHL-----------GRETLFVYVNSA 62 (95)
Q Consensus 31 flV~~~~t~~~~~~~LRk~L-----------~~~slFlyVnn~ 62 (95)
+.++.+.|++++-.-|=+.. +++=+|..||+.
T Consensus 4 l~~~~~~Tl~~iK~~lw~~A~~~PL~~~L~~~~~Y~F~~in~~ 46 (78)
T PF02192_consen 4 LRVSRDATLSEIKEELWEEAKKYPLFSLLKDPSSYIFSCINQF 46 (78)
T ss_dssp EEEETT-BHHHHHHHHHHHGGGSTTCCCS--GGGEEEEEEBTT
T ss_pred EEccCcCcHHHHHHHHHHHHHhCChHHHhCCCCcEEEEEecCC
Confidence 56899999999988776554 456789999883
No 112
>PF01650 Peptidase_C13: Peptidase C13 family; InterPro: IPR001096 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C13 (legumain family, clan CD). A type example is legumain from Canavalia ensiformis (Jack bean, Horse bean). The blood fluke parasite Schistosoma mansoni has two cysteine proteases in its digestive tract, one a cathepsin B-like protease, the other termed hemoglobinase [, ]. The latter has been hard to purify, free of cathepsin B, and expressed forms in Escherichia coli prove to be inactive, suggesting that hemoglobinase may act in association with cathepsin B [, ]. Plant vacuolar processing enzyme and legumain from legumes [] have been shown to have sequence and functional similarity to hemoglobinase. The catalytic residues of the family are currently unknown, but sequence alignments reveal one totally conserved cysteine and two totally conserved histidines.; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis
Probab=20.12 E-value=1.5e+02 Score=22.61 Aligned_cols=27 Identities=15% Similarity=0.364 Sum_probs=22.0
Q ss_pred CCchHHHHHHHHH--------hhc---CCceEEEEEcC
Q 034423 35 GSDKFAKVIEFLC--------RHL---GRETLFVYVNS 61 (95)
Q Consensus 35 ~~~t~~~~~~~LR--------k~L---~~~slFlyVnn 61 (95)
.+.+...|+.+|+ |+| ++|.||+|..+
T Consensus 78 ~~v~~~~fl~vL~G~~~~~~~kvl~s~~~D~vfiy~~~ 115 (256)
T PF01650_consen 78 EDVTPENFLNVLTGDKSVPSGKVLNSTENDNVFIYFTG 115 (256)
T ss_pred cccCHHHHHHHhcCCCCCCccccccCCCCCeEEEEEec
Confidence 4778899999998 444 78999999875
No 113
>PTZ00110 helicase; Provisional
Probab=20.05 E-value=5.2e+02 Score=21.55 Aligned_cols=60 Identities=18% Similarity=0.246 Sum_probs=42.8
Q ss_pred CCceeeeeEEecCCchHHHHHHHHHhhc-CCceEEEEEcCccCCCcccHHHHHHHHhCCCCEEEEEe
Q 034423 23 APILKQAKFKISGSDKFAKVIEFLCRHL-GRETLFVYVNSAFSPNPDELVIDLYNNFGFDGKLIVNY 88 (95)
Q Consensus 23 ~P~L~k~KflV~~~~t~~~~~~~LRk~L-~~~slFlyVnn~f~P~~d~~v~~LY~~~k~dG~Lyi~Y 88 (95)
...+++..+.+........+..+|+... +...+-+|||.. .....|++..+..|+-.+.+
T Consensus 347 ~~~i~q~~~~~~~~~k~~~L~~ll~~~~~~~~k~LIF~~t~------~~a~~l~~~L~~~g~~~~~i 407 (545)
T PTZ00110 347 CHNIKQEVFVVEEHEKRGKLKMLLQRIMRDGDKILIFVETK------KGADFLTKELRLDGWPALCI 407 (545)
T ss_pred CCCeeEEEEEEechhHHHHHHHHHHHhcccCCeEEEEecCh------HHHHHHHHHHHHcCCcEEEE
Confidence 3467777778888888888988888776 667889999875 45666766666555444433
Done!