Query 030977
Match_columns 168
No_of_seqs 110 out of 178
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 07:24:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030977.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030977hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0570 Transcriptional coacti 100.0 8.6E-67 1.9E-71 420.9 16.9 167 1-167 6-172 (223)
2 PF05983 Med7: MED7 protein; 100.0 3.9E-65 8.5E-70 404.2 10.2 157 2-159 2-162 (162)
3 PF10018 Med4: Vitamin-D-recep 89.1 4 8.7E-05 32.8 8.9 61 102-162 3-63 (188)
4 KOG4552 Vitamin-D-receptor int 87.1 17 0.00038 30.7 11.8 39 123-161 69-107 (272)
5 PF05278 PEARLI-4: Arabidopsis 85.2 13 0.00028 32.2 10.2 85 79-163 125-228 (269)
6 TIGR02132 phaR_Bmeg polyhydrox 69.8 61 0.0013 26.6 11.1 93 72-168 35-140 (189)
7 TIGR02047 CadR-PbrR Cd(II)/Pb( 65.3 20 0.00043 26.9 5.4 42 122-163 73-114 (127)
8 PF06216 RTBV_P46: Rice tungro 65.1 53 0.0012 28.7 8.5 63 104-166 54-116 (389)
9 cd04769 HTH_MerR2 Helix-Turn-H 64.1 32 0.0007 25.2 6.3 38 124-161 75-112 (116)
10 COG1561 Uncharacterized stress 63.3 95 0.0021 27.2 9.8 82 74-160 155-237 (290)
11 PF07544 Med9: RNA polymerase 63.1 50 0.0011 23.2 8.4 57 96-152 23-83 (83)
12 cd04786 HTH_MerR-like_sg7 Heli 62.8 31 0.00066 26.2 6.1 36 127-162 77-112 (131)
13 cd04770 HTH_HMRTR Helix-Turn-H 62.5 25 0.00054 25.8 5.5 39 125-163 76-114 (123)
14 PF01920 Prefoldin_2: Prefoldi 62.5 47 0.001 23.2 6.8 44 124-167 58-101 (106)
15 PF06160 EzrA: Septation ring 62.5 1.4E+02 0.003 28.1 12.0 67 99-166 166-232 (560)
16 smart00502 BBC B-Box C-termina 62.1 53 0.0012 23.2 10.8 64 97-160 35-104 (127)
17 PF04859 DUF641: Plant protein 61.6 26 0.00056 27.1 5.5 57 101-157 55-123 (131)
18 cd04783 HTH_MerR1 Helix-Turn-H 61.1 32 0.00069 25.6 5.8 38 126-163 75-112 (126)
19 PRK10227 DNA-binding transcrip 61.0 25 0.00054 26.8 5.3 39 124-162 75-113 (135)
20 PF07139 DUF1387: Protein of u 60.5 92 0.002 27.4 9.3 82 72-166 160-249 (302)
21 KOG3335 Predicted coiled-coil 59.3 31 0.00066 28.2 5.7 44 119-162 97-140 (181)
22 PRK09514 zntR zinc-responsive 57.1 42 0.0009 25.6 6.0 40 123-162 76-115 (140)
23 PF04340 DUF484: Protein of un 56.5 37 0.0008 27.7 6.0 35 122-157 35-69 (225)
24 PF10046 BLOC1_2: Biogenesis o 55.6 75 0.0016 22.9 10.6 73 73-159 25-97 (99)
25 PF09057 Smac_DIABLO: Second M 53.8 1E+02 0.0023 26.1 8.2 94 68-161 89-203 (234)
26 PF06419 COG6: Conserved oligo 53.6 2.1E+02 0.0045 27.3 11.6 44 69-123 24-67 (618)
27 COG5178 PRP8 U5 snRNP spliceos 52.2 11 0.00023 39.3 2.4 7 5-11 7-13 (2365)
28 cd01108 HTH_CueR Helix-Turn-He 52.0 41 0.00088 25.1 5.1 38 125-162 76-113 (127)
29 PRK04778 septation ring format 51.8 2.1E+02 0.0045 26.8 11.2 67 99-166 170-236 (569)
30 PF00804 Syntaxin: Syntaxin; 51.5 75 0.0016 21.6 6.5 27 99-125 5-31 (103)
31 TIGR02051 MerR Hg(II)-responsi 51.0 59 0.0013 24.1 5.8 37 126-162 74-110 (124)
32 cd04776 HTH_GnyR Helix-Turn-He 50.7 1E+02 0.0022 22.8 8.5 43 123-165 75-117 (118)
33 PF13747 DUF4164: Domain of un 50.6 75 0.0016 22.7 6.1 43 124-166 42-84 (89)
34 cd04775 HTH_Cfa-like Helix-Tur 49.4 28 0.00061 25.0 3.7 30 129-158 72-101 (102)
35 PF15471 TMEM171: Transmembran 48.9 13 0.00029 32.4 2.2 16 6-21 219-235 (319)
36 cd01107 HTH_BmrR Helix-Turn-He 48.5 1E+02 0.0022 22.2 6.6 33 127-159 74-106 (108)
37 PF05615 THOC7: Tho complex su 48.2 1.2E+02 0.0025 22.9 11.3 41 120-160 73-113 (139)
38 cd04785 HTH_CadR-PbrR-like Hel 47.1 62 0.0014 24.0 5.5 39 124-162 75-113 (126)
39 cd01282 HTH_MerR-like_sg3 Heli 46.9 55 0.0012 23.8 5.0 35 124-158 77-111 (112)
40 TIGR02338 gimC_beta prefoldin, 46.2 76 0.0017 23.1 5.7 43 124-166 63-105 (110)
41 PF05008 V-SNARE: Vesicle tran 46.1 51 0.0011 22.2 4.5 23 139-161 22-44 (79)
42 PRK07353 F0F1 ATP synthase sub 45.5 1.2E+02 0.0026 22.5 6.9 46 109-160 14-61 (140)
43 KOG2391 Vacuolar sorting prote 45.4 2.3E+02 0.0051 25.5 12.1 28 129-156 254-281 (365)
44 cd07681 F-BAR_PACSIN3 The F-BA 45.3 1.2E+02 0.0025 26.0 7.4 69 99-167 128-200 (258)
45 TIGR02116 toxin_Txe_YoeB toxin 45.1 37 0.0008 23.2 3.6 30 69-98 4-36 (80)
46 PRK07191 flgK flagellar hook-a 44.7 2.5E+02 0.0053 25.6 10.7 73 79-153 106-181 (456)
47 PF15290 Syntaphilin: Golgi-lo 44.7 1.6E+02 0.0034 26.0 8.0 24 138-161 120-143 (305)
48 PF14584 DUF4446: Protein of u 43.2 68 0.0015 25.2 5.3 40 125-164 43-82 (151)
49 KOG0995 Centromere-associated 43.2 65 0.0014 30.8 5.9 39 122-160 288-326 (581)
50 PF00261 Tropomyosin: Tropomyo 43.0 1.9E+02 0.0041 23.8 8.6 63 99-167 174-236 (237)
51 PF08385 DHC_N1: Dynein heavy 42.1 1.4E+02 0.003 27.2 7.9 99 69-167 145-259 (579)
52 PF14649 Spatacsin_C: Spatacsi 41.6 1.2E+02 0.0026 26.4 7.1 63 95-159 117-187 (296)
53 PF09763 Sec3_C: Exocyst compl 41.4 1.9E+02 0.0041 27.7 9.0 55 71-125 506-568 (701)
54 PRK10803 tol-pal system protei 40.7 83 0.0018 26.6 5.8 39 124-162 50-88 (263)
55 KOG1924 RhoA GTPase effector D 40.7 28 0.0006 34.8 3.2 39 118-156 775-813 (1102)
56 cd04784 HTH_CadR-PbrR Helix-Tu 40.4 97 0.0021 22.9 5.6 37 126-162 77-113 (127)
57 cd01106 HTH_TipAL-Mta Helix-Tu 39.4 1E+02 0.0022 21.9 5.4 30 127-156 72-101 (103)
58 PF05130 FlgN: FlgN protein; 39.3 1.4E+02 0.0031 21.3 8.8 22 72-93 4-25 (143)
59 cd01109 HTH_YyaN Helix-Turn-He 39.0 1.1E+02 0.0024 22.0 5.7 33 127-159 78-110 (113)
60 cd04779 HTH_MerR-like_sg4 Heli 39.0 52 0.0011 25.2 4.0 28 129-156 82-109 (134)
61 KOG1924 RhoA GTPase effector D 38.5 26 0.00055 35.0 2.6 22 100-121 687-712 (1102)
62 TIGR02131 phaP_Bmeg polyhydrox 38.1 2E+02 0.0044 22.8 12.7 96 70-165 56-163 (165)
63 PF04912 Dynamitin: Dynamitin 37.9 2.9E+02 0.0063 24.5 11.1 62 102-166 320-381 (388)
64 KOG3915 Transcription regulato 37.9 3.4E+02 0.0074 25.8 9.6 80 78-163 501-580 (641)
65 cd04787 HTH_HMRTR_unk Helix-Tu 37.8 1.4E+02 0.0031 22.3 6.2 34 128-161 79-112 (133)
66 PF09278 MerR-DNA-bind: MerR, 37.7 1.1E+02 0.0024 19.5 6.6 32 122-153 30-61 (65)
67 PF07989 Microtub_assoc: Micro 37.3 1.1E+02 0.0024 21.2 5.1 41 125-166 34-74 (75)
68 cd04777 HTH_MerR-like_sg1 Heli 37.2 1.4E+02 0.003 21.3 5.8 48 103-152 58-105 (107)
69 PHA01750 hypothetical protein 35.7 1.5E+02 0.0033 20.6 5.6 36 126-161 33-68 (75)
70 COG2882 FliJ Flagellar biosynt 35.5 1.9E+02 0.004 22.8 6.6 37 124-160 67-103 (148)
71 cd00632 Prefoldin_beta Prefold 35.3 1.5E+02 0.0033 21.2 5.8 44 123-166 58-101 (105)
72 PRK10778 dksA RNA polymerase-b 35.1 2.2E+02 0.0048 22.3 7.3 23 41-64 4-26 (151)
73 TIGR02043 ZntR Zn(II)-responsi 34.9 1.4E+02 0.003 22.4 5.7 37 126-162 79-115 (131)
74 TIGR02044 CueR Cu(I)-responsiv 34.8 1.2E+02 0.0027 22.4 5.4 36 127-162 78-113 (127)
75 PF13758 Prefoldin_3: Prefoldi 34.6 99 0.0021 22.9 4.6 34 125-158 65-98 (99)
76 PF14931 IFT20: Intraflagellar 34.5 2E+02 0.0044 21.7 11.5 76 84-161 38-113 (120)
77 PF10186 Atg14: UV radiation r 34.4 2.6E+02 0.0056 22.9 9.6 30 130-159 79-108 (302)
78 KOG3433 Protein involved in me 34.0 1.2E+02 0.0026 25.1 5.5 38 123-160 76-113 (203)
79 PF08700 Vps51: Vps51/Vps67; 33.9 1.5E+02 0.0033 20.0 5.6 25 130-154 60-84 (87)
80 PF08651 DASH_Duo1: DASH compl 33.7 1.7E+02 0.0036 20.5 6.1 43 118-160 5-47 (78)
81 PF10392 COG5: Golgi transport 33.5 2.1E+02 0.0045 21.5 7.5 43 111-153 55-97 (132)
82 KOG2307 Low density lipoprotei 33.4 4.6E+02 0.01 25.5 10.1 21 70-90 51-71 (705)
83 PF04508 Pox_A_type_inc: Viral 33.2 62 0.0014 17.8 2.6 19 144-162 3-21 (23)
84 cd04790 HTH_Cfa-like_unk Helix 32.0 2.2E+02 0.0049 22.4 6.7 33 128-160 74-106 (172)
85 PF07464 ApoLp-III: Apolipopho 31.4 1.5E+02 0.0033 23.4 5.6 89 76-164 3-103 (155)
86 PRK04098 sec-independent trans 31.3 2.7E+02 0.0059 22.2 9.4 64 88-158 14-77 (158)
87 PF10372 YojJ: Bacterial membr 31.1 1.8E+02 0.0039 20.1 6.1 51 70-120 11-61 (70)
88 PRK15002 redox-sensitivie tran 31.0 93 0.002 24.4 4.3 31 128-158 90-120 (154)
89 cd00193 t_SNARE Soluble NSF (N 31.0 1.3E+02 0.0028 18.4 7.0 18 102-119 14-31 (60)
90 PRK13752 putative transcriptio 30.9 1.5E+02 0.0033 22.7 5.5 36 127-162 83-118 (144)
91 PF05377 FlaC_arch: Flagella a 30.6 1.6E+02 0.0036 19.4 6.5 35 125-159 11-45 (55)
92 PF08112 ATP-synt_E_2: ATP syn 30.5 1.6E+02 0.0036 19.4 5.5 39 125-165 8-46 (56)
93 PF05659 RPW8: Arabidopsis bro 30.4 2.3E+02 0.005 22.0 6.4 59 102-163 28-87 (147)
94 PF10498 IFT57: Intra-flagella 29.8 4.1E+02 0.0089 23.8 10.1 47 68-122 194-241 (359)
95 PRK08471 flgK flagellar hook-a 29.8 5E+02 0.011 24.8 10.8 65 80-146 112-179 (613)
96 PF10211 Ax_dynein_light: Axon 29.4 3E+02 0.0066 22.1 10.7 75 84-160 67-152 (189)
97 PF11172 DUF2959: Protein of u 29.3 3.3E+02 0.0073 22.6 10.0 88 69-160 112-199 (201)
98 PRK04654 sec-independent trans 29.2 3.5E+02 0.0075 22.7 10.5 25 88-112 14-38 (214)
99 TIGR02449 conserved hypothetic 28.8 1.9E+02 0.0042 19.7 5.5 36 131-166 24-59 (65)
100 PRK08147 flgK flagellar hook-a 28.6 4.8E+02 0.01 24.2 10.7 68 78-147 106-176 (547)
101 PRK10963 hypothetical protein; 28.6 49 0.0011 27.2 2.5 32 122-154 32-63 (223)
102 PF11839 DUF3359: Protein of u 28.6 2.4E+02 0.0052 20.7 11.2 90 74-163 1-91 (96)
103 PF15035 Rootletin: Ciliary ro 28.5 2.2E+02 0.0047 23.0 6.2 52 112-163 61-116 (182)
104 PF08336 P4Ha_N: Prolyl 4-Hydr 27.8 2.6E+02 0.0056 20.8 6.3 40 124-163 11-50 (134)
105 KOG3331 Mitochondrial/chloropl 27.7 3.6E+02 0.0077 22.5 7.2 23 95-119 107-129 (213)
106 PF11544 Spc42p: Spindle pole 27.5 1.6E+02 0.0034 20.8 4.5 28 133-160 10-37 (76)
107 PF04678 DUF607: Protein of un 27.4 3.2E+02 0.0068 21.7 7.9 27 130-156 59-85 (180)
108 PF05852 DUF848: Gammaherpesvi 27.4 3E+02 0.0066 21.7 6.6 46 99-148 36-81 (146)
109 PF08657 DASH_Spc34: DASH comp 27.2 3.7E+02 0.0079 23.0 7.6 53 107-160 160-212 (259)
110 PF02671 PAH: Paired amphipath 27.1 94 0.002 18.9 3.0 37 84-120 6-42 (47)
111 PF01763 Herpes_UL6: Herpesvir 26.5 2.2E+02 0.0048 27.2 6.6 37 127-163 362-398 (557)
112 PRK14562 haloacid dehalogenase 26.4 2E+02 0.0043 23.5 5.6 13 79-91 3-15 (204)
113 PF07195 FliD_C: Flagellar hoo 26.3 2E+02 0.0044 23.6 5.8 39 128-166 193-231 (239)
114 PF04678 DUF607: Protein of un 26.0 2.9E+02 0.0064 21.9 6.5 31 131-161 67-98 (180)
115 KOG2662 Magnesium transporters 26.0 1.6E+02 0.0034 27.2 5.3 34 127-160 300-336 (414)
116 PF08654 DASH_Dad2: DASH compl 25.8 1.4E+02 0.003 22.0 4.2 22 133-154 2-23 (103)
117 PRK01919 tatB sec-independent 25.7 3.6E+02 0.0078 21.8 10.4 34 88-121 14-47 (169)
118 KOG1760 Molecular chaperone Pr 25.5 2.2E+02 0.0049 22.0 5.4 32 131-162 91-122 (131)
119 COG3352 FlaC Putative archaeal 25.5 3.3E+02 0.0071 21.8 6.4 47 100-147 85-134 (157)
120 PF10481 CENP-F_N: Cenp-F N-te 25.4 2.6E+02 0.0056 24.6 6.3 42 123-164 90-131 (307)
121 PF04977 DivIC: Septum formati 25.3 2E+02 0.0044 18.8 5.6 26 129-154 25-50 (80)
122 PTZ00097 60S ribosomal protein 25.2 1.3E+02 0.0029 24.4 4.3 42 109-150 129-170 (175)
123 KOG1825 Fry-like conserved pro 24.9 3.7E+02 0.0081 29.9 8.4 79 75-153 190-278 (2206)
124 CHL00118 atpG ATP synthase CF0 24.8 3.2E+02 0.007 20.9 7.3 11 108-118 30-40 (156)
125 KOG0994 Extracellular matrix g 24.5 7E+02 0.015 26.7 9.9 59 103-164 1520-1578(1758)
126 PF07851 TMPIT: TMPIT-like pro 24.5 5.1E+02 0.011 23.1 8.2 20 129-148 69-88 (330)
127 PRK09458 pspB phage shock prot 24.4 1.6E+02 0.0034 20.7 4.0 52 109-160 15-67 (75)
128 cd04781 HTH_MerR-like_sg6 Heli 24.3 2.7E+02 0.006 20.3 5.6 29 130-158 76-104 (120)
129 KOG2546 Abl interactor ABI-1, 24.0 71 0.0015 29.6 2.8 16 28-45 386-401 (483)
130 PF07926 TPR_MLP1_2: TPR/MLP1/ 24.0 1.9E+02 0.0042 21.6 4.9 32 131-162 62-93 (132)
131 PRK09343 prefoldin subunit bet 23.9 2.7E+02 0.0059 20.7 5.6 35 125-159 68-102 (121)
132 cd07679 F-BAR_PACSIN2 The F-BA 23.7 4.7E+02 0.01 22.4 7.6 70 98-167 127-200 (258)
133 COG3685 Uncharacterized protei 23.4 2.4E+02 0.0052 22.8 5.4 27 127-153 38-64 (167)
134 TIGR02473 flagell_FliJ flagell 23.4 3E+02 0.0065 20.0 6.8 34 128-161 68-101 (141)
135 cd04786 HTH_MerR-like_sg7 Heli 23.2 2.8E+02 0.0061 20.8 5.6 23 135-157 88-110 (131)
136 cd04766 HTH_HspR Helix-Turn-He 22.8 1.3E+02 0.0028 20.8 3.5 19 133-151 70-88 (91)
137 PF02996 Prefoldin: Prefoldin 22.7 2.9E+02 0.0063 19.7 6.0 41 120-160 73-116 (120)
138 COG2915 Uncharacterized protei 22.7 4.5E+02 0.0098 21.9 8.0 69 91-159 42-119 (207)
139 cd00904 Ferritin Ferritin iron 22.5 3.6E+02 0.0078 20.6 6.6 49 105-157 97-146 (160)
140 PF03962 Mnd1: Mnd1 family; I 22.3 2.6E+02 0.0056 22.5 5.6 18 133-150 74-91 (188)
141 KOG3261 Uncharacterized conser 22.2 51 0.0011 26.9 1.4 12 9-20 131-142 (202)
142 PF04799 Fzo_mitofusin: fzo-li 21.8 3.8E+02 0.0083 21.7 6.3 38 123-160 115-152 (171)
143 smart00502 BBC B-Box C-termina 21.7 2.9E+02 0.0062 19.2 5.5 22 143-164 62-83 (127)
144 PF05121 GvpK: Gas vesicle pro 21.6 3.2E+02 0.007 19.8 5.7 33 127-159 23-62 (88)
145 PF12325 TMF_TATA_bd: TATA ele 21.5 3.6E+02 0.0079 20.3 9.1 60 103-165 60-119 (120)
146 PF06008 Laminin_I: Laminin Do 21.3 4.8E+02 0.01 21.6 12.8 94 68-161 86-211 (264)
147 PF06698 DUF1192: Protein of u 21.2 2.6E+02 0.0057 18.6 5.3 26 133-158 26-51 (59)
148 PRK03947 prefoldin subunit alp 20.9 3.5E+02 0.0075 20.2 5.7 41 121-161 91-134 (140)
149 PF11652 DUF3259: Protein of u 20.9 3.3E+02 0.0071 19.6 5.4 36 132-167 7-44 (84)
150 cd07596 BAR_SNX The Bin/Amphip 20.9 4E+02 0.0086 20.5 10.8 22 72-93 78-99 (218)
151 PF14959 GSAP-16: gamma-Secret 20.8 38 0.00083 25.6 0.4 14 5-18 57-70 (115)
152 PF15397 DUF4618: Domain of un 20.8 5.5E+02 0.012 22.1 12.7 93 72-165 9-104 (258)
153 PF05700 BCAS2: Breast carcino 20.7 4.7E+02 0.01 21.4 9.4 25 127-151 142-166 (221)
154 PF12325 TMF_TATA_bd: TATA ele 20.7 3.8E+02 0.0082 20.2 5.9 25 139-163 65-89 (120)
155 KOG3915 Transcription regulato 20.7 5.8E+02 0.013 24.3 8.0 22 98-119 493-514 (641)
156 PF08771 Rapamycin_bind: Rapam 20.7 3.4E+02 0.0073 19.6 7.1 70 99-168 13-100 (100)
157 PRK07352 F0F1 ATP synthase sub 20.6 4.1E+02 0.0089 20.6 7.6 14 81-94 25-38 (174)
158 PF07278 DUF1441: Protein of u 20.6 1.6E+02 0.0035 23.3 3.9 41 123-163 107-147 (152)
159 smart00397 t_SNARE Helical reg 20.5 2.2E+02 0.0048 17.5 6.9 17 103-119 21-37 (66)
160 cd01111 HTH_MerD Helix-Turn-He 20.5 2.5E+02 0.0054 20.3 4.7 25 129-153 81-105 (107)
161 KOG2991 Splicing regulator [RN 20.4 1.7E+02 0.0037 25.6 4.3 33 128-160 278-310 (330)
162 KOG0811 SNARE protein PEP12/VA 20.4 2E+02 0.0042 24.9 4.7 35 133-167 171-205 (269)
163 PF06148 COG2: COG (conserved 20.2 1E+02 0.0023 22.9 2.7 20 70-89 31-50 (133)
164 COG1730 GIM5 Predicted prefold 20.1 3.7E+02 0.0081 21.0 5.8 31 124-154 16-46 (145)
165 KOG0101 Molecular chaperones H 20.0 68 0.0015 30.9 1.9 49 114-163 235-283 (620)
No 1
>KOG0570 consensus Transcriptional coactivator [Transcription]
Probab=100.00 E-value=8.6e-67 Score=420.85 Aligned_cols=167 Identities=54% Similarity=0.917 Sum_probs=163.5
Q ss_pred CCCCCCCCChhhhhccccccCCCCCCCCCCCCCCCCceecCceeecCCCCCCcccccccccCCCCCCccHHHHHHHHHHH
Q 030977 1 MATAAYPPPPPYYRLYKDYLQNPNSAPEPPPPIEGTYICFGGNYTTDDVLPSLEEQGVRQLYPKGPNIDFKKELRSLNRE 80 (168)
Q Consensus 1 ~~~S~fPpPP~fyk~yt~~~~~~~~~ppPp~P~~g~y~~FG~~~~~~~~lp~Le~~gi~~Ly~~~~~~D~k~ELkkL~~s 80 (168)
|++|+|||||+|||+||++|++.+++||||+|+.|+|.|||+.|.+++.||+|+++||+|||+.+.++|+|.||++||+|
T Consensus 6 q~~S~~PpPPpY~k~yt~~ni~~~sAP~pP~p~~~tY~~FG~~~~~ddvip~Le~~Gv~qLykkd~~~d~K~ELRkLnrs 85 (223)
T KOG0570|consen 6 QTVSAYPPPPPYYKLYTDENINKGSAPPPPPPILGTYKMFGEEYREDDVIPPLEEQGVPQLYKKDNNYDYKKELRKLNRS 85 (223)
T ss_pred ccccCCCcCChHHHHhhhccccCCCCCcccCCCccchhhhccccchhccccChhhcChHhhCcccccccHHHHHHHHHHH
Confidence 57999999999999999999999999999999999999999999999999999999999999987789999999999999
Q ss_pred HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 81 LQLHILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 81 ll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
|++|||||+|+|+++|+.+++||++|++||+|||||||+|||||||||||+|||+|+++++++++.++++|.++.++|.+
T Consensus 86 lllnfleL~~ILi~~P~~~e~Kvedi~tifvnlHHLiNeyRPhQaResLi~lmE~Qi~~~~~~ve~~kk~~~~~~e~l~d 165 (223)
T KOG0570|consen 86 LLLNFLELLDILIRAPDMREEKVEDIRTIFVNLHHLINEYRPHQARESLIMLMERQIEQRSDIVEDFKKHLRQVREVLDD 165 (223)
T ss_pred HHHHHHHHHHHHHhCchhHHHHHHHHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhC
Q 030977 161 SLGTLEG 167 (168)
Q Consensus 161 ~~~~~~~ 167 (168)
+|.+|.+
T Consensus 166 ~~~tL~~ 172 (223)
T KOG0570|consen 166 QFQTLRG 172 (223)
T ss_pred HHHhhcc
Confidence 9999874
No 2
>PF05983 Med7: MED7 protein; InterPro: IPR009244 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=100.00 E-value=3.9e-65 Score=404.16 Aligned_cols=157 Identities=51% Similarity=0.954 Sum_probs=107.4
Q ss_pred CCCCCCCChhhhhccccccCCCCCCCCCCCCCCCCceecCceeecCCCCCCcccccccccCCCC----CCccHHHHHHHH
Q 030977 2 ATAAYPPPPPYYRLYKDYLQNPNSAPEPPPPIEGTYICFGGNYTTDDVLPSLEEQGVRQLYPKG----PNIDFKKELRSL 77 (168)
Q Consensus 2 ~~S~fPpPP~fyk~yt~~~~~~~~~ppPp~P~~g~y~~FG~~~~~~~~lp~Le~~gi~~Ly~~~----~~~D~k~ELkkL 77 (168)
+||+|||||+|||+||++|.. ..++|||+|.+|.|++||+.|++++.+|+|+++||+|||+.+ .+.|++.||+||
T Consensus 2 ~~s~fPpPP~~yk~yt~~n~l-~~~~pPp~P~~~~y~~FG~~~~~~~~~p~L~~~gi~qLy~~~~~~~~~~d~~~eLkkL 80 (162)
T PF05983_consen 2 ISSLFPPPPPFYKLYTDENEL-RFLPPPPPPIDGEYRVFGETWSTEDKLPSLESQGIRQLYPPDDDPSPSVDRKKELKKL 80 (162)
T ss_dssp ----S----GGGGG--HHHGG-GGGS-----SSGGGSTS------------------------------HHHHHHHHHHH
T ss_pred CCCCCCCchHHHHHcCChhhc-cCCCCcccCCCCcceeCCCEeecCCCCCCchhccccccCCCccccCCCchHHHHHHHH
Confidence 589999999999999999843 345677777899999999999999999999999999999986 358999999999
Q ss_pred HHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 78 NRELQLHILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRR 157 (168)
Q Consensus 78 ~~sll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~ 157 (168)
++|||+|||+|+|+|+.+|+++++||+||++||+|||||||+||||||||+|++||++|+++||++|++|+++|++|+++
T Consensus 81 ~~sll~nfleLl~~l~~~P~~~~~ki~~i~~L~~NmhhllNeyRPhQARetLi~~me~Ql~~kr~~i~~i~~~~~~~~~~ 160 (162)
T PF05983_consen 81 NKSLLLNFLELLDILSKNPSQYERKIEDIRLLFINMHHLLNEYRPHQARETLIMMMEEQLEEKREEIEEIRKVCEKAREV 160 (162)
T ss_dssp HHHHHHHHHHHTTSS---CCCHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HH
Q 030977 158 LK 159 (168)
Q Consensus 158 L~ 159 (168)
|+
T Consensus 161 le 162 (162)
T PF05983_consen 161 LE 162 (162)
T ss_dssp H-
T ss_pred hC
Confidence 85
No 3
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=89.08 E-value=4 Score=32.82 Aligned_cols=61 Identities=25% Similarity=0.331 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 102 RVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 102 ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
.+++|...=-.+...|..+.-||....-|.-|+.+++.+.+.|..+-+.+..++..|..+.
T Consensus 3 ~~~~L~~~d~~L~~~L~~l~~hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~ 63 (188)
T PF10018_consen 3 LAEDLIEADDELSSALEELQEHQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLP 63 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666667788899999999999999999999999999999999999999999998876
No 4
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=87.09 E-value=17 Score=30.67 Aligned_cols=39 Identities=21% Similarity=0.461 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 123 HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 123 hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
.|-||.++..|+..++.|.+.|+++++.+++|+-+|..+
T Consensus 69 q~k~e~~m~~Lea~VEkrD~~IQqLqk~LK~aE~iLtta 107 (272)
T KOG4552|consen 69 QQKREQLMRTLEAHVEKRDEVIQQLQKNLKSAEVILTTA 107 (272)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 466899999999999999999999999999999988763
No 5
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=85.19 E-value=13 Score=32.15 Aligned_cols=85 Identities=11% Similarity=0.172 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHHHhcCCch---------HHH----------HHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHH
Q 030977 79 RELQLHILELSDVLVERPSQ---------YAR----------RVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQR 139 (168)
Q Consensus 79 ~sll~~fleLl~~l~~~P~~---------~~~----------ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~ 139 (168)
..+|...+.++..|...|.. ..+ ++.||+..+.-+--...-+.-|++++.-+..+++.++.
T Consensus 125 S~yLe~Lc~IIqeLq~t~~~~LS~~dl~e~~~~l~DLesa~vkV~WLR~~L~Ei~Ea~e~~~~~~~~e~eke~~~r~l~~ 204 (269)
T PF05278_consen 125 SYYLECLCDIIQELQSTPLKELSESDLKEMIATLKDLESAKVKVDWLRSKLEEILEAKEIYDQHETREEEKEEKDRKLEL 204 (269)
T ss_pred HHHHHHHHHHHHHHhcCcHhhhhHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666677777666632 112 35566655544443333455577788777777777777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 140 RKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 140 rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
.+.+.+.+...+++++.-++++-.
T Consensus 205 ~~~ELe~~~EeL~~~Eke~~e~~~ 228 (269)
T PF05278_consen 205 KKEELEELEEELKQKEKEVKEIKE 228 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 777777777777666666665443
No 6
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=69.78 E-value=61 Score=26.60 Aligned_cols=93 Identities=19% Similarity=0.272 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc----------CCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHH
Q 030977 72 KELRSLNRELQLHILELSDVLVE----------RPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRK 141 (168)
Q Consensus 72 ~ELkkL~~sll~~fleLl~~l~~----------~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr 141 (168)
.|+-+...+.+-.||..-..+.. -|+. +-|..+..++||+--=+..+ --.-+.+-..|+.|.++++
T Consensus 35 EEFSa~IG~vLd~yL~yQKafnE~MekYLe~lNlPSr--~DiarvA~lvinlE~kvD~l--ee~fdd~~d~l~~q~eq~~ 110 (189)
T TIGR02132 35 EEFSALMGNVLDLNLFYQKALNDTTGNYLEQVNVPTK--EDIANVASLVINLEEKVDLI--EEFFDDKFDELEAQQEQAP 110 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCH--HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhCc
Confidence 45555555555555443332221 3554 22444444444443333222 1112222233334444332
Q ss_pred ---HHHHHHHHHHHHHHHHHHHHHhhhhCC
Q 030977 142 ---QAVEDIKRRREEAQRRLKESLGTLEGQ 168 (168)
Q Consensus 142 ---~~~~~ir~~~~~~~~~L~~~~~~~~~~ 168 (168)
..+..+++.+..++..+...++.|+||
T Consensus 111 ~~~~~v~~~~q~~~~l~~K~D~~L~llE~~ 140 (189)
T TIGR02132 111 ALKKDVTKLKQDIKSLDKKLDKILELLEGQ 140 (189)
T ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 344555566666666666666666653
No 7
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=65.35 E-value=20 Score=26.91 Aligned_cols=42 Identities=12% Similarity=0.170 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 122 PHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 122 PhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
+.++.+.+..+++.|+++..+.++++++..+..+..+..|..
T Consensus 73 ~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~ 114 (127)
T TIGR02047 73 PEKSCSDVNALLDEHISHVRARIIKLQALIEQLVDLRGRCNG 114 (127)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 555566778888999999888888888888888877776643
No 8
>PF06216 RTBV_P46: Rice tungro bacilliform virus P46 protein; InterPro: IPR009347 This family consists of several Rice tungro bacilliform virus P46 proteins. The function of this family is unknown.
Probab=65.12 E-value=53 Score=28.67 Aligned_cols=63 Identities=10% Similarity=0.043 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 104 EDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 104 ~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
+.+++|++=..||-|.=-..|+...=..-|++|+...+...+..|+.+...+++|++.-+-++
T Consensus 54 ervrklh~~~~~~y~~e~e~~sy~~e~~~l~~qvs~l~~~~~~~r~~~~~~~~~~eglrep~k 116 (389)
T PF06216_consen 54 ERVRKLHIISDYIYNKEFERQSYSNEWISLNDQVSHLQHQNSEQRQQIREMREIIEGLREPVK 116 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence 344555566678878777788888888889999999999999999999999998887655544
No 9
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=64.06 E-value=32 Score=25.17 Aligned_cols=38 Identities=11% Similarity=0.037 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
++...+..+|+++++.-.+.++++++.....+..+...
T Consensus 75 ~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (116)
T cd04769 75 LPWPHLQQALEDKKQEIRAQITELQQLLARLDAFEASL 112 (116)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 55677788888888888888888877777766665543
No 10
>COG1561 Uncharacterized stress-induced protein [Function unknown]
Probab=63.32 E-value=95 Score=27.20 Aligned_cols=82 Identities=17% Similarity=0.078 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHHHHHh-cCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 74 LRSLNRELQLHILELSDVLV-ERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRRE 152 (168)
Q Consensus 74 LkkL~~sll~~fleLl~~l~-~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~ 152 (168)
|+.+...-|.+.-.+++.+. ..|.-.+...+.+..-+.....-+++-|=+| ...+=.|.-.-++++.+++.++.
T Consensus 155 L~~~l~~~L~~ie~~v~~v~~~~P~~~~~~~~~l~~ri~~~~~~~d~~rl~q-----E~al~a~K~DI~EEldRL~sHv~ 229 (290)
T COG1561 155 LKADLLQRLDAIEELVEKVESLMPEILEWYRERLVARLNEAQDQLDEDRLEQ-----EVALLAQKADIAEELDRLKSHVK 229 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHhcccChHHHHH-----HHHHHHHHhhHHHHHHHHHHHHH
Confidence 33333444444444444332 2455555555555444444443333333333 34455666778899999999999
Q ss_pred HHHHHHHH
Q 030977 153 EAQRRLKE 160 (168)
Q Consensus 153 ~~~~~L~~ 160 (168)
+++.+|++
T Consensus 230 ~~~~iL~~ 237 (290)
T COG1561 230 EFRNILEK 237 (290)
T ss_pred HHHHHHhc
Confidence 99999953
No 11
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=63.09 E-value=50 Score=23.16 Aligned_cols=57 Identities=14% Similarity=0.219 Sum_probs=46.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHhc----cChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 96 PSQYARRVEDISLIFKNLHHLLNS----LRPHQARATLIHILELQIQRRKQAVEDIKRRRE 152 (168)
Q Consensus 96 P~~~~~ki~~i~~l~iNmhhllNe----~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~ 152 (168)
+.+....+..|+.=+-|+--++.+ =|...-.+.-+..|++|++.+++.+.+++..|+
T Consensus 23 ~kd~~~~~~~lk~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~k~~~L~~~~~~~~ 83 (83)
T PF07544_consen 23 SKDLDTATGSLKHKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRKKREVLQKFKERVM 83 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 445677788888888888888876 478888888899999999999999999888763
No 12
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=62.81 E-value=31 Score=26.20 Aligned_cols=36 Identities=8% Similarity=0.067 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
+.+..+++.++++-++.++++.+..+.....+..+-
T Consensus 77 ~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~ 112 (131)
T cd04786 77 DELLAALERKVADIEALEARLAQNKAQLLVLIDLIE 112 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456677888777777777777777666666665543
No 13
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=62.55 E-value=25 Score=25.82 Aligned_cols=39 Identities=18% Similarity=0.237 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 125 ARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 125 ARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
+.+.+..+|+.|+++..++++++.+.....+.++..+..
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~ 114 (123)
T cd04770 76 PCAEVRALLEEKLAEVEAKIAELQALRAELAGLLSACDG 114 (123)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 346678888999988888888888888887777766543
No 14
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=62.53 E-value=47 Score=23.22 Aligned_cols=44 Identities=20% Similarity=0.320 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLEG 167 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~~ 167 (168)
+.+++++..|+.+++....+++.++.........+++.-..|++
T Consensus 58 ~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~ 101 (106)
T PF01920_consen 58 QDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYE 101 (106)
T ss_dssp EEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788888999999999999999999988888888887766654
No 15
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=62.52 E-value=1.4e+02 Score=28.08 Aligned_cols=67 Identities=22% Similarity=0.324 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 99 YARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 99 ~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
.+.+++.|..-|..+.-+.+.--+.+|++.|.. ++..+..-++.++.|=.-+.+++..+-+.+..|+
T Consensus 166 Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~-l~~~~~~l~~~~e~IP~l~~~l~~~~P~ql~eL~ 232 (560)
T PF06160_consen 166 LEKQLENIEEEFSEFEELTENGDYLEAREILEK-LKEETDELEEIMEDIPKLYKELQKEFPDQLEELK 232 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHH-HHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHH
Confidence 578899999999999999999999999998765 5777777788888888888888777777776664
No 16
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=62.06 E-value=53 Score=23.17 Aligned_cols=64 Identities=19% Similarity=0.269 Sum_probs=49.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHhccChH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 97 SQYARRVEDISLIFKNLHHLLNSLRPH------QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 97 ~~~~~ki~~i~~l~iNmhhllNe~RPh------QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
...+..-.+|..-|-.+|.+|++-+-. -.++.....|..|++.....++.+...|+.++.+|..
T Consensus 35 ~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~~~~~~~l~~q~~~l~~~l~~l~~~~~~~e~~l~~ 104 (127)
T smart00502 35 ENAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQKENKLKVLEQQLESLTQKQEKLSHAINFTEEALNS 104 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 345667788889999999888854432 3445566778888888888889999999998888874
No 17
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=61.64 E-value=26 Score=27.12 Aligned_cols=57 Identities=11% Similarity=0.331 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHHHh--------ccCh----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 101 RRVEDISLIFKNLHHLLN--------SLRP----HQARATLIHILELQIQRRKQAVEDIKRRREEAQRR 157 (168)
Q Consensus 101 ~ki~~i~~l~iNmhhllN--------e~RP----hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~ 157 (168)
+++.+|+-.|.+.....+ +... ...+|.+..-|+.|++.|..+|..+|..++++...
T Consensus 55 ~~Ls~LK~~y~~~~~~~~~~~~~l~a~~~e~qsli~~yE~~~~kLe~e~~~Kdsei~~Lr~~L~~~~~~ 123 (131)
T PF04859_consen 55 RRLSELKRRYRKKQSDPSPQVARLAAEIQEQQSLIKTYEIVVKKLEAELRAKDSEIDRLREKLDELNRA 123 (131)
T ss_pred HHHHHHHHHHHcCCCCCCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346666666666655444 1221 34568888999999999999999999999987653
No 18
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=61.08 E-value=32 Score=25.55 Aligned_cols=38 Identities=13% Similarity=0.232 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 126 RATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 126 RetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
...+..+++.|++.-.++++++++..+.....+..+..
T Consensus 75 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~~~~~ 112 (126)
T cd04783 75 CSEARELAEQKLAEVDEKIADLQRMRASLQELVSQCAA 112 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 45677888888888888888888877777777766544
No 19
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=60.99 E-value=25 Score=26.82 Aligned_cols=39 Identities=8% Similarity=0.095 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
+....+..++++++.+-.+.++++.+..+.....+..|.
T Consensus 75 ~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 113 (135)
T PRK10227 75 RHSADVKRRTLEKVAEIERHIEELQSMRDQLLALANACP 113 (135)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 334555667777777777777777777777777766553
No 20
>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals.
Probab=60.55 E-value=92 Score=27.42 Aligned_cols=82 Identities=23% Similarity=0.351 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHH--------HHhccChHHHHHHHHHHHHHHHHHHHHH
Q 030977 72 KELRSLNRELQLHILELSDVLVERPSQYARRVEDISLIFKNLHH--------LLNSLRPHQARATLIHILELQIQRRKQA 143 (168)
Q Consensus 72 ~ELkkL~~sll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhh--------llNe~RPhQARetL~~~le~Ql~~rr~~ 143 (168)
+.|+++.-||. .|=-+|. ++.+..|+.|+.-|--+|- |+.|+.-++|....| |..|+..
T Consensus 160 KDLqRctvSL~-RYr~~lk------ee~d~S~k~ik~~F~~l~~cL~dREvaLl~EmdkVK~EAmei------L~aRqkk 226 (302)
T PF07139_consen 160 KDLQRCTVSLT-RYRVVLK------EEMDSSIKKIKQTFAELQSCLMDREVALLAEMDKVKAEAMEI------LDARQKK 226 (302)
T ss_pred HHHHHHHHHHH-hhhhHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHH
Confidence 56666666643 5555554 3455667777777777764 555777777665544 3455566
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Q 030977 144 VEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 144 ~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
++++++..|.|-.+=+.++..|.
T Consensus 227 AeeLkrltd~A~~MsE~Ql~ELR 249 (302)
T PF07139_consen 227 AEELKRLTDRASQMSEEQLAELR 249 (302)
T ss_pred HHHHHHHHHHHhhcCHHHHHHHH
Confidence 77777777777766666665554
No 21
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=59.30 E-value=31 Score=28.19 Aligned_cols=44 Identities=14% Similarity=0.273 Sum_probs=38.1
Q ss_pred ccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 119 SLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 119 e~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
+-+-++.|..=++-|+.++++...+++++++.+++..+.|.+--
T Consensus 97 e~~kee~~~~e~~elr~~~~~l~~~i~~~~~~~~~L~~~l~~~~ 140 (181)
T KOG3335|consen 97 ERKKEEKRKQEIMELRLKVEKLENAIAELTKFFSQLHSKLNKPE 140 (181)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcc
Confidence 44448999999999999999999999999999999988877653
No 22
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=57.08 E-value=42 Score=25.64 Aligned_cols=40 Identities=13% Similarity=0.225 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 123 HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 123 hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
.++.+.+..+|+.|+++.++.++++.+.....+.++..+.
T Consensus 76 ~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 115 (140)
T PRK09514 76 HHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRLNDACC 115 (140)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3445667888888888888888888777777766666553
No 23
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=56.52 E-value=37 Score=27.71 Aligned_cols=35 Identities=20% Similarity=0.394 Sum_probs=25.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 122 PHQARATLIHILELQIQRRKQAVEDIKRRREEAQRR 157 (168)
Q Consensus 122 PhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~ 157 (168)
||+.+ ..+.+.+.|++..|++++.++..+++.-+.
T Consensus 35 ph~~~-~avSL~erQ~~~LR~~~~~L~~~l~~Li~~ 69 (225)
T PF04340_consen 35 PHPSG-GAVSLVERQLERLRERNRQLEEQLEELIEN 69 (225)
T ss_dssp -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCC-CcccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67765 599999999999999999999998874443
No 24
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=55.62 E-value=75 Score=22.87 Aligned_cols=73 Identities=19% Similarity=0.341 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 73 ELRSLNRELQLHILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRRE 152 (168)
Q Consensus 73 ELkkL~~sll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~ 152 (168)
=|.++|+..-..|.++-+. +.+|+.-+-.+...-++++|+ -.-+..++.|+.+..+.+..+...+.
T Consensus 25 LLe~mN~~~~~kY~~~~~~-----------~~~l~~~~~~l~~k~~~l~~~---l~~Id~Ie~~V~~LE~~v~~LD~ysk 90 (99)
T PF10046_consen 25 LLENMNKATSLKYKKMKDI-----------AAGLEKNLEDLNQKYEELQPY---LQQIDQIEEQVTELEQTVYELDEYSK 90 (99)
T ss_pred HHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666666665554 444444444444444445443 44566677777777777777777777
Q ss_pred HHHHHHH
Q 030977 153 EAQRRLK 159 (168)
Q Consensus 153 ~~~~~L~ 159 (168)
+.+..++
T Consensus 91 ~LE~k~k 97 (99)
T PF10046_consen 91 ELESKFK 97 (99)
T ss_pred HHHHHhh
Confidence 7666654
No 25
>PF09057 Smac_DIABLO: Second Mitochondria-derived Activator of Caspases; InterPro: IPR015142 This entry represents Smac (Second Mitochondria-derived Activator of Caspases) and DIABLO (Direct IAP-Binding protein with Low PI) proteins and their homologues. Smac promotes apoptosis by activating caspases in the cytochrome c/Apaf-1/caspase-9 pathway, and by opposing the inhibitory activity of inhibitor of apoptosis proteins (XIAP-BIR3). The protein assumes an elongated three-helix bundle structure, and forms a dimer in solution []. ; GO: 0006917 induction of apoptosis, 0006919 activation of caspase activity, 0005739 mitochondrion; PDB: 1XB0_I 1G73_B 3UIH_P 1XB1_H 3UIJ_Q 3D9U_B 1FEW_A 1TW6_D 1G3F_B.
Probab=53.79 E-value=1e+02 Score=26.08 Aligned_cols=94 Identities=16% Similarity=0.138 Sum_probs=55.2
Q ss_pred ccHHHHHHHHHH---HHHHHHHHHHHHHhcCCch------------HHHHHHHHHHHHHHHHHHHh------ccChHHHH
Q 030977 68 IDFKKELRSLNR---ELQLHILELSDVLVERPSQ------------YARRVEDISLIFKNLHHLLN------SLRPHQAR 126 (168)
Q Consensus 68 ~D~k~ELkkL~~---sll~~fleLl~~l~~~P~~------------~~~ki~~i~~l~iNmhhllN------e~RPhQAR 126 (168)
+|...|..|..+ ||...|+.++|.|..+=++ ..+|-+++..+=.++.-.+| |---.=--
T Consensus 89 Ida~teY~kav~tLisL~k~Y~~~lgKl~~~EeD~vWqvIIg~R~E~~dk~~e~~rlEs~w~sAv~L~e~AAEAAy~sGA 168 (234)
T PF09057_consen 89 IDAITEYTKAVHTLISLQKRYLSSLGKLNSAEEDAVWQVIIGQRVEMNDKQQECLRLESTWMSAVNLSEMAAEAAYQSGA 168 (234)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCTTTSSTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcch
Confidence 555666666554 5666677777765433111 23344444444444443333 21111123
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
+..-.+.+..|+--+..++++|+...+|+.+|.++
T Consensus 169 dqASitar~~iQ~aqsQV~e~r~ls~~AE~kLae~ 203 (234)
T PF09057_consen 169 DQASITARTRIQVAQSQVEEARQLSQKAEKKLAEA 203 (234)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666777778888888888888888888888775
No 26
>PF06419 COG6: Conserved oligomeric complex COG6; InterPro: IPR010490 COG6 is a component of the conserved oligomeric golgi complex, which is composed of eight different subunits and is required for normal golgi morphology and localisation.
Probab=53.55 E-value=2.1e+02 Score=27.30 Aligned_cols=44 Identities=14% Similarity=0.239 Sum_probs=34.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChH
Q 030977 69 DFKKELRSLNRELQLHILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPH 123 (168)
Q Consensus 69 D~k~ELkkL~~sll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPh 123 (168)
|.-.++.+.+..+|..|-.+... ++.+..-+-+|+..+++..-+
T Consensus 24 ~iE~~~l~~~~~~L~~f~~v~~~-----------l~~~~~~v~~l~~~~~~~~~~ 67 (618)
T PF06419_consen 24 DIEKRLLKINQEFLKEFSPVNRQ-----------LKRLQSDVDKLNSSCDQMQDR 67 (618)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHH
Confidence 45578888899999999888764 778888888888888766544
No 27
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=52.22 E-value=11 Score=39.25 Aligned_cols=7 Identities=71% Similarity=1.763 Sum_probs=4.0
Q ss_pred CCCCChh
Q 030977 5 AYPPPPP 11 (168)
Q Consensus 5 ~fPpPP~ 11 (168)
++||||+
T Consensus 7 g~ppppp 13 (2365)
T COG5178 7 GNPPPPP 13 (2365)
T ss_pred CCCcccc
Confidence 4666654
No 28
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=51.98 E-value=41 Score=25.09 Aligned_cols=38 Identities=13% Similarity=0.145 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 125 ARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 125 ARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
..+.+..+++.|++.-.+.++++.+..+..+..+..|.
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~~~~ 113 (127)
T cd01108 76 ASADVKALALEHIAELERKIAELQAMRRTLQQLADSCH 113 (127)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 34556678888888888888888888877777776553
No 29
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=51.77 E-value=2.1e+02 Score=26.84 Aligned_cols=67 Identities=25% Similarity=0.303 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 99 YARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 99 ~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
-+.+++.|..-|..+.-+-+.--+.+|++.|.. ++.++...+..++.|=.-..+++..+=+++..|+
T Consensus 170 le~~l~~~e~~f~~f~~l~~~Gd~~~A~e~l~~-l~~~~~~l~~~~~~iP~l~~~~~~~~P~ql~el~ 236 (569)
T PRK04778 170 LEKQLENLEEEFSQFVELTESGDYVEAREILDQ-LEEELAALEQIMEEIPELLKELQTELPDQLQELK 236 (569)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 367899999999999999999999999998754 5777777777888887777777777766665553
No 30
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=51.51 E-value=75 Score=21.64 Aligned_cols=27 Identities=22% Similarity=0.334 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhccChHHH
Q 030977 99 YARRVEDISLIFKNLHHLLNSLRPHQA 125 (168)
Q Consensus 99 ~~~ki~~i~~l~iNmhhllNe~RPhQA 125 (168)
|-..+++|+.-+-.+...+++++--|.
T Consensus 5 f~~~v~~i~~~i~~i~~~~~~l~~l~~ 31 (103)
T PF00804_consen 5 FFDEVQEIREDIDKIKEKLNELRKLHK 31 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444443
No 31
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=50.97 E-value=59 Score=24.14 Aligned_cols=37 Identities=8% Similarity=0.132 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 126 RATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 126 RetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
...+..+++.|++.-++.++++.+..+..+++++.+.
T Consensus 74 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 110 (124)
T TIGR02051 74 CREMYELASRKLKSVQAKMADLLRIERLLEELLEQCP 110 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 4566778888888888888888888877777777654
No 32
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=50.68 E-value=1e+02 Score=22.81 Aligned_cols=43 Identities=14% Similarity=0.117 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030977 123 HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTL 165 (168)
Q Consensus 123 hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~ 165 (168)
.+..+....+++.|+.+..+.++.+++..+..+..+..|-+.|
T Consensus 75 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~~~~~~~~ 117 (118)
T cd04776 75 RKQLEKMLEKIEKRRAELEQQRRDIDAALAELDAAEERCRERL 117 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344556778888888888888888888888888888776654
No 33
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=50.57 E-value=75 Score=22.68 Aligned_cols=43 Identities=16% Similarity=0.252 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
|.-..-...|..++++.....+.+...|.++..-|..+-+++.
T Consensus 42 ~~l~~dr~rLa~eLD~~~ar~~~Le~~~~Evs~rL~~a~e~Ir 84 (89)
T PF13747_consen 42 QRLDADRSRLAQELDQAEARANRLEEANREVSRRLDSAIETIR 84 (89)
T ss_pred HHHHhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445566778899999999999999999999999998888765
No 34
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=49.38 E-value=28 Score=25.01 Aligned_cols=30 Identities=17% Similarity=0.320 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 129 LIHILELQIQRRKQAVEDIKRRREEAQRRL 158 (168)
Q Consensus 129 L~~~le~Ql~~rr~~~~~ir~~~~~~~~~L 158 (168)
...+++.|++.-++.++++++.....+++|
T Consensus 72 ~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 101 (102)
T cd04775 72 VQAILEERLQSLNREIQRLRQQQQVLAAIL 101 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 457788888888888888888888777665
No 35
>PF15471 TMEM171: Transmembrane protein family 171
Probab=48.91 E-value=13 Score=32.42 Aligned_cols=16 Identities=38% Similarity=0.949 Sum_probs=10.7
Q ss_pred CCCCh-hhhhccccccC
Q 030977 6 YPPPP-PYYRLYKDYLQ 21 (168)
Q Consensus 6 fPpPP-~fyk~yt~~~~ 21 (168)
||||| +||-.....+.
T Consensus 219 FPPPPPPYF~ess~~a~ 235 (319)
T PF15471_consen 219 FPPPPPPYFPESSASAV 235 (319)
T ss_pred cCCccCCCCCCCCcccc
Confidence 77776 58888765443
No 36
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=48.47 E-value=1e+02 Score=22.24 Aligned_cols=33 Identities=21% Similarity=0.335 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREEAQRRLK 159 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~ 159 (168)
+.+..+++.|+++-.++++.+.+..+..+..++
T Consensus 74 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l~ 106 (108)
T cd01107 74 DELRKLLREKLAELEAEIEELQRILRLLEDRLK 106 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677778888888888888888777777666654
No 37
>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []. This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.
Probab=48.18 E-value=1.2e+02 Score=22.86 Aligned_cols=41 Identities=27% Similarity=0.383 Sum_probs=34.2
Q ss_pred cChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 120 LRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 120 ~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
-|-.+..+.+..-++..++..+..|++++..+..|+.++..
T Consensus 73 ~~e~e~Y~~~~~~i~~~i~~~k~~ie~lk~~L~~ak~~r~~ 113 (139)
T PF05615_consen 73 KRERENYEQLNEEIEQEIEQAKKEIEELKEELEEAKRVRQN 113 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667778888888899999999999999999998888765
No 38
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=47.10 E-value=62 Score=24.03 Aligned_cols=39 Identities=15% Similarity=0.214 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
+....+..+++.|+++..+.++++.+..+..+..+..|.
T Consensus 75 ~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 113 (126)
T cd04785 75 RSCAEADAIARAHLADVRARIADLRRLEAELKRMVAACS 113 (126)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 344556777888888888888888888777777776654
No 39
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=46.85 E-value=55 Score=23.85 Aligned_cols=35 Identities=20% Similarity=0.419 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRL 158 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L 158 (168)
++...+..+++.|+.+-.+.++++++..+.....|
T Consensus 77 ~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~l 111 (112)
T cd01282 77 RPCPDLLAVLRRELARIDRQIADLTRSRDRLDAYL 111 (112)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34456678888888888888888887777665544
No 40
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=46.18 E-value=76 Score=23.10 Aligned_cols=43 Identities=19% Similarity=0.283 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
|.++.++.-++..++.....++.+.+..+..+..+.+.-..|.
T Consensus 63 ~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~ 105 (110)
T TIGR02338 63 TDKEEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQ 105 (110)
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566777777777777777777777777766666666555443
No 41
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=46.15 E-value=51 Score=22.18 Aligned_cols=23 Identities=35% Similarity=0.553 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 030977 139 RRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 139 ~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
+|+..+..+...+++|+++|++.
T Consensus 22 ~r~~~i~~~e~~l~ea~~~l~qM 44 (79)
T PF05008_consen 22 QRKSLIREIERDLDEAEELLKQM 44 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666666666666666666554
No 42
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=45.54 E-value=1.2e+02 Score=22.52 Aligned_cols=46 Identities=22% Similarity=0.265 Sum_probs=20.4
Q ss_pred HHHHHHHHHh--ccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 109 IFKNLHHLLN--SLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 109 l~iNmhhllN--e~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
.|+++-.+|+ -|+| |..+|+..-+.-...+++.++...++.+.+.+
T Consensus 14 ~flil~~ll~~~l~~p------i~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~~ 61 (140)
T PRK07353 14 QFVLLTFILNALFYKP------VGKVVEEREDYIRTNRAEAKERLAEAEKLEAQ 61 (140)
T ss_pred HHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444 3455 34444444444444444444444444444433
No 43
>KOG2391 consensus Vacuolar sorting protein/ubiquitin receptor VPS23 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]
Probab=45.40 E-value=2.3e+02 Score=25.55 Aligned_cols=28 Identities=25% Similarity=0.343 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 129 LIHILELQIQRRKQAVEDIKRRREEAQR 156 (168)
Q Consensus 129 L~~~le~Ql~~rr~~~~~ir~~~~~~~~ 156 (168)
.+..||.|....+..|+=+.++..++-+
T Consensus 254 ~~etLEqq~~~L~~niDIL~~k~~eal~ 281 (365)
T KOG2391|consen 254 MKETLEQQLQSLQKNIDILKSKVREALE 281 (365)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence 3444444444444444444444444333
No 44
>cd07681 F-BAR_PACSIN3 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 3 (PACSIN3). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSIN 3 or Syndapin III is expressed ubiquitously and regulates glucose uptake in adipocytes through its role in GLUT1 trafficking. It also modulates the subcellular localization and stimulus-specific function of the cation channel TRPV4. PACSIN 3 contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave surface that binds to
Probab=45.30 E-value=1.2e+02 Score=26.01 Aligned_cols=69 Identities=19% Similarity=0.315 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhccChHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 030977 99 YARRVEDISLIFKNLHHLLNSLRPHQARATLI----HILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLEG 167 (168)
Q Consensus 99 ~~~ki~~i~~l~iNmhhllNe~RPhQARetL~----~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~~ 167 (168)
+...++++..-=-+.|..+-+-+-.|++++.- .+..+|++..++.++.-+...+++++...++++.|++
T Consensus 128 w~k~~kk~~~sKk~Y~~~ck~e~~a~~~e~~~k~~~~~~~~q~~K~~~kleK~~~~~~k~~~~Y~~~v~~L~~ 200 (258)
T cd07681 128 WVKKLKEVESSKKGYHAARKDERTAQTRETHAKADSTVSQEQLRKLQDRVEKCTQEAEKAKEQYEKALEELNR 200 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555555568888887888888888774 5678899999999999999999999999999888864
No 45
>TIGR02116 toxin_Txe_YoeB toxin-antitoxin system, toxin component, Txe/YoeB family. The Axe-Txe pair in Enterococcus faecium and the homologous YefM-YoeB pair in Escherichia coli have been shown to act as an antitoxin-toxin pair. This model describes the toxin component. Nearly every example found is next to an identifiable antitoxin, as indicated by matches to TIGR01552 and/or pfam02604.
Probab=45.10 E-value=37 Score=23.17 Aligned_cols=30 Identities=17% Similarity=0.209 Sum_probs=24.7
Q ss_pred cHHHHHHHHHHH---HHHHHHHHHHHHhcCCch
Q 030977 69 DFKKELRSLNRE---LQLHILELSDVLVERPSQ 98 (168)
Q Consensus 69 D~k~ELkkL~~s---ll~~fleLl~~l~~~P~~ 98 (168)
+..++|++|-++ +...|.+.+..|..+|-.
T Consensus 4 ~a~kdlkkl~k~~~~~~~~i~~~i~~l~~~P~~ 36 (80)
T TIGR02116 4 EAWEDYKKWQEADKKLKKKINELIKDVRRDPFK 36 (80)
T ss_pred HHHHHHHHHHHcCHHHHHHHHHHHHHHHcCCCC
Confidence 467899999766 889999999888888864
No 46
>PRK07191 flgK flagellar hook-associated protein FlgK; Validated
Probab=44.72 E-value=2.5e+02 Score=25.62 Aligned_cols=73 Identities=7% Similarity=0.078 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHhcCCchH---HHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 79 RELQLHILELSDVLVERPSQY---ARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREE 153 (168)
Q Consensus 79 ~sll~~fleLl~~l~~~P~~~---~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~ 153 (168)
.+.|-+|..=+..|+.+|++. ..-++.-+.|.-.|+++-+.+. +.|..+..-++.++++-...+++|...-.+
T Consensus 106 ~~~l~~ff~a~~~la~~P~~~~~r~~vl~~a~~la~~~n~~~~~l~--~~~~~~~~~i~~~V~~iN~ll~~Ia~LN~~ 181 (456)
T PRK07191 106 ATGLNNFFSALSAATQLPDSPPMRQQVIESANAMALRFNNVNNFIV--QQKKSIGQQRDATVKQINSLTRSIADYNQK 181 (456)
T ss_pred HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778888899999999874 4457788888888888776664 555555555555555555544444444333
No 47
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=44.69 E-value=1.6e+02 Score=25.97 Aligned_cols=24 Identities=17% Similarity=0.349 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 138 QRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 138 ~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
++-|.+|..+|++++-+++-|.+.
T Consensus 120 KEARkEIkQLkQvieTmrssL~ek 143 (305)
T PF15290_consen 120 KEARKEIKQLKQVIETMRSSLAEK 143 (305)
T ss_pred HHHHHHHHHHHHHHHHHHhhhchh
Confidence 445667777777777777766653
No 48
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=43.23 E-value=68 Score=25.20 Aligned_cols=40 Identities=25% Similarity=0.385 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030977 125 ARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGT 164 (168)
Q Consensus 125 ARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~ 164 (168)
.-|.++.-...++++-+++.+++++.++..+..+..|++.
T Consensus 43 ~lE~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~k 82 (151)
T PF14584_consen 43 NLEDLLNELFDQIDELKEELEELEKRIEELEEKLRNCVQK 82 (151)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccce
Confidence 4577777788889999999999999999999999988764
No 49
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=43.16 E-value=65 Score=30.75 Aligned_cols=39 Identities=13% Similarity=0.405 Sum_probs=35.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 122 PHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 122 PhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
-.|+++..+.+|...++++.++++.|++..++.+.++..
T Consensus 288 k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~ 326 (581)
T KOG0995|consen 288 KKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIEL 326 (581)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 358999999999999999999999999999999888865
No 50
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=43.04 E-value=1.9e+02 Score=23.84 Aligned_cols=63 Identities=24% Similarity=0.383 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 030977 99 YARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLEG 167 (168)
Q Consensus 99 ~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~~ 167 (168)
+..+|.+|..=+.+. +.|---|... +..|+.+++....++...+.....+..-|..+|..|++
T Consensus 174 ~e~~i~~L~~~lkea-----E~Rae~aE~~-v~~Le~~id~le~eL~~~k~~~~~~~~eld~~l~el~~ 236 (237)
T PF00261_consen 174 YEEKIRDLEEKLKEA-----ENRAEFAERR-VKKLEKEIDRLEDELEKEKEKYKKVQEELDQTLNELNE 236 (237)
T ss_dssp HHHHHHHHHHHHHHH-----HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred HHHHHHHHHHHHHHH-----HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 455566655544444 5566666655 56679999999999999999999999999999998875
No 51
>PF08385 DHC_N1: Dynein heavy chain, N-terminal region 1; InterPro: IPR013594 Dynein heavy chains interact with other heavy chains to form dimers, and with intermediate chain-light chain complexes to form a basal cargo binding unit []. The region featured in this family includes the sequences implicated in mediating these interactions []. It is thought to be flexible and not to adopt a rigid conformation [].
Probab=42.06 E-value=1.4e+02 Score=27.20 Aligned_cols=99 Identities=13% Similarity=0.262 Sum_probs=59.4
Q ss_pred cHHHH-HHHHHHHHHHHHHHHH---HHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHH--------HHHHH--HHH-
Q 030977 69 DFKKE-LRSLNRELQLHILELS---DVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQA--------RATLI--HIL- 133 (168)
Q Consensus 69 D~k~E-LkkL~~sll~~fleLl---~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQA--------RetL~--~~l- 133 (168)
++-.. |.++.+.+.......+ +++...++....++.+...++-...+..+++|-.=. +.... .+.
T Consensus 145 ~R~~~Ll~~isn~ii~~~~~~l~~~~l~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~vf~ 224 (579)
T PF08385_consen 145 ERMTSLLEKISNQIIQKCQKYLDPSDLFSGDYDEFIKKLNECIDILESWKETYEEFREQIRELTRKRSHPWEFDEKKVFG 224 (579)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCcccHHHHHH
Confidence 44433 3667777777666666 456666777888888888888888888776665421 11222 121
Q ss_pred -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 030977 134 -ELQIQRRKQAVEDIKRRREEAQRRLKESLGTLEG 167 (168)
Q Consensus 134 -e~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~~ 167 (168)
=....+|-..+.+++....+-..+++..+.+++|
T Consensus 225 ~~~~f~~Rl~~i~~i~~~~~~f~~l~~~~~~g~~g 259 (579)
T PF08385_consen 225 RLDAFKERLEDIKEIRETHEQFSRLLKSEFGGLRG 259 (579)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccc
Confidence 2344555555566666666665555555444433
No 52
>PF14649 Spatacsin_C: Spatacsin C-terminus
Probab=41.59 E-value=1.2e+02 Score=26.40 Aligned_cols=63 Identities=16% Similarity=0.254 Sum_probs=42.2
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHH
Q 030977 95 RPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQI--------QRRKQAVEDIKRRREEAQRRLK 159 (168)
Q Consensus 95 ~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql--------~~rr~~~~~ir~~~~~~~~~L~ 159 (168)
+|.+. ++. .+-.+.+||+|=+-++.-.+|+..+..+...+. +.+..-...|+--++.|+.-++
T Consensus 117 ~P~d~-e~~-~mv~l~F~m~~Eia~~~e~~A~~~l~~l~~~~~~~~l~~~~~~~~~L~~am~~~~~AAe~ylk 187 (296)
T PF14649_consen 117 CPEDK-EKF-SMVALHFNMYREIAELWEKRARQILKKLVSQPWEESLRDNPELKSELLEAMENFTDAAENYLK 187 (296)
T ss_pred CCCCH-HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccCCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 56665 443 356789999999999999999999988877653 2344444444444444444443
No 53
>PF09763 Sec3_C: Exocyst complex component Sec3; InterPro: IPR019160 The exocyst complex is composed of 8 subunits: Exoc1, Exoc2, Exoc3, Exoc4, Exoc5, Exoc6, Exoc7 and Exoc8. This entry represents the subunit Exoc1 (Sec3). Sec3 binds to the C-terminal cytoplasmic domain of GLYT1 (glycine transporter protein 1). Sec3 is the exocyst component that is closest to the plasma membrane docking site and it serves as a spatial landmark in the plasma membrane for incoming secretory vesicles. Sec3 is recruited to the sites of polarised membrane growth through its interaction with Rho1p, a small GTP-binding protein.
Probab=41.44 E-value=1.9e+02 Score=27.73 Aligned_cols=55 Identities=11% Similarity=0.249 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC-Cc-------hHHHHHHHHHHHHHHHHHHHhccChHHH
Q 030977 71 KKELRSLNRELQLHILELSDVLVER-PS-------QYARRVEDISLIFKNLHHLLNSLRPHQA 125 (168)
Q Consensus 71 k~ELkkL~~sll~~fleLl~~l~~~-P~-------~~~~ki~~i~~l~iNmhhllNe~RPhQA 125 (168)
+.-+-+-+..|..+-++.|..+... |. ...+++..-..++.||||+.+.+.+.-.
T Consensus 506 r~~vd~aY~kl~~a~~~~l~~~a~~~~~~~~~~~~~dk~~~~~~v~~leN~~~~~e~l~~~~~ 568 (701)
T PF09763_consen 506 RSLVDKAYEKLVRAMFDSLERIAKLSPKNSGSQDPEDKEKLNYHVVLLENYHHFYEELSQLKI 568 (701)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccCcccccccCccccccchhhHHHHHHHHHHHHHHhhccc
Confidence 4445666666666777777766642 32 2456777778888999999999988665
No 54
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=40.74 E-value=83 Score=26.62 Aligned_cols=39 Identities=18% Similarity=0.388 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
+++..+..-|..||+..+.++.++|-.+++..--|++..
T Consensus 50 ~~~~~~~~~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~ 88 (263)
T PRK10803 50 NAHSQLLTQLQQQLSDNQSDIDSLRGQIQENQYQLNQVV 88 (263)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 455566677888888888888888888888666665543
No 55
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=40.66 E-value=28 Score=34.80 Aligned_cols=39 Identities=18% Similarity=0.250 Sum_probs=30.2
Q ss_pred hccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 118 NSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQR 156 (168)
Q Consensus 118 Ne~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~ 156 (168)
-.+||+=.--..++..++|+...+-.|-++-.+|++++.
T Consensus 775 krL~pRL~~ilFKl~fse~vnniKP~i~avt~ACEE~rk 813 (1102)
T KOG1924|consen 775 KRLRPRLSAILFKLTFSEQVNNIKPDIVAVTAACEELRK 813 (1102)
T ss_pred cccChhHHHHHHHhhHHHHHhhcChHHHHHHHHHHHHHh
Confidence 356666666667778888888888888888888888765
No 56
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=40.40 E-value=97 Score=22.88 Aligned_cols=37 Identities=5% Similarity=0.118 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 126 RATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 126 RetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
.+.+..+++.|+++.++.++++++.......++..|-
T Consensus 77 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 113 (127)
T cd04784 77 CAEVNALIDEHLAHVRARIAELQALEKQLQALRERCD 113 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3456677888888888888887777777766666554
No 57
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=39.37 E-value=1e+02 Score=21.87 Aligned_cols=30 Identities=17% Similarity=0.194 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREEAQR 156 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~~~~ 156 (168)
+....+|+.|.....++++++++..+..++
T Consensus 72 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 101 (103)
T cd01106 72 EDLLEALREQKELLEEKKERLDKLIKTIDR 101 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667777888887777777777776666554
No 58
>PF05130 FlgN: FlgN protein; InterPro: IPR007809 Flagella synthesis protein FlgN is an export chaperone involved in flagellar synthesis []. This entry represents a FlgN-like domain, consisting of a 4 long helices bundle, where the last helix is shorter than the three others.; GO: 0009296 flagellum assembly, 0019861 flagellum; PDB: 2FUP_A 3OPC_A.
Probab=39.28 E-value=1.4e+02 Score=21.32 Aligned_cols=22 Identities=32% Similarity=0.255 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 030977 72 KELRSLNRELQLHILELSDVLV 93 (168)
Q Consensus 72 ~ELkkL~~sll~~fleLl~~l~ 93 (168)
.+|..++......|-+|++.+.
T Consensus 4 ~~L~~~L~~~~~~~~~L~~ll~ 25 (143)
T PF05130_consen 4 EELIELLEEQIELLQELLELLE 25 (143)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666666666666666554
No 59
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=39.04 E-value=1.1e+02 Score=22.04 Aligned_cols=33 Identities=6% Similarity=0.199 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREEAQRRLK 159 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~ 159 (168)
+....+++.|+++-.++++++.+..+..+..++
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (113)
T cd01109 78 PERLELLEEHREELEEQIAELQETLAYLDYKID 110 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778888888888888888888877776654
No 60
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=39.03 E-value=52 Score=25.15 Aligned_cols=28 Identities=14% Similarity=0.233 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 129 LIHILELQIQRRKQAVEDIKRRREEAQR 156 (168)
Q Consensus 129 L~~~le~Ql~~rr~~~~~ir~~~~~~~~ 156 (168)
-+.+++.|+++-++.++.++...+..++
T Consensus 82 ~~~~l~~~i~~Le~~l~~L~~~~~~l~~ 109 (134)
T cd04779 82 EVQLVCDQIDGLEHRLKQLKPIASQTDR 109 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666655555555555555543
No 61
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=38.50 E-value=26 Score=35.02 Aligned_cols=22 Identities=27% Similarity=0.487 Sum_probs=15.0
Q ss_pred HHHHHHHH----HHHHHHHHHHhccC
Q 030977 100 ARRVEDIS----LIFKNLHHLLNSLR 121 (168)
Q Consensus 100 ~~ki~~i~----~l~iNmhhllNe~R 121 (168)
..|+.+++ ++.-|+.-++-.||
T Consensus 687 kKk~kel~ilDsKtaQnLsIflgS~r 712 (1102)
T KOG1924|consen 687 KKKVKELRILDSKTAQNLSIFLGSFR 712 (1102)
T ss_pred hhhhhhheecchHHHHHHHHHHhhcc
Confidence 44555553 56778888888888
No 62
>TIGR02131 phaP_Bmeg polyhydroxyalkanoic acid inclusion protein PhaP. This model describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium. The role of the protein may include amino acid storage (see McCool,G.J. and Cannon,M.C, 1999).
Probab=38.10 E-value=2e+02 Score=22.78 Aligned_cols=96 Identities=18% Similarity=0.153 Sum_probs=61.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCc--h-------HHHHHHHHHHHHHHHHHH---HhccChHHHHHHHHHHHHHHH
Q 030977 70 FKKELRSLNRELQLHILELSDVLVERPS--Q-------YARRVEDISLIFKNLHHL---LNSLRPHQARATLIHILELQI 137 (168)
Q Consensus 70 ~k~ELkkL~~sll~~fleLl~~l~~~P~--~-------~~~ki~~i~~l~iNmhhl---lNe~RPhQARetL~~~le~Ql 137 (168)
.-+||+.....+--.|.|.|..+..|-- + +.+...+|.-|++|=--- |=.----|=.++....+|+|.
T Consensus 56 leKel~~~~~~~n~q~te~vkq~tGNsl~Dqi~EWq~k~~E~~~~lhqL~~~ptKtSlSil~Qt~~QfeettkqfiEqqq 135 (165)
T TIGR02131 56 LDKELKAELADFNNKTTDNLKKLAGNALADQIEEWQDKTHEALAHLHELFFNPSKSSLSILKQAQEQFEETTKQFIEEQK 135 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHHHHHHcCcchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467777777777778888888877642 2 233444555555442110 111123466778888999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030977 138 QRRKQAVEDIKRRREEAQRRLKESLGTL 165 (168)
Q Consensus 138 ~~rr~~~~~ir~~~~~~~~~L~~~~~~~ 165 (168)
.+|.+.-..+..-+++.++.=.+-...+
T Consensus 136 ~qReE~Q~qld~fleefKS~Q~e~akkf 163 (165)
T TIGR02131 136 KQREEAQHQLDAFLEEFKSKQKEFAKKF 163 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9888888888888888877655544444
No 63
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=37.95 E-value=2.9e+02 Score=24.50 Aligned_cols=62 Identities=11% Similarity=0.264 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 102 RVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 102 ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
++..|+.|+.++-+..+.+ +.-++....|+.+++.-++.+..+...+.+-...+++.++.|+
T Consensus 320 RL~tL~~lH~~a~~~~~~l---~~le~~q~~l~~~l~~~~~~L~~ve~~~~~N~~~i~~n~~~le 381 (388)
T PF04912_consen 320 RLKTLKSLHEEAAEFSQTL---SELESQQSDLQSQLKKWEELLNKVEEKFKENMETIEKNVKKLE 381 (388)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444443322 2234445556666666666666666666666666666666554
No 64
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=37.87 E-value=3.4e+02 Score=25.79 Aligned_cols=80 Identities=20% Similarity=0.292 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 78 NRELQLHILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRR 157 (168)
Q Consensus 78 ~~sll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~ 157 (168)
..+||-|.--||.+-..+-...+..|+.=+.=+ -..-||..--||+|...|....+-|...-.++|+ -.+++.+
T Consensus 501 ~eTll~niq~llkva~dnar~qekQiq~Ek~EL-----kmd~lrerelreslekql~~ErklR~~~qkr~kk-Ekk~k~k 574 (641)
T KOG3915|consen 501 IETLLTNIQGLLKVAIDNARAQEKQIQLEKTEL-----KMDFLRERELRESLEKQLAMERKLRAIVQKRLKK-EKKAKRK 574 (641)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence 446666666676665554333333332211100 0123677788888877776665555544445544 5567777
Q ss_pred HHHHHh
Q 030977 158 LKESLG 163 (168)
Q Consensus 158 L~~~~~ 163 (168)
+.++++
T Consensus 575 ~qe~L~ 580 (641)
T KOG3915|consen 575 LQEALE 580 (641)
T ss_pred HHHHhh
Confidence 777664
No 65
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=37.78 E-value=1.4e+02 Score=22.31 Aligned_cols=34 Identities=9% Similarity=0.321 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 128 TLIHILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 128 tL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
.+..+++.|+++.++.++++.+..+.....+...
T Consensus 79 ~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (133)
T cd04787 79 MVRRLIEQRLAETERRIKELLKLRDRMQQAVSQW 112 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566778888888888888887777777776654
No 66
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=37.67 E-value=1.1e+02 Score=19.53 Aligned_cols=32 Identities=13% Similarity=0.228 Sum_probs=19.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 122 PHQARATLIHILELQIQRRKQAVEDIKRRREE 153 (168)
Q Consensus 122 PhQARetL~~~le~Ql~~rr~~~~~ir~~~~~ 153 (168)
+-.+......+++.++++-.+.++++.+..+.
T Consensus 30 ~~~~~~~~~~~l~~~~~~i~~~i~~L~~~~~~ 61 (65)
T PF09278_consen 30 GDPPCADRRALLEEKLEEIEEQIAELQALRAQ 61 (65)
T ss_dssp HCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555556667777776666666666554443
No 67
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=37.27 E-value=1.1e+02 Score=21.20 Aligned_cols=41 Identities=29% Similarity=0.416 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 125 ARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 125 ARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
+-+....++++-++ .+.+++.+++.+++.+..|.++-.+++
T Consensus 34 ~~~~~~~~~keNie-LKve~~~L~~el~~~~~~l~~a~~~~e 74 (75)
T PF07989_consen 34 GPESIEELLKENIE-LKVEVESLKRELQEKKKLLKEAEKAIE 74 (75)
T ss_pred ccccHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34444555555554 566677777777777777777666554
No 68
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=37.21 E-value=1.4e+02 Score=21.35 Aligned_cols=48 Identities=21% Similarity=0.308 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 103 VEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRRE 152 (168)
Q Consensus 103 i~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~ 152 (168)
+++|+.++-+- -.+.-+.+..+..+..+++.|+++-++.++++.+..+
T Consensus 58 L~eI~~~l~~~--~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~ 105 (107)
T cd04777 58 LIEIQKIFSYK--RLTKSRTHEDQDYYKSFLKNKKDELEKEIEDLKKAIQ 105 (107)
T ss_pred HHHHHHHHHhc--ccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56666654220 0112234445566788899999888888888877654
No 69
>PHA01750 hypothetical protein
Probab=35.70 E-value=1.5e+02 Score=20.57 Aligned_cols=36 Identities=19% Similarity=0.445 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 126 RATLIHILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 126 RetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
|..++.+.+..++..+.++++++...|...+.+++.
T Consensus 33 kdAvkeIV~~ELdNL~~ei~~~kikqDnl~~qv~ei 68 (75)
T PHA01750 33 KDAVKEIVNSELDNLKTEIEELKIKQDELSRQVEEI 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 455667777777888888888777777766555543
No 70
>COG2882 FliJ Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=35.51 E-value=1.9e+02 Score=22.85 Aligned_cols=37 Identities=19% Similarity=0.379 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
|.+...|..|+.-|++-+..+...+..+++++..+.+
T Consensus 67 ~nyq~fI~~Le~~I~q~~~~~~~~~~~ve~~r~~w~e 103 (148)
T COG2882 67 QNYQQFISQLEVAIDQQQSQLSKLRKQVEQKREIWQE 103 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6677888888888888888888888888888877765
No 71
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=35.26 E-value=1.5e+02 Score=21.18 Aligned_cols=44 Identities=18% Similarity=0.308 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 123 HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 123 hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
++..+.++..++.+++.....++.+....+.....+++.-..|.
T Consensus 58 ~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~ 101 (105)
T cd00632 58 KQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQ 101 (105)
T ss_pred hccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677888888888888888888888777777777766555443
No 72
>PRK10778 dksA RNA polymerase-binding transcription factor; Provisional
Probab=35.09 E-value=2.2e+02 Score=22.28 Aligned_cols=23 Identities=35% Similarity=0.358 Sum_probs=13.0
Q ss_pred CceeecCCCCCCcccccccccCCC
Q 030977 41 GGNYTTDDVLPSLEEQGVRQLYPK 64 (168)
Q Consensus 41 G~~~~~~~~lp~Le~~gi~~Ly~~ 64 (168)
|+.|+++ +...|...|..++-+.
T Consensus 4 ~~~~~~~-~~~~~~~~~~~~~~~~ 26 (151)
T PRK10778 4 GQNRKTS-SLSILAIAGVEPYQEK 26 (151)
T ss_pred hhhcccc-cchhccccccccccCC
Confidence 7788875 3444555555554443
No 73
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=34.90 E-value=1.4e+02 Score=22.40 Aligned_cols=37 Identities=8% Similarity=0.208 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 126 RATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 126 RetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
...+..+++.|+++.++.++++.+..+..+.++..+.
T Consensus 79 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 115 (131)
T TIGR02043 79 CAEVKAIVDAKLELVDEKINELTKIRRSLKKLSDACC 115 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3566778888888888888888777777777776653
No 74
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=34.83 E-value=1.2e+02 Score=22.37 Aligned_cols=36 Identities=6% Similarity=0.095 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
..+..+++.|++.-.+.++++....+..+..++.|.
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 113 (127)
T TIGR02044 78 ADVKARTLEKVAEIERKISELQSMRDQLEALAQACP 113 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 345566667777777777777777766666666553
No 75
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=34.64 E-value=99 Score=22.88 Aligned_cols=34 Identities=24% Similarity=0.487 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 125 ARATLIHILELQIQRRKQAVEDIKRRREEAQRRL 158 (168)
Q Consensus 125 ARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L 158 (168)
.++.++.++.+.|+--++.++.|.+.++.|+..|
T Consensus 65 t~~Qvv~~l~RRiDYV~~Ni~tleKql~~aE~kl 98 (99)
T PF13758_consen 65 TREQVVDVLSRRIDYVQQNIETLEKQLEAAENKL 98 (99)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4678889999999999999999999999998765
No 76
>PF14931 IFT20: Intraflagellar transport complex B, subunit 20
Probab=34.49 E-value=2e+02 Score=21.70 Aligned_cols=76 Identities=22% Similarity=0.267 Sum_probs=40.3
Q ss_pred HHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 84 HILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 84 ~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
.|-.+++.+...=+..+..|+.=++-.|.+--++... ..-|+.=...++..|.+|+.+.++++.-.+....+-.+.
T Consensus 38 ~F~~iv~~~~~~~~~~A~~VE~eKlkAIG~RN~l~s~--~k~R~~~~q~lq~~I~Ek~~eLERl~~E~~sL~kve~eQ 113 (120)
T PF14931_consen 38 EFQKIVKGFIEILDELAKRVENEKLKAIGARNLLKSE--AKQREAQQQQLQALIAEKKMELERLRSEYESLQKVEQEQ 113 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH--HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555555444455566666666666665555533 222333344555555556666666665555555544443
No 77
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=34.44 E-value=2.6e+02 Score=22.93 Aligned_cols=30 Identities=23% Similarity=0.511 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 130 IHILELQIQRRKQAVEDIKRRREEAQRRLK 159 (168)
Q Consensus 130 ~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~ 159 (168)
+..++.+++++|+.++++++.+...++.|.
T Consensus 79 i~~~~~~i~~~r~~l~~~~~~l~~~~~~l~ 108 (302)
T PF10186_consen 79 IERLRKRIEQKRERLEELRESLEQRRSRLS 108 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555556666666666666655555554
No 78
>KOG3433 consensus Protein involved in meiotic recombination/predicted coiled-coil protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=34.04 E-value=1.2e+02 Score=25.08 Aligned_cols=38 Identities=18% Similarity=0.179 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 123 HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 123 hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
.|+|++...-|+.|++.-++....+++.|+..+.-..+
T Consensus 76 ~~~~ks~~qeLe~~L~~~~qk~~tl~e~~en~K~~~e~ 113 (203)
T KOG3433|consen 76 ICDRKSVLQELESQLATGSQKKATLGESIENRKAGREE 113 (203)
T ss_pred HHHHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHhhhhh
Confidence 47888888888888888888888888887776655544
No 79
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=33.89 E-value=1.5e+02 Score=20.01 Aligned_cols=25 Identities=8% Similarity=0.246 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 130 IHILELQIQRRKQAVEDIKRRREEA 154 (168)
Q Consensus 130 ~~~le~Ql~~rr~~~~~ir~~~~~~ 154 (168)
+.-|+..+.+.+..+..+...|...
T Consensus 60 I~~m~~~~~~l~~~l~~l~~~~~~l 84 (87)
T PF08700_consen 60 ISSMENDLSELRNLLSELQQSIQSL 84 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3335555555555555555555543
No 80
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=33.74 E-value=1.7e+02 Score=20.48 Aligned_cols=43 Identities=14% Similarity=0.173 Sum_probs=28.6
Q ss_pred hccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 118 NSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 118 Ne~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
.|+.--.-...++.-+-.-++.-+..++.|.+.|+.+..+|..
T Consensus 5 kEL~~Lr~IN~~ie~~~~~L~~a~~~~~~v~~~~~~t~~LLd~ 47 (78)
T PF08651_consen 5 KELEQLRKINPVIEGLIETLRSAKSNMNRVQETVESTNTLLDK 47 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444445556666666777777888888888888877765
No 81
>PF10392 COG5: Golgi transport complex subunit 5; InterPro: IPR019465 The conserved oligomeric Golgi (COG) complex is a peripheral membrane complex involved in intra-Golgi protein trafficking. Subunit 5 is located in the smaller, B lobe, together with subunits 6-8, and has been shown to bind subunits 1 and 7 [].
Probab=33.47 E-value=2.1e+02 Score=21.48 Aligned_cols=43 Identities=12% Similarity=0.211 Sum_probs=27.0
Q ss_pred HHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 111 KNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREE 153 (168)
Q Consensus 111 iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~ 153 (168)
-|--.||+...-...-+.+...|+.+++.....+++|+..+-+
T Consensus 55 ~~~~~LL~q~~~~~~~~~~l~~v~~~v~~L~~s~~RL~~eV~~ 97 (132)
T PF10392_consen 55 SNHEDLLSQASSIEELESVLQAVRSSVESLQSSYERLRSEVIE 97 (132)
T ss_pred hCHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444556655555555666777777777777777777665544
No 82
>KOG2307 consensus Low density lipoprotein receptor [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.45 E-value=4.6e+02 Score=25.51 Aligned_cols=21 Identities=29% Similarity=0.487 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 030977 70 FKKELRSLNRELQLHILELSD 90 (168)
Q Consensus 70 ~k~ELkkL~~sll~~fleLl~ 90 (168)
.+.+|.--++|+-.+.+||+.
T Consensus 51 LrddLrlylksl~~aMieLIN 71 (705)
T KOG2307|consen 51 LRDDLRLYLKSLQNAMIELIN 71 (705)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 467777777777777888876
No 83
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=33.23 E-value=62 Score=17.77 Aligned_cols=19 Identities=21% Similarity=0.448 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030977 144 VEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 144 ~~~ir~~~~~~~~~L~~~~ 162 (168)
++.+|..+.+.++.|..|.
T Consensus 3 ~~rlr~rI~dLer~L~~C~ 21 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSECR 21 (23)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4444555555555555543
No 84
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=32.01 E-value=2.2e+02 Score=22.37 Aligned_cols=33 Identities=9% Similarity=0.293 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 128 TLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 128 tL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
.+..+|+.|+++-+++++++++.......++..
T Consensus 74 ~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~ 106 (172)
T cd04790 74 DATDVLRRRLAELNREIQRLRQQQRAIATLLKQ 106 (172)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678888888888888888888887777754
No 85
>PF07464 ApoLp-III: Apolipophorin-III precursor (apoLp-III); InterPro: IPR010009 This family consists of several insect apolipoprotein-III sequences. Exchangeable apolipoproteins constitute a functionally important family of proteins that play critical roles in lipid transport and lipoprotein metabolism. Apolipophorin III (apoLp-III) is a prototypical exchangeable apolipoprotein found in many insect species that functions in transport of diacylglycerol (DAG) from the fat body lipid storage depot to flight muscles in the adult life stage [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0005576 extracellular region; PDB: 1EQ1_A.
Probab=31.41 E-value=1.5e+02 Score=23.41 Aligned_cols=89 Identities=16% Similarity=0.232 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHHhcCCch----------HHHHHHHHHHHHHHHHHHHhcc--ChHHHHHHHHHHHHHHHHHHHHH
Q 030977 76 SLNRELQLHILELSDVLVERPSQ----------YARRVEDISLIFKNLHHLLNSL--RPHQARATLIHILELQIQRRKQA 143 (168)
Q Consensus 76 kL~~sll~~fleLl~~l~~~P~~----------~~~ki~~i~~l~iNmhhllNe~--RPhQARetL~~~le~Ql~~rr~~ 143 (168)
+..+.+...|-+-+..+...|+. .+.-+..|..+.-+|+--|..- .---|.+.+...|++..+..+..
T Consensus 3 ~~~~e~~~~~~~~~~~~~~~~~~~Ev~~aik~~sd~~~~~l~~~~~~l~eeik~~n~~~~e~l~~~~~kl~et~~~L~k~ 82 (155)
T PF07464_consen 3 QHAQEFQKEFQEQVNKLLGSQNQQEVVKAIKEQSDSVAQQLQNVSSSLQEEIKDANPEAEEALKQLKTKLEETAEKLRKA 82 (155)
T ss_dssp HHHHHHHHHHHHHHHHHTSS--SS-SSHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSTHHHHHHHHHHHHHHHHHGGGG-
T ss_pred hHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhcChhHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444555555555566655643 2344555665555555555431 11223344444444444444444
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 030977 144 VEDIKRRREEAQRRLKESLGT 164 (168)
Q Consensus 144 ~~~ir~~~~~~~~~L~~~~~~ 164 (168)
.-++.+...+..+.|..++.+
T Consensus 83 ~Pev~~qa~~l~e~lQ~~vq~ 103 (155)
T PF07464_consen 83 NPEVEKQANELQEKLQSAVQS 103 (155)
T ss_dssp SHHHHHT-SSSHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444443
No 86
>PRK04098 sec-independent translocase; Provisional
Probab=31.30 E-value=2.7e+02 Score=22.22 Aligned_cols=64 Identities=23% Similarity=0.360 Sum_probs=37.8
Q ss_pred HHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 88 LSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRL 158 (168)
Q Consensus 88 Ll~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L 158 (168)
++..++-.|..--+.+.++...+-.+-..+|+ ++.++...++ +.+.++++...++.++.+.+-|
T Consensus 14 vVaLlvfGP~KLP~~~r~lGk~ir~~K~~~~~-----~k~~l~~Ei~--~~elk~e~~k~k~~l~~~~~~l 77 (158)
T PRK04098 14 VVAIIFLGPDKLPQAMVDIAKFFKAVKKTIND-----AKSTLDKEIN--IEEIKEEALKYKKEFESAVESL 77 (158)
T ss_pred HHHHhhcCchHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHh--hHHHHHHHHHHHHHHHHHHHHH
Confidence 34555667888878888888877777777777 4455555543 3344444444444444444333
No 87
>PF10372 YojJ: Bacterial membrane-spanning protein N-terminus; InterPro: IPR019457 This entry is found at the N terminus of a family of putative membrane-spanning bacterial proteins. These proteins often contain IPR003390 from INTERPRO towards the C terminus. ; PDB: 2FB5_A.
Probab=31.13 E-value=1.8e+02 Score=20.10 Aligned_cols=51 Identities=20% Similarity=0.277 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhcc
Q 030977 70 FKKELRSLNRELQLHILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSL 120 (168)
Q Consensus 70 ~k~ELkkL~~sll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~ 120 (168)
.|..|++=++.+...--+.+..|-..-.=-=..+++|+..|.+++-+...|
T Consensus 11 ~K~~lk~~L~~I~~~~~~i~~~ld~~~~ClL~e~e~i~~~f~~~q~~Assy 61 (70)
T PF10372_consen 11 LKEQLKQYLEQIEEEISQIIQTLDEDDCCLLCEFEEIREKFLDIQTLASSY 61 (70)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT-TT--GGGGHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCceechhHHHHHHHHHHHHHHHHHH
Confidence 455566555555555555555554443334567999999999998876543
No 88
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=30.99 E-value=93 Score=24.37 Aligned_cols=31 Identities=6% Similarity=0.066 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 128 TLIHILELQIQRRKQAVEDIKRRREEAQRRL 158 (168)
Q Consensus 128 tL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L 158 (168)
.+..+++.++++-.+.++++.+..+.....+
T Consensus 90 ~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i 120 (154)
T PRK15002 90 EWKQLSSQWREELDRRIHTLVALRDELDGCI 120 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666666666666666666655555554
No 89
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent
Probab=30.98 E-value=1.3e+02 Score=18.36 Aligned_cols=18 Identities=17% Similarity=0.364 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHhc
Q 030977 102 RVEDISLIFKNLHHLLNS 119 (168)
Q Consensus 102 ki~~i~~l~iNmhhllNe 119 (168)
.|..++.+|..|+.++.+
T Consensus 14 ~i~~l~~l~~~i~~~v~~ 31 (60)
T cd00193 14 SIGELKQIFLDLGTEVEE 31 (60)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 366777777777776654
No 90
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=30.87 E-value=1.5e+02 Score=22.73 Aligned_cols=36 Identities=8% Similarity=0.114 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
+....+++.++++-++.++++.+........+..|.
T Consensus 83 ~~~~~ll~~k~~~l~~~i~~L~~~~~~L~~~~~~~~ 118 (144)
T PRK13752 83 EEASSLAEHKLKDVREKMADLARMEAVLSELVCACH 118 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 345667777777777777777777777777766654
No 91
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=30.63 E-value=1.6e+02 Score=19.45 Aligned_cols=35 Identities=11% Similarity=0.142 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 125 ARATLIHILELQIQRRKQAVEDIKRRREEAQRRLK 159 (168)
Q Consensus 125 ARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~ 159 (168)
.-++-+..++.|.++-++++++|.+.+.++=.+.+
T Consensus 11 ~~~~~i~tvk~en~~i~~~ve~i~envk~ll~lYE 45 (55)
T PF05377_consen 11 RIESSINTVKKENEEISESVEKIEENVKDLLSLYE 45 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556778888888888888888888877655544
No 92
>PF08112 ATP-synt_E_2: ATP synthase epsilon subunit; InterPro: IPR012508 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. A-ATPases (or A1A0-ATPase) (3.6.3.14 from EC) are found exclusively in Archaea and display a close resemblance in structure and subunit composition with V-ATPases, although their function in both ATP synthesis and ATP hydrolysis is closer to that of F-ATPases []. A-ATPases are composed of two linked complexes: the A1 complex consisting of seven subunits contains the catalytic core that synthesizes/hydrolyses ATP, while the A0 complex consisting of at least two subunits forms the membrane-spanning pore []. The rotary motor in A-ATPases is composed of only two subunits, the stator subunit I and the rotor subunit C []. A-ATPases may have arisen as an adaptation to the different cellular needs and the more extreme environmental conditions faced by Archaeal species. The epsilon subunit is the smallest (7 kDa) of those found in the A1 complex. Unlike the A, B and C subunits, the epsilon subunit does not have a homologous counterpart in F- or V-ATPases []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0015986 ATP synthesis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain
Probab=30.51 E-value=1.6e+02 Score=19.43 Aligned_cols=39 Identities=21% Similarity=0.262 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030977 125 ARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTL 165 (168)
Q Consensus 125 ARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~ 165 (168)
..++.|.+|+..+++|+.++-. +.-.+...+|++-+..|
T Consensus 8 ~~d~yI~~Lk~kLd~Kk~Eil~--~ln~EY~kiLk~r~~~l 46 (56)
T PF08112_consen 8 TIDKYISILKSKLDEKKSEILS--NLNMEYEKILKQRRKEL 46 (56)
T ss_pred hHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHH
Confidence 3467788888888888877643 23334444555544443
No 93
>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots. Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].
Probab=30.44 E-value=2.3e+02 Score=21.96 Aligned_cols=59 Identities=20% Similarity=0.327 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHh
Q 030977 102 RVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRR-KQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 102 ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~r-r~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
|.-..+.++-++--.+|..-|.=.. |.-+...+++- +++++.+.+.++++++++..|..
T Consensus 28 k~~~fk~~l~~L~sTl~~i~P~i~e---I~~~~~eld~~~~ee~e~L~~~L~~g~~LV~k~sk 87 (147)
T PF05659_consen 28 KSLSFKSILKRLESTLESIIPIIKE---IDKLNVELDRPRQEEIERLKELLEKGKELVEKCSK 87 (147)
T ss_pred HHHhhhhHHHHHHHHHHHhhhHHHH---HHHHhhhcCCchhHHHHHHHHHHHHHHHHHHHhcc
Confidence 3444444555555556666664222 34455566666 88888999999998888888754
No 94
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=29.79 E-value=4.1e+02 Score=23.77 Aligned_cols=47 Identities=15% Similarity=0.280 Sum_probs=22.8
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHh-cCCchHHHHHHHHHHHHHHHHHHHhccCh
Q 030977 68 IDFKKELRSLNRELQLHILELSDVLV-ERPSQYARRVEDISLIFKNLHHLLNSLRP 122 (168)
Q Consensus 68 ~D~k~ELkkL~~sll~~fleLl~~l~-~~P~~~~~ki~~i~~l~iNmhhllNe~RP 122 (168)
.+++.|+-|..-.| .+.+ .+..+|...++.++.+.-++--.+.+.++
T Consensus 194 ~eWklEvERV~PqL--------Kv~~~~d~kDWR~hleqm~~~~~~I~~~~~~~~~ 241 (359)
T PF10498_consen 194 AEWKLEVERVLPQL--------KVTIRADAKDWRSHLEQMKQHKKSIESALPETKS 241 (359)
T ss_pred HHHHHHHHHHhhhh--------eeeccCCcchHHHHHHHHHHHHHHHHHhhhHHHH
Confidence 45677777766654 1111 12234555555555555555444444443
No 95
>PRK08471 flgK flagellar hook-associated protein FlgK; Validated
Probab=29.79 E-value=5e+02 Score=24.81 Aligned_cols=65 Identities=6% Similarity=0.066 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHhcCCchH---HHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 80 ELQLHILELSDVLVERPSQY---ARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVED 146 (168)
Q Consensus 80 sll~~fleLl~~l~~~P~~~---~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ 146 (168)
+.|-+|..=+..|+.+|++. ..-++.-..|.-.++++-..+. +.|..+..-++.++++-...+++
T Consensus 112 ~~l~~ff~al~~ls~~P~~~~~R~~vl~~a~~L~~~~n~~~~~L~--~~~~~~~~~i~~~V~~iN~ll~~ 179 (613)
T PRK08471 112 KDLQDYFNAWNDFASNPKDSAQKQALAQKTETLTNNIKDTRERLD--TLQKKVNEELKVTVDEINSLGKQ 179 (613)
T ss_pred HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788999999999999873 4457777777777777766654 23334444444444433333333
No 96
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=29.36 E-value=3e+02 Score=22.11 Aligned_cols=75 Identities=12% Similarity=0.152 Sum_probs=38.4
Q ss_pred HHHHHHHHHhc-CCchH----------HHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 84 HILELSDVLVE-RPSQY----------ARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRRE 152 (168)
Q Consensus 84 ~fleLl~~l~~-~P~~~----------~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~ 152 (168)
+|-||+.-++. ||+.. ...++.+..++-..+- -..|-+-.++....-|+.++...+.+.+.+...+.
T Consensus 67 ~F~ELIRQVTi~C~ERGlLL~rvrde~~~~l~~y~~l~~s~~~--f~~rk~l~~e~~~~~l~~~i~~L~~e~~~L~~~~~ 144 (189)
T PF10211_consen 67 CFDELIRQVTIDCPERGLLLLRVRDEYRMTLDAYQTLYESSIA--FGMRKALQAEQGKQELEEEIEELEEEKEELEKQVQ 144 (189)
T ss_pred HHHHHHHHHHhCcHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999987775 67652 1223332222222111 13444444444455666666666666666655555
Q ss_pred HHHHHHHH
Q 030977 153 EAQRRLKE 160 (168)
Q Consensus 153 ~~~~~L~~ 160 (168)
+.+...+.
T Consensus 145 ~l~~~~e~ 152 (189)
T PF10211_consen 145 ELKNKCEQ 152 (189)
T ss_pred HHHHHHHH
Confidence 54444433
No 97
>PF11172 DUF2959: Protein of unknown function (DUF2959); InterPro: IPR021342 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=29.28 E-value=3.3e+02 Score=22.60 Aligned_cols=88 Identities=17% Similarity=0.121 Sum_probs=68.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 69 DFKKELRSLNRELQLHILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIK 148 (168)
Q Consensus 69 D~k~ELkkL~~sll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir 148 (168)
.+|..=.+=++..-..|-+|+..|...-+..+.-+.-++-...=+-|=|| -||..+|..-+..--..-...|.+|.
T Consensus 112 sLR~~S~~kL~~tr~~Y~~L~~aM~~Ae~km~PVL~~~~D~vL~LKHNLN----A~AI~sL~~e~~~~~~di~~Li~~m~ 187 (201)
T PF11172_consen 112 SLRRASEQKLAETRRRYAQLIKAMRRAESKMQPVLAAFRDQVLYLKHNLN----AQAIASLQGEFSSIESDISQLIKEME 187 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHhcccc----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44544444455556688888888877666666667777777778888888 49999999999888888889999999
Q ss_pred HHHHHHHHHHHH
Q 030977 149 RRREEAQRRLKE 160 (168)
Q Consensus 149 ~~~~~~~~~L~~ 160 (168)
+.+.++.+.++.
T Consensus 188 ~sI~ead~FI~~ 199 (201)
T PF11172_consen 188 RSIAEADAFIAS 199 (201)
T ss_pred HHHHHHHHHHHh
Confidence 999999888764
No 98
>PRK04654 sec-independent translocase; Provisional
Probab=29.19 E-value=3.5e+02 Score=22.74 Aligned_cols=25 Identities=12% Similarity=0.219 Sum_probs=13.2
Q ss_pred HHHHHhcCCchHHHHHHHHHHHHHH
Q 030977 88 LSDVLVERPSQYARRVEDISLIFKN 112 (168)
Q Consensus 88 Ll~~l~~~P~~~~~ki~~i~~l~iN 112 (168)
++..|+-.|...-+....+...+-.
T Consensus 14 VVALlV~GPerLPe~aRtlGk~irk 38 (214)
T PRK04654 14 VVALVVLGPERLPKAARFAGLWVRR 38 (214)
T ss_pred HHHHHhcCchHHHHHHHHHHHHHHH
Confidence 3455566787755544444443333
No 99
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=28.81 E-value=1.9e+02 Score=19.68 Aligned_cols=36 Identities=14% Similarity=0.329 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 131 HILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 131 ~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
..|+.|+..-+.+-..+..+.+.|+..++...+.|+
T Consensus 24 ~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEamI~RLk 59 (65)
T TIGR02449 24 RLLRAQEKTWREERAQLLEKNEQARQKVEAMITRLK 59 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 457777777778888888888888888887777665
No 100
>PRK08147 flgK flagellar hook-associated protein FlgK; Validated
Probab=28.59 E-value=4.8e+02 Score=24.23 Aligned_cols=68 Identities=7% Similarity=0.049 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhcCCch---HHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 78 NRELQLHILELSDVLVERPSQ---YARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDI 147 (168)
Q Consensus 78 ~~sll~~fleLl~~l~~~P~~---~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~i 147 (168)
+.+.|-+|..=+..|+.+|++ ...-++.-..|.-.|+++-..+. +.|..+-.-++.++++-...+++|
T Consensus 106 l~~~l~~ff~a~~~ls~~P~~~~~r~~vl~~a~~l~~~~n~~~~~L~--~~~~~~~~~i~~~V~~iN~l~~~I 176 (547)
T PRK08147 106 LSTTMQDFFTSLQTLVSNAEDPAARQALIGKAEGLVNQFKTTDQYLR--DQDKGVNTAIGSSVDQINNYAKQI 176 (547)
T ss_pred hHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 557788999999999999987 34557777777777777766553 334444444444444444433333
No 101
>PRK10963 hypothetical protein; Provisional
Probab=28.57 E-value=49 Score=27.21 Aligned_cols=32 Identities=19% Similarity=0.430 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 122 PHQARATLIHILELQIQRRKQAVEDIKRRREEA 154 (168)
Q Consensus 122 PhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~ 154 (168)
||+.+. .+.+.|.|++..|+.++.++..+.+.
T Consensus 32 ph~~~g-aVSL~ErQ~~~LR~r~~~Le~~l~~L 63 (223)
T PRK10963 32 PHPVRG-TVSLVEWQMARQRNHIHVLEEEMTLL 63 (223)
T ss_pred CCCCCC-eecHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566554 67899999999999999998888773
No 102
>PF11839 DUF3359: Protein of unknown function (DUF3359); InterPro: IPR021793 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 80 amino acids in length.
Probab=28.55 E-value=2.4e+02 Score=20.71 Aligned_cols=90 Identities=10% Similarity=0.027 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccChHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Q 030977 74 LRSLNRELQLHILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSLRPHQARATLI-HILELQIQRRKQAVEDIKRRRE 152 (168)
Q Consensus 74 LkkL~~sll~~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~RPhQARetL~-~~le~Ql~~rr~~~~~ir~~~~ 152 (168)
|++++.|.+..-+-|++.+...+.....+++.+....-|...-.+.-.--.++..-. .--..--++-....+.-++..+
T Consensus 1 M~k~l~sal~~~~~L~~GCAsts~~~~~~~d~~~~~a~~a~~~a~~a~~~A~~A~~~AdeA~~kA~~A~aaA~~Aqq~A~ 80 (96)
T PF11839_consen 1 MKKLLLSALALAALLLAGCASTSDEDQKALDEAQSTAEQAQATAASAQSAAASAQQRADEAASKADAALAAAEAAQQTAD 80 (96)
T ss_pred CchHHHHHHHHHHHHHhHccCCcHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777788888888777666778877777777666655544333332222 1111122333344445555555
Q ss_pred HHHHHHHHHHh
Q 030977 153 EAQRRLKESLG 163 (168)
Q Consensus 153 ~~~~~L~~~~~ 163 (168)
++.+.+...|+
T Consensus 81 eAnek~~RMfe 91 (96)
T PF11839_consen 81 EANEKADRMFE 91 (96)
T ss_pred HHHHHHHHHHH
Confidence 55555555554
No 103
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=28.51 E-value=2.2e+02 Score=22.99 Aligned_cols=52 Identities=17% Similarity=0.256 Sum_probs=37.7
Q ss_pred HHHHHHhccChHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 112 NLHHLLNSLRPHQARA----TLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 112 NmhhllNe~RPhQARe----tL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
|+.-+|+.+.--|-|. .+-.||++|+++.+.+.+.+..-+.++..-+..+-.
T Consensus 61 dLe~~l~rLeEEqqR~~~L~qvN~lLReQLEq~~~~N~~L~~dl~klt~~~~~l~~ 116 (182)
T PF15035_consen 61 DLEEALIRLEEEQQRSEELAQVNALLREQLEQARKANEALQEDLQKLTQDWERLRD 116 (182)
T ss_pred cHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334666666666653 578899999999999999888888886665555433
No 104
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=27.81 E-value=2.6e+02 Score=20.83 Aligned_cols=40 Identities=20% Similarity=0.286 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
+..+.|+..|+.=+++.++.++.|++.+++++.....+..
T Consensus 11 ~~E~~l~~~L~~Yi~~~~~kl~~l~~~~~~~~~~~~~~~~ 50 (134)
T PF08336_consen 11 ELEEELISNLRNYIEELQEKLDTLKRFLDEMKREHEKAKS 50 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4566777777777888888888888888887777766544
No 105
>KOG3331 consensus Mitochondrial/chloroplast ribosomal protein L4/L29 [Translation, ribosomal structure and biogenesis]
Probab=27.68 E-value=3.6e+02 Score=22.50 Aligned_cols=23 Identities=22% Similarity=0.507 Sum_probs=19.7
Q ss_pred CCchHHHHHHHHHHHHHHHHHHHhc
Q 030977 95 RPSQYARRVEDISLIFKNLHHLLNS 119 (168)
Q Consensus 95 ~P~~~~~ki~~i~~l~iNmhhllNe 119 (168)
-|+- +.|..++...-+|-|.|||
T Consensus 107 ~Pnp--ERi~kV~~TM~~I~~Vl~E 129 (213)
T KOG3331|consen 107 FPNP--ERIDKVRTTMWRIEHVLNE 129 (213)
T ss_pred CCCH--HHHHHHHHHHHHHHHHHHH
Confidence 3444 8899999999999999997
No 106
>PF11544 Spc42p: Spindle pole body component Spc42p; InterPro: IPR021611 Spc42p is a 42kDa component of the S.cerevisiae spindle body that localises to the electron dense central region of the SPB. Spc42p is a phosphoprotein which forms a polymeric layer at the periphery of the SPB central plaque. This functions during SPB duplication and also facilitates the attachment of the SPB to the nuclear membrane. ; PDB: 2Q6Q_B.
Probab=27.55 E-value=1.6e+02 Score=20.82 Aligned_cols=28 Identities=7% Similarity=0.248 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 133 LELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 133 le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
|...+..++++|+++...+...+..|-.
T Consensus 10 L~~kL~~K~eEI~rLn~lv~sLR~KLiK 37 (76)
T PF11544_consen 10 LKKKLNDKQEEIDRLNILVGSLRGKLIK 37 (76)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777777777777776666543
No 107
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=27.37 E-value=3.2e+02 Score=21.69 Aligned_cols=27 Identities=11% Similarity=0.271 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 130 IHILELQIQRRKQAVEDIKRRREEAQR 156 (168)
Q Consensus 130 ~~~le~Ql~~rr~~~~~ir~~~~~~~~ 156 (168)
+..++.+++..+++++.+.+...++.+
T Consensus 59 ~~~l~~~l~~~~~el~~le~~k~~id~ 85 (180)
T PF04678_consen 59 ERQLRKRLEELRQELAPLEKIKQEIDE 85 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555666666666655554444333
No 108
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=27.36 E-value=3e+02 Score=21.67 Aligned_cols=46 Identities=20% Similarity=0.286 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 99 YARRVEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIK 148 (168)
Q Consensus 99 ~~~ki~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir 148 (168)
+....+.-+..... +|..|-+....+++.-++..|++++.++..++
T Consensus 36 F~~Qf~~t~~~~r~----~~~~r~~~~~~~~v~~~~~~i~~k~~El~~L~ 81 (146)
T PF05852_consen 36 FRAQFQFTKKSLRS----HNSLREECEIKNKVSSLETEISEKKKELSHLK 81 (146)
T ss_pred HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444443333 34567778888888888888888877766543
No 109
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=27.18 E-value=3.7e+02 Score=22.99 Aligned_cols=53 Identities=13% Similarity=0.248 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 107 SLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 107 ~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
..|+--+.-|||.| |...-..=+.-|+.+-.+-..+|+.+++.+++-++.|+.
T Consensus 160 evLL~~ae~L~~vY-P~~ga~eki~~Lr~~y~~l~~~i~~lE~~VaeQ~~qL~~ 212 (259)
T PF08657_consen 160 EVLLRGAEKLCNVY-PLPGAREKIAALRQRYNQLSNSIAYLEAEVAEQEAQLER 212 (259)
T ss_pred HHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555 333222222233333444444445555544444444443
No 110
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=27.08 E-value=94 Score=18.92 Aligned_cols=37 Identities=14% Similarity=0.259 Sum_probs=24.4
Q ss_pred HHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHhcc
Q 030977 84 HILELSDVLVERPSQYARRVEDISLIFKNLHHLLNSL 120 (168)
Q Consensus 84 ~fleLl~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~ 120 (168)
.||+++......--+..+-++.+..|+-+=..|+.++
T Consensus 6 ~FL~il~~y~~~~~~~~~v~~~v~~Ll~~hpdLl~~F 42 (47)
T PF02671_consen 6 EFLKILNDYKKGRISRSEVIEEVSELLRGHPDLLEEF 42 (47)
T ss_dssp HHHHHHHHHHCTCSCHHHHHHHHHHHTTT-HHHHHHH
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHccCHHHHHHH
Confidence 5666776666666666667777777777666666654
No 111
>PF01763 Herpes_UL6: Herpesvirus UL6 like; InterPro: IPR002660 This family consists of various proteins from the Herpesviridae that are similar to Human herpesvirus 1 (HHV-1) UL6 virion protein. UL6 is essential for cleavage and packaging of the viral genome [].; GO: 0006323 DNA packaging
Probab=26.53 E-value=2.2e+02 Score=27.17 Aligned_cols=37 Identities=24% Similarity=0.415 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
.+++.|||.||.+-=.+|+.++..-+.-.+.+.+.-.
T Consensus 362 nsI~kcLe~qIn~qf~tIe~Lk~~n~~~~~kl~~~e~ 398 (557)
T PF01763_consen 362 NSINKCLEGQINNQFDTIEDLKEENQDLEKKLRELES 398 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999998877776666655433
No 112
>PRK14562 haloacid dehalogenase superfamily protein; Provisional
Probab=26.41 E-value=2e+02 Score=23.49 Aligned_cols=13 Identities=23% Similarity=0.054 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHH
Q 030977 79 RELQLHILELSDV 91 (168)
Q Consensus 79 ~sll~~fleLl~~ 91 (168)
.+++.+|.+-|+.
T Consensus 3 ~~~~~~~~~~Ld~ 15 (204)
T PRK14562 3 EEIIDSIREELEE 15 (204)
T ss_pred HHHHHHHHHHHHH
Confidence 3444455555543
No 113
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=26.28 E-value=2e+02 Score=23.59 Aligned_cols=39 Identities=28% Similarity=0.499 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 030977 128 TLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLE 166 (168)
Q Consensus 128 tL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~ 166 (168)
+.+.-++.|++.....++.+.+.++.-++.|...|.+|+
T Consensus 193 ~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l~~qf~~me 231 (239)
T PF07195_consen 193 SRIDSLNSQIKSLDKQIEDLEERLESKEERLRKQFSAME 231 (239)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667788999999999999999999999999999998876
No 114
>PF04678 DUF607: Protein of unknown function, DUF607; InterPro: IPR006769 This entry represents the C-terminal domain of coiled-coil domain containing protein 109.
Probab=25.98 E-value=2.9e+02 Score=21.86 Aligned_cols=31 Identities=19% Similarity=0.266 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHH
Q 030977 131 HILELQIQRRKQAVEDIKRRREE-AQRRLKES 161 (168)
Q Consensus 131 ~~le~Ql~~rr~~~~~ir~~~~~-~~~~L~~~ 161 (168)
..++++++...+.-.+|.+...+ ++.++-..
T Consensus 67 ~~~~~el~~le~~k~~id~~A~~~~~~~~w~g 98 (180)
T PF04678_consen 67 EELRQELAPLEKIKQEIDEKAEKRARRLLWGG 98 (180)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444433444333333 34444433
No 115
>KOG2662 consensus Magnesium transporters: CorA family [Inorganic ion transport and metabolism]
Probab=25.96 E-value=1.6e+02 Score=27.15 Aligned_cols=34 Identities=18% Similarity=0.315 Sum_probs=31.0
Q ss_pred HHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILE---LQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 127 etL~~~le---~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
|.|+++|| .|++.....++.++..+|+.++.+.=
T Consensus 300 eElEMLLEaYf~qiD~~~nk~~~Lre~IddTEd~InI 336 (414)
T KOG2662|consen 300 EELEMLLEAYFMQIDSTLNKLESLREYIDDTEDIINI 336 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence 78899999 79999999999999999999998873
No 116
>PF08654 DASH_Dad2: DASH complex subunit Dad2; InterPro: IPR013963 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=25.81 E-value=1.4e+02 Score=22.02 Aligned_cols=22 Identities=27% Similarity=0.486 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 030977 133 LELQIQRRKQAVEDIKRRREEA 154 (168)
Q Consensus 133 le~Ql~~rr~~~~~ir~~~~~~ 154 (168)
+..+|..||.+.+.+++..+-.
T Consensus 2 l~~ri~eKk~ELe~L~~l~~lS 23 (103)
T PF08654_consen 2 LQARIAEKKAELEALKQLRDLS 23 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777777666554443
No 117
>PRK01919 tatB sec-independent translocase; Provisional
Probab=25.73 E-value=3.6e+02 Score=21.81 Aligned_cols=34 Identities=15% Similarity=0.356 Sum_probs=25.2
Q ss_pred HHHHHhcCCchHHHHHHHHHHHHHHHHHHHhccC
Q 030977 88 LSDVLVERPSQYARRVEDISLIFKNLHHLLNSLR 121 (168)
Q Consensus 88 Ll~~l~~~P~~~~~ki~~i~~l~iNmhhllNe~R 121 (168)
++..++..|..--+....+..++-.+-..+|+++
T Consensus 14 VVALiV~GPekLP~~aRtlGk~i~k~Rr~~~d~K 47 (169)
T PRK01919 14 VVALVVIGPERLPRVARTAGALFGRAQRYINDVK 47 (169)
T ss_pred HHHHheeCchHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455667798888888888888888877777654
No 118
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=25.53 E-value=2.2e+02 Score=22.02 Aligned_cols=32 Identities=25% Similarity=0.376 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 131 HILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 131 ~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
..++.+|+..+.+.+.|.+.+++.+.+|=.-|
T Consensus 91 e~l~k~i~~les~~e~I~~~m~~LK~~LYaKF 122 (131)
T KOG1760|consen 91 ETLEKEIEELESELESISARMDELKKVLYAKF 122 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34556777777777777888888777776544
No 119
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=25.47 E-value=3.3e+02 Score=21.79 Aligned_cols=47 Identities=21% Similarity=0.417 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHhccC---hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 100 ARRVEDISLIFKNLHHLLNSLR---PHQARATLIHILELQIQRRKQAVEDI 147 (168)
Q Consensus 100 ~~ki~~i~~l~iNmhhllNe~R---PhQARetL~~~le~Ql~~rr~~~~~i 147 (168)
+..|++|..++-|.-.=+|-+| |||.|- ...-+++|+.+-+...+.+
T Consensus 85 e~~iKdl~~lye~Vs~d~Npf~s~~~qes~~-~veel~eqV~el~~i~emv 134 (157)
T COG3352 85 EENIKDLVSLYELVSRDFNPFMSKTPQESRG-IVEELEEQVNELKMIVEMV 134 (157)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHhhhHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 4568899999998888888665 677776 5666667776655554443
No 120
>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []. Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].
Probab=25.41 E-value=2.6e+02 Score=24.61 Aligned_cols=42 Identities=19% Similarity=0.325 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030977 123 HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGT 164 (168)
Q Consensus 123 hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~ 164 (168)
-|.+|+-+..|+.|+..-+..|+.+.+.+..++.-|+.+-.+
T Consensus 90 lq~Ke~qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~ 131 (307)
T PF10481_consen 90 LQVKESQVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQA 131 (307)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 388999999999999999999999999999999988876554
No 121
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=25.30 E-value=2e+02 Score=18.79 Aligned_cols=26 Identities=27% Similarity=0.295 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 129 LIHILELQIQRRKQAVEDIKRRREEA 154 (168)
Q Consensus 129 L~~~le~Ql~~rr~~~~~ir~~~~~~ 154 (168)
=+.-++.++++.+++.+++++.++..
T Consensus 25 ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 25 EIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455666666666666666655554
No 122
>PTZ00097 60S ribosomal protein L19; Provisional
Probab=25.22 E-value=1.3e+02 Score=24.39 Aligned_cols=42 Identities=14% Similarity=0.305 Sum_probs=34.4
Q ss_pred HHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 109 IFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRR 150 (168)
Q Consensus 109 l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~ 150 (168)
.|-|..||.+..--++|...-...|.+|.+.++......+..
T Consensus 129 ~Fknk~~L~~~I~~~kae~~r~k~l~~q~~a~r~k~~~~~~~ 170 (175)
T PTZ00097 129 QFKNKRVLIEAIHKTKNEKVKEKKIQDQLEARRAKAKALRNK 170 (175)
T ss_pred CcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888888888889999988889999999888877666543
No 123
>KOG1825 consensus Fry-like conserved proteins [General function prediction only]
Probab=24.95 E-value=3.7e+02 Score=29.93 Aligned_cols=79 Identities=15% Similarity=0.054 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHHHHHHhcC--CchHHHHHHHHHHHH--------HHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHH
Q 030977 75 RSLNRELQLHILELSDVLVER--PSQYARRVEDISLIF--------KNLHHLLNSLRPHQARATLIHILELQIQRRKQAV 144 (168)
Q Consensus 75 kkL~~sll~~fleLl~~l~~~--P~~~~~ki~~i~~l~--------iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~ 144 (168)
..+...+...|-+|||+|++. +...++-+.+++.|- --.+||+|..|--|=+-.=..-++.-+.=.....
T Consensus 190 ~~~~~~~~~~~aelvGvlS~~~f~av~~~f~ae~~~l~~~~s~~~~~s~vsLI~gMRyLrl~~y~~~~~e~S~~F~~~l~ 269 (2206)
T KOG1825|consen 190 VDLRLLLWDSFAELVGVLSRIYFVAVSDRFIAETERIDGKISPVAESSTVSLINGMRYLKLGVYPLEDFEASASFMQSLS 269 (2206)
T ss_pred hhhHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhccccCChHHHHHHHHHHHhhhhheeccccccchHHHHHHHHHHH
Confidence 344556677888999999985 455677788888777 7899999998877655433333444443333333
Q ss_pred HHHHHHHHH
Q 030977 145 EDIKRRREE 153 (168)
Q Consensus 145 ~~ir~~~~~ 153 (168)
.=+.++-++
T Consensus 270 ~l~~~v~~~ 278 (2206)
T KOG1825|consen 270 SLFLKVKDK 278 (2206)
T ss_pred HHHHHHHHH
Confidence 333333333
No 124
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=24.81 E-value=3.2e+02 Score=20.92 Aligned_cols=11 Identities=55% Similarity=0.501 Sum_probs=5.5
Q ss_pred HHHHHHHHHHh
Q 030977 108 LIFKNLHHLLN 118 (168)
Q Consensus 108 ~l~iNmhhllN 118 (168)
..|+++..+|+
T Consensus 30 inFliL~~lL~ 40 (156)
T CHL00118 30 LQFLLLMVLLN 40 (156)
T ss_pred HHHHHHHHHHH
Confidence 34455555555
No 125
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=24.54 E-value=7e+02 Score=26.69 Aligned_cols=59 Identities=22% Similarity=0.316 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 030977 103 VEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGT 164 (168)
Q Consensus 103 i~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~ 164 (168)
|...-.-+.|+--||++-++-=||. .+|+...++.++.++.++...+.|++.|+++-.+
T Consensus 1520 I~e~v~sL~nVd~IL~~T~~di~ra---~~L~s~A~~a~~~A~~v~~~ae~V~eaL~~Ad~A 1578 (1758)
T KOG0994|consen 1520 IQERVASLPNVDAILSRTKGDIARA---ENLQSEAERARSRAEDVKGQAEDVVEALEEADVA 1578 (1758)
T ss_pred HHHHHHhcccHHHHHHhhhhhHHHH---HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444445678999999999888885 4677778888888999999999988888876554
No 126
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=24.49 E-value=5.1e+02 Score=23.09 Aligned_cols=20 Identities=35% Similarity=0.484 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 030977 129 LIHILELQIQRRKQAVEDIK 148 (168)
Q Consensus 129 L~~~le~Ql~~rr~~~~~ir 148 (168)
.+.-|++++++++..+.+|+
T Consensus 69 ~i~~L~~~Ik~r~~~l~DmE 88 (330)
T PF07851_consen 69 LIEKLEEDIKERRCQLFDME 88 (330)
T ss_pred HHHHHHHHHHHHHhhHHHHH
Confidence 33444555555555555444
No 127
>PRK09458 pspB phage shock protein B; Provisional
Probab=24.37 E-value=1.6e+02 Score=20.74 Aligned_cols=52 Identities=15% Similarity=0.180 Sum_probs=30.7
Q ss_pred HHHHHHHHHhccCh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 109 IFKNLHHLLNSLRP-HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 109 l~iNmhhllNe~RP-hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
||+=--.|+=-||- .|+...|-.-=++++++.-+.+++|++.++..+++|+.
T Consensus 15 ifVaPiWL~LHY~sk~~~~~~Ls~~d~~~L~~L~~~A~rm~~RI~tLE~ILDa 67 (75)
T PRK09458 15 LFVAPIWLWLHYRSKRQGSQGLSQEEQQRLAQLTEKAERMRERIQALEAILDA 67 (75)
T ss_pred HHHHHHHHHHhhcccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 33333344444554 33333444444566777777788888888888887753
No 128
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, an
Probab=24.26 E-value=2.7e+02 Score=20.27 Aligned_cols=29 Identities=14% Similarity=0.197 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 130 IHILELQIQRRKQAVEDIKRRREEAQRRL 158 (168)
Q Consensus 130 ~~~le~Ql~~rr~~~~~ir~~~~~~~~~L 158 (168)
..+++.|+++-++.++++.+..+..+.++
T Consensus 76 ~~~l~~~~~~l~~~i~~l~~~~~~L~~~~ 104 (120)
T cd04781 76 RQLLKAKAAELDQQIQRLQAMRELLRHVA 104 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667777666666666666666555544
No 129
>KOG2546 consensus Abl interactor ABI-1, contains SH3 domain [Signal transduction mechanisms; Cytoskeleton]
Probab=24.01 E-value=71 Score=29.64 Aligned_cols=16 Identities=31% Similarity=0.588 Sum_probs=8.6
Q ss_pred CCCCCCCCCceecCceee
Q 030977 28 EPPPPIEGTYICFGGNYT 45 (168)
Q Consensus 28 pPp~P~~g~y~~FG~~~~ 45 (168)
|||||..+.| ||....
T Consensus 386 ppPp~~~~~~--~g~ee~ 401 (483)
T KOG2546|consen 386 PPPPPKSLSD--LGREEK 401 (483)
T ss_pred CCCCCCcccc--cccccc
Confidence 3444444566 886533
No 130
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=23.99 E-value=1.9e+02 Score=21.63 Aligned_cols=32 Identities=28% Similarity=0.398 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 131 HILELQIQRRKQAVEDIKRRREEAQRRLKESL 162 (168)
Q Consensus 131 ~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~ 162 (168)
..++.++...+..+..++...+.++..|..+-
T Consensus 62 ~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e 93 (132)
T PF07926_consen 62 QQLREELQELQQEINELKAEAESAKAELEESE 93 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555555555555555555554443
No 131
>PRK09343 prefoldin subunit beta; Provisional
Probab=23.87 E-value=2.7e+02 Score=20.70 Aligned_cols=35 Identities=9% Similarity=0.185 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 125 ARATLIHILELQIQRRKQAVEDIKRRREEAQRRLK 159 (168)
Q Consensus 125 ARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~ 159 (168)
-++.++.-++..++--...|+.+.+..+..++.+.
T Consensus 68 d~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~ 102 (121)
T PRK09343 68 DKTKVEKELKERKELLELRSRTLEKQEKKLREKLK 102 (121)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444433333333333
No 132
>cd07679 F-BAR_PACSIN2 The F-BAR (FES-CIP4 Homology and Bin/Amphiphysin/Rvs) domain of Protein kinase C and Casein kinase Substrate in Neurons 2 (PACSIN2). F-BAR domains are dimerization modules that bind and bend membranes and are found in proteins involved in membrane dynamics and actin reorganization. Protein kinase C and Casein kinase Substrate in Neurons (PACSIN) proteins, also called Synaptic dynamin-associated proteins (Syndapins), act as regulators of cytoskeletal and membrane dynamics. Vetebrates harbor three isoforms with distinct expression patterns and specific functions. PACSIN 2 or Syndapin II is expressed ubiquitously and is involved in the regulation of tubulin polymerization. It associates with Golgi membranes and forms a complex with dynamin II which is crucial in promoting vesicle formation from the trans-Golgi network. PACSIN 2 contains an N-terminal F-BAR domain and a C-terminal SH3 domain. F-BAR domains form banana-shaped dimers with a positively-charged concave su
Probab=23.74 E-value=4.7e+02 Score=22.45 Aligned_cols=70 Identities=16% Similarity=0.249 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHhccChHHHHHH-HH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 030977 98 QYARRVEDISLIFKNLHHLLNSLRPHQARAT-LI---HILELQIQRRKQAVEDIKRRREEAQRRLKESLGTLEG 167 (168)
Q Consensus 98 ~~~~ki~~i~~l~iNmhhllNe~RPhQARet-L~---~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~~ 167 (168)
.+..+++.+...=.+.|+.|-+-+-.+.++. .. .+..+|++..++.++..++.+.++++..+.+++.|++
T Consensus 127 pw~k~~kkv~~aKk~Y~~aCk~e~~A~~~~~~~~~d~~~~~~q~~K~~~k~~k~~~~~~k~~~~Y~~~l~~L~~ 200 (258)
T cd07679 127 PWAKKLKEVEAAKKAYHTACKEEKLATSREANSKADPALNPEQLKKLQDKVEKCKQDVLKTKEKYEKSLKELDQ 200 (258)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566677777777888888888777777763 11 2456899999999999999999999999999998864
No 133
>COG3685 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.43 E-value=2.4e+02 Score=22.79 Aligned_cols=27 Identities=19% Similarity=0.290 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRREE 153 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~~~ 153 (168)
..|+...+..+++.+..|+.+.++.+.
T Consensus 38 ~~Lka~~E~Hl~ET~~qi~rLe~Vfe~ 64 (167)
T COG3685 38 PELKAAIEKHLEETKGQIERLEQVFER 64 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678888899999999999988888776
No 134
>TIGR02473 flagell_FliJ flagellar export protein FliJ. Members of this family are the FliJ protein found, in nearly every case, in the midst of other flagellar biosynthesis genes in bacgterial genomes. Typically the fliJ gene is found adjacent to the gene for the flagellum-specific ATPase FliI. Sequence scoring in the gray zone between trusted and noise cutoffs include both probable FliJ proteins and components of bacterial type III secretion systems.
Probab=23.43 E-value=3e+02 Score=20.04 Aligned_cols=34 Identities=26% Similarity=0.427 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 128 TLIHILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 128 tL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
..+..|...|..-+..++..+..++.++..+.++
T Consensus 68 ~f~~~l~~~i~~q~~~l~~~~~~~e~~r~~l~~a 101 (141)
T TIGR02473 68 RFIRQLDQRIQQQQQELALLQQEVEAKRERLLEA 101 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444444444444444443
No 135
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=23.23 E-value=2.8e+02 Score=20.85 Aligned_cols=23 Identities=9% Similarity=-0.077 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 030977 135 LQIQRRKQAVEDIKRRREEAQRR 157 (168)
Q Consensus 135 ~Ql~~rr~~~~~ir~~~~~~~~~ 157 (168)
++++++.+++..++..+...-+.
T Consensus 88 ~~i~~~i~~L~~~~~~L~~~i~~ 110 (131)
T cd04786 88 ADIEALEARLAQNKAQLLVLIDL 110 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444333
No 136
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=22.83 E-value=1.3e+02 Score=20.85 Aligned_cols=19 Identities=16% Similarity=0.429 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 030977 133 LELQIQRRKQAVEDIKRRR 151 (168)
Q Consensus 133 le~Ql~~rr~~~~~ir~~~ 151 (168)
|.+|++..+++++++++.+
T Consensus 70 l~~~~~~l~~~l~~l~~~~ 88 (91)
T cd04766 70 LEEELAELRAELDELRARL 88 (91)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 7788888888888777664
No 137
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=22.74 E-value=2.9e+02 Score=19.68 Aligned_cols=41 Identities=17% Similarity=0.301 Sum_probs=20.3
Q ss_pred cChHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 120 LRPHQARATLI---HILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 120 ~RPhQARetL~---~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
+=..+|.+-+. ..|+.++++-+..++.+++.+..+...+.+
T Consensus 73 ~s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~ 116 (120)
T PF02996_consen 73 MSLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQ 116 (120)
T ss_dssp EEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHH
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444432 234455555555555555555555555443
No 138
>COG2915 Uncharacterized protein involved in purine metabolism [General function prediction only]
Probab=22.66 E-value=4.5e+02 Score=21.88 Aligned_cols=69 Identities=28% Similarity=0.382 Sum_probs=50.8
Q ss_pred HHhcCCchHH----HHHHHHHHHHHHHHHHHh-ccChHHH---HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 91 VLVERPSQYA----RRVEDISLIFKNLHHLLN-SLRPHQA---RATL-IHILELQIQRRKQAVEDIKRRREEAQRRLK 159 (168)
Q Consensus 91 ~l~~~P~~~~----~ki~~i~~l~iNmhhllN-e~RPhQA---RetL-~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~ 159 (168)
++..+|++.. ....+++.=+--+++.+| .-|+-++ |..| .+.||+++.+++..++.+...+..+++.+.
T Consensus 42 ll~~nP~stlaVyGg~~~nL~~GLe~L~~~l~~~~~~~~~el~RY~lslm~LErkL~k~~~a~~~lg~rI~~~~~Q~~ 119 (207)
T COG2915 42 LLDINPSSTLAVYGGHERNLKLGLETLLSVLNASSRGLNAELTRYALSLMALERKLSKDKDALDTLGNRISQLERQLE 119 (207)
T ss_pred HHhcCCccHHHHhcchHHHHHHHHHHHHHHHccCCcchhhHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHH
Confidence 3456888743 467788888888888888 4475554 3444 355899999999999999999988876554
No 139
>cd00904 Ferritin Ferritin iron storage proteins. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Bacterial non-heme ferritins are composed only of H chains. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary rol
Probab=22.47 E-value=3.6e+02 Score=20.65 Aligned_cols=49 Identities=14% Similarity=0.181 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHhccChHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 105 DISLIFKNLHHLLNSLRPHQARATLIH-ILELQIQRRKQAVEDIKRRREEAQRR 157 (168)
Q Consensus 105 ~i~~l~iNmhhllNe~RPhQARetL~~-~le~Ql~~rr~~~~~ir~~~~~~~~~ 157 (168)
.+...+.++|++..+-.=..++.-|.- .+++|++ +++.++..++.++.+
T Consensus 97 ~v~~~i~~l~~~A~~~~D~~t~~fl~~~fi~eQ~e----e~~~~~~~l~~l~~~ 146 (160)
T cd00904 97 FVNQALLDLHELASEEKDPHLCDFLESHFLDEQVK----EIKQVGDILTNLERL 146 (160)
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHhhchhhHHHHH----HHHHHHHHHHHHHhh
Confidence 356667788888888888889998988 9999995 566666666666654
No 140
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=22.34 E-value=2.6e+02 Score=22.50 Aligned_cols=18 Identities=17% Similarity=0.519 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 030977 133 LELQIQRRKQAVEDIKRR 150 (168)
Q Consensus 133 le~Ql~~rr~~~~~ir~~ 150 (168)
|+.++++.+..++.++..
T Consensus 74 l~~~~~~~~~~i~~l~~~ 91 (188)
T PF03962_consen 74 LQKEIEELEKKIEELEEK 91 (188)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 141
>KOG3261 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.20 E-value=51 Score=26.93 Aligned_cols=12 Identities=17% Similarity=0.542 Sum_probs=9.0
Q ss_pred Chhhhhcccccc
Q 030977 9 PPPYYRLYKDYL 20 (168)
Q Consensus 9 PP~fyk~yt~~~ 20 (168)
-|.|+|+|.++.
T Consensus 131 a~~y~k~faSDR 142 (202)
T KOG3261|consen 131 APLYFKHFASDR 142 (202)
T ss_pred cHHHHHHhhcch
Confidence 367889998764
No 142
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=21.80 E-value=3.8e+02 Score=21.66 Aligned_cols=38 Identities=11% Similarity=0.144 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 123 HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 123 hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
.|+-+....-|+.+|++...+|+.+.....+++.+-+.
T Consensus 115 ~~~Vd~~~~eL~~eI~~L~~~i~~le~~~~~~k~LrnK 152 (171)
T PF04799_consen 115 CQQVDQTKNELEDEIKQLEKEIQRLEEIQSKSKTLRNK 152 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566677888888888888888777777655443
No 143
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=21.73 E-value=2.9e+02 Score=19.24 Aligned_cols=22 Identities=23% Similarity=0.493 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 030977 143 AVEDIKRRREEAQRRLKESLGT 164 (168)
Q Consensus 143 ~~~~ir~~~~~~~~~L~~~~~~ 164 (168)
.+.+|.+...+....|.+....
T Consensus 62 ll~~l~~~~~~~~~~l~~q~~~ 83 (127)
T smart00502 62 LLEDLEEQKENKLKVLEQQLES 83 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444433
No 144
>PF05121 GvpK: Gas vesicle protein K ; InterPro: IPR007805 Gas vesicles are intracellular, protein-coated, and hollow organelles found in cyanobacteria and halophilic archaea. They are permeable to ambient gases by diffusion and provide buoyancy, enabling cells to move upwards in liquid to access oxygen and/or light. Proteins containing this domain are involved in the formation of gas vesicles [].; GO: 0031412 gas vesicle organization
Probab=21.62 E-value=3.2e+02 Score=19.77 Aligned_cols=33 Identities=18% Similarity=0.307 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRR-------KQAVEDIKRRREEAQRRLK 159 (168)
Q Consensus 127 etL~~~le~Ql~~r-------r~~~~~ir~~~~~~~~~L~ 159 (168)
|-|+.+||.|.=+| .++++++-.++-+.++.+.
T Consensus 23 ELLRqlmErQAiRRme~G~Lse~qiErlG~tLm~Le~~~~ 62 (88)
T PF05121_consen 23 ELLRQLMERQAIRRMEAGSLSEEQIERLGETLMKLEEAME 62 (88)
T ss_pred HHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHH
Confidence 45566666666655 3455555555555444443
No 145
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=21.48 E-value=3.6e+02 Score=20.32 Aligned_cols=60 Identities=17% Similarity=0.290 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 030977 103 VEDISLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLGTL 165 (168)
Q Consensus 103 i~~i~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~ 165 (168)
.+.++........|-.++.-.|+|..-..- -+-+|.+++++++.-+.+++++++.....|
T Consensus 60 ~e~~~~~~~~~~~L~~el~~l~~ry~t~Le---llGEK~E~veEL~~Dv~DlK~myr~Qi~~l 119 (120)
T PF12325_consen 60 NEELRALKKEVEELEQELEELQQRYQTLLE---LLGEKSEEVEELRADVQDLKEMYREQIDQL 119 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HhcchHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 555566666666677788888888654332 256778889999999999999988876543
No 146
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=21.31 E-value=4.8e+02 Score=21.65 Aligned_cols=94 Identities=18% Similarity=0.343 Sum_probs=60.1
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHhcC-------C-chHHHHHHHHHHHHHHH-------------------HHH----
Q 030977 68 IDFKKELRSLNRELQLHILELSDVLVER-------P-SQYARRVEDISLIFKNL-------------------HHL---- 116 (168)
Q Consensus 68 ~D~k~ELkkL~~sll~~fleLl~~l~~~-------P-~~~~~ki~~i~~l~iNm-------------------hhl---- 116 (168)
.++..+|....+.+..+.-+++..+..- | .....+++.+..++--| +-|
T Consensus 86 ~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~~~l~~~l~ea~~mL~emr~r~f~~~~~~Ae~El~~A~~LL~~v 165 (264)
T PF06008_consen 86 LQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPSEDLQRALAEAQRMLEEMRKRDFTPQRQNAEDELKEAEDLLSRV 165 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHH
Confidence 4456788888888888888888777431 2 22333333333333222 222
Q ss_pred Hhcc-ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 117 LNSL-RPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 117 lNe~-RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
-+.| +|++--+.|...+..++.+-...+.+++..+.+|....+++
T Consensus 166 ~~~~~~~~~~~~~l~~~i~~~L~~~~~kL~Dl~~~l~eA~~~~~ea 211 (264)
T PF06008_consen 166 QKWFQKPQQENESLAEAIRDDLNDYNAKLQDLRDLLNEAQNKTREA 211 (264)
T ss_pred HHHHhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2233 66777777778888888888888888888888877776664
No 147
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=21.24 E-value=2.6e+02 Score=18.63 Aligned_cols=26 Identities=12% Similarity=0.103 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 133 LELQIQRRKQAVEDIKRRREEAQRRL 158 (168)
Q Consensus 133 le~Ql~~rr~~~~~ir~~~~~~~~~L 158 (168)
|++.|...+.+|+.+++.+.+-++..
T Consensus 26 L~~RIa~L~aEI~R~~~~~~~K~a~r 51 (59)
T PF06698_consen 26 LEERIALLEAEIARLEAAIAKKSASR 51 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555666666666666665544443
No 148
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=20.93 E-value=3.5e+02 Score=20.17 Aligned_cols=41 Identities=17% Similarity=0.231 Sum_probs=22.0
Q ss_pred ChHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 121 RPHQARATLI---HILELQIQRRKQAVEDIKRRREEAQRRLKES 161 (168)
Q Consensus 121 RPhQARetL~---~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~ 161 (168)
-.-.|.+.|. ..++.+++...+.++.+++.++.+...+.+.
T Consensus 91 ~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l 134 (140)
T PRK03947 91 DLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQL 134 (140)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444443 3455555666666666666666665555553
No 149
>PF11652 DUF3259: Protein of unknown function (DUF3259); InterPro: IPR024280 This entry describes a eukaryotic protein family of unknown function designated FAM167.
Probab=20.87 E-value=3.3e+02 Score=19.57 Aligned_cols=36 Identities=19% Similarity=0.272 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhhhhC
Q 030977 132 ILELQIQRRKQAVEDI--KRRREEAQRRLKESLGTLEG 167 (168)
Q Consensus 132 ~le~Ql~~rr~~~~~i--r~~~~~~~~~L~~~~~~~~~ 167 (168)
.|..|+=+.|.++..+ .+.|..=+++|+++--.|+|
T Consensus 7 qLArqLmrlR~~i~~lkveq~C~~H~~mLdda~~elEe 44 (84)
T PF11652_consen 7 QLARQLMRLRSEIHRLKVEQTCHEHREMLDDATYELEE 44 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhh
Confidence 3556666677777654 58899999999998777765
No 150
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=20.86 E-value=4e+02 Score=20.51 Aligned_cols=22 Identities=9% Similarity=0.021 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 030977 72 KELRSLNRELQLHILELSDVLV 93 (168)
Q Consensus 72 ~ELkkL~~sll~~fleLl~~l~ 93 (168)
.-+..+......+|++.|+..+
T Consensus 78 ~~~~~~~~~~~~~~~e~L~~y~ 99 (218)
T cd07596 78 SLSEAQANQELVKLLEPLKEYL 99 (218)
T ss_pred HHHHHHHHHHHHHHHhHHHHHH
Confidence 3445566666666666666544
No 151
>PF14959 GSAP-16: gamma-Secretase-activating protein C-term
Probab=20.77 E-value=38 Score=25.59 Aligned_cols=14 Identities=21% Similarity=0.752 Sum_probs=12.3
Q ss_pred CCCCChhhhhcccc
Q 030977 5 AYPPPPPYYRLYKD 18 (168)
Q Consensus 5 ~fPpPP~fyk~yt~ 18 (168)
.||.||-|..+|+-
T Consensus 57 ~fPlP~GF~t~f~~ 70 (115)
T PF14959_consen 57 CFPLPPGFHTFFTY 70 (115)
T ss_pred cCCCCccHHHHHHH
Confidence 49999999999985
No 152
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=20.75 E-value=5.5e+02 Score=22.09 Aligned_cols=93 Identities=14% Similarity=0.192 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHH---HHHHHHHHHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 72 KELRSLNRELQLHILELSDVLVERPSQYARRVEDI---SLIFKNLHHLLNSLRPHQARATLIHILELQIQRRKQAVEDIK 148 (168)
Q Consensus 72 ~ELkkL~~sll~~fleLl~~l~~~P~~~~~ki~~i---~~l~iNmhhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir 148 (168)
.|+++....|..+=.+|+..+...-.+.+.+|..+ --+|-++--+|+ |+.|=-.++++.-|++=-++....+..++
T Consensus 9 ~el~~h~~~L~~~N~~L~~~IqdtE~st~~~Vr~lLqqy~~~~~~i~~le-~~~~~~l~~ak~eLqe~eek~e~~l~~Lq 87 (258)
T PF15397_consen 9 QELKKHEDFLTKLNKELIKEIQDTEDSTALKVRKLLQQYDIYRTAIDILE-YSNHKQLQQAKAELQEWEEKEESKLSKLQ 87 (258)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHHHHH-ccChHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 55666666666666667766655555555555443 234555555554 55554445555555555555555666666
Q ss_pred HHHHHHHHHHHHHHhhh
Q 030977 149 RRREEAQRRLKESLGTL 165 (168)
Q Consensus 149 ~~~~~~~~~L~~~~~~~ 165 (168)
+.++.+++.+..+.+.|
T Consensus 88 ~ql~~l~akI~k~~~el 104 (258)
T PF15397_consen 88 QQLEQLDAKIQKTQEEL 104 (258)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 66666666666655443
No 153
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=20.74 E-value=4.7e+02 Score=21.36 Aligned_cols=25 Identities=24% Similarity=0.567 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 127 ATLIHILELQIQRRKQAVEDIKRRR 151 (168)
Q Consensus 127 etL~~~le~Ql~~rr~~~~~ir~~~ 151 (168)
+.+...|+.++...|++|+.|.+.=
T Consensus 142 e~~~~~le~~l~~~k~~ie~vN~~R 166 (221)
T PF05700_consen 142 EAMLKRLEKELAKLKKEIEEVNRER 166 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444455555555555555554433
No 154
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=20.73 E-value=3.8e+02 Score=20.23 Aligned_cols=25 Identities=32% Similarity=0.437 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 139 RRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 139 ~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
.....+..+++.+++.+.....+++
T Consensus 65 ~~~~~~~~L~~el~~l~~ry~t~Le 89 (120)
T PF12325_consen 65 ALKKEVEELEQELEELQQRYQTLLE 89 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444
No 155
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=20.72 E-value=5.8e+02 Score=24.28 Aligned_cols=22 Identities=23% Similarity=0.443 Sum_probs=18.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhc
Q 030977 98 QYARRVEDISLIFKNLHHLLNS 119 (168)
Q Consensus 98 ~~~~ki~~i~~l~iNmhhllNe 119 (168)
-+.+...-+.+|+.|+.-||+-
T Consensus 493 i~ada~SS~eTll~niq~llkv 514 (641)
T KOG3915|consen 493 IFADALSSIETLLTNIQGLLKV 514 (641)
T ss_pred cccccchhHHHHHHHHHHHHHH
Confidence 3566788899999999999983
No 156
>PF08771 Rapamycin_bind: Rapamycin binding domain; InterPro: IPR009076 Rapamycin and FK506 are potent immunosuppressive agents that bind to the FK506-binding protein (FKBP12), inhibiting its peptidyl-prolyl isomerase activity. The rapamycin-FKBP12 complex can then bind to and inhibit the FKBP12-rapamycin-associated protein (FRAP) in humans and RAFT1 in rats, causing cell-cycle arrest []. The FK506-FKBP12 complex cannot bind FRAP, but can bind to and inhibit calcineurin. Rapamycin is able to bind to two proteins, FKBP12 and FRAP, by simultaneously occupying two hydrophobic binding pockets, thereby linking these two proteins together to form a dimer []. The structure of the FKBP12-rapamycin-binding domain of FRAP consists of a core bundle of four helices arranged up-and-down in a left-handed twist. FRAP has been shown to interact in vitro with CLIP-170, a protein involved in microtubule organisation and function []. FRAP is thought to act as a kinase to phosphorylate CLIP-170, thereby regulating its binding to microtubules. FRAP is also thought to cooperate with p85/p110 phosphatidylinositol 3-kinase (PI3K) to induce the activation of the serine/threonine kinase p70 S6 kinase (p70S6K), which in turn phosphorylates the 40S ribosomal protein S6, thereby altering the translation of ribosomal proteins and translation elongation factors [].; GO: 0016772 transferase activity, transferring phosphorus-containing groups; PDB: 2NPU_A 2RSE_B 4FAP_B 1AUE_A 2GAQ_A 1FAP_B 2FAP_B 3FAP_B 1NSG_B.
Probab=20.66 E-value=3.4e+02 Score=19.60 Aligned_cols=70 Identities=11% Similarity=0.227 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHH---HHHHHHhccChHH----------HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHH
Q 030977 99 YARRVEDISLIFK---NLHHLLNSLRPHQ----------ARATLIHILELQIQRRKQAVEDIK-----RRREEAQRRLKE 160 (168)
Q Consensus 99 ~~~ki~~i~~l~i---NmhhllNe~RPhQ----------ARetL~~~le~Ql~~rr~~~~~ir-----~~~~~~~~~L~~ 160 (168)
+.+.|++-+.++. |++.+++.++|.. ...+.......+|.+-++.+++.+ ..+..|-.+...
T Consensus 13 W~~~Le~As~~y~~~~n~~~m~~~L~pLh~~l~k~PeT~~E~~F~~~fg~~L~~A~~~~~~y~~t~~~~~l~~aW~~y~~ 92 (100)
T PF08771_consen 13 WYEALEEASRLYFGENNVEKMFKILEPLHEMLEKGPETLREVSFAQAFGRDLQEAREWLKRYERTGDETDLNQAWDIYYQ 92 (100)
T ss_dssp HHHHHHHHHHHHHTTT-HHHHHHHHHHHHHHHHHS-SSHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhCCHhhHHHHHHHHHH
Confidence 4444555555443 5555555554433 233455666667777776666543 345566677777
Q ss_pred HHhhhhCC
Q 030977 161 SLGTLEGQ 168 (168)
Q Consensus 161 ~~~~~~~~ 168 (168)
.+..++.|
T Consensus 93 v~~~i~~Q 100 (100)
T PF08771_consen 93 VYRRIKKQ 100 (100)
T ss_dssp HHHHHTT-
T ss_pred HHHHHhcC
Confidence 77766655
No 157
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=20.65 E-value=4.1e+02 Score=20.62 Aligned_cols=14 Identities=7% Similarity=0.012 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHhc
Q 030977 81 LQLHILELSDVLVE 94 (168)
Q Consensus 81 ll~~fleLl~~l~~ 94 (168)
-+.||+=|+.+|..
T Consensus 25 ~iinflIl~~lL~~ 38 (174)
T PRK07352 25 NLINLAIVIGLLYY 38 (174)
T ss_pred HHHHHHHHHHHHHH
Confidence 35677777776654
No 158
>PF07278 DUF1441: Protein of unknown function (DUF1441); InterPro: IPR009901 This entry is represented by Bacteriophage VT1-Sakai, H0025. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical Enterobacterial proteins of around 160 residues in length. The function of this family is unknown.
Probab=20.61 E-value=1.6e+02 Score=23.34 Aligned_cols=41 Identities=22% Similarity=0.229 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 123 HQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 123 hQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
.|.-|||-.+||++..-.=+.+..+++.||+++..|.....
T Consensus 107 ~q~LetlPD~LERd~gL~p~~v~~vQ~~iD~lR~~l~~~i~ 147 (152)
T PF07278_consen 107 VQVLETLPDILERDAGLPPEQVARVQSVIDDLRDQLAERIQ 147 (152)
T ss_pred HHHHHHhhHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57889999999998777778888888888888877776544
No 159
>smart00397 t_SNARE Helical region found in SNAREs. All alpha-helical motifs that form twisted and parallel four-helix bundles in target soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptor proteins. This motif found in "Q-SNAREs".
Probab=20.49 E-value=2.2e+02 Score=17.49 Aligned_cols=17 Identities=18% Similarity=0.409 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHhc
Q 030977 103 VEDISLIFKNLHHLLNS 119 (168)
Q Consensus 103 i~~i~~l~iNmhhllNe 119 (168)
|..++.++..|++.+.+
T Consensus 21 i~~l~~l~~~i~~~v~~ 37 (66)
T smart00397 21 IGELKQIFLDMGTELEE 37 (66)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45555555555555444
No 160
>cd01111 HTH_MerD Helix-Turn-Helix DNA binding domain of the MerD transcription regulator. Helix-turn-helix (HTH) transcription regulator MerD. The putative secondary regulator of mercury resistance (mer) operons, MerD, has been shown to down-regulate the expression of this operon in gram-negative bacteria. It binds to the same operator DNA as MerR that activates transcription of the operon in the presence of mercury ions. The MerD protein shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily, which promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are conserved and contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules such as metal ions, drugs,
Probab=20.47 E-value=2.5e+02 Score=20.34 Aligned_cols=25 Identities=20% Similarity=0.324 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 129 LIHILELQIQRRKQAVEDIKRRREE 153 (168)
Q Consensus 129 L~~~le~Ql~~rr~~~~~ir~~~~~ 153 (168)
+...+..+++++.++++.++..+.+
T Consensus 81 ~~~~~~~~l~~~~~~L~~l~~~L~~ 105 (107)
T cd01111 81 CLAQLRQKIEVRRAALNALTTQLAE 105 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444666666666666665544
No 161
>KOG2991 consensus Splicing regulator [RNA processing and modification]
Probab=20.44 E-value=1.7e+02 Score=25.59 Aligned_cols=33 Identities=15% Similarity=0.410 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 128 TLIHILELQIQRRKQAVEDIKRRREEAQRRLKE 160 (168)
Q Consensus 128 tL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~ 160 (168)
+-|.+|+.+++++|.+|+.+++-.+.+...++.
T Consensus 278 sTiliLQq~Lketr~~Iq~l~k~~~q~sqav~d 310 (330)
T KOG2991|consen 278 STILILQQKLKETRKEIQRLKKGLEQVSQAVGD 310 (330)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 346678888888888888888887776665543
No 162
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.41 E-value=2e+02 Score=24.89 Aligned_cols=35 Identities=17% Similarity=0.155 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhC
Q 030977 133 LELQIQRRKQAVEDIKRRREEAQRRLKESLGTLEG 167 (168)
Q Consensus 133 le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~~~~~ 167 (168)
...++++|.+.|+.|.+-+-++.+++++--.-+++
T Consensus 171 ~~~~ieeR~q~I~~lE~dI~dvN~IFkdL~~lV~e 205 (269)
T KOG0811|consen 171 QLDLIEEREQAIEQLEADIIDVNEIFKDLGSLVHE 205 (269)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888889999999999988888875544433
No 163
>PF06148 COG2: COG (conserved oligomeric Golgi) complex component, COG2; InterPro: IPR024602 This entry represents the uncharacterised N-terminal domain of subunit 2 of the COG complex. The COG complex comprises eight proteins COG1-8 and plays critical roles in Golgi structure and function [].; PDB: 2JQQ_A.
Probab=20.20 E-value=1e+02 Score=22.95 Aligned_cols=20 Identities=40% Similarity=0.717 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 030977 70 FKKELRSLNRELQLHILELS 89 (168)
Q Consensus 70 ~k~ELkkL~~sll~~fleLl 89 (168)
.+.+|+.+.+.+-..-++|+
T Consensus 31 L~~dL~~~~~~L~~~Li~lI 50 (133)
T PF06148_consen 31 LRKDLRSYSKELKNELIELI 50 (133)
T ss_dssp --------------------
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444433333333
No 164
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=20.12 E-value=3.7e+02 Score=21.01 Aligned_cols=31 Identities=23% Similarity=0.245 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 030977 124 QARATLIHILELQIQRRKQAVEDIKRRREEA 154 (168)
Q Consensus 124 QARetL~~~le~Ql~~rr~~~~~ir~~~~~~ 154 (168)
|.....+..|+.|+..-+..+.+++.+++-+
T Consensus 16 q~l~~qie~L~~~i~~l~~~~~e~~~~~~tl 46 (145)
T COG1730 16 QILQSQIESLQAQIAALNAAISELQTAIETL 46 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555555554444443
No 165
>KOG0101 consensus Molecular chaperones HSP70/HSC70, HSP70 superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=20.00 E-value=68 Score=30.92 Aligned_cols=49 Identities=22% Similarity=0.161 Sum_probs=37.8
Q ss_pred HHHHhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 030977 114 HHLLNSLRPHQARATLIHILELQIQRRKQAVEDIKRRREEAQRRLKESLG 163 (168)
Q Consensus 114 hhllNe~RPhQARetL~~~le~Ql~~rr~~~~~ir~~~~~~~~~L~~~~~ 163 (168)
.++.|.++-|+|-|--..-= ..+...+..+.++|++|+.+++.|..++.
T Consensus 235 edf~~~l~~h~~~ef~~k~~-~d~~~n~r~l~rLR~a~E~aKr~LS~~~~ 283 (620)
T KOG0101|consen 235 EDFDNKLVNHFAAEFKRKAG-KDIGGNARALRRLRTACERAKRTLSSSTQ 283 (620)
T ss_pred hhhhHHHHHHHHHHHHHhhc-cccccchHHHHHHHHHHHHHHhhhccccc
Confidence 56788888888877544333 56677788999999999999999966544
Done!