Query 032758
Match_columns 134
No_of_seqs 101 out of 569
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 05:34:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032758.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032758hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02996 Prefoldin: Prefoldin 100.0 8.3E-27 1.8E-31 165.9 15.4 108 14-122 12-119 (120)
2 cd00584 Prefoldin_alpha Prefol 99.9 1.9E-25 4.2E-30 161.5 15.7 107 14-121 22-128 (129)
3 PRK14011 prefoldin subunit alp 99.9 1.4E-25 3E-30 166.8 15.2 102 14-119 26-127 (144)
4 TIGR00293 prefoldin, archaeal 99.9 7E-25 1.5E-29 158.0 15.4 104 14-119 22-125 (126)
5 COG1730 GIM5 Predicted prefold 99.9 1.8E-24 3.9E-29 160.8 15.6 110 14-124 29-138 (145)
6 KOG3048 Molecular chaperone Pr 99.9 1.6E-24 3.5E-29 159.8 14.1 108 13-121 35-142 (153)
7 PRK03947 prefoldin subunit alp 99.9 3.8E-24 8.2E-29 157.0 16.1 109 14-123 29-137 (140)
8 cd00890 Prefoldin Prefoldin is 99.9 3.2E-23 7E-28 148.5 15.8 107 14-121 22-128 (129)
9 PRK01203 prefoldin subunit alp 99.9 2.8E-23 6.1E-28 151.9 14.7 103 14-120 23-125 (130)
10 KOG3047 Predicted transcriptio 99.8 1.9E-19 4.1E-24 131.5 12.9 113 17-129 42-154 (157)
11 KOG3313 Molecular chaperone Pr 99.6 1.5E-14 3.3E-19 110.1 9.4 104 20-123 63-171 (187)
12 KOG3130 Uncharacterized conser 99.3 1.6E-11 3.5E-16 103.8 7.7 104 10-115 14-118 (514)
13 TIGR02338 gimC_beta prefoldin, 98.2 1.3E-05 2.8E-10 56.7 8.4 78 23-122 32-109 (110)
14 cd00632 Prefoldin_beta Prefold 98.0 3.4E-05 7.5E-10 54.0 7.5 50 72-121 55-104 (105)
15 PF13758 Prefoldin_3: Prefoldi 97.9 3.8E-06 8.2E-11 59.0 1.6 94 14-109 4-97 (99)
16 PRK03947 prefoldin subunit alp 97.7 0.00043 9.4E-09 50.5 8.8 64 60-123 54-130 (140)
17 cd00890 Prefoldin Prefoldin is 97.6 0.00015 3.2E-09 51.5 5.8 61 40-113 67-127 (129)
18 TIGR00293 prefoldin, archaeal 97.5 0.00028 6.1E-09 50.5 5.9 64 60-123 46-122 (126)
19 PF01920 Prefoldin_2: Prefoldi 97.4 0.0097 2.1E-07 40.7 11.8 57 62-119 45-101 (106)
20 cd00584 Prefoldin_alpha Prefol 97.1 0.0017 3.7E-08 46.5 6.3 59 41-112 68-126 (129)
21 PRK01203 prefoldin subunit alp 97.0 0.0035 7.6E-08 46.1 6.6 63 59-121 46-121 (130)
22 COG1730 GIM5 Predicted prefold 96.7 0.0068 1.5E-07 45.3 6.3 64 62-125 56-132 (145)
23 PRK09343 prefoldin subunit bet 96.5 0.018 4E-07 41.4 7.5 63 60-123 52-114 (121)
24 PRK14011 prefoldin subunit alp 96.3 0.028 6.1E-07 41.9 7.8 64 60-123 48-124 (144)
25 COG1382 GimC Prefoldin, chaper 96.0 0.014 3.1E-07 42.3 4.6 60 63-123 54-113 (119)
26 PF02996 Prefoldin: Prefoldin 95.2 0.057 1.2E-06 37.8 5.4 62 59-120 36-110 (120)
27 KOG3478 Prefoldin subunit 6, K 91.6 0.77 1.7E-05 33.1 5.9 54 71-124 60-113 (120)
28 PF07889 DUF1664: Protein of u 87.4 3.2 7E-05 30.3 6.6 44 77-120 58-101 (126)
29 PF02388 FemAB: FemAB family; 86.7 3.3 7.2E-05 35.3 7.4 52 72-123 234-295 (406)
30 COG1862 YajC Preprotein transl 85.6 6.9 0.00015 27.3 7.3 66 12-83 22-87 (97)
31 PRK00736 hypothetical protein; 85.6 7.6 0.00016 25.2 7.1 43 79-121 11-53 (68)
32 PRK00295 hypothetical protein; 84.3 9 0.00019 24.8 7.1 44 78-121 10-53 (68)
33 PF04102 SlyX: SlyX; InterPro 84.2 5.3 0.00011 25.9 5.9 44 78-121 9-52 (69)
34 PRK05585 yajC preprotein trans 83.2 8.8 0.00019 27.0 7.1 67 11-83 30-96 (106)
35 PRK09343 prefoldin subunit bet 82.0 6.4 0.00014 28.1 6.1 82 21-117 34-115 (121)
36 KOG4098 Molecular chaperone Pr 81.1 5.7 0.00012 29.5 5.6 46 70-115 69-114 (140)
37 PRK00295 hypothetical protein; 80.2 13 0.00029 24.0 7.5 46 76-121 1-46 (68)
38 PF05377 FlaC_arch: Flagella a 80.1 5.8 0.00013 25.0 4.7 34 86-119 6-39 (55)
39 TIGR02338 gimC_beta prefoldin, 78.9 7.7 0.00017 27.1 5.6 78 16-114 28-108 (110)
40 cd00632 Prefoldin_beta Prefold 78.6 8.8 0.00019 26.4 5.8 77 23-114 28-104 (105)
41 PF14282 FlxA: FlxA-like prote 78.3 11 0.00023 26.4 6.1 46 77-122 16-72 (106)
42 KOG1760 Molecular chaperone Pr 78.1 14 0.0003 27.1 6.8 47 71-117 72-118 (131)
43 PRK00736 hypothetical protein; 77.8 16 0.00035 23.6 7.4 46 76-121 1-46 (68)
44 PRK04406 hypothetical protein; 77.8 17 0.00036 24.1 6.6 43 79-121 17-59 (75)
45 PRK02119 hypothetical protein; 77.2 18 0.00039 23.8 6.6 44 78-121 14-57 (73)
46 PRK02793 phi X174 lysis protei 76.9 18 0.00039 23.7 6.7 43 79-121 14-56 (72)
47 PF05377 FlaC_arch: Flagella a 75.8 14 0.00029 23.4 5.4 34 84-117 11-44 (55)
48 COG1382 GimC Prefoldin, chaper 75.1 14 0.0003 26.8 6.1 83 18-115 30-112 (119)
49 cd01109 HTH_YyaN Helix-Turn-He 74.6 22 0.00048 24.5 7.0 39 76-114 58-106 (113)
50 PRK05886 yajC preprotein trans 74.0 29 0.00062 24.7 7.4 61 13-79 18-78 (109)
51 PRK04325 hypothetical protein; 73.9 22 0.00049 23.3 7.2 44 78-121 14-57 (74)
52 TIGR00739 yajC preprotein tran 73.4 25 0.00054 23.6 7.1 63 11-79 15-77 (84)
53 PF04102 SlyX: SlyX; InterPro 72.9 22 0.00048 22.9 7.0 48 78-125 2-49 (69)
54 PF08946 Osmo_CC: Osmosensory 72.4 11 0.00023 23.0 4.1 33 77-109 2-34 (46)
55 PF13118 DUF3972: Protein of u 71.8 6.9 0.00015 28.7 3.9 76 40-117 27-108 (126)
56 cd04769 HTH_MerR2 Helix-Turn-H 70.6 14 0.00031 25.8 5.2 37 77-113 76-112 (116)
57 COG3937 Uncharacterized conser 70.1 27 0.00059 24.9 6.5 27 75-101 38-64 (108)
58 PF09278 MerR-DNA-bind: MerR, 69.9 17 0.00037 22.3 5.0 26 77-102 33-58 (65)
59 PF04977 DivIC: Septum formati 68.8 27 0.00058 22.1 6.0 50 79-128 23-72 (80)
60 PRK02793 phi X174 lysis protei 67.9 31 0.00067 22.5 6.9 45 77-121 5-49 (72)
61 cd01106 HTH_TipAL-Mta Helix-Tu 66.7 19 0.0004 24.5 5.1 43 75-120 57-99 (103)
62 cd04776 HTH_GnyR Helix-Turn-He 65.5 30 0.00064 24.4 6.1 28 83-110 83-110 (118)
63 PRK04325 hypothetical protein; 63.1 40 0.00087 22.1 7.0 43 78-120 7-49 (74)
64 KOG1655 Protein involved in va 62.6 22 0.00047 28.2 5.2 36 77-112 16-51 (218)
65 PF13600 DUF4140: N-terminal d 61.8 47 0.001 22.4 6.7 34 85-118 68-101 (104)
66 PRK00846 hypothetical protein; 61.3 46 0.001 22.2 6.7 43 79-121 19-61 (77)
67 PRK04406 hypothetical protein; 60.7 46 0.00099 22.0 6.9 41 80-120 11-51 (75)
68 KOG3501 Molecular chaperone Pr 60.3 49 0.0011 23.7 6.2 65 60-125 48-112 (114)
69 COG2900 SlyX Uncharacterized p 60.1 48 0.001 22.0 6.1 40 84-123 19-58 (72)
70 PRK11637 AmiB activator; Provi 59.7 39 0.00086 28.8 6.8 18 85-102 80-97 (428)
71 PF04949 Transcrip_act: Transc 59.1 56 0.0012 24.8 6.7 45 77-121 81-125 (159)
72 PTZ00464 SNF-7-like protein; P 59.1 32 0.0007 27.1 5.7 36 76-111 14-49 (211)
73 cd01109 HTH_YyaN Helix-Turn-He 58.9 40 0.00087 23.2 5.7 35 77-111 76-110 (113)
74 PF03670 UPF0184: Uncharacteri 58.8 55 0.0012 22.3 6.6 41 80-120 26-66 (83)
75 PF10805 DUF2730: Protein of u 57.7 51 0.0011 22.9 6.0 37 83-119 45-83 (106)
76 COG3883 Uncharacterized protei 57.2 51 0.0011 27.1 6.7 8 87-94 52-59 (265)
77 PRK02119 hypothetical protein; 57.2 52 0.0011 21.5 6.9 43 78-120 7-49 (73)
78 PF14193 DUF4315: Domain of un 56.3 39 0.00085 22.9 5.0 29 89-117 3-31 (83)
79 PF01920 Prefoldin_2: Prefoldi 56.1 57 0.0012 21.6 6.5 42 86-127 4-45 (106)
80 TIGR02047 CadR-PbrR Cd(II)/Pb( 55.7 45 0.00098 23.7 5.6 26 92-117 84-109 (127)
81 cd04776 HTH_GnyR Helix-Turn-He 55.7 69 0.0015 22.5 7.0 43 76-118 56-111 (118)
82 PF10234 Cluap1: Clusterin-ass 55.6 41 0.00089 27.6 5.9 51 74-124 163-220 (267)
83 PF04728 LPP: Lipoprotein leuc 55.3 51 0.0011 20.8 6.6 35 83-117 6-40 (56)
84 PF04977 DivIC: Septum formati 54.4 52 0.0011 20.7 5.6 30 91-120 21-50 (80)
85 PF06156 DUF972: Protein of un 54.3 65 0.0014 22.7 6.1 31 86-116 7-37 (107)
86 KOG1760 Molecular chaperone Pr 54.0 48 0.001 24.4 5.5 74 23-110 38-118 (131)
87 cd01107 HTH_BmrR Helix-Turn-He 53.9 70 0.0015 21.9 6.3 12 76-87 59-70 (108)
88 cd01282 HTH_MerR-like_sg3 Heli 53.6 70 0.0015 22.1 6.2 12 76-87 57-68 (112)
89 PRK00888 ftsB cell division pr 53.5 71 0.0015 22.2 6.2 47 83-129 37-83 (105)
90 cd04786 HTH_MerR-like_sg7 Heli 53.3 82 0.0018 22.6 8.0 25 78-102 76-100 (131)
91 PRK11637 AmiB activator; Provi 53.2 63 0.0014 27.5 7.0 39 79-117 81-119 (428)
92 cd01107 HTH_BmrR Helix-Turn-He 53.0 39 0.00085 23.2 4.8 32 79-110 74-105 (108)
93 PF07195 FliD_C: Flagellar hoo 52.9 68 0.0015 25.1 6.7 41 80-120 193-237 (239)
94 PF07106 TBPIP: Tat binding pr 51.8 36 0.00079 25.2 4.8 29 81-109 73-101 (169)
95 cd04779 HTH_MerR-like_sg4 Heli 51.8 72 0.0016 23.2 6.2 45 76-120 57-107 (134)
96 TIGR01837 PHA_granule_1 poly(h 51.3 81 0.0018 22.4 6.3 19 76-94 37-55 (118)
97 PF05529 Bap31: B-cell recepto 51.2 1E+02 0.0022 23.2 7.2 37 78-114 152-188 (192)
98 PF01330 RuvA_N: RuvA N termin 51.1 41 0.00088 20.8 4.2 30 52-81 3-35 (61)
99 cd01282 HTH_MerR-like_sg3 Heli 50.4 53 0.0011 22.7 5.2 33 76-108 77-109 (112)
100 cd04786 HTH_MerR-like_sg7 Heli 50.1 77 0.0017 22.8 6.1 50 76-125 58-116 (131)
101 COG3883 Uncharacterized protei 49.9 75 0.0016 26.1 6.6 33 87-119 66-98 (265)
102 KOG2577 Transcription factor E 49.7 65 0.0014 27.6 6.4 54 62-115 126-179 (354)
103 PRK10803 tol-pal system protei 49.5 83 0.0018 25.3 6.8 31 91-121 58-88 (263)
104 PF06103 DUF948: Bacterial pro 49.2 75 0.0016 20.9 5.9 17 91-107 30-46 (90)
105 PF04340 DUF484: Protein of un 49.0 71 0.0015 24.7 6.2 45 77-121 37-81 (225)
106 PHA03386 P10 fibrous body prot 49.0 89 0.0019 21.8 6.5 47 79-125 11-60 (94)
107 PF14282 FlxA: FlxA-like prote 49.0 88 0.0019 21.7 6.1 23 86-108 18-40 (106)
108 cd04787 HTH_HMRTR_unk Helix-Tu 48.9 87 0.0019 22.3 6.2 34 90-123 82-115 (133)
109 cd04770 HTH_HMRTR Helix-Turn-H 48.8 72 0.0016 22.1 5.7 11 76-86 58-68 (123)
110 cd04766 HTH_HspR Helix-Turn-He 48.3 48 0.001 21.9 4.5 17 92-108 70-86 (91)
111 PF08317 Spc7: Spc7 kinetochor 47.9 92 0.002 25.7 7.0 44 80-123 223-266 (325)
112 cd04787 HTH_HMRTR_unk Helix-Tu 47.9 99 0.0022 22.0 7.8 33 79-111 78-110 (133)
113 PF00384 Molybdopterin: Molybd 47.7 25 0.00055 29.0 3.7 28 68-95 12-39 (432)
114 PF10158 LOH1CR12: Tumour supp 47.6 79 0.0017 23.1 5.9 33 96-128 89-121 (131)
115 cd01108 HTH_CueR Helix-Turn-He 47.2 78 0.0017 22.4 5.7 29 90-118 82-110 (127)
116 PRK06531 yajC preprotein trans 47.1 1E+02 0.0023 22.0 6.9 62 12-80 15-78 (113)
117 cd04785 HTH_CadR-PbrR-like Hel 46.7 77 0.0017 22.4 5.6 26 92-117 84-109 (126)
118 TIGR02051 MerR Hg(II)-responsi 46.6 85 0.0018 22.1 5.8 43 76-118 57-107 (124)
119 PF06698 DUF1192: Protein of u 46.6 51 0.0011 21.0 4.1 27 85-111 26-52 (59)
120 PRK05771 V-type ATP synthase s 46.6 86 0.0019 28.3 7.1 48 76-123 82-129 (646)
121 PRK13169 DNA replication intia 46.5 1E+02 0.0022 21.9 6.1 31 87-117 8-38 (110)
122 PF02699 YajC: Preprotein tran 46.2 11 0.00024 25.2 1.1 62 11-78 14-75 (82)
123 cd04783 HTH_MerR1 Helix-Turn-H 46.1 83 0.0018 22.1 5.7 28 92-119 82-109 (126)
124 cd04784 HTH_CadR-PbrR Helix-Tu 46.1 85 0.0018 22.0 5.8 44 76-119 58-111 (127)
125 PF04728 LPP: Lipoprotein leuc 45.8 76 0.0016 20.0 5.9 33 87-119 3-35 (56)
126 PRK00846 hypothetical protein; 45.8 90 0.0019 20.9 7.0 41 79-119 12-52 (77)
127 PF13600 DUF4140: N-terminal d 45.4 63 0.0014 21.8 4.8 37 77-113 67-103 (104)
128 TIGR02044 CueR Cu(I)-responsiv 45.4 86 0.0019 22.1 5.7 10 77-86 59-68 (127)
129 TIGR02043 ZntR Zn(II)-responsi 45.3 85 0.0018 22.4 5.7 29 91-119 85-113 (131)
130 cd04775 HTH_Cfa-like Helix-Tur 45.3 94 0.002 21.1 5.7 12 76-87 58-69 (102)
131 PF05529 Bap31: B-cell recepto 45.1 75 0.0016 23.9 5.7 35 85-119 152-186 (192)
132 PRK06664 fliD flagellar hook-a 44.9 71 0.0015 29.4 6.3 42 81-122 601-646 (661)
133 smart00338 BRLZ basic region l 44.8 75 0.0016 19.7 5.7 35 89-123 28-62 (65)
134 PF09726 Macoilin: Transmembra 44.6 65 0.0014 29.9 6.1 44 80-123 538-581 (697)
135 PRK13182 racA polar chromosome 44.6 1E+02 0.0022 23.6 6.3 30 77-106 82-111 (175)
136 PRK13752 putative transcriptio 44.3 86 0.0019 22.9 5.7 29 79-107 83-111 (144)
137 PF00170 bZIP_1: bZIP transcri 44.0 77 0.0017 19.6 5.9 33 89-121 28-60 (64)
138 PRK10227 DNA-binding transcrip 43.9 96 0.0021 22.4 5.8 26 80-105 79-104 (135)
139 PRK09514 zntR zinc-responsive 43.6 91 0.002 22.5 5.7 21 79-99 80-100 (140)
140 TIGR02043 ZntR Zn(II)-responsi 43.5 1.2E+02 0.0026 21.6 7.4 24 79-102 80-103 (131)
141 PF08946 Osmo_CC: Osmosensory 43.5 70 0.0015 19.4 4.1 26 79-104 11-36 (46)
142 cd04770 HTH_HMRTR Helix-Turn-H 43.4 1.1E+02 0.0024 21.2 6.9 31 77-107 76-106 (123)
143 PHA02107 hypothetical protein 43.1 56 0.0012 25.4 4.6 50 67-116 157-213 (216)
144 PRK13752 putative transcriptio 43.0 1.3E+02 0.0028 22.0 6.9 44 76-119 65-116 (144)
145 PRK06798 fliD flagellar cappin 42.8 88 0.0019 27.2 6.3 37 85-121 384-424 (440)
146 PRK09514 zntR zinc-responsive 42.3 77 0.0017 22.9 5.2 43 75-117 58-111 (140)
147 cd04784 HTH_CadR-PbrR Helix-Tu 42.2 1.2E+02 0.0026 21.3 6.9 35 77-111 76-110 (127)
148 PF13815 Dzip-like_N: Iguana/D 41.8 1.2E+02 0.0026 21.3 6.5 38 83-120 76-113 (118)
149 PF05531 NPV_P10: Nucleopolyhe 41.5 94 0.002 20.7 5.0 44 80-123 11-64 (75)
150 PF10498 IFT57: Intra-flagella 40.9 1.2E+02 0.0026 25.8 6.7 42 77-118 249-290 (359)
151 cd01106 HTH_TipAL-Mta Helix-Tu 40.3 89 0.0019 21.1 5.0 29 79-107 72-100 (103)
152 cd04769 HTH_MerR2 Helix-Turn-H 40.3 1.2E+02 0.0027 20.9 7.2 46 76-121 57-113 (116)
153 PRK08032 fliD flagellar cappin 40.1 1.1E+02 0.0023 26.7 6.5 39 84-122 410-452 (462)
154 COG1579 Zn-ribbon protein, pos 39.9 1.5E+02 0.0032 23.9 6.8 43 78-120 94-136 (239)
155 TIGR02051 MerR Hg(II)-responsi 39.8 1.3E+02 0.0029 21.1 7.0 37 76-112 72-108 (124)
156 PF11471 Sugarporin_N: Maltopo 39.8 74 0.0016 20.1 4.1 28 84-111 29-56 (60)
157 PF07544 Med9: RNA polymerase 39.5 72 0.0016 21.2 4.3 44 76-119 24-77 (83)
158 PF08232 Striatin: Striatin fa 39.3 1.2E+02 0.0027 22.0 5.8 37 85-121 30-66 (134)
159 cd01108 HTH_CueR Helix-Turn-He 38.8 1.4E+02 0.003 21.0 7.0 29 79-107 78-106 (127)
160 PF15619 Lebercilin: Ciliary p 38.4 1.2E+02 0.0027 23.4 6.0 53 80-132 68-120 (194)
161 PF04568 IATP: Mitochondrial A 37.7 1.4E+02 0.0031 20.9 7.0 32 86-117 68-99 (100)
162 cd04789 HTH_Cfa Helix-Turn-Hel 37.7 96 0.0021 21.1 4.8 10 76-85 58-67 (102)
163 PHA01750 hypothetical protein 37.6 1.2E+02 0.0026 20.0 6.2 32 82-113 37-68 (75)
164 PF03962 Mnd1: Mnd1 family; I 37.5 1.9E+02 0.0041 22.2 7.0 45 68-113 50-95 (188)
165 PF10158 LOH1CR12: Tumour supp 37.1 1.6E+02 0.0036 21.4 6.6 42 82-123 51-92 (131)
166 PRK09039 hypothetical protein; 36.9 1.3E+02 0.0029 25.1 6.4 6 104-109 147-152 (343)
167 PF11853 DUF3373: Protein of u 36.8 32 0.0007 30.6 2.8 28 88-115 32-59 (489)
168 cd04777 HTH_MerR-like_sg1 Heli 36.7 70 0.0015 21.8 4.0 12 76-87 56-67 (107)
169 PRK09631 DNA topoisomerase IV 36.4 1.1E+02 0.0025 28.0 6.2 45 75-119 384-429 (635)
170 PF10498 IFT57: Intra-flagella 36.0 1.7E+02 0.0037 24.9 6.9 51 80-130 280-330 (359)
171 cd04783 HTH_MerR1 Helix-Turn-H 35.7 1.5E+02 0.0033 20.7 7.5 33 78-110 75-107 (126)
172 cd02769 MopB_DMSOR-BSOR-TMAOR 35.7 47 0.001 29.6 3.7 27 69-95 69-95 (609)
173 PTZ00454 26S protease regulato 35.7 2.1E+02 0.0045 24.5 7.5 49 76-124 18-66 (398)
174 PRK13729 conjugal transfer pil 35.6 1.4E+02 0.003 26.6 6.4 51 73-123 62-119 (475)
175 PRK07737 fliD flagellar cappin 35.5 1.3E+02 0.0029 26.5 6.4 40 83-122 444-487 (501)
176 PF10186 Atg14: UV radiation r 35.5 2.1E+02 0.0045 22.3 7.1 41 80-120 63-103 (302)
177 cd02755 MopB_Thiosulfate-R-lik 35.4 57 0.0012 27.8 4.0 27 69-95 67-93 (454)
178 PRK13729 conjugal transfer pil 34.9 1E+02 0.0022 27.5 5.5 24 96-119 99-122 (475)
179 smart00787 Spc7 Spc7 kinetocho 34.4 2.1E+02 0.0045 23.8 7.1 43 80-122 218-260 (312)
180 PF12709 Kinetocho_Slk19: Cent 34.4 1.5E+02 0.0033 20.3 5.9 36 85-120 47-82 (87)
181 PF10438 Cyc-maltodext_C: Cycl 34.2 40 0.00087 22.4 2.3 20 49-68 8-27 (78)
182 cd02765 MopB_4 The MopB_4 CD i 34.2 31 0.00068 30.5 2.3 44 52-95 44-93 (567)
183 PRK03992 proteasome-activating 33.9 2.2E+02 0.0048 24.0 7.3 46 78-123 6-51 (389)
184 PRK02509 hypothetical protein; 33.7 76 0.0017 30.6 4.8 45 41-85 902-955 (973)
185 PF10400 Vir_act_alpha_C: Viru 33.3 1.3E+02 0.0029 19.2 4.9 31 75-105 16-46 (90)
186 PRK00068 hypothetical protein; 33.2 85 0.0019 30.3 5.1 46 41-86 830-885 (970)
187 PF08190 PIH1: pre-RNA process 33.2 1.4E+02 0.003 24.0 5.8 52 26-78 9-60 (328)
188 TIGR02894 DNA_bind_RsfA transc 32.9 2.2E+02 0.0048 21.7 6.8 13 75-87 79-91 (161)
189 TIGR02231 conserved hypothetic 32.9 1.8E+02 0.0038 25.5 6.7 46 77-122 128-173 (525)
190 KOG3048 Molecular chaperone Pr 32.8 84 0.0018 23.7 4.0 26 60-85 61-86 (153)
191 cd04785 HTH_CadR-PbrR-like Hel 32.8 1.8E+02 0.0038 20.5 7.0 31 78-108 77-107 (126)
192 TIGR02047 CadR-PbrR Cd(II)/Pb( 32.8 1.8E+02 0.0039 20.5 7.0 31 78-108 77-107 (127)
193 cd02770 MopB_DmsA-EC This CD ( 32.5 59 0.0013 29.0 3.8 39 57-95 53-97 (617)
194 PF03961 DUF342: Protein of un 32.5 2.8E+02 0.0061 23.8 7.9 25 42-66 286-310 (451)
195 TIGR01843 type_I_hlyD type I s 32.3 1.7E+02 0.0038 23.9 6.4 17 18-34 84-100 (423)
196 cd04772 HTH_TioE_rpt1 First He 32.0 71 0.0015 21.7 3.4 15 106-120 81-95 (99)
197 PF10211 Ax_dynein_light: Axon 31.5 2.4E+02 0.0052 21.6 6.9 38 82-119 122-159 (189)
198 PF04523 Herpes_U30: Herpes vi 31.1 3.9E+02 0.0084 25.6 9.0 63 60-122 681-746 (887)
199 COG5509 Uncharacterized small 31.1 88 0.0019 20.2 3.4 22 85-106 30-51 (65)
200 PF11853 DUF3373: Protein of u 31.0 48 0.001 29.5 2.9 34 86-120 24-57 (489)
201 PF08781 DP: Transcription fac 31.0 1.5E+02 0.0033 22.0 5.2 35 89-123 3-37 (142)
202 PF09943 DUF2175: Uncharacteri 31.0 95 0.0021 21.9 3.9 29 77-105 72-100 (101)
203 KOG3335 Predicted coiled-coil 31.0 2.6E+02 0.0055 21.8 6.8 59 61-120 74-132 (181)
204 TIGR02054 MerD mercuric resist 31.0 2E+02 0.0043 20.5 6.8 54 76-129 61-118 (120)
205 KOG3478 Prefoldin subunit 6, K 30.9 2.1E+02 0.0045 20.7 6.2 42 77-118 73-114 (120)
206 TIGR01242 26Sp45 26S proteasom 30.9 1.8E+02 0.0039 24.0 6.2 39 85-123 4-42 (364)
207 KOG0250 DNA repair protein RAD 30.8 2E+02 0.0044 28.2 7.1 68 41-111 621-692 (1074)
208 PF07195 FliD_C: Flagellar hoo 30.8 1.7E+02 0.0037 22.8 5.8 37 83-119 189-225 (239)
209 PHA02107 hypothetical protein 30.7 2.3E+02 0.0049 22.1 6.2 30 94-123 184-213 (216)
210 PF12841 YvrJ: YvrJ protein fa 30.4 59 0.0013 18.8 2.3 17 85-101 20-36 (38)
211 smart00502 BBC B-Box C-termina 30.3 1.7E+02 0.0036 19.5 6.6 34 79-112 6-39 (127)
212 PRK00888 ftsB cell division pr 30.3 1.9E+02 0.0041 20.1 5.8 29 85-113 32-60 (105)
213 PRK10227 DNA-binding transcrip 30.2 2.1E+02 0.0046 20.6 7.0 43 76-118 58-110 (135)
214 PRK12758 DNA topoisomerase IV 30.2 1.4E+02 0.0031 28.5 5.9 45 75-119 405-450 (869)
215 TIGR02044 CueR Cu(I)-responsiv 30.0 2E+02 0.0043 20.2 7.0 34 77-110 76-109 (127)
216 COG5391 Phox homology (PX) dom 30.0 2.2E+02 0.0048 25.5 6.9 54 65-118 432-485 (524)
217 PF10359 Fmp27_WPPW: RNA pol I 29.9 1.6E+02 0.0035 25.7 6.0 31 75-105 158-188 (475)
218 PF00261 Tropomyosin: Tropomyo 29.8 2.7E+02 0.0059 21.7 7.7 35 83-117 193-227 (237)
219 KOG1003 Actin filament-coating 29.8 1.5E+02 0.0032 23.5 5.1 39 82-120 160-198 (205)
220 KOG2685 Cystoskeletal protein 29.7 1.9E+02 0.0042 25.3 6.2 49 79-127 270-318 (421)
221 PF04012 PspA_IM30: PspA/IM30 29.5 2.6E+02 0.0056 21.3 6.8 34 87-120 98-131 (221)
222 PF06305 DUF1049: Protein of u 29.5 67 0.0014 19.8 2.7 19 86-104 47-65 (68)
223 PF10960 DUF2762: Protein of u 29.4 1.2E+02 0.0027 19.8 4.0 30 84-113 36-65 (71)
224 PF04111 APG6: Autophagy prote 29.1 2.6E+02 0.0055 23.2 6.8 39 79-117 42-80 (314)
225 PF05185 PRMT5: PRMT5 arginine 29.0 54 0.0012 28.6 2.9 20 14-33 153-172 (448)
226 PRK10803 tol-pal system protei 29.0 1.8E+02 0.0039 23.3 5.7 33 84-116 58-90 (263)
227 cd03199 GST_C_GRX2 GST_C famil 28.8 1.4E+02 0.0031 21.7 4.6 46 73-118 28-73 (128)
228 KOG0614 cGMP-dependent protein 28.8 2E+02 0.0044 26.5 6.4 66 60-125 4-76 (732)
229 KOG4603 TBP-1 interacting prot 28.8 2.2E+02 0.0048 22.2 5.8 43 75-117 74-116 (201)
230 PRK05771 V-type ATP synthase s 28.5 2.5E+02 0.0053 25.4 7.0 33 78-110 213-245 (646)
231 cd02763 MopB_2 The MopB_2 CD i 28.2 73 0.0016 29.3 3.7 26 69-94 66-91 (679)
232 cd02772 MopB_NDH-1_NuoG2 MopB_ 28.2 59 0.0013 27.1 2.9 26 70-95 63-88 (414)
233 cd04790 HTH_Cfa-like_unk Helix 27.9 2.6E+02 0.0056 20.9 6.9 42 76-117 59-104 (172)
234 PRK15002 redox-sensitivie tran 27.7 2.6E+02 0.0056 20.8 6.7 42 76-117 68-120 (154)
235 PRK10963 hypothetical protein; 27.5 1.6E+02 0.0035 22.9 5.1 40 80-119 37-76 (223)
236 cd02750 MopB_Nitrate-R-NarG-li 27.5 83 0.0018 26.9 3.8 27 69-95 78-104 (461)
237 TIGR00509 bisC_fam molybdopter 27.5 77 0.0017 29.1 3.7 26 70-95 68-93 (770)
238 TIGR02894 DNA_bind_RsfA transc 27.5 2.8E+02 0.0061 21.1 6.2 39 84-122 115-153 (161)
239 TIGR01950 SoxR redox-sensitive 27.5 2.3E+02 0.0049 20.6 5.6 24 81-104 81-104 (142)
240 PRK06798 fliD flagellar cappin 27.4 1E+02 0.0022 26.7 4.3 34 85-118 377-410 (440)
241 PRK05561 DNA topoisomerase IV 27.3 1.5E+02 0.0033 27.6 5.6 42 75-116 417-459 (742)
242 KOG3684 Ca2+-activated K+ chan 27.3 2.5E+02 0.0054 25.1 6.6 43 81-123 428-470 (489)
243 PRK08032 fliD flagellar cappin 27.1 1.5E+02 0.0032 25.9 5.2 34 86-119 405-438 (462)
244 cd04773 HTH_TioE_rpt2 Second H 27.1 2.1E+02 0.0046 19.6 5.8 47 76-122 58-106 (108)
245 PF12718 Tropomyosin_1: Tropom 27.0 2.5E+02 0.0055 20.5 6.0 18 86-103 41-58 (143)
246 TIGR02231 conserved hypothetic 26.9 2.8E+02 0.006 24.3 6.9 39 77-115 68-106 (525)
247 PF04065 Not3: Not1 N-terminal 26.8 1.4E+02 0.0029 24.0 4.6 34 74-107 116-149 (233)
248 cd02759 MopB_Acetylene-hydrata 26.6 90 0.002 26.7 3.8 27 69-95 66-92 (477)
249 cd02754 MopB_Nitrate-R-NapA-li 26.6 1E+02 0.0023 26.9 4.2 39 56-94 47-88 (565)
250 PF08285 DPM3: Dolichol-phosph 26.5 66 0.0014 22.1 2.4 31 67-97 55-85 (91)
251 PF14662 CCDC155: Coiled-coil 26.4 3.2E+02 0.007 21.4 6.5 42 80-121 151-192 (193)
252 PF02994 Transposase_22: L1 tr 26.4 3.1E+02 0.0068 23.2 7.0 39 82-120 146-184 (370)
253 PF08181 DegQ: DegQ (SacQ) fam 26.2 1.5E+02 0.0033 17.6 5.4 37 86-122 3-39 (46)
254 KOG2826 Actin-related protein 26.2 1.2E+02 0.0027 24.8 4.2 65 25-89 13-80 (301)
255 cd02751 MopB_DMSOR-like The Mo 26.1 89 0.0019 27.8 3.8 27 69-95 69-95 (609)
256 PF02994 Transposase_22: L1 tr 26.0 2E+02 0.0044 24.3 5.8 35 85-119 142-176 (370)
257 PRK15102 trimethylamine N-oxid 25.8 87 0.0019 29.1 3.8 27 69-95 113-139 (825)
258 PRK15422 septal ring assembly 25.7 2.2E+02 0.0047 19.2 6.2 21 82-102 20-40 (79)
259 PF02646 RmuC: RmuC family; I 25.6 1.1E+02 0.0024 25.0 4.0 17 78-94 11-27 (304)
260 cd04790 HTH_Cfa-like_unk Helix 25.4 1.6E+02 0.0034 22.1 4.5 33 80-112 74-106 (172)
261 PRK08724 fliD flagellar cappin 25.4 2.8E+02 0.0061 25.8 6.8 20 85-104 622-641 (673)
262 PRK14127 cell division protein 25.3 2.5E+02 0.0055 19.9 6.6 44 76-119 23-69 (109)
263 PRK15002 redox-sensitivie tran 25.2 2.5E+02 0.0054 20.8 5.5 35 77-111 87-121 (154)
264 TIGR02166 dmsA_ynfE anaerobic 25.1 90 0.002 28.6 3.7 27 69-95 116-142 (797)
265 PF05308 Mito_fiss_reg: Mitoch 25.1 96 0.0021 25.1 3.5 22 95-116 123-144 (253)
266 PF05010 TACC: Transforming ac 25.1 3E+02 0.0064 21.7 6.2 46 75-120 4-56 (207)
267 TIGR03017 EpsF chain length de 24.9 1.6E+02 0.0035 24.7 5.0 25 81-105 172-196 (444)
268 COG4942 Membrane-bound metallo 24.9 3.4E+02 0.0074 23.8 7.0 15 96-110 61-75 (420)
269 PRK14990 anaerobic dimethyl su 24.8 93 0.002 28.7 3.7 27 69-95 131-157 (814)
270 PRK10884 SH3 domain-containing 24.8 3.4E+02 0.0074 21.2 7.2 26 77-102 90-115 (206)
271 PF13094 CENP-Q: CENP-Q, a CEN 24.7 2.8E+02 0.0061 20.2 6.7 9 82-90 29-37 (160)
272 cd04781 HTH_MerR-like_sg6 Heli 24.6 2.5E+02 0.0053 19.5 6.3 12 76-87 57-68 (120)
273 PF05531 NPV_P10: Nucleopolyhe 24.6 2.2E+02 0.0048 19.0 4.6 29 82-110 6-34 (75)
274 PF03357 Snf7: Snf7; InterPro 24.3 2.4E+02 0.0052 20.1 5.3 19 81-99 9-27 (171)
275 PF10458 Val_tRNA-synt_C: Valy 24.2 66 0.0014 20.3 2.0 18 83-100 7-24 (66)
276 PF04420 CHD5: CHD5-like prote 24.2 1.6E+02 0.0036 21.8 4.4 29 85-113 71-99 (161)
277 PF10552 ORF6C: ORF6C domain; 24.1 1.4E+02 0.0031 20.8 3.9 21 80-100 8-28 (116)
278 cd04782 HTH_BltR Helix-Turn-He 24.0 1.6E+02 0.0034 19.7 4.0 11 76-86 58-68 (97)
279 PF11365 DUF3166: Protein of u 24.0 2.6E+02 0.0056 19.5 6.4 41 84-124 5-45 (96)
280 PF15188 CCDC-167: Coiled-coil 23.9 1.7E+02 0.0037 19.9 4.0 30 79-108 35-64 (85)
281 TIGR01706 NAPA periplasmic nit 23.9 65 0.0014 30.0 2.6 27 69-95 112-138 (830)
282 PF11285 DUF3086: Protein of u 23.9 2.4E+02 0.0052 23.3 5.5 34 78-111 2-35 (283)
283 PRK09039 hypothetical protein; 23.9 2.4E+02 0.0051 23.6 5.7 23 89-111 139-161 (343)
284 PF10046 BLOC1_2: Biogenesis o 23.8 2.4E+02 0.0053 19.1 6.3 25 99-123 64-88 (99)
285 PRK14603 ruvA Holliday junctio 23.7 1.7E+02 0.0037 22.6 4.5 31 52-82 3-36 (197)
286 PF14131 DUF4298: Domain of un 23.7 2.1E+02 0.0045 19.3 4.5 22 89-110 2-23 (90)
287 TIGR01062 parC_Gneg DNA topois 23.6 2.1E+02 0.0044 26.9 5.7 43 75-117 404-447 (735)
288 PF08657 DASH_Spc34: DASH comp 23.6 3.5E+02 0.0076 21.9 6.5 56 71-126 156-219 (259)
289 KOG1655 Protein involved in va 23.6 2.2E+02 0.0049 22.6 5.1 27 79-105 25-51 (218)
290 PRK09129 NADH dehydrogenase su 23.3 93 0.002 28.6 3.4 42 53-94 262-305 (776)
291 TIGR02763 chlamy_scaf chlamydi 23.3 75 0.0016 22.7 2.2 29 8-36 24-52 (114)
292 PF11382 DUF3186: Protein of u 23.3 2.9E+02 0.0063 22.7 6.1 39 82-120 34-72 (308)
293 PF09675 Chlamy_scaf: Chlamydi 23.2 86 0.0019 22.6 2.5 31 6-36 22-52 (114)
294 PRK13532 nitrate reductase cat 23.2 94 0.002 28.9 3.5 25 70-94 113-137 (830)
295 PF06103 DUF948: Bacterial pro 23.1 2.3E+02 0.0049 18.6 6.3 32 81-112 27-58 (90)
296 PRK12765 flagellar capping pro 23.1 2.9E+02 0.0063 25.1 6.5 34 78-111 530-563 (595)
297 PF10224 DUF2205: Predicted co 23.1 2.4E+02 0.0053 18.9 5.6 31 80-110 16-46 (80)
298 PF14584 DUF4446: Protein of u 23.0 2.9E+02 0.0063 20.5 5.5 35 78-112 44-78 (151)
299 PF07047 OPA3: Optic atrophy 3 23.0 1.9E+02 0.0042 20.8 4.5 19 57-75 62-81 (134)
300 PF10168 Nup88: Nuclear pore c 23.0 3.7E+02 0.0081 25.0 7.3 22 74-95 530-551 (717)
301 PF04111 APG6: Autophagy prote 23.0 4.4E+02 0.0094 21.8 7.3 45 77-121 47-91 (314)
302 PF07889 DUF1664: Protein of u 22.9 3E+02 0.0066 20.0 6.9 21 75-95 38-58 (126)
303 PF11945 WASH_WAHD: WAHD domai 22.7 1.5E+02 0.0032 24.6 4.2 31 93-123 42-72 (297)
304 PF07097 DUF1359: Protein of u 22.6 2.7E+02 0.0059 19.3 5.7 37 86-122 8-44 (102)
305 KOG0288 WD40 repeat protein Ti 22.6 4.1E+02 0.0088 23.5 6.9 45 78-122 18-62 (459)
306 TIGR02164 torA trimethylamine- 22.6 1.1E+02 0.0023 28.5 3.7 27 69-95 110-136 (822)
307 TIGR03185 DNA_S_dndD DNA sulfu 22.6 3.4E+02 0.0073 24.5 6.8 16 96-111 437-452 (650)
308 PRK10884 SH3 domain-containing 22.5 3.8E+02 0.0082 20.9 6.9 36 82-117 88-123 (206)
309 PF13747 DUF4164: Domain of un 22.4 2.6E+02 0.0055 18.9 6.0 24 74-97 2-25 (89)
310 PRK15488 thiosulfate reductase 22.3 1.1E+02 0.0025 27.9 3.8 26 70-95 111-136 (759)
311 cd04765 HTH_MlrA-like_sg2 Heli 22.2 1.1E+02 0.0025 20.7 3.0 13 76-88 59-71 (99)
312 cd02766 MopB_3 The MopB_3 CD i 22.0 1.2E+02 0.0025 26.4 3.7 38 58-95 50-92 (501)
313 cd02757 MopB_Arsenate-R This C 22.0 1E+02 0.0022 27.0 3.3 39 57-95 50-98 (523)
314 TIGR01010 BexC_CtrB_KpsE polys 22.0 2.2E+02 0.0049 23.4 5.2 24 80-103 170-193 (362)
315 cd07591 BAR_Rvs161p The Bin/Am 22.0 3.2E+02 0.0068 21.4 5.8 41 73-113 4-44 (224)
316 KOG4460 Nuclear pore complex, 21.8 3.6E+02 0.0077 25.0 6.6 42 83-124 605-646 (741)
317 PF15456 Uds1: Up-regulated Du 21.5 3.2E+02 0.0069 19.7 6.8 37 76-112 77-113 (124)
318 PF00038 Filament: Intermediat 21.5 3.3E+02 0.0072 21.7 6.0 45 73-117 181-225 (312)
319 KOG0977 Nuclear envelope prote 21.4 3.3E+02 0.0071 24.7 6.3 41 77-117 152-192 (546)
320 PF10392 COG5: Golgi transport 21.3 3.1E+02 0.0067 19.5 6.7 36 81-116 73-108 (132)
321 PRK14605 ruvA Holliday junctio 21.3 2.2E+02 0.0049 21.8 4.8 30 53-82 4-36 (194)
322 PF10241 KxDL: Uncharacterized 21.2 2.6E+02 0.0057 18.6 7.2 44 79-122 35-78 (88)
323 PF12732 YtxH: YtxH-like prote 21.2 2.3E+02 0.005 18.0 6.0 42 74-115 20-62 (74)
324 PF05276 SH3BP5: SH3 domain-bi 21.1 4.4E+02 0.0096 21.2 6.9 43 77-119 174-216 (239)
325 KOG3647 Predicted coiled-coil 21.1 3.3E+02 0.0071 22.9 5.8 52 74-125 106-164 (338)
326 PF04906 Tweety: Tweety; Inte 21.0 2.4E+02 0.0051 24.2 5.3 43 68-110 77-119 (406)
327 PRK00561 ppnK inorganic polyph 20.8 2.5E+02 0.0055 22.7 5.2 44 40-83 32-81 (259)
328 PF10018 Med4: Vitamin-D-recep 20.8 3.8E+02 0.0082 20.2 6.0 34 86-119 28-61 (188)
329 PTZ00464 SNF-7-like protein; P 20.7 3.2E+02 0.007 21.4 5.6 29 76-104 21-49 (211)
330 PHA02562 46 endonuclease subun 20.7 4.3E+02 0.0093 22.8 6.9 43 79-121 166-208 (562)
331 PF12757 DUF3812: Protein of u 20.6 1.1E+02 0.0023 22.1 2.6 11 44-54 59-69 (126)
332 TIGR01063 gyrA DNA gyrase, A s 20.5 3E+02 0.0066 25.9 6.2 42 76-117 408-450 (800)
333 PF00038 Filament: Intermediat 20.5 3.4E+02 0.0074 21.6 5.9 46 74-119 242-287 (312)
334 PRK09841 cryptic autophosphory 20.3 2.3E+02 0.0049 26.1 5.3 24 96-119 269-292 (726)
335 COG1345 FliD Flagellar capping 20.2 3.7E+02 0.0079 23.9 6.4 41 78-121 427-467 (483)
336 PHA02751 hypothetical protein; 20.2 2.6E+02 0.0056 22.0 4.8 64 44-107 125-198 (233)
337 TIGR01950 SoxR redox-sensitive 20.1 3.5E+02 0.0076 19.6 6.7 43 76-118 58-111 (142)
338 PF10146 zf-C4H2: Zinc finger- 20.1 4.5E+02 0.0098 20.9 6.9 31 89-119 41-71 (230)
No 1
>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=99.95 E-value=8.3e-27 Score=165.91 Aligned_cols=108 Identities=26% Similarity=0.472 Sum_probs=100.1
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
+-.++....+|..++++|+.+++ ..++.+++||+|+|+|++|+|+++++|+|+||+|||||+|.++|++|+++|++.++
T Consensus 12 ~~~l~~~~~e~~~~~~~l~~l~~-~~~~~~~lvplg~~~~v~g~i~~~~~vlV~lG~~~~vE~s~~eA~~~l~~r~~~l~ 90 (120)
T PF02996_consen 12 IEQLEEQIEEYEEAKETLEELKK-EKKEHEILVPLGSGVFVPGKIPDTDKVLVSLGAGYYVEMSLEEAIEFLKKRIKELE 90 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT---TT-EEEEEECTTEEEEEE-SSTTEEEEEEETTEEEEEEHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc-cCCCceeeecCCCCeEEEEEeCCCCEEEEEeeCCeEEEecHHHHHHHHHHHHHHHH
Confidence 55688899999999999999998 33688999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
+.++++++++..++++++.+...++++++
T Consensus 91 ~~~~~l~~~~~~~~~~~~~~~~~l~~~~~ 119 (120)
T PF02996_consen 91 EQLEKLEKELAELQAQIEQLEQTLQQLYQ 119 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999999999875
No 2
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. 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 structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=99.94 E-value=1.9e-25 Score=161.50 Aligned_cols=107 Identities=29% Similarity=0.463 Sum_probs=101.0
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
+=.++..+.+|..++++|+++++. .++.++|||+|+|+|++|+|+++++|+|+||+|||||+|.++|++|+++|++.|+
T Consensus 22 ~~~l~~~~~e~~~~~~~l~~l~~~-~~~~~~lvplg~~~~~~~~i~~~~~v~v~iG~g~~vE~~~~eA~~~l~~r~~~l~ 100 (129)
T cd00584 22 LARLNEAIAEYEQAKETLETLKKA-DEGKETLVPLGAGVFVKAKVKDTDKVLVDLGTGYYVEKDLEEAIEFLDKKIEELT 100 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcC-CCCCeEEEECCCCeEEeEEeCCCCEEEEEcCCCEEEEecHHHHHHHHHHHHHHHH
Confidence 446788899999999999999875 3688999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.++++++.+..++++++.+...+++++
T Consensus 101 ~~~~~l~~~l~~l~~~~~~~~~~l~~~~ 128 (129)
T cd00584 101 KQIEKLQKELAKLKDQINTLEAELQELQ 128 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999865
No 3
>PRK14011 prefoldin subunit alpha; Provisional
Probab=99.94 E-value=1.4e-25 Score=166.81 Aligned_cols=102 Identities=16% Similarity=0.236 Sum_probs=94.1
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
+=.++.++++|.+++++|+.+. ++.++|||||+|+||||+|.|+++|+|+||+|||||+|.++|++|+++|++.|+
T Consensus 26 i~~L~~a~~e~~~~ie~L~~l~----~~~eiLVPLg~s~yV~g~i~d~dkVlVdIGtGy~VEk~~~eA~~~~~~ri~~l~ 101 (144)
T PRK14011 26 LSSIDMMKMELLKSIESMEGLK----TSEEILIPLGPGAFLKAKIVDPDKAILGVGSDIYLEKDVSEVIEDFKKSVEELD 101 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHccC----CCCeEEEEcCCCcEEeEEecCCCeEEEEccCCeEEEecHHHHHHHHHHHHHHHH
Confidence 5678999999988888888655 367999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+..+++...+.+++.++..+...+++
T Consensus 102 ~~~~~l~~~i~~~~~~~~~l~~~L~~ 127 (144)
T PRK14011 102 KTKKEGNKKIEELNKEITKLRKELEK 127 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999866644
No 4
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=99.93 E-value=7e-25 Score=157.99 Aligned_cols=104 Identities=23% Similarity=0.388 Sum_probs=97.8
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
+-.++.++.+|..+.++|+.+++. .+.+++||+|+|+|++|+|+++++|+||||+|||||+|.++|++|+++|++.++
T Consensus 22 i~~l~~~i~e~~~~~~~L~~l~~~--~~~~~lv~lg~~~~v~~~v~~~~~v~v~iG~g~~vE~~~~eA~~~l~~~~~~l~ 99 (126)
T TIGR00293 22 IAALRALIAELETAIETLEDLKGA--EGKETLVPVGAGSFVKAKVKDTDKVLVSIGSGYYVEKDAEEAIEFLKKRIEELE 99 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccc--CCCeEEEEcCCCeEEEEEeCCCCEEEEEcCCCEEEEecHHHHHHHHHHHHHHHH
Confidence 556888899999999999999865 478999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+.++++++.+.+++++++.+...+++
T Consensus 100 ~~~~~l~~~l~~l~~~~~~i~~~l~~ 125 (126)
T TIGR00293 100 KAIEKLQEALAELASRAQQLEQEAQQ 125 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999999999988875
No 5
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=99.93 E-value=1.8e-24 Score=160.83 Aligned_cols=110 Identities=21% Similarity=0.356 Sum_probs=103.4
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
+-.++.++.++..++++|++++... ++.++|||+|+|+|++|+|.++++|+|+||+|||||++.++|++|+++|++.|+
T Consensus 29 i~~l~~~~~e~~~~~~tl~~lk~~~-~g~E~LVpvGag~fv~~kv~~~~kviV~iGsg~~ae~~~~eAie~l~k~~~~l~ 107 (145)
T COG1730 29 IAALNAAISELQTAIETLENLKGAG-EGKEVLVPVGAGLFVKAKVKDMDKVIVSIGSGYYAEKSADEAIEFLKKRIEELE 107 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC-CCceEEEEcCCCceEEEEeccCceEEEEcCCceeeeecHHHHHHHHHHHHHHHH
Confidence 5678999999999999999999876 377999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICELLQLP 124 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~ 124 (134)
+.++++++.+.++-.++..+...++++++-+
T Consensus 108 ~~~~~l~~~l~~l~~~~~~l~~~~q~~~q~~ 138 (145)
T COG1730 108 KAIEKLQQALAELAQRIEQLEQEAQQLQQKQ 138 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999876543
No 6
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=1.6e-24 Score=159.81 Aligned_cols=108 Identities=16% Similarity=0.265 Sum_probs=101.7
Q ss_pred HHHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHH
Q 032758 13 FYLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKI 92 (134)
Q Consensus 13 ~~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L 92 (134)
|+=.++.++.+|.+++++|+.++..+ +|.++|||++++.||||++.|++|++|+||+|||||++.++|++|++||++.|
T Consensus 35 Sl~~L~~aq~k~~~~~~aln~~~~~~-eGk~~LVPLTsSlYVPGkl~d~~k~lVDIGTGYyVEK~~e~akdyfkRKve~l 113 (153)
T KOG3048|consen 35 SLNALKGAQTKYEESIAALNDVQAAN-EGKKLLVPLTSSLYVPGKLSDNSKFLVDIGTGYYVEKDAEDAKDYFKRKVEYL 113 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccCC-CCCeEEEecccceeccceeccccceeEeccCceEEeechHHHHHHHHHHHHHH
Confidence 46678999999999999999988876 89999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 93 ARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 93 ~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
.+++++++..+.+++.....+++.+++-.
T Consensus 114 ~kq~e~i~~i~~eK~~~~~~v~~v~q~Kv 142 (153)
T KOG3048|consen 114 TKQIEQIEGILKEKTRTRASVMDVLQAKV 142 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999998887643
No 7
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=99.92 E-value=3.8e-24 Score=156.95 Aligned_cols=109 Identities=17% Similarity=0.375 Sum_probs=101.3
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
+-.++.+..+|..++++|+.+++.. ++.+++||+|+|+|++|+|+++++|+||||+|||||+|+++|++|+++|++.|+
T Consensus 29 ~~~l~~~~~e~~~~~e~l~~l~~~~-~~~e~lvplg~~~yv~~~v~~~~kV~v~lG~g~~vE~~~~eA~~~l~~~~~~l~ 107 (140)
T PRK03947 29 LEELQASINELDTAKETLEELKSKG-EGKETLVPIGAGSFVKAKVKDKDKVIVSLGAGYSAEKDLDEAIEILDKRKEELE 107 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccC-CCCeEEEEcCCCcEEEEEecCCCeEEEEcCCCEEEEecHHHHHHHHHHHHHHHH
Confidence 4567888889999999999988754 678999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+.++.+++.+..+++++..+...++++..-
T Consensus 108 ~~~~~l~~~l~~~~~~~~~~~~~l~~l~~~ 137 (140)
T PRK03947 108 KALEKLEEALQKLASRIAQLAQELQQLQQE 137 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999997643
No 8
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. 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 structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=99.91 E-value=3.2e-23 Score=148.50 Aligned_cols=107 Identities=24% Similarity=0.427 Sum_probs=101.4
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
+=.++....+|..++++|+.++... ++.++++|+|+++|++|+|+++++|+|+||+|||||+|.++|.+++++|++.++
T Consensus 22 ~~~l~~~~~e~~~~~~~l~~l~~~~-~~~~~l~~~g~~~~~~~~i~~~~~v~v~iG~~~~ve~~~~eA~~~l~~r~~~l~ 100 (129)
T cd00890 22 LQKLEAQLTEYEKAKETLETLKKAE-EEKELLVPLGAGLFVKAEVKDDDKVLVDLGTGVYVEKSLEEAIEFLKKRLETLE 100 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccC-CCCeEEEecCCceEEEEEECCCCEEEEEecCCEEEEecHHHHHHHHHHHHHHHH
Confidence 5678889999999999999999765 567899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.++++++.+..++++++.+...+++++
T Consensus 101 ~~~~~l~~~~~~~~~~~~~l~~~l~~~~ 128 (129)
T cd00890 101 KQIEKLEKQLEKLQDQITELQEELQQLQ 128 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999865
No 9
>PRK01203 prefoldin subunit alpha; Provisional
Probab=99.91 E-value=2.8e-23 Score=151.88 Aligned_cols=103 Identities=14% Similarity=0.204 Sum_probs=90.6
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
+=.++.++++|.++.++|+.++.. ++.++|||+|+|+||||+|.|+++|+|+||+|||||+|.++|+++++++++.|+
T Consensus 23 l~~L~~a~se~~~~ie~L~~~~~~--~~~eiLVPLg~slYV~gki~d~~kVlVdIGTGy~VEK~~e~kie~L~~~ie~Le 100 (130)
T PRK01203 23 IDSLNKTLSEVQQTISFLSDNELD--NSKELLISIGSGIFADGNIKKDKDLIVPIGSGVYIAEERERTIERLKENLEDLK 100 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHccccC--CCCeEEEEccCCceEeEEecCCCeEEEEcCCCeEEEecHHHHHHHHHHHHHHHH
Confidence 456889999999988888886533 478999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+.+...++.+..+.+++..+. |+++
T Consensus 101 ~~i~~K~~~l~~i~~~~~~l~--~~~~ 125 (130)
T PRK01203 101 DSIQKLNDQRKTLVDQYNTVY--ITEA 125 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHH
Confidence 998888888888888888776 5544
No 10
>KOG3047 consensus Predicted transcriptional regulator UXT [Transcription]
Probab=99.83 E-value=1.9e-19 Score=131.46 Aligned_cols=113 Identities=26% Similarity=0.375 Sum_probs=104.5
Q ss_pred HHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHH
Q 032758 17 YLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQI 96 (134)
Q Consensus 17 ~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~ 96 (134)
+...-++|.+++.+|+.|.+...+..+..+++||.+|+..+|+|+++|+|.+|.|||+|+++.+|++|++++.+.|.+.+
T Consensus 42 l~eQ~aeY~kLk~t~eRL~eaahkel~~ktdLGcnfFmdi~VpDTk~i~VaL~~~fflElkLadAiKf~DRK~dlLkel~ 121 (157)
T KOG3047|consen 42 LQEQCAEYAKLKFTCERLLEAAHKELEGKTDLGCNFFMDIEVPDTKHIVVALCDDFFLELKLADAIKFCDRKMDLLKELM 121 (157)
T ss_pred HHHHHHHHHHHHHHHHHHHHhchhhhhccccccceeeEeeecCCcceEEEEeecceeeeehHHHHHHHHHHhHHHHHHHH
Confidence 34556789999999999998877889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcc
Q 032758 97 DEYTRLIASIKAQIKLVCEGICELLQLPAETSV 129 (134)
Q Consensus 97 ~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~~~ 129 (134)
++|+++..++++.|.++...+..++..+--.+.
T Consensus 122 ekLqKdsmkiKa~ihMLLagl~elqg~~~f~ek 154 (157)
T KOG3047|consen 122 EKLQKDSMKIKADIHMLLAGLDELQGEPFFFEK 154 (157)
T ss_pred HHHHHhHHHHHHHHHHHHHhhhhhcCCccccCC
Confidence 999999999999999999999999887654433
No 11
>KOG3313 consensus Molecular chaperone Prefoldin, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=1.5e-14 Score=110.11 Aligned_cols=104 Identities=17% Similarity=0.309 Sum_probs=91.3
Q ss_pred HHhhHHHHHHHHHHhh---cCC--CCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHH
Q 032758 20 LNAGSSDLRKNIENLE---KNS--VTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIAR 94 (134)
Q Consensus 20 ~~~ey~el~~~I~~L~---~~~--~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~ 94 (134)
...+.++++++|+... +.. ++..++.+-+..|+|.+|.|+++++|.+|+|+++.+|++++||.++|++++....+
T Consensus 63 l~~kIPd~entLeiv~~l~~~~~~~~s~~t~f~lsd~vy~ka~V~~~~kV~LWLGAnVMlEY~leEAeaLLkknl~sa~k 142 (187)
T KOG3313|consen 63 LKTKIPDIENTLEIVQTLIAKKDEGESFETTFLLSDGVYTKASVPPTDKVYLWLGANVMLEYDLEEAEALLKKNLTSAVK 142 (187)
T ss_pred HHhhchHHHHHHHHHHHHHhCcccCcceeEEEEecccceeeeecCCcCeEEEEecceeEEEecHHHHHHHHHhhHHHHHH
Confidence 3344456666666544 443 33489999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 95 QIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 95 ~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
.++.+.+++..+++|++.++..++++++.
T Consensus 143 ~l~~~~~DldfLrdQvTTtEVN~ArvYNw 171 (187)
T KOG3313|consen 143 SLDVLEEDLDFLRDQVTTTEVNMARVYNW 171 (187)
T ss_pred HHHHHHHHHHHHHhhceeeeeeeeeeeec
Confidence 99999999999999999999999998876
No 12
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.25 E-value=1.6e-11 Score=103.77 Aligned_cols=104 Identities=16% Similarity=0.331 Sum_probs=96.6
Q ss_pred chHH-HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHH
Q 032758 10 DCFF-YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQR 88 (134)
Q Consensus 10 ~~~~-~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kr 88 (134)
-|.+ .=+|+..-..|+.+++.+.++.+.. ..++|||+|.-+|++|++..++.|+|.+|.|||.+++.-.|.+++++|
T Consensus 14 ~~~~ete~~~~v~~dye~~~erl~~~~kkL--s~~Imvpig~~a~mpG~lVhTNevtv~~g~nyf~~CS~h~A~~I~~~R 91 (514)
T KOG3130|consen 14 RLEVETECRKKVDNDYEALRERLSTLPKKL--SYNIMVPIGPFAFMPGKLVHTNEVTVLLGDNYFAKCSAHQAVGIVEHR 91 (514)
T ss_pred HhHHHHHHHHHHhhhHHHHHHHHHHhhhhc--ccceeeecccccccccceeeechhhhhhccchHhhhhHHHHHHHHHHH
Confidence 3555 6689999999999999999999887 789999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 89 EDKIARQIDEYTRLIASIKAQIKLVCE 115 (134)
Q Consensus 89 i~~L~~~~~~l~~~l~~ik~~i~~v~~ 115 (134)
.+..+++++++.+.+....++++..+.
T Consensus 92 ~~~~r~q~~~l~~~~~n~~~~vkf~~d 118 (514)
T KOG3130|consen 92 KEHVRKQIDDLKKVMKNFESRVKFTED 118 (514)
T ss_pred HHHHHHHHHHHHHHHHhhHHHhhhccc
Confidence 999999999999999998888877655
No 13
>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=98.20 E-value=1.3e-05 Score=56.74 Aligned_cols=78 Identities=19% Similarity=0.290 Sum_probs=63.7
Q ss_pred hHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 23 GSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRL 102 (134)
Q Consensus 23 ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~ 102 (134)
++.+.+.++++|...+ ++.+++-++|+ +||+.|.++|+..+++|++.++..++.+.+.
T Consensus 32 ~~~E~~~v~~eL~~l~-~d~~vyk~VG~---------------------vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~ 89 (110)
T TIGR02338 32 QLKEAEKALEELERLP-DDTPVYKSVGN---------------------LLVKTDKEEAIQELKEKKETLELRVKTLQRQ 89 (110)
T ss_pred HHHHHHHHHHHHHcCC-CcchhHHHhch---------------------hhheecHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666666543 44556666665 9999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhc
Q 032758 103 IASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 103 l~~ik~~i~~v~~~i~ql~~ 122 (134)
+..++.++..++..++++.+
T Consensus 90 ~~~l~~~l~e~q~~l~~~~~ 109 (110)
T TIGR02338 90 EERLREQLKELQEKIQEALA 109 (110)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 99999999999999988643
No 14
>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=98.01 E-value=3.4e-05 Score=54.03 Aligned_cols=50 Identities=20% Similarity=0.179 Sum_probs=48.1
Q ss_pred eEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 72 FHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 72 ~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+||+.|.++|...+++|++.++..++.+.+.+..+..++......|..++
T Consensus 55 vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~~ 104 (105)
T cd00632 55 VLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQAQ 104 (105)
T ss_pred HHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999998865
No 15
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=97.95 E-value=3.8e-06 Score=59.02 Aligned_cols=94 Identities=16% Similarity=0.268 Sum_probs=77.3
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIA 93 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~ 93 (134)
.-||++--+||+.|++-|+.++...+...+=+..++.++ .|.+.+.+.|=.-+|.+-.+++|.++++.++++|++.++
T Consensus 4 L~hWq~w~aEYe~LKEEi~~l~~~~~~~~e~l~~i~r~f--~g~lv~~kEi~~ilG~~~~i~Rt~~Qvv~~l~RRiDYV~ 81 (99)
T PF13758_consen 4 LYHWQTWEAEYEGLKEEIEALPEDDDATREDLLRIRRDF--GGSLVTEKEIKEILGEGQGITRTREQVVDVLSRRIDYVQ 81 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccCCCCHHHHHHHHHhc--CcccccHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHH
Confidence 459999999999999999999763223444455566554 377788888888899999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 032758 94 RQIDEYTRLIASIKAQ 109 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~ 109 (134)
++++.+++.+..-..+
T Consensus 82 ~Ni~tleKql~~aE~k 97 (99)
T PF13758_consen 82 QNIETLEKQLEAAENK 97 (99)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 9999999998765544
No 16
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=97.66 E-value=0.00043 Score=50.48 Aligned_cols=64 Identities=16% Similarity=0.270 Sum_probs=57.6
Q ss_pred CCCeeEEEecceeEEeecHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 60 DTQHIFVDIGLGFHVEFTWSEALK-------------FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 60 d~~kVlV~lG~g~~VE~~~~eA~~-------------~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+..+++|++|+|+||+.++.+..+ -++.-++.++++++.+.+.+..++.++..+...++++.+.
T Consensus 54 ~~~e~lvplg~~~yv~~~v~~~~kV~v~lG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~ 130 (140)
T PRK03947 54 EGKETLVPIGAGSFVKAKVKDKDKVIVSLGAGYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQE 130 (140)
T ss_pred CCCeEEEEcCCCcEEEEEecCCCeEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999977665 7799999999999999999999999999999988887654
No 17
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. 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 structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=97.64 E-value=0.00015 Score=51.50 Aligned_cols=61 Identities=16% Similarity=0.389 Sum_probs=55.5
Q ss_pred CCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 40 TSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 40 ~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
++.+++|++|+|+|+...+++. +..+++.+++++++++.+++.++++++.+..++..+...
T Consensus 67 ~~~~v~v~iG~~~~ve~~~~eA-------------~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~ 127 (129)
T cd00890 67 DDDKVLVDLGTGVYVEKSLEEA-------------IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQL 127 (129)
T ss_pred CCCEEEEEecCCEEEEecHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4668999999999999998875 578999999999999999999999999999999988764
No 18
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=97.52 E-value=0.00028 Score=50.47 Aligned_cols=64 Identities=16% Similarity=0.221 Sum_probs=58.5
Q ss_pred CCCeeEEEecceeEEeecHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 60 DTQHIFVDIGLGFHVEFTWSEAL-------------KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 60 d~~kVlV~lG~g~~VE~~~~eA~-------------~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+...++|++|+|.||+-+.++.. .-++.-++.++++++.+.+.+..+...+......+.++...
T Consensus 46 ~~~~~lv~lg~~~~v~~~v~~~~~v~v~iG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~ 122 (126)
T TIGR00293 46 EGKETLVPVGAGSFVKAKVKDTDKVLVSIGSGYYVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQLEQE 122 (126)
T ss_pred CCCeEEEEcCCCeEEEEEeCCCCEEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56889999999999999999887 67899999999999999999999999999999999887654
No 19
>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=97.35 E-value=0.0097 Score=40.68 Aligned_cols=57 Identities=16% Similarity=0.377 Sum_probs=49.5
Q ss_pred CeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 62 QHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 62 ~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
.+|+..|| +.||+.|.+++.+.++++++.++..++++.+.+..+..++......+.+
T Consensus 45 ~~~y~~vG-~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~ 101 (106)
T PF01920_consen 45 RKVYKSVG-KMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYE 101 (106)
T ss_dssp -EEEEEET-TEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred chhHHHHh-HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555554 5699999999999999999999999999999999999999998887765
No 20
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. 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 structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=97.13 E-value=0.0017 Score=46.54 Aligned_cols=59 Identities=15% Similarity=0.379 Sum_probs=41.4
Q ss_pred CeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 41 SLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKL 112 (134)
Q Consensus 41 ~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~ 112 (134)
..+++||+|+|+|+...+++.. ..++.-++.++++++.+++.+.++++.+..+...+..
T Consensus 68 ~~~v~v~iG~g~~vE~~~~eA~-------------~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~ 126 (129)
T cd00584 68 TDKVLVDLGTGYYVEKDLEEAI-------------EFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQE 126 (129)
T ss_pred CCEEEEEcCCCEEEEecHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777777777777776644 4567777777777777777777777777777766654
No 21
>PRK01203 prefoldin subunit alpha; Provisional
Probab=96.95 E-value=0.0035 Score=46.11 Aligned_cols=63 Identities=10% Similarity=0.237 Sum_probs=56.8
Q ss_pred cCCCeeEEEecceeEEeecHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 59 PDTQHIFVDIGLGFHVEFTWSEALK-------------FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 59 ~d~~kVlV~lG~g~~VE~~~~eA~~-------------~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
++.+.|+|++|+|.||-=.+.+..+ -++++++.|+++++++++.+..++++++.+...+++|.
T Consensus 46 ~~~~eiLVPLg~slYV~gki~d~~kVlVdIGTGy~VEK~~e~kie~L~~~ie~Le~~i~~K~~~l~~i~~~~~~l~ 121 (130)
T PRK01203 46 DNSKELLISIGSGIFADGNIKKDKDLIVPIGSGVYIAEERERTIERLKENLEDLKDSIQKLNDQRKTLVDQYNTVY 121 (130)
T ss_pred CCCCeEEEEccCCceEeEEecCCCeEEEEcCCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3568899999999999988777665 46889999999999999999999999999999999976
No 22
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=96.66 E-value=0.0068 Score=45.34 Aligned_cols=64 Identities=19% Similarity=0.312 Sum_probs=57.1
Q ss_pred CeeEEEecceeEEeecHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 032758 62 QHIFVDIGLGFHVEFTWSE-------------ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPA 125 (134)
Q Consensus 62 ~kVlV~lG~g~~VE~~~~e-------------A~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~ 125 (134)
..++|+||+|.||.-...+ |.+-++.=++.|++++++|.+.+.++++.+..+...+.++.+..+
T Consensus 56 ~E~LVpvGag~fv~~kv~~~~kviV~iGsg~~ae~~~~eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q 132 (145)
T COG1730 56 KEVLVPVGAGLFVKAKVKDMDKVIVSIGSGYYAEKSADEAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQ 132 (145)
T ss_pred ceEEEEcCCCceEEEEeccCceEEEEcCCceeeeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3899999999999988877 677889999999999999999999999999999999988876643
No 23
>PRK09343 prefoldin subunit beta; Provisional
Probab=96.48 E-value=0.018 Score=41.45 Aligned_cols=63 Identities=16% Similarity=0.246 Sum_probs=54.2
Q ss_pred CCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 60 DTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 60 d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+..+|+-.|| .+||..|.++|++-+++|++.++..++.+.+....++.++...+..++++.+-
T Consensus 52 ~d~~VYk~VG-~vlv~qd~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~~ 114 (121)
T PRK09343 52 DDTPIYKIVG-NLLVKVDKTKVEKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLSK 114 (121)
T ss_pred CcchhHHHhh-HHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445556666 47788899999999999999999999999999999999999999999887654
No 24
>PRK14011 prefoldin subunit alpha; Provisional
Probab=96.32 E-value=0.028 Score=41.92 Aligned_cols=64 Identities=14% Similarity=0.220 Sum_probs=48.2
Q ss_pred CCCeeEEEecceeEEeecHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 60 DTQHIFVDIGLGFHVEFTWSEALK-------------FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 60 d~~kVlV~lG~g~~VE~~~~eA~~-------------~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+...++|+||+|.||--.+.+..+ -+++=++.++++++.+++....+...+......++++...
T Consensus 48 ~~~eiLVPLg~s~yV~g~i~d~dkVlVdIGtGy~VEk~~~eA~~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~ 124 (144)
T PRK14011 48 TSEEILIPLGPGAFLKAKIVDPDKAILGVGSDIYLEKDVSEVIEDFKKSVEELDKTKKEGNKKIEELNKEITKLRKE 124 (144)
T ss_pred CCCeEEEEcCCCcEEeEEecCCCeEEEEccCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357788888888888877776544 4567777888888888888888888888887777776643
No 25
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=95.97 E-value=0.014 Score=42.33 Aligned_cols=60 Identities=13% Similarity=0.269 Sum_probs=52.6
Q ss_pred eeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 63 HIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 63 kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
.|+=.|| +++|..+.++|.+=+++|.+.|+.+++.|++....++.++..+...|+...+-
T Consensus 54 ~vYk~VG-~llvk~~k~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~ 113 (119)
T COG1382 54 PVYKKVG-NLLVKVSKEEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKALGD 113 (119)
T ss_pred HHHHHhh-hHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4555566 57888999999999999999999999999999999999999999999886543
No 26
>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=95.24 E-value=0.057 Score=37.81 Aligned_cols=62 Identities=16% Similarity=0.255 Sum_probs=28.3
Q ss_pred cCCCeeEEEecceeEEeecHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 59 PDTQHIFVDIGLGFHVEFTWSEALK-------------FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 59 ~d~~kVlV~lG~g~~VE~~~~eA~~-------------~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+....++|++|+|.||.-.+.+..+ -++.=++.++++++.+++.+..++.++..+...+..+
T Consensus 36 ~~~~~~lvplg~~~~v~g~i~~~~~vlV~lG~~~~vE~s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~ 110 (120)
T PF02996_consen 36 KKEHEILVPLGSGVFVPGKIPDTDKVLVSLGAGYYVEMSLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQL 110 (120)
T ss_dssp -TT-EEEEEECTTEEEEEE-SSTTEEEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred CCCceeeecCCCCeEEEEEeCCCCEEEEEeeCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555555544433322 2344455555555555555555555555555444443
No 27
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=91.55 E-value=0.77 Score=33.09 Aligned_cols=54 Identities=19% Similarity=0.195 Sum_probs=48.3
Q ss_pred eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032758 71 GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLP 124 (134)
Q Consensus 71 g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~ 124 (134)
.+.|.-+.+||..-+.+|++++...+..+.+.+..+..+....-+.+.++++..
T Consensus 60 pvLvkqel~EAr~nV~kRlefI~~Eikr~e~~i~d~q~e~~k~R~~v~k~Q~~~ 113 (120)
T KOG3478|consen 60 PVLVKQELEEARTNVGKRLEFISKEIKRLENQIRDSQEEFEKQREAVIKLQQAA 113 (120)
T ss_pred chhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467888999999999999999999999999999999999988888888877653
No 28
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=87.37 E-value=3.2 Score=30.31 Aligned_cols=44 Identities=27% Similarity=0.442 Sum_probs=30.5
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
++..|+++|..||+.+..++++.......+++++..+..-+.++
T Consensus 58 ~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i 101 (126)
T PF07889_consen 58 SLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQI 101 (126)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 45677888888888888777777766666666666665555443
No 29
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=86.66 E-value=3.3 Score=35.25 Aligned_cols=52 Identities=19% Similarity=0.321 Sum_probs=41.4
Q ss_pred eEEeecHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHhcC
Q 032758 72 FHVEFTWSEALKFISQREDKIARQIDEYTRL----------IASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 72 ~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~----------l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+++|.+.+++.+.++.+++.+++.++++... +.+++.++......+++++.+
T Consensus 234 ~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~~~~~~~ 295 (406)
T PF02388_consen 234 FLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRIEEAEEL 295 (406)
T ss_dssp EEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999999998888775 666666677777766666554
No 30
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=85.61 E-value=6.9 Score=27.35 Aligned_cols=66 Identities=11% Similarity=0.209 Sum_probs=48.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHH
Q 032758 12 FFYLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALK 83 (134)
Q Consensus 12 ~~~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~ 83 (134)
|++|-+|-.+++-.+-++-+++|.+.. ++ -.++|++-...-.+.+.+.|.+|.|..+....+.-..
T Consensus 22 fyFli~RPQrKr~K~~~~ml~sL~kGD----~V--vT~gGi~G~V~~v~d~~v~I~l~~~~~i~~~k~aI~~ 87 (97)
T COG1862 22 FYFLIIRPQRKRMKEHQELLNSLKKGD----EV--VTIGGIVGTVTKVGDDTVEIELGDGTKIKFEKEAIAT 87 (97)
T ss_pred HHHhhcCHHHHHHHHHHHHHHhccCCC----EE--EEcCCeEEEEEEEecCcEEEEECCCeEEEEEHHHHHh
Confidence 457788999999888888888888654 33 2456666665555555599999999999887665443
No 31
>PRK00736 hypothetical protein; Provisional
Probab=85.57 E-value=7.6 Score=25.17 Aligned_cols=43 Identities=9% Similarity=0.159 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.-..|.++-++.|++.+-.-++.|..++.++..+.+.+....
T Consensus 11 E~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 11 EIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLE 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3445556666666666666666666666666666666665543
No 32
>PRK00295 hypothetical protein; Provisional
Probab=84.27 E-value=9 Score=24.83 Aligned_cols=44 Identities=14% Similarity=0.191 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
++.-..|.++-++.|++.+-.-++.+..++.++..+...+..+.
T Consensus 10 LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 10 LESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34455666666667777666667777777777777766666654
No 33
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=84.25 E-value=5.3 Score=25.85 Aligned_cols=44 Identities=23% Similarity=0.327 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
++....|.++-++.|++.+-.-++.+..++.+++.+...++.+.
T Consensus 9 LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 9 LEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45566777788888888888888888888888888877777755
No 34
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=83.24 E-value=8.8 Score=27.05 Aligned_cols=67 Identities=9% Similarity=0.196 Sum_probs=46.0
Q ss_pred hHHHHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHH
Q 032758 11 CFFYLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALK 83 (134)
Q Consensus 11 ~~~~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~ 83 (134)
+|+++.+|....+=.+.++.+++|+... ++ =..+|+|-...=.+.+.|.+.++.|..++.....-..
T Consensus 30 i~yf~~~RpqkK~~k~~~~~~~~Lk~Gd----~V--vT~gGi~G~Vv~i~~~~v~lei~~g~~i~~~r~aI~~ 96 (106)
T PRK05585 30 IFYFLIIRPQQKRQKEHKKMLSSLAKGD----EV--VTNGGIIGKVTKVSEDFVIIELNDDTEIKIQKSAIAA 96 (106)
T ss_pred HHHHHhccHHHHHHHHHHHHHHhcCCCC----EE--EECCCeEEEEEEEeCCEEEEEECCCeEEEEEhHHhhh
Confidence 4445666777777777777777777553 33 3577888774433458999999999988887654333
No 35
>PRK09343 prefoldin subunit beta; Provisional
Probab=81.96 E-value=6.4 Score=28.15 Aligned_cols=82 Identities=17% Similarity=0.258 Sum_probs=62.5
Q ss_pred HhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 21 NAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYT 100 (134)
Q Consensus 21 ~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~ 100 (134)
..++.+++.+++.|...+ ++..++-.+|. +||+...++ +..++++-++|++.+++.++++.+.++
T Consensus 34 e~q~~e~~~~~~EL~~L~-~d~~VYk~VG~-vlv~qd~~e-------------~~~~l~~r~E~ie~~ik~lekq~~~l~ 98 (121)
T PRK09343 34 DLELREINKALEELEKLP-DDTPIYKIVGN-LLVKVDKTK-------------VEKELKERKELLELRSRTLEKQEKKLR 98 (121)
T ss_pred HHHHHHHHHHHHHHHcCC-CcchhHHHhhH-HHhhccHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334556677777777654 45567766664 666665554 345789999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHH
Q 032758 101 RLIASIKAQIKLVCEGI 117 (134)
Q Consensus 101 ~~l~~ik~~i~~v~~~i 117 (134)
+.+.+.+.++..+....
T Consensus 99 ~~l~e~q~~l~~ll~~~ 115 (121)
T PRK09343 99 EKLKELQAKINEMLSKY 115 (121)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 99999999998877654
No 36
>KOG4098 consensus Molecular chaperone Prefoldin, subunit 2 [Posttranslational modification, protein turnover, chaperones]
Probab=81.08 E-value=5.7 Score=29.48 Aligned_cols=46 Identities=20% Similarity=0.241 Sum_probs=41.6
Q ss_pred ceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 70 LGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCE 115 (134)
Q Consensus 70 ~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~ 115 (134)
.|+.||+|..+-.=.+....+.++..+..+.+++.++...++.+..
T Consensus 69 gGvLVErTVkeVlP~L~~nke~i~~~i~~l~~qL~~k~kElnkfk~ 114 (140)
T KOG4098|consen 69 GGVLVERTVKEVLPILQTNKENIEKVIKKLTDQLVQKGKELNKFKK 114 (140)
T ss_pred ccchhhhhHHHHhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4899999999999999999999999999999999998888876654
No 37
>PRK00295 hypothetical protein; Provisional
Probab=80.24 E-value=13 Score=24.02 Aligned_cols=46 Identities=11% Similarity=0.169 Sum_probs=37.1
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+|+++-+.-|+-|+.+.+..++.|++.+.+-..+|..+...++.|.
T Consensus 1 ~~~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~ 46 (68)
T PRK00295 1 MSLEERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALI 46 (68)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567778888888888888999999998888888888777776553
No 38
>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=80.11 E-value=5.8 Score=25.03 Aligned_cols=34 Identities=12% Similarity=0.203 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+.++..++..+..++++..+++..+..+.+.++.
T Consensus 6 En~~~~~~~~i~tvk~en~~i~~~ve~i~envk~ 39 (55)
T PF05377_consen 6 ENELPRIESSINTVKKENEEISESVEKIEENVKD 39 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444444444443
No 39
>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=78.91 E-value=7.7 Score=27.06 Aligned_cols=78 Identities=13% Similarity=0.115 Sum_probs=52.3
Q ss_pred HHHHHHhhHHHHHHHHHHhhcCC---CCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHH
Q 032758 16 VYLTLNAGSSDLRKNIENLEKNS---VTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKI 92 (134)
Q Consensus 16 ~~~~~~~ey~el~~~I~~L~~~~---~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L 92 (134)
.+.....|..-..+.|+.+++.. ..-..++|.-.-. . +--++++=+++++.+++.+
T Consensus 28 ~le~~~~E~~~v~~eL~~l~~d~~vyk~VG~vlv~~~~~-----------e----------~~~~l~~r~e~ie~~i~~l 86 (110)
T TIGR02338 28 QVEAQLKEAEKALEELERLPDDTPVYKSVGNLLVKTDKE-----------E----------AIQELKEKKETLELRVKTL 86 (110)
T ss_pred HHHHHHHHHHHHHHHHHcCCCcchhHHHhchhhheecHH-----------H----------HHHHHHHHHHHHHHHHHHH
Confidence 45666777777777777776543 0011245543211 1 1235677788889999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032758 93 ARQIDEYTRLIASIKAQIKLVC 114 (134)
Q Consensus 93 ~~~~~~l~~~l~~ik~~i~~v~ 114 (134)
+++.+.+++.+.+++++++.+.
T Consensus 87 ek~~~~l~~~l~e~q~~l~~~~ 108 (110)
T TIGR02338 87 QRQEERLREQLKELQEKIQEAL 108 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999998887654
No 40
>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=78.62 E-value=8.8 Score=26.44 Aligned_cols=77 Identities=18% Similarity=0.286 Sum_probs=58.8
Q ss_pred hHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 23 GSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRL 102 (134)
Q Consensus 23 ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~ 102 (134)
+..+.+.+++.|.... ++..++.++|. +||...+++ +.-.+++-+++++.+++.++++++.+.+.
T Consensus 28 ~~~E~~~v~~EL~~l~-~d~~vy~~VG~-vfv~~~~~e-------------a~~~Le~~~e~le~~i~~l~~~~~~l~~~ 92 (105)
T cd00632 28 QLNENKKALEELEKLA-DDAEVYKLVGN-VLVKQEKEE-------------ARTELKERLETIELRIKRLERQEEDLQEK 92 (105)
T ss_pred HHHHHHHHHHHHHcCC-CcchHHHHhhh-HHhhccHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666543 45567777775 777766655 45678999999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 032758 103 IASIKAQIKLVC 114 (134)
Q Consensus 103 l~~ik~~i~~v~ 114 (134)
+..++.++..+.
T Consensus 93 ~~elk~~l~~~~ 104 (105)
T cd00632 93 LKELQEKIQQAQ 104 (105)
T ss_pred HHHHHHHHHHHh
Confidence 999999987653
No 41
>PF14282 FlxA: FlxA-like protein
Probab=78.30 E-value=11 Score=26.42 Aligned_cols=46 Identities=17% Similarity=0.306 Sum_probs=31.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHhc
Q 032758 77 TWSEALKFISQREDKIARQIDEYTR-----------LIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~-----------~l~~ik~~i~~v~~~i~ql~~ 122 (134)
+.+.-++-|.++|..|.+++..|.. .+..++++|..+...|++++.
T Consensus 16 ~~~~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~ 72 (106)
T PF14282_consen 16 SSDSQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQS 72 (106)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478888899999999998888877 233444555555555555443
No 42
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=78.09 E-value=14 Score=27.14 Aligned_cols=47 Identities=11% Similarity=0.275 Sum_probs=37.5
Q ss_pred eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 71 GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 71 g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
++|+-++.+.....++...+.+.+.++.+..++..+.+++..+...+
T Consensus 72 dvF~~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~~L 118 (131)
T KOG1760|consen 72 DVFIHVKLDKLQDQLEEKKETLEKEIEELESELESISARMDELKKVL 118 (131)
T ss_pred hhheeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777888888888888888888888888888888888777666544
No 43
>PRK00736 hypothetical protein; Provisional
Probab=77.83 E-value=16 Score=23.62 Aligned_cols=46 Identities=15% Similarity=0.154 Sum_probs=38.0
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+|.++-+.-|+-|+.+.+..++.|++.+..-..+|..+...++.|.
T Consensus 1 ~~~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~ 46 (68)
T PRK00736 1 MDAEERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALT 46 (68)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677788888999999999999999999888888887777776653
No 44
>PRK04406 hypothetical protein; Provisional
Probab=77.81 E-value=17 Score=24.09 Aligned_cols=43 Identities=19% Similarity=0.273 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.-..|.++-++.|++.+-.-++.+..++.++..+.+.+..+.
T Consensus 17 E~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 59 (75)
T PRK04406 17 ECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMD 59 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3344555566666666666666666666666666666555543
No 45
>PRK02119 hypothetical protein; Provisional
Probab=77.15 E-value=18 Score=23.77 Aligned_cols=44 Identities=9% Similarity=0.226 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
++.-..|.++-++.|++.+-.-++.+..++.++..+.+.+..+.
T Consensus 14 LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~ 57 (73)
T PRK02119 14 LEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQ 57 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34455666777777777777777777777777777766666644
No 46
>PRK02793 phi X174 lysis protein; Provisional
Probab=76.91 E-value=18 Score=23.66 Aligned_cols=43 Identities=12% Similarity=0.200 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.-..|.++-++.|++.+-.-++.+..++.+++.+...+..+.
T Consensus 14 E~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 56 (72)
T PRK02793 14 ESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQ 56 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4445566666666666666666666666777666666666544
No 47
>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=75.82 E-value=14 Score=23.37 Aligned_cols=34 Identities=12% Similarity=0.170 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 84 FISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 84 ~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
-++..+..++++.+.+++++..+++.++.+....
T Consensus 11 ~~~~~i~tvk~en~~i~~~ve~i~envk~ll~lY 44 (55)
T PF05377_consen 11 RIESSINTVKKENEEISESVEKIEENVKDLLSLY 44 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444566666666666666666666666555443
No 48
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=75.06 E-value=14 Score=26.81 Aligned_cols=83 Identities=14% Similarity=0.225 Sum_probs=57.8
Q ss_pred HHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHH
Q 032758 18 LTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQID 97 (134)
Q Consensus 18 ~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~ 97 (134)
.+.-....+...+++.|.... .+-+++=.+| +++|+..= ++ |--.+++=.++++.|++.|+++.+
T Consensus 30 ~~le~qL~E~~~al~Ele~l~-eD~~vYk~VG-~llvk~~k---~~----------~~~eL~er~E~Le~ri~tLekQe~ 94 (119)
T COG1382 30 QQLEAQLKEIEKALEELEKLD-EDAPVYKKVG-NLLVKVSK---EE----------AVDELEERKETLELRIKTLEKQEE 94 (119)
T ss_pred HHHHHHHHHHHHHHHHHhcCC-cccHHHHHhh-hHHhhhhH---HH----------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445567777777777654 3333333333 45555532 22 335789999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032758 98 EYTRLIASIKAQIKLVCE 115 (134)
Q Consensus 98 ~l~~~l~~ik~~i~~v~~ 115 (134)
+++..+.++++.|.....
T Consensus 95 ~l~e~l~eLq~~i~~~l~ 112 (119)
T COG1382 95 KLQERLEELQSEIQKALG 112 (119)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 999999999999876554
No 49
>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=74.57 E-value=22 Score=24.55 Aligned_cols=39 Identities=10% Similarity=0.230 Sum_probs=19.9
Q ss_pred ecHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ----------REDKIARQIDEYTRLIASIKAQIKLVC 114 (134)
Q Consensus 76 ~~~~eA~~~l~k----------ri~~L~~~~~~l~~~l~~ik~~i~~v~ 114 (134)
+|+++..++++. +...|.++++.+..+++.++..+..+.
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (113)
T cd01109 58 MSIKDIKEYAELRREGDSTIPERLELLEEHREELEEQIAELQETLAYLD 106 (113)
T ss_pred CCHHHHHHHHHHHccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777777652 334444444444444444444444433
No 50
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=74.00 E-value=29 Score=24.73 Aligned_cols=61 Identities=11% Similarity=0.053 Sum_probs=42.0
Q ss_pred HHHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHH
Q 032758 13 FYLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWS 79 (134)
Q Consensus 13 ~~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~ 79 (134)
+|+..|..+.+-.+-++.+++|++.. ++ =-++|+|-...=.+.+.|.|.++.|..+.....
T Consensus 18 yF~~iRPQkKr~K~~~~m~~~Lk~GD----~V--vT~gGi~G~V~~I~d~~v~leia~gv~i~~~r~ 78 (109)
T PRK05886 18 MYFASRRQRKAMQATIDLHESLQPGD----RV--HTTSGLQATIVGITDDTVDLEIAPGVVTTWMKL 78 (109)
T ss_pred HHHHccHHHHHHHHHHHHHHhcCCCC----EE--EECCCeEEEEEEEeCCEEEEEECCCeEEEEEhh
Confidence 45667777777777777888877553 33 246777766432345789999999988876544
No 51
>PRK04325 hypothetical protein; Provisional
Probab=73.86 E-value=22 Score=23.32 Aligned_cols=44 Identities=14% Similarity=0.220 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
++.-..|.++-++.|++.+-.-++.+..++.+++.+...+..+.
T Consensus 14 LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~ 57 (74)
T PRK04325 14 LEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDAN 57 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455666666777777777777777777777777766666644
No 52
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=73.36 E-value=25 Score=23.64 Aligned_cols=63 Identities=14% Similarity=0.218 Sum_probs=44.1
Q ss_pred hHHHHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecHH
Q 032758 11 CFFYLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWS 79 (134)
Q Consensus 11 ~~~~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~~ 79 (134)
+|+++.+|....+-.+-++-+++|++.. ++ =..+|+|-...=.+.+.+.+.++.|..++.+..
T Consensus 15 i~yf~~~rpqkK~~k~~~~m~~~L~~Gd----~V--vT~gGi~G~V~~i~d~~v~vei~~g~~i~~~r~ 77 (84)
T TIGR00739 15 IFYFLIIRPQRKRRKAHKKLIESLKKGD----KV--LTIGGIIGTVTKIAENTIVIELNDNTEITFSKN 77 (84)
T ss_pred HHHHheechHHHHHHHHHHHHHhCCCCC----EE--EECCCeEEEEEEEeCCEEEEEECCCeEEEEEhH
Confidence 4456667777777777777777777543 33 356778776553455889999999988877654
No 53
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=72.93 E-value=22 Score=22.86 Aligned_cols=48 Identities=13% Similarity=0.093 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPA 125 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~ 125 (134)
+++.+.-++-|+...+..++.|++.+..-..+|..+...++.|..-.+
T Consensus 2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~ 49 (69)
T PF04102_consen 2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLR 49 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677788888888888888888888888888888888877765533
No 54
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=72.43 E-value=11 Score=22.97 Aligned_cols=33 Identities=24% Similarity=0.443 Sum_probs=11.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQ 109 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~ 109 (134)
+..||+++|..--+.++..++.+..+++.+++.
T Consensus 2 d~~EAkelLqe~~d~IEqkiedid~qIaeLe~K 34 (46)
T PF08946_consen 2 DRAEAKELLQEHYDNIEQKIEDIDEQIAELEAK 34 (46)
T ss_dssp -------------THHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHhHHHhHHHHHHHHHHHHHH
Confidence 345677766666666666666666555555544
No 55
>PF13118 DUF3972: Protein of unknown function (DUF3972)
Probab=71.84 E-value=6.9 Score=28.67 Aligned_cols=76 Identities=17% Similarity=0.107 Sum_probs=45.1
Q ss_pred CCeeEEEecCCceeEEEEecCCCeeEEEec------ceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 40 TSLRTLVNLGSEVYMQADVPDTQHIFVDIG------LGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 40 ~~~eilVplG~~~yv~a~I~d~~kVlV~lG------~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
++..+++++++|.- +-++...+-+++-- ...|||+++..-...-++=+....+.+..+.++-..+|..+-.+
T Consensus 27 e~g~~~Ie~~~g~~--~~v~~~~~~~~~~~~~~~~~~~~fvEKTi~til~LheKvl~aKdETI~~lk~EN~fLKeAl~s~ 104 (126)
T PF13118_consen 27 EDGKIYIEASSGTK--ALVPKAENELVSMNMSSHALDPMFVEKTIGTILNLHEKVLDAKDETIEALKNENRFLKEALYSM 104 (126)
T ss_pred cCCeEEEEcCcchH--HHhhHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 46689999999852 33332222221111 12499999777666666666666666666666665555555554
Q ss_pred HHHH
Q 032758 114 CEGI 117 (134)
Q Consensus 114 ~~~i 117 (134)
++..
T Consensus 105 QE~y 108 (126)
T PF13118_consen 105 QELY 108 (126)
T ss_pred HHHH
Confidence 4443
No 56
>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=70.56 E-value=14 Score=25.77 Aligned_cols=37 Identities=22% Similarity=0.404 Sum_probs=22.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
+.++..++++.+.+.++++++.++...+.+...+..+
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (116)
T cd04769 76 PWPHLQQALEDKKQEIRAQITELQQLLARLDAFEASL 112 (116)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455566666666666666666666655555554443
No 57
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=70.06 E-value=27 Score=24.93 Aligned_cols=27 Identities=19% Similarity=0.225 Sum_probs=20.1
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQIDEYTR 101 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~~~~l~~ 101 (134)
|++.++|..|++.=++..+..-..+..
T Consensus 38 eln~eEak~~vddl~~q~k~~~~e~e~ 64 (108)
T COG3937 38 ELNAEEAKRFVDDLLRQAKEAQGELEE 64 (108)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 578999999999888777765444443
No 58
>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=69.87 E-value=17 Score=22.30 Aligned_cols=26 Identities=19% Similarity=0.360 Sum_probs=13.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRL 102 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~ 102 (134)
+++++...++.+.+.++++++.+++.
T Consensus 33 ~~~~~~~~l~~~~~~i~~~i~~L~~~ 58 (65)
T PF09278_consen 33 PCADRRALLEEKLEEIEEQIAELQAL 58 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555443
No 59
>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=68.81 E-value=27 Score=22.10 Aligned_cols=50 Identities=10% Similarity=0.150 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCc
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETS 128 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~~ 128 (134)
..-+.-++++++.++...++++.++..++..-..++...+...++...++
T Consensus 23 ~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR~~lgm~~~~E 72 (80)
T PF04977_consen 23 NQEIAELQKEIEELKKENEELKEEIERLKNDPDYIEKVAREKLGMVKPGE 72 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcCCcCCCC
Confidence 33444455555555555555555555554444445555554455544443
No 60
>PRK02793 phi X174 lysis protein; Provisional
Probab=67.91 E-value=31 Score=22.52 Aligned_cols=45 Identities=11% Similarity=0.084 Sum_probs=32.9
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.++-+.-|+-|+.+.+..++.|++.+..-+.+|..+...++.|.
T Consensus 5 ~~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~ 49 (72)
T PRK02793 5 SLEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLT 49 (72)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666677777777788888888888888877777776666553
No 61
>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=66.68 E-value=19 Score=24.52 Aligned_cols=43 Identities=7% Similarity=0.109 Sum_probs=23.5
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
-+|++++.++++... .+..+.+.+....+.+++..+...++.|
T Consensus 57 g~~l~~i~~~~~~~~---~~~~~~l~~~~~~l~~~i~~l~~~~~~l 99 (103)
T cd01106 57 GFSLKEIKELLKDPS---EDLLEALREQKELLEEKKERLDKLIKTI 99 (103)
T ss_pred CCCHHHHHHHHHcCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478888888886653 3334444444444444454444444443
No 62
>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=65.48 E-value=30 Score=24.39 Aligned_cols=28 Identities=18% Similarity=0.267 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 83 KFISQREDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~~~l~~ik~~i 110 (134)
..++.++..|+.+++.+++.++.+...+
T Consensus 83 ~~l~~~~~~l~~~~~~l~~~~~~L~~~~ 110 (118)
T cd04776 83 EKIEKRRAELEQQRRDIDAALAELDAAE 110 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444433333333
No 63
>PRK04325 hypothetical protein; Provisional
Probab=63.14 E-value=40 Score=22.10 Aligned_cols=43 Identities=12% Similarity=0.091 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+++-+.-|+-|+.+.+..++.|++.+.+-..+|..+...++.|
T Consensus 7 ~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L 49 (74)
T PRK04325 7 MEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLL 49 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666777777777778888888777777776666666544
No 64
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.56 E-value=22 Score=28.23 Aligned_cols=36 Identities=22% Similarity=0.416 Sum_probs=31.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKL 112 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~ 112 (134)
++.+|+.-+++|-+.++++|.+|..++.+.+.+|.-
T Consensus 16 sL~dai~~v~~r~dSve~KIskLDaeL~k~~~Qi~k 51 (218)
T KOG1655|consen 16 SLQDAIDSVNKRSDSVEKKISKLDAELCKYKDQIKK 51 (218)
T ss_pred hHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHh
Confidence 578999999999999999999999999988888753
No 65
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=61.82 E-value=47 Score=22.44 Aligned_cols=34 Identities=12% Similarity=0.230 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
...++..|+++++.++.++..+++++......+.
T Consensus 68 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~ 101 (104)
T PF13600_consen 68 DSPELKELEEELEALEDELAALQDEIQALEAQIA 101 (104)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666666666666666655555544
No 66
>PRK00846 hypothetical protein; Provisional
Probab=61.35 E-value=46 Score=22.25 Aligned_cols=43 Identities=14% Similarity=0.127 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.-..|-++-++.|++.+-..++.+..++.++..+.+.+..+.
T Consensus 19 E~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~ 61 (77)
T PRK00846 19 ETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3344556666666666666666677777777777766666654
No 67
>PRK04406 hypothetical protein; Provisional
Probab=60.67 E-value=46 Score=21.96 Aligned_cols=41 Identities=10% Similarity=0.078 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+-+.-|+-|+.+.+..++.|++.+..-+.+|..+...++.|
T Consensus 11 ~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L 51 (75)
T PRK04406 11 ERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYV 51 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555566666666677776666666666666666544
No 68
>KOG3501 consensus Molecular chaperone Prefoldin, subunit 1 [Posttranslational modification, protein turnover, chaperones]
Probab=60.29 E-value=49 Score=23.68 Aligned_cols=65 Identities=12% Similarity=0.211 Sum_probs=51.0
Q ss_pred CCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 032758 60 DTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPA 125 (134)
Q Consensus 60 d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~ 125 (134)
|.+.|+-++|-=|.. -|..--+..++.+.+..++.++.|++.-..+...+..++..++++.+..+
T Consensus 48 de~~~Y~svgrmF~l-~dk~a~~s~leak~k~see~IeaLqkkK~YlEk~v~eaE~nLrellqs~~ 112 (114)
T KOG3501|consen 48 DEKAVYTSVGRMFML-SDKAAVRSHLEAKMKSSEEKIEALQKKKTYLEKTVSEAEQNLRELLQSRR 112 (114)
T ss_pred hHHHHHHHHHHHHHc-CcHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 344667777765544 46666678889999999999999999999999999999999998876543
No 69
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=60.08 E-value=48 Score=22.01 Aligned_cols=40 Identities=23% Similarity=0.370 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 84 FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 84 ~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
|=++=|+.|+..+...+..+++.+++++.+.+.+..++..
T Consensus 19 fQE~tieeLn~~laEq~~~i~k~q~qlr~L~~kl~~~~~~ 58 (72)
T COG2900 19 FQEQTIEELNDALAEQQLVIDKLQAQLRLLTEKLKDLQPS 58 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3344455555555555555666666666666655554443
No 70
>PRK11637 AmiB activator; Provisional
Probab=59.74 E-value=39 Score=28.76 Aligned_cols=18 Identities=11% Similarity=0.158 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRL 102 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~ 102 (134)
+++++..++..++.++.+
T Consensus 80 l~~qi~~~~~~i~~~~~~ 97 (428)
T PRK11637 80 QEEAISQASRKLRETQNT 97 (428)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 71
>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []. This entry represents proteins annotated as RAB6-interacting golgins.
Probab=59.15 E-value=56 Score=24.79 Aligned_cols=45 Identities=11% Similarity=0.176 Sum_probs=39.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
|.-.+...+.+||+..+..++-+.+.-.+....++..+++.++..
T Consensus 81 P~RkEv~~vRkkID~vNreLkpl~~~cqKKEkEykealea~nEkn 125 (159)
T PF04949_consen 81 PMRKEVEMVRKKIDSVNRELKPLGQSCQKKEKEYKEALEAFNEKN 125 (159)
T ss_pred chHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566788999999999999999999999999999998888887643
No 72
>PTZ00464 SNF-7-like protein; Provisional
Probab=59.13 E-value=32 Score=27.07 Aligned_cols=36 Identities=25% Similarity=0.315 Sum_probs=30.5
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
-+..+|++-+++|.+.|.++++++..++...+.++.
T Consensus 14 ~t~~d~~~~l~~r~~~l~kKi~~ld~E~~~ak~~~k 49 (211)
T PTZ00464 14 PTLEDASKRIGGRSEVVDARINKIDAELMKLKEQIQ 49 (211)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468999999999999999999999888777776664
No 73
>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=58.87 E-value=40 Score=23.24 Aligned_cols=35 Identities=23% Similarity=0.416 Sum_probs=28.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
+.++....+.+++..++.+++.++..++.+...+.
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (113)
T cd01109 76 TIPERLELLEEHREELEEQIAELQETLAYLDYKID 110 (113)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45778889999999999999999888888776654
No 74
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=58.80 E-value=55 Score=22.29 Aligned_cols=41 Identities=17% Similarity=0.207 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+-..-++..++.|+..++.|.+.-..+.+++..+.+.-+|.
T Consensus 26 ~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~ 66 (83)
T PF03670_consen 26 EEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQI 66 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 33578899999999999999999999999998887766554
No 75
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=57.67 E-value=51 Score=22.93 Aligned_cols=37 Identities=5% Similarity=0.120 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHH
Q 032758 83 KFISQREDKIARQIDEY--TRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l--~~~l~~ik~~i~~v~~~i~q 119 (134)
.-.++|+..++..++.+ ++++..++-.+..+...++.
T Consensus 45 ~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~ 83 (106)
T PF10805_consen 45 DEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKE 83 (106)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHH
Confidence 33477777777777766 66666666665555544443
No 76
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=57.20 E-value=51 Score=27.08 Aligned_cols=8 Identities=0% Similarity=0.169 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 032758 87 QREDKIAR 94 (134)
Q Consensus 87 kri~~L~~ 94 (134)
..++.|..
T Consensus 52 ~ei~~L~~ 59 (265)
T COG3883 52 NEIESLDN 59 (265)
T ss_pred HHHHHHHH
Confidence 33333333
No 77
>PRK02119 hypothetical protein; Provisional
Probab=57.18 E-value=52 Score=21.52 Aligned_cols=43 Identities=5% Similarity=0.009 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
.++-+.-|+-|+.+.+..++.|++.+..-+.+|..+...++.|
T Consensus 7 ~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L 49 (73)
T PRK02119 7 LENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYM 49 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666777777777777777777777777666666654
No 78
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=56.26 E-value=39 Score=22.88 Aligned_cols=29 Identities=24% Similarity=0.297 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 89 EDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 89 i~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
++.+...+++....++..+++++.+....
T Consensus 3 leKi~~eieK~k~Kiae~Q~rlK~Le~qk 31 (83)
T PF14193_consen 3 LEKIRAEIEKTKEKIAELQARLKELEAQK 31 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444443333
No 79
>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=56.08 E-value=57 Score=21.64 Aligned_cols=42 Identities=14% Similarity=0.264 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAET 127 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~ 127 (134)
-.+...++.++..+...+..++.+++....++.+|..++++.
T Consensus 4 ~~~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~~ 45 (106)
T PF01920_consen 4 QNKFQELNQQLQQLEQQIQQLERQLRELELTLEELEKLDDDR 45 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 356678888999999999999999999999999999987663
No 80
>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=55.72 E-value=45 Score=23.69 Aligned_cols=26 Identities=15% Similarity=0.189 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 92 IARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 92 L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
+++.++.+..++++++.....+...+
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02047 84 LDEHISHVRARIIKLQALIEQLVDLR 109 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444333
No 81
>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=55.68 E-value=69 Score=22.47 Aligned_cols=43 Identities=16% Similarity=0.165 Sum_probs=22.6
Q ss_pred ecHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ-------------REDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 76 ~~~~eA~~~l~k-------------ri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
+|+++..++++. +...+.++++.+.+++..+++.++.+...+.
T Consensus 56 ~~L~~I~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~~ 111 (118)
T cd04776 56 FSLEEIRELLDLYDPPGGNRKQLEKMLEKIEKRRAELEQQRRDIDAALAELDAAEE 111 (118)
T ss_pred CCHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777777764 3334444555555555555554444444443
No 82
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=55.56 E-value=41 Score=27.59 Aligned_cols=51 Identities=18% Similarity=0.225 Sum_probs=32.9
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhcCC
Q 032758 74 VEFTWSEALKFISQREDKIARQIDEYTRL-------IASIKAQIKLVCEGICELLQLP 124 (134)
Q Consensus 74 VE~~~~eA~~~l~kri~~L~~~~~~l~~~-------l~~ik~~i~~v~~~i~ql~~~~ 124 (134)
+|..+.+|++-+..++..++..++.+..+ +.+.+..+...+..++.|++..
T Consensus 163 iE~~l~~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~vR 220 (267)
T PF10234_consen 163 IEKALKEAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSVR 220 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 67777777777777777777766665555 4444555555556666666553
No 83
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=55.30 E-value=51 Score=20.82 Aligned_cols=35 Identities=11% Similarity=0.267 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 83 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
+-|...+..|+.+++.|+.++..++..+....+..
T Consensus 6 d~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~EA 40 (56)
T PF04728_consen 6 DQLSSDVQTLNSKVDQLSSDVNALRADVQAAKEEA 40 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666666666666666665554443
No 84
>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=54.45 E-value=52 Score=20.69 Aligned_cols=30 Identities=23% Similarity=0.320 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 91 KIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 91 ~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
.++.++..+++++++++++...+...++.+
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444444444444444455444444444
No 85
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=54.31 E-value=65 Score=22.70 Aligned_cols=31 Identities=19% Similarity=0.324 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEG 116 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~ 116 (134)
-.++..+++++..+..++..++.++..+.+.
T Consensus 7 ~~~l~~le~~l~~l~~~~~~LK~~~~~l~EE 37 (107)
T PF06156_consen 7 FDRLDQLEQQLGQLLEELEELKKQLQELLEE 37 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666666666666666666655553
No 86
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=54.04 E-value=48 Score=24.38 Aligned_cols=74 Identities=12% Similarity=0.238 Sum_probs=50.5
Q ss_pred hHHHHHHHHHHhhcCC------CCCeeEEEecCC-ceeEEEEecCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 23 GSSDLRKNIENLEKNS------VTSLRTLVNLGS-EVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 23 ey~el~~~I~~L~~~~------~~~~eilVplG~-~~yv~a~I~d~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
+....+.-|+.|.... +++- -.||.-- .+|+..+.+.+ .--++++.+-+.+.++.|+..
T Consensus 38 dik~~k~~~enledA~~EieL~Dedd-~~Ip~~vGdvF~~~~~~~~-------------~~~LEe~ke~l~k~i~~les~ 103 (131)
T KOG1760|consen 38 DIKEAKTEIENLEDASNEIELLDEDD-EDIPFKVGDVFIHVKLDKL-------------QDQLEEKKETLEKEIEELESE 103 (131)
T ss_pred HHHHHHHHHHHHHHHHhhHhhcCccc-cccceehhhhheeccHHHH-------------HHHHHHHHHHHHHHHHHHHHH
Confidence 3455555666655432 1221 3455432 36666665542 335789999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q 032758 96 IDEYTRLIASIKAQI 110 (134)
Q Consensus 96 ~~~l~~~l~~ik~~i 110 (134)
.+.+...++.+++.+
T Consensus 104 ~e~I~~~m~~LK~~L 118 (131)
T KOG1760|consen 104 LESISARMDELKKVL 118 (131)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999999875
No 87
>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=53.88 E-value=70 Score=21.95 Aligned_cols=12 Identities=17% Similarity=0.351 Sum_probs=6.4
Q ss_pred ecHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ 87 (134)
Q Consensus 76 ~~~~eA~~~l~k 87 (134)
+|++++..+++.
T Consensus 59 ~sl~~i~~l~~~ 70 (108)
T cd01107 59 FPLEEIKEILDA 70 (108)
T ss_pred CCHHHHHHHHhc
Confidence 355566555543
No 88
>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=53.55 E-value=70 Score=22.13 Aligned_cols=12 Identities=25% Similarity=0.379 Sum_probs=7.5
Q ss_pred ecHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ 87 (134)
Q Consensus 76 ~~~~eA~~~l~k 87 (134)
+|+++...+++.
T Consensus 57 ~sl~eI~~~l~~ 68 (112)
T cd01282 57 LTLEEIREFLPC 68 (112)
T ss_pred CCHHHHHHHHHH
Confidence 566666666653
No 89
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=53.51 E-value=71 Score=22.25 Aligned_cols=47 Identities=15% Similarity=0.080 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcc
Q 032758 83 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSV 129 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~~~ 129 (134)
.-++.+.+.++.+-+.|+.++..++..-..+++..++-.++...++.
T Consensus 37 ~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~AR~~Lg~vk~gEi 83 (105)
T PRK00888 37 AAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERARNELGMVKPGET 83 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHcCCCCCCCE
Confidence 34445555555566666666666666556666666665666555543
No 90
>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=53.29 E-value=82 Score=22.62 Aligned_cols=25 Identities=12% Similarity=0.098 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRL 102 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~ 102 (134)
.++....+++++..++++++.|++.
T Consensus 76 ~~~~~~~l~~k~~~i~~~i~~L~~~ 100 (131)
T cd04786 76 HDELLAALERKVADIEALEARLAQN 100 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555444443
No 91
>PRK11637 AmiB activator; Provisional
Probab=53.22 E-value=63 Score=27.52 Aligned_cols=39 Identities=15% Similarity=0.234 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
+..+.-+.++++.++..++.+++++..++.+|......+
T Consensus 81 ~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l 119 (428)
T PRK11637 81 EEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQ 119 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444444444444443333
No 92
>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=53.04 E-value=39 Score=23.22 Aligned_cols=32 Identities=16% Similarity=0.426 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i 110 (134)
+++..+++.+++.+++++..++.....++.-+
T Consensus 74 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 105 (108)
T cd01107 74 DELRKLLREKLAELEAEIEELQRILRLLEDRL 105 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78888888888888888888877766665544
No 93
>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=52.85 E-value=68 Score=25.10 Aligned_cols=41 Identities=12% Similarity=0.233 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQ----IKLVCEGICEL 120 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~----i~~v~~~i~ql 120 (134)
....-++++++.++++++.+++.+...+++ ...++..|+++
T Consensus 193 ~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l~~qf~~me~~i~~l 237 (239)
T PF07195_consen 193 SRIDSLNSQIKSLDKQIEDLEERLESKEERLRKQFSAMESLISQL 237 (239)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344455555555555555555555443333 34445555543
No 94
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=51.84 E-value=36 Score=25.19 Aligned_cols=29 Identities=14% Similarity=0.296 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 81 ALKFISQREDKIARQIDEYTRLIASIKAQ 109 (134)
Q Consensus 81 A~~~l~kri~~L~~~~~~l~~~l~~ik~~ 109 (134)
-..-++..+..|++++..+......++++
T Consensus 73 el~~ld~ei~~L~~el~~l~~~~k~l~~e 101 (169)
T PF07106_consen 73 ELAELDAEIKELREELAELKKEVKSLEAE 101 (169)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555554444444444433
No 95
>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=51.80 E-value=72 Score=23.16 Aligned_cols=45 Identities=9% Similarity=0.158 Sum_probs=24.7
Q ss_pred ecHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQR------EDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 76 ~~~~eA~~~l~kr------i~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+|+++..++++.. ...+.+.++.+.+.+..+++++..+....+++
T Consensus 57 ~sL~eI~~~l~~~~~~~~~~~~~~~~~~~l~~~i~~Le~~l~~L~~~~~~l 107 (134)
T cd04779 57 LSLAEIKDQLEEVQRSDKEQREVAQEVQLVCDQIDGLEHRLKQLKPIASQT 107 (134)
T ss_pred CCHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666777666543 22344555555555555555555555555444
No 96
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=51.28 E-value=81 Score=22.36 Aligned_cols=19 Identities=11% Similarity=0.039 Sum_probs=13.2
Q ss_pred ecHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIAR 94 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~ 94 (134)
.+.++|.+++++.++.+++
T Consensus 37 ~~~ee~k~~~~e~~~~~~e 55 (118)
T TIGR01837 37 LAEKRGQKRFDESVDAARE 55 (118)
T ss_pred ccHHHHHHHHHHHHHHHHH
Confidence 4457888888777766663
No 97
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=51.24 E-value=1e+02 Score=23.25 Aligned_cols=37 Identities=19% Similarity=0.265 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 114 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~ 114 (134)
.++..+-.+..++.+++++++.+.++..++.|.+...
T Consensus 152 ~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~ 188 (192)
T PF05529_consen 152 LKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQ 188 (192)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444455555666666666665555555555554443
No 98
>PF01330 RuvA_N: RuvA N terminal domain; InterPro: IPR013849 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. This entry represents domain I of RuvA, which has an OB-fold structure. This domain forms the RuvA tetramer contacts [].; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJP_A 1D8L_B 1CUK_A 1C7Y_A 1IXR_B 2ZTC_A 2ZTD_B 2H5X_A 2ZTE_A 1BVS_E ....
Probab=51.09 E-value=41 Score=20.80 Aligned_cols=30 Identities=17% Similarity=0.379 Sum_probs=22.4
Q ss_pred eeEEEEec--CCCeeEEEecc-eeEEeecHHHH
Q 032758 52 VYMQADVP--DTQHIFVDIGL-GFHVEFTWSEA 81 (134)
Q Consensus 52 ~yv~a~I~--d~~kVlV~lG~-g~~VE~~~~eA 81 (134)
.|++|+|. +++.|++++|. ||-|-.|....
T Consensus 3 ~~l~G~v~~~~~~~vvi~~~GvGy~v~v~~~~~ 35 (61)
T PF01330_consen 3 AYLKGKVVEKNPDYVVIDVNGVGYEVFVPSNTL 35 (61)
T ss_dssp EEEEEEEEEEESSEEEEEETTEEEEEEE-HHHH
T ss_pred cEEEEEEEEEcCCEEEEEECCEEEEEEeCCchH
Confidence 47888887 57889999875 88887776644
No 99
>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=50.42 E-value=53 Score=22.75 Aligned_cols=33 Identities=24% Similarity=0.315 Sum_probs=23.5
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIASIKA 108 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~ 108 (134)
.+.++..++++.+...++.+++.++...+.+..
T Consensus 77 ~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (112)
T cd01282 77 RPCPDLLAVLRRELARIDRQIADLTRSRDRLDA 109 (112)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677788888888888888777766655544
No 100
>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=50.08 E-value=77 Score=22.77 Aligned_cols=50 Identities=14% Similarity=0.165 Sum_probs=33.9
Q ss_pred ecHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 032758 76 FTWSEALKFIS---------QREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPA 125 (134)
Q Consensus 76 ~~~~eA~~~l~---------kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~ 125 (134)
+|+++..++++ .....++++++.+.+.+++++.....+...+..+.+-+.
T Consensus 58 fsL~eI~~ll~~~~~~~~~~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~~~~~ 116 (131)
T cd04786 58 FSLDEIRQLLPADASNWQHDELLAALERKVADIEALEARLAQNKAQLLVLIDLIESKPD 116 (131)
T ss_pred CCHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 48888888885 234566677777777777777777677666666655444
No 101
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.92 E-value=75 Score=26.08 Aligned_cols=33 Identities=24% Similarity=0.395 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 87 QREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 87 kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
.+++.+++.+++++..+..++.+|..+.+.|.+
T Consensus 66 ~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~ 98 (265)
T COG3883 66 SKIDELQKEIDQSKAEIKKLQKEIAELKENIVE 98 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333334444444444444444444444433
No 102
>KOG2577 consensus Transcription factor E2F/dimerization partner (TDP) [Transcription]
Probab=49.74 E-value=65 Score=27.57 Aligned_cols=54 Identities=19% Similarity=0.265 Sum_probs=41.6
Q ss_pred CeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 62 QHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCE 115 (134)
Q Consensus 62 ~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~ 115 (134)
.+-+-|+|.|+.--....+=.+.++.+++.|+..-+.|.+.+...+.++..+.+
T Consensus 126 KN~IqW~G~~~~~~~~~~e~~~~l~~e~~~L~~~E~~LD~~i~~~q~~L~~lte 179 (354)
T KOG2577|consen 126 KNNIQWIGGDFNSTGGVPERLNGLEAEVEDLSQEEDDLDQLIRDCQQNLRLLTE 179 (354)
T ss_pred ccceeeecCCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 346789999998766667777778888888888888888887777777766554
No 103
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=49.55 E-value=83 Score=25.28 Aligned_cols=31 Identities=16% Similarity=0.260 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 91 KIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 91 ~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
.|..+++.++.++.+++-++....-.+++++
T Consensus 58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~ 88 (263)
T PRK10803 58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVV 88 (263)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 4455666666666666666665555555543
No 104
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=49.21 E-value=75 Score=20.94 Aligned_cols=17 Identities=18% Similarity=0.421 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHHHH
Q 032758 91 KIARQIDEYTRLIASIK 107 (134)
Q Consensus 91 ~L~~~~~~l~~~l~~ik 107 (134)
.+++.++.+++++..+.
T Consensus 30 ~~~~ti~~l~~~~~~i~ 46 (90)
T PF06103_consen 30 EVNKTIDTLQEQVDPIT 46 (90)
T ss_pred HHHHHHHHHHHhHHHHH
Confidence 33333333333333333
No 105
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=49.04 E-value=71 Score=24.71 Aligned_cols=45 Identities=4% Similarity=0.061 Sum_probs=33.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+...|+.+.++++..|+++...++..+..+-.....=+...++++
T Consensus 37 ~~~~avSL~erQ~~~LR~~~~~L~~~l~~Li~~Ar~Ne~~~~~~~ 81 (225)
T PF04340_consen 37 PSGGAVSLVERQLERLRERNRQLEEQLEELIENARENEAIFQRLH 81 (225)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345699999999999999999999999888877665555544443
No 106
>PHA03386 P10 fibrous body protein; Provisional
Probab=48.99 E-value=89 Score=21.77 Aligned_cols=47 Identities=11% Similarity=0.234 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcCCC
Q 032758 79 SEALKFISQREDKIARQIDEYTRL---IASIKAQIKLVCEGICELLQLPA 125 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~---l~~ik~~i~~v~~~i~ql~~~~~ 125 (134)
-+|++-++.|++.|+.+.+.++.. +...-+++..+...++.++.+..
T Consensus 11 r~dIkavd~KVdaLQ~qV~dv~~n~~~LDa~~~qL~~l~tkV~~Iq~iLn 60 (94)
T PHA03386 11 LDAVQEVDTKVDALQTQLNGLEEDSQPLDGLPAQLTELDTKVSDIQSILT 60 (94)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHHHHHHHHhcC
Confidence 468888889999999888888863 34444556666666666666543
No 107
>PF14282 FlxA: FlxA-like protein
Probab=48.96 E-value=88 Score=21.72 Aligned_cols=23 Identities=9% Similarity=0.323 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLIASIKA 108 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~ 108 (134)
+.+|+.|++++..|.+.+..+.+
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~ 40 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQ 40 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 44455555555555555544443
No 108
>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=48.87 E-value=87 Score=22.29 Aligned_cols=34 Identities=15% Similarity=0.189 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 90 DKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 90 ~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
..++++++.+..++..++.....+...+......
T Consensus 82 ~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~~ 115 (133)
T cd04787 82 RLIEQRLAETERRIKELLKLRDRMQQAVSQWQQM 115 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3444455555555555555555555555554443
No 109
>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=48.79 E-value=72 Score=22.15 Aligned_cols=11 Identities=27% Similarity=0.537 Sum_probs=5.7
Q ss_pred ecHHHHHHHHH
Q 032758 76 FTWSEALKFIS 86 (134)
Q Consensus 76 ~~~~eA~~~l~ 86 (134)
+|+++...+++
T Consensus 58 ~sl~eI~~~l~ 68 (123)
T cd04770 58 FSLAEIRELLS 68 (123)
T ss_pred CCHHHHHHHHH
Confidence 45555555554
No 110
>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=48.25 E-value=48 Score=21.93 Aligned_cols=17 Identities=12% Similarity=0.354 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 032758 92 IARQIDEYTRLIASIKA 108 (134)
Q Consensus 92 L~~~~~~l~~~l~~ik~ 108 (134)
|.++++.++.++..+++
T Consensus 70 l~~~~~~l~~~l~~l~~ 86 (91)
T cd04766 70 LEEELAELRAELDELRA 86 (91)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444444444443333
No 111
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=47.90 E-value=92 Score=25.69 Aligned_cols=44 Identities=14% Similarity=0.234 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
..++-..+++..++.+++.+...+..++++...+...|+++...
T Consensus 223 ~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~ 266 (325)
T PF08317_consen 223 EEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKI 266 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555566666667777777777777777777777665543
No 112
>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=47.86 E-value=99 Score=21.98 Aligned_cols=33 Identities=21% Similarity=0.342 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
.+..++++.++..+++++..++...+.+...+.
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (133)
T cd04787 78 PMVRRLIEQRLAETERRIKELLKLRDRMQQAVS 110 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666666666665555554443
No 113
>PF00384 Molybdopterin: Molybdopterin oxidoreductase; InterPro: IPR006656 This domain is found in a number of molybdopterin-containing oxidoreductases, tungsten formylmethanofuran dehydrogenase subunit d (FwdD) and molybdenum formylmethanofuran dehydrogenase subunit (FmdD); where a single domain constitutes almost the entire subunit. The formylmethanofuran dehydrogenase catalyses the first step in methane formation from CO2 in methanogenic archaea and has a molybdopterin dinucleotide cofactor []. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E 3DMR_A 4DMR_A 1H5N_C 1E5V_A ....
Probab=47.73 E-value=25 Score=29.03 Aligned_cols=28 Identities=32% Similarity=0.522 Sum_probs=23.2
Q ss_pred ecceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 68 IGLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 68 lG~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
-|.|=|++.|.|||.+.+.+|++.+.++
T Consensus 12 rg~~~~~~isWdeAl~~ia~~l~~~~~~ 39 (432)
T PF00384_consen 12 RGDGKFVRISWDEALDEIAEKLKEIIDK 39 (432)
T ss_dssp TTSSSEEE--HHHHHHHHHHHHHHHHHH
T ss_pred CCCCCEEEccHHHHHHHhhhhccccccc
Confidence 5789999999999999999999987764
No 114
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=47.61 E-value=79 Score=23.07 Aligned_cols=33 Identities=12% Similarity=0.243 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCc
Q 032758 96 IDEYTRLIASIKAQIKLVCEGICELLQLPAETS 128 (134)
Q Consensus 96 ~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~~ 128 (134)
+++++..+.+++..++.+...+..|.++.++.+
T Consensus 89 v~els~~L~~~~~lL~~~v~~ie~LN~~LP~~~ 121 (131)
T PF10158_consen 89 VNELSQQLSRCQSLLNQTVPSIETLNEILPEEE 121 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhCChhh
Confidence 555556666666666666666666666654443
No 115
>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=47.17 E-value=78 Score=22.37 Aligned_cols=29 Identities=21% Similarity=0.129 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 90 DKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 90 ~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
..++++++.+.+++..++.....+...+.
T Consensus 82 ~~l~~~~~~l~~~i~~L~~~~~~l~~~~~ 110 (127)
T cd01108 82 ALALEHIAELERKIAELQAMRRTLQQLAD 110 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444444443
No 116
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=47.05 E-value=1e+02 Score=21.98 Aligned_cols=62 Identities=11% Similarity=0.276 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEE-EecC-CCeeEEEecceeEEeecHHH
Q 032758 12 FFYLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQA-DVPD-TQHIFVDIGLGFHVEFTWSE 80 (134)
Q Consensus 12 ~~~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a-~I~d-~~kVlV~lG~g~~VE~~~~e 80 (134)
+||+.+|-.+.+-.+-++.+++|+... ++ =-++|+|-.. +|.+ .+.|.+.+ .|..+......
T Consensus 15 i~yf~iRPQkKr~Ke~~em~~sLk~GD----~V--vT~GGi~G~V~~I~~~~~~v~le~-~gv~i~v~r~A 78 (113)
T PRK06531 15 LIFFMQRQQKKQAQERQNQLNAIQKGD----EV--VTIGGLYGTVDEVDTEAKTIVLDV-DGVYLTFELAA 78 (113)
T ss_pred HHHheechHHHHHHHHHHHHHhcCCCC----EE--EECCCcEEEEEEEecCCCEEEEEE-CCEEEEEEhhH
Confidence 357778888888888888888888553 33 2356666553 3443 35788877 68887776553
No 117
>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=46.66 E-value=77 Score=22.36 Aligned_cols=26 Identities=8% Similarity=0.048 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 92 IARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 92 L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
++++++.+.+++.++++....+...+
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (126)
T cd04785 84 ARAHLADVRARIADLRRLEAELKRMV 109 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444434
No 118
>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=46.62 E-value=85 Score=22.11 Aligned_cols=43 Identities=14% Similarity=0.132 Sum_probs=18.8
Q ss_pred ecHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ--------REDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 76 ~~~~eA~~~l~k--------ri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
+|+++..++++. ....++++++.+++++++++.....+...+.
T Consensus 57 ~sl~eI~~~l~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 107 (124)
T TIGR02051 57 FSLEEIGGLLGLVDGTHCREMYELASRKLKSVQAKMADLLRIERLLEELLE 107 (124)
T ss_pred CCHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555555532 2333444444444444444444444443333
No 119
>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=46.60 E-value=51 Score=20.98 Aligned_cols=27 Identities=19% Similarity=0.183 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
|+.||..|+..|..++..+..+++.-.
T Consensus 26 L~~RIa~L~aEI~R~~~~~~~K~a~r~ 52 (59)
T PF06698_consen 26 LEERIALLEAEIARLEAAIAKKSASRA 52 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667777777777777777766666543
No 120
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=46.57 E-value=86 Score=28.28 Aligned_cols=48 Identities=23% Similarity=0.284 Sum_probs=36.2
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
.+.+++..-.+...+.+.+++.++.+++.+++++++.....+.++.-.
T Consensus 82 ~~~~e~~~~~~~~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~~l~~~ 129 (646)
T PRK05771 82 KSLEELIKDVEEELEKIEKEIKELEEEISELENEIKELEQEIERLEPW 129 (646)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 356666666777778888888888888888888888888777776654
No 121
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=46.46 E-value=1e+02 Score=21.89 Aligned_cols=31 Identities=13% Similarity=0.216 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 87 QREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 87 kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
.++..++.++..+.+++..+++++..+.+.-
T Consensus 8 d~l~~le~~l~~l~~el~~LK~~~~el~EEN 38 (110)
T PRK13169 8 DALDDLEQNLGVLLKELGALKKQLAELLEEN 38 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666666666665555443
No 122
>PF02699 YajC: Preprotein translocase subunit; InterPro: IPR003849 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component []. From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins []. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone (SecB), ATPase (SecA), an integral membrane complex (SecY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) []. Other cytoplasmic/periplasmic proteins play a part in preprotein translocase activity, namely YidC and YajC []. The latter is bound in a complex to SecD and SecF, and plays a part in stabilising and regulating secretion through the SecYEG integral membrane component via SecA []. Homologues of the YajC gene have been found in a range of pathogenic and commensal microbes. Brucella abortis YajC- and SecD-like proteins were shown to stimulate a Th1 cell-mediated immune response in mice, and conferred protection when challenged with B.abortis []. Therefore, these proteins may have an antigenic role as well as a secretory one in virulent bacteria []. A number of previously uncharacterised "hypothetical" proteins also show similarity to E.coli YajC, suggesting that this family is wider than first thought []. More recently, the precise interactions between the E.coli SecYEG complex, SecD, SecF, YajC and YidC have been studied []. Rather than acting individually, the four proteins form a heterotetrameric complex and associate with the SecYEG heterotrimeric complex []. The SecF and YajC subunits link the complex to the integral membrane translocase. ; PDB: 2RDD_B.
Probab=46.20 E-value=11 Score=25.15 Aligned_cols=62 Identities=11% Similarity=0.224 Sum_probs=15.5
Q ss_pred hHHHHHHHHHHhhHHHHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecH
Q 032758 11 CFFYLVYLTLNAGSSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTW 78 (134)
Q Consensus 11 ~~~~~~~~~~~~ey~el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~ 78 (134)
.|.++.++....+-.+-++.+++|++.. ++ =..+|+|-...=.+.+.|.+.++.|..++...
T Consensus 14 i~yf~~~rpqkk~~k~~~~m~~~Lk~Gd----~V--vT~gGi~G~V~~i~~~~v~lei~~g~~i~v~k 75 (82)
T PF02699_consen 14 IFYFLMIRPQKKQQKEHQEMLASLKPGD----EV--VTIGGIYGTVVEIDDDTVVLEIAPGVEITVEK 75 (82)
T ss_dssp HHHHHTHHHHHHHHHHHTTGGG----------------------------------------------
T ss_pred HHhhheecHHHHHHHHHHHHHHcCCCCC----EE--EECCcEEEEEEEEeCCEEEEEECCCeEEEEEH
Confidence 3446677777777777777777777543 33 35677776555447888999999998776654
No 123
>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=46.10 E-value=83 Score=22.11 Aligned_cols=28 Identities=14% Similarity=0.165 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 92 IARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 92 L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+..+++.+.++++.++.....+...+..
T Consensus 82 l~~~~~~l~~~i~~L~~~~~~l~~~~~~ 109 (126)
T cd04783 82 AEQKLAEVDEKIADLQRMRASLQELVSQ 109 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3334444444444444444444444443
No 124
>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=46.08 E-value=85 Score=22.04 Aligned_cols=44 Identities=14% Similarity=0.064 Sum_probs=21.0
Q ss_pred ecHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ----------REDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 76 ~~~~eA~~~l~k----------ri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+|+++..++++. ....+.++.+.+.+++.+++.....+...+..
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 111 (127)
T cd04784 58 MSLDEIRTLLQLQDDPEASCAEVNALIDEHLAHVRARIAELQALEKQLQALRER 111 (127)
T ss_pred CCHHHHHHHHHhhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566666666542 12334444444444444444444444444443
No 125
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=45.80 E-value=76 Score=20.04 Aligned_cols=33 Identities=3% Similarity=0.241 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 87 QREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 87 kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
.+++.|...+..|+.++.++...+..+...++.
T Consensus 3 akid~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ 35 (56)
T PF04728_consen 3 AKIDQLSSDVQTLNSKVDQLSSDVNALRADVQA 35 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355566666666666666666555555544443
No 126
>PRK00846 hypothetical protein; Provisional
Probab=45.78 E-value=90 Score=20.87 Aligned_cols=41 Identities=15% Similarity=0.048 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
++-+.-|+-|+.+.+..++.|++.+..-...|..+...++.
T Consensus 12 e~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~ 52 (77)
T PRK00846 12 EARLVELETRLSFQEQALTELSEALADARLTGARNAELIRH 52 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555666666666777777776666666666666553
No 127
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=45.40 E-value=63 Score=21.80 Aligned_cols=37 Identities=19% Similarity=0.280 Sum_probs=32.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
...++.+-++.+++.++.++..++..+.-.++++..+
T Consensus 67 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 67 SDSPELKELEEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3678899999999999999999999999999888754
No 128
>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=45.38 E-value=86 Score=22.10 Aligned_cols=10 Identities=10% Similarity=0.331 Sum_probs=4.9
Q ss_pred cHHHHHHHHH
Q 032758 77 TWSEALKFIS 86 (134)
Q Consensus 77 ~~~eA~~~l~ 86 (134)
|+++..++++
T Consensus 59 sL~eI~~~l~ 68 (127)
T TIGR02044 59 SLEECKELLN 68 (127)
T ss_pred CHHHHHHHHH
Confidence 4555555443
No 129
>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=45.32 E-value=85 Score=22.37 Aligned_cols=29 Identities=3% Similarity=-0.055 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 91 KIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 91 ~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
.++++++.+++++++++.....+...+..
T Consensus 85 ~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 113 (131)
T TIGR02043 85 IVDAKLELVDEKINELTKIRRSLKKLSDA 113 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444444444
No 130
>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=45.28 E-value=94 Score=21.09 Aligned_cols=12 Identities=17% Similarity=0.221 Sum_probs=7.1
Q ss_pred ecHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ 87 (134)
Q Consensus 76 ~~~~eA~~~l~k 87 (134)
+|++++..+++.
T Consensus 58 ~~l~ei~~~~~~ 69 (102)
T cd04775 58 LPLEEIAGCLAQ 69 (102)
T ss_pred CCHHHHHHHHcC
Confidence 566666666543
No 131
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=45.10 E-value=75 Score=23.94 Aligned_cols=35 Identities=9% Similarity=0.234 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
.+...+..++.++++.+++.+.+.++..+..+...
T Consensus 152 ~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~ 186 (192)
T PF05529_consen 152 LKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEG 186 (192)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444445555555555555544444444433
No 132
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=44.90 E-value=71 Score=29.38 Aligned_cols=42 Identities=17% Similarity=0.304 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhc
Q 032758 81 ALKFISQREDKIARQIDEYTRLIAS----IKAQIKLVCEGICELLQ 122 (134)
Q Consensus 81 A~~~l~kri~~L~~~~~~l~~~l~~----ik~~i~~v~~~i~ql~~ 122 (134)
-.+-++++++.++++++.++..+.. +++++..++..|+++++
T Consensus 601 r~~~l~~~i~~l~~~i~~~e~rl~~~e~rl~~QFtaME~~msqmns 646 (661)
T PRK06664 601 KVKGLDERIADNNKKIEEYEKKLESKERKLKGKYLTMDQTVKKMKE 646 (661)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666666666555533 33344455566665543
No 133
>smart00338 BRLZ basic region leucin zipper.
Probab=44.77 E-value=75 Score=19.70 Aligned_cols=35 Identities=11% Similarity=0.202 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 89 EDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 89 i~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+..|+..+..|...-..++.++..+...+..+.+.
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~ 62 (65)
T smart00338 28 IEELERKVEQLEAENERLKKEIERLRRELEKLKSE 62 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555566666666666666666666666665543
No 134
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=44.63 E-value=65 Score=29.85 Aligned_cols=44 Identities=18% Similarity=0.254 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
|.-+-+..|...|+..+++|+.++....+++...+..++++..+
T Consensus 538 e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~ 581 (697)
T PF09726_consen 538 ECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKY 581 (697)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667999999999999999999999999999999999887776
No 135
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=44.58 E-value=1e+02 Score=23.56 Aligned_cols=30 Identities=20% Similarity=0.292 Sum_probs=16.1
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASI 106 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~i 106 (134)
+.++-.+.+..+.+.+.++++.|+..++.+
T Consensus 82 t~~~R~~lLe~~~~~l~~ri~eLe~~l~~k 111 (175)
T PRK13182 82 ISSVDFEQLEAQLNTITRRLDELERQLQQK 111 (175)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666666655555555444433
No 136
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=44.35 E-value=86 Score=22.94 Aligned_cols=29 Identities=14% Similarity=0.308 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIK 107 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik 107 (134)
+++..+++.+++.+++++++++.....++
T Consensus 83 ~~~~~ll~~k~~~l~~~i~~L~~~~~~L~ 111 (144)
T PRK13752 83 EEASSLAEHKLKDVREKMADLARMEAVLS 111 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555555555544444433
No 137
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=44.00 E-value=77 Score=19.62 Aligned_cols=33 Identities=12% Similarity=0.228 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 89 EDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 89 i~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
++.|+..++.|..+...++..+..+...++.|.
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~ 60 (64)
T PF00170_consen 28 IEELEEKVEELESENEELKKELEQLKKEIQSLK 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455556667777777777777777666666654
No 138
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=43.87 E-value=96 Score=22.39 Aligned_cols=26 Identities=15% Similarity=0.273 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLIAS 105 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ 105 (134)
+..+.+.+++..++++++.++.....
T Consensus 79 ~~~~~l~~~~~~l~~~i~~L~~~~~~ 104 (135)
T PRK10227 79 DVKRRTLEKVAEIERHIEELQSMRDQ 104 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444333
No 139
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=43.58 E-value=91 Score=22.54 Aligned_cols=21 Identities=14% Similarity=0.305 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEY 99 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l 99 (134)
++...+++++++.++++++.+
T Consensus 80 ~~~~~~l~~~~~~l~~~i~~L 100 (140)
T PRK09514 80 QEVKGIVDEKLAEVEAKIAEL 100 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444443
No 140
>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=43.51 E-value=1.2e+02 Score=21.61 Aligned_cols=24 Identities=17% Similarity=0.414 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRL 102 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~ 102 (134)
++...+++.+++.++++++.++..
T Consensus 80 ~~~~~~l~~~~~~l~~~i~~L~~~ 103 (131)
T TIGR02043 80 AEVKAIVDAKLELVDEKINELTKI 103 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444333
No 141
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=43.51 E-value=70 Score=19.43 Aligned_cols=26 Identities=27% Similarity=0.248 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIA 104 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~ 104 (134)
.++-..++.|++.+..++..|+++-.
T Consensus 11 qe~~d~IEqkiedid~qIaeLe~KR~ 36 (46)
T PF08946_consen 11 QEHYDNIEQKIEDIDEQIAELEAKRQ 36 (46)
T ss_dssp ----THHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhHHHhHHHHHHHHHHHHHHHH
Confidence 45555666666666666666665433
No 142
>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=43.40 E-value=1.1e+02 Score=21.20 Aligned_cols=31 Identities=16% Similarity=0.282 Sum_probs=20.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIK 107 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik 107 (134)
+.++...+++++++.++++++.++.....+.
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (123)
T cd04770 76 PCAEVRALLEEKLAEVEAKIAELQALRAELA 106 (123)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677777777777777777665544444
No 143
>PHA02107 hypothetical protein
Probab=43.14 E-value=56 Score=25.37 Aligned_cols=50 Identities=22% Similarity=0.212 Sum_probs=29.0
Q ss_pred EecceeEEeecHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 67 DIGLGFHVEFTWSEALK-------FISQREDKIARQIDEYTRLIASIKAQIKLVCEG 116 (134)
Q Consensus 67 ~lG~g~~VE~~~~eA~~-------~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~ 116 (134)
.+|-+.|.--..-.|+. |-.+|++++...+.+|+..-.++.++++.+...
T Consensus 157 ~~~~~IFF~~~~~KAi~~iRG~~~F~S~Ri~EID~EI~~LQA~RKEiEDN~K~IKN~ 213 (216)
T PHA02107 157 PDGQNIFFAPETMKAVQLVRGVFHFASVRISEIDEEIKELQARRKEIEDNIKSIKNA 213 (216)
T ss_pred cccceeeecHHHHHHHHHHHHHhhhhhhhHhHHhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45666555444445554 555666666666666666666666666555443
No 144
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=43.04 E-value=1.3e+02 Score=21.96 Aligned_cols=44 Identities=11% Similarity=0.307 Sum_probs=30.4
Q ss_pred ecHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFIS--------QREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 76 ~~~~eA~~~l~--------kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+|+++..++++ .....++++++.+.+++++++.....+...+.+
T Consensus 65 ~sL~eI~~ll~~~~~~~~~~~~~ll~~k~~~l~~~i~~L~~~~~~L~~~~~~ 116 (144)
T PRK13752 65 FSLDEIAELLRLEDGTHCEEASSLAEHKLKDVREKMADLARMEAVLSELVCA 116 (144)
T ss_pred CCHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 58899999884 345666667777777777766666666655544
No 145
>PRK06798 fliD flagellar capping protein; Validated
Probab=42.80 E-value=88 Score=27.19 Aligned_cols=37 Identities=16% Similarity=0.172 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHh
Q 032758 85 ISQREDKIARQIDEYTRLI----ASIKAQIKLVCEGICELL 121 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l----~~ik~~i~~v~~~i~ql~ 121 (134)
++++++.++++++.++..+ +++..++..++..|++++
T Consensus 384 l~~~i~~l~~~~~~~e~rl~~~e~~l~~qf~ale~~ms~ln 424 (440)
T PRK06798 384 IDNRVSKLDLKITDIDTQNKQKQDNIVDKYQKLESTLAALD 424 (440)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444333 223333444555555544
No 146
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=42.31 E-value=77 Score=22.92 Aligned_cols=43 Identities=19% Similarity=0.202 Sum_probs=25.0
Q ss_pred eecHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQR-----------EDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 75 E~~~~eA~~~l~kr-----------i~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
-+|+++..++++.. ...++++++.+.+++++++.....+...+
T Consensus 58 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 111 (140)
T PRK09514 58 GFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRLN 111 (140)
T ss_pred CCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46889999988643 33455555555555555544444443333
No 147
>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=42.22 E-value=1.2e+02 Score=21.27 Aligned_cols=35 Identities=17% Similarity=0.224 Sum_probs=25.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
+.++...++..++..++++++.++.....+.....
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (127)
T cd04784 76 SCAEVNALIDEHLAHVRARIAELQALEKQLQALRE 110 (127)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56778888888888888888887766655554443
No 148
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=41.83 E-value=1.2e+02 Score=21.25 Aligned_cols=38 Identities=21% Similarity=0.399 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 83 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+++...+..+++.+.....+..+++..+....+.+..+
T Consensus 76 ~~L~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~l 113 (118)
T PF13815_consen 76 EYLSSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKL 113 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555555555555555444
No 149
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=41.47 E-value=94 Score=20.74 Aligned_cols=44 Identities=16% Similarity=0.342 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHhcC
Q 032758 80 EALKFISQREDKIARQIDEYTR----------LIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~----------~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
++++-++.|.+.|+...+.++. ++....+++..+...+...+.+
T Consensus 11 ~dIk~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~i 64 (75)
T PF05531_consen 11 QDIKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQDI 64 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666555544443 3334444455555555544444
No 150
>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=40.94 E-value=1.2e+02 Score=25.81 Aligned_cols=42 Identities=24% Similarity=0.225 Sum_probs=24.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
++..+.+-+.+|.+.++++++.+-.+....++++..+....+
T Consensus 249 ~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~ 290 (359)
T PF10498_consen 249 DISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYK 290 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666667777777777666555555555444444444433
No 151
>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=40.32 E-value=89 Score=21.08 Aligned_cols=29 Identities=14% Similarity=0.394 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIK 107 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik 107 (134)
+++..+++.+...|+.+++.++..++.+.
T Consensus 72 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 100 (103)
T cd01106 72 EDLLEALREQKELLEEKKERLDKLIKTID 100 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66677777777777777766666655544
No 152
>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=40.28 E-value=1.2e+02 Score=20.91 Aligned_cols=46 Identities=13% Similarity=0.118 Sum_probs=32.8
Q ss_pred ecHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 76 FTWSEALKFISQ-----------REDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 76 ~~~~eA~~~l~k-----------ri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+|+++-..+++. ....++++.+.+.++++.++...+.+...+..+.
T Consensus 57 ~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~ 113 (116)
T cd04769 57 FTLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDAFEASLK 113 (116)
T ss_pred CCHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 677777777754 3456777777888887777777777777666654
No 153
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=40.07 E-value=1.1e+02 Score=26.67 Aligned_cols=39 Identities=15% Similarity=0.129 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhc
Q 032758 84 FISQREDKIARQIDEYTRLIASIK----AQIKLVCEGICELLQ 122 (134)
Q Consensus 84 ~l~kri~~L~~~~~~l~~~l~~ik----~~i~~v~~~i~ql~~ 122 (134)
-++++++.++++++.++..+...+ +|...++..|+++++
T Consensus 410 ~l~~~i~~l~~~i~~~~~rl~~~e~rl~~qF~ame~~~s~mns 452 (462)
T PRK08032 410 GVNKTLKKLTKQYNAVSDSIDATIARYKAQFTQLDKLMTSLNS 452 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555444444433 344455666666554
No 154
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=39.90 E-value=1.5e+02 Score=23.95 Aligned_cols=43 Identities=14% Similarity=0.248 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+.-.+...++|+..|+..+..+.+....++.++......+.++
T Consensus 94 L~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~ 136 (239)
T COG1579 94 LNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERL 136 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666666666666666666666666666555443
No 155
>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=39.81 E-value=1.3e+02 Score=21.10 Aligned_cols=37 Identities=8% Similarity=0.183 Sum_probs=28.7
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKL 112 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~ 112 (134)
.+.++....+.+++..++++++.++.....++..+..
T Consensus 72 ~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 108 (124)
T TIGR02051 72 THCREMYELASRKLKSVQAKMADLLRIERLLEELLEQ 108 (124)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467888999999999999998888777776665543
No 156
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=39.77 E-value=74 Score=20.15 Aligned_cols=28 Identities=18% Similarity=0.230 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 84 FISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 84 ~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
-++.|+..|++++...++.+..-+++++
T Consensus 29 tiEqRLa~LE~rL~~ae~ra~~ae~~~~ 56 (60)
T PF11471_consen 29 TIEQRLAALEQRLQAAEQRAQAAEARAK 56 (60)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566666666666666666555555544
No 157
>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=39.48 E-value=72 Score=21.18 Aligned_cols=44 Identities=18% Similarity=0.124 Sum_probs=26.7
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIARQIDE----------YTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~----------l~~~l~~ik~~i~~v~~~i~q 119 (134)
.+++.|...+..|+...+..+.. ....+..++.++..-.+.++.
T Consensus 24 kd~~~~~~~lk~Klq~ar~~i~~lpgi~~s~eeq~~~i~~Le~~i~~k~~~L~~ 77 (83)
T PF07544_consen 24 KDLDTATGSLKHKLQKARAAIRELPGIDRSVEEQEEEIEELEEQIRKKREVLQK 77 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45777888888888888776555 344444444444444444443
No 158
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=39.34 E-value=1.2e+02 Score=21.95 Aligned_cols=37 Identities=14% Similarity=0.106 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.-||..|+.........-..+..+|++++-++.+..
T Consensus 30 mkarIa~LEGE~r~~e~l~~dL~rrIkMLE~aLkqER 66 (134)
T PF08232_consen 30 MKARIAFLEGERRGQENLKKDLKRRIKMLEYALKQER 66 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678888888888888888888999999999887743
No 159
>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=38.82 E-value=1.4e+02 Score=21.05 Aligned_cols=29 Identities=10% Similarity=0.258 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIK 107 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik 107 (134)
++...+++.++..++++++.++.....+.
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~L~~~~~~l~ 106 (127)
T cd01108 78 ADVKALALEHIAELERKIAELQAMRRTLQ 106 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444433333
No 160
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=38.41 E-value=1.2e+02 Score=23.41 Aligned_cols=53 Identities=17% Similarity=0.245 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcchhh
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSVQEA 132 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~~~~~~ 132 (134)
+=+..+..++....+....+++.+....+++..+...++.|+++...+.+++|
T Consensus 68 eEvr~Lr~~LR~~q~~~r~~~~klk~~~~el~k~~~~l~~L~~L~~dknL~eR 120 (194)
T PF15619_consen 68 EEVRVLRERLRKSQEQERELERKLKDKDEELLKTKDELKHLKKLSEDKNLAER 120 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchhH
Confidence 34556677777777777777888888888888888888888887666665554
No 161
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=37.72 E-value=1.4e+02 Score=20.86 Aligned_cols=32 Identities=9% Similarity=0.213 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
++..+.|++.-+++.+++..-+.+|+.++..|
T Consensus 68 ~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 68 KKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 33345555555666665555777777776655
No 162
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. 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=37.69 E-value=96 Score=21.08 Aligned_cols=10 Identities=20% Similarity=0.421 Sum_probs=4.6
Q ss_pred ecHHHHHHHH
Q 032758 76 FTWSEALKFI 85 (134)
Q Consensus 76 ~~~~eA~~~l 85 (134)
+|+++...++
T Consensus 58 ~~l~ei~~~l 67 (102)
T cd04789 58 LSLKECLACL 67 (102)
T ss_pred CCHHHHHHHH
Confidence 3444444444
No 163
>PHA01750 hypothetical protein
Probab=37.57 E-value=1.2e+02 Score=19.98 Aligned_cols=32 Identities=13% Similarity=0.260 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 82 LKFISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
.+++++..+-|..+++.+....+.+..++..+
T Consensus 37 keIV~~ELdNL~~ei~~~kikqDnl~~qv~ei 68 (75)
T PHA01750 37 KEIVNSELDNLKTEIEELKIKQDELSRQVEEI 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 34555555666666655555555555554444
No 164
>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=37.46 E-value=1.9e+02 Score=22.17 Aligned_cols=45 Identities=20% Similarity=0.344 Sum_probs=26.2
Q ss_pred ecc-eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 68 IGL-GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 68 lG~-g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
+|+ +||=-+|.+ |..-...+++.|++.++.+...+..+++.+...
T Consensus 50 iGssn~YWsFps~-~~~~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~ 95 (188)
T PF03962_consen 50 IGSSNYYWSFPSQ-AKQKRQNKLEKLQKEIEELEKKIEELEEKIEEA 95 (188)
T ss_pred ccCeeEEEecChH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 666 555555544 444566666666666666666666555555433
No 165
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=37.11 E-value=1.6e+02 Score=21.40 Aligned_cols=42 Identities=10% Similarity=0.206 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 82 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
..-|.+|++..+..+.++-..+.+.+..+....+.+++++.+
T Consensus 51 Q~~L~~riKevd~~~~~l~~~~~erqk~~~k~ae~L~kv~el 92 (131)
T PF10158_consen 51 QNALAKRIKEVDQEIAKLLQQMVERQKRFAKFAEQLEKVNEL 92 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344666667777666666666666666666666666555544
No 166
>PRK09039 hypothetical protein; Validated
Probab=36.86 E-value=1.3e+02 Score=25.13 Aligned_cols=6 Identities=33% Similarity=0.617 Sum_probs=2.1
Q ss_pred HHHHHH
Q 032758 104 ASIKAQ 109 (134)
Q Consensus 104 ~~ik~~ 109 (134)
..+++|
T Consensus 147 ~aLr~Q 152 (343)
T PRK09039 147 AALRRQ 152 (343)
T ss_pred HHHHHH
Confidence 333333
No 167
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=36.82 E-value=32 Score=30.57 Aligned_cols=28 Identities=11% Similarity=0.279 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 88 REDKIARQIDEYTRLIASIKAQIKLVCE 115 (134)
Q Consensus 88 ri~~L~~~~~~l~~~l~~ik~~i~~v~~ 115 (134)
+|+.|++++++|++++..+++++..++.
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v~k~e~ 59 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRVDKVEK 59 (489)
T ss_pred HHHHHHHHHHHHHHhhcccccccchhhH
Confidence 6666666666666666655555544443
No 168
>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=36.70 E-value=70 Score=21.75 Aligned_cols=12 Identities=33% Similarity=0.360 Sum_probs=7.0
Q ss_pred ecHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ 87 (134)
Q Consensus 76 ~~~~eA~~~l~k 87 (134)
+|++|-.++++.
T Consensus 56 ~sL~eI~~~l~~ 67 (107)
T cd04777 56 FSLIEIQKIFSY 67 (107)
T ss_pred CCHHHHHHHHHh
Confidence 566666666643
No 169
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=36.39 E-value=1.1e+02 Score=28.05 Aligned_cols=45 Identities=16% Similarity=0.181 Sum_probs=36.2
Q ss_pred eecHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQ-IDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~-~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+.|-++|..+++-|+..|... +++++++++++.+++..+...+..
T Consensus 384 ~~t~~qa~ail~mrl~rlt~~e~~k~~~e~~~l~~~i~~~~~~L~~ 429 (635)
T PRK09631 384 DVTEEDIENLLKIPIRRISLFDIDKNQKEIRILNKELKSVEKNLKS 429 (635)
T ss_pred CCCHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 688999999999999998774 777888877777777776666644
No 170
>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=35.95 E-value=1.7e+02 Score=24.89 Aligned_cols=51 Identities=18% Similarity=0.183 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcch
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSVQ 130 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~~~~ 130 (134)
+...-+..+.+.....+..+.+++++|..++..+...|.+...-+..++..
T Consensus 280 ~~ls~~~~~y~~~s~~V~~~t~~L~~IseeLe~vK~emeerg~~mtD~sPl 330 (359)
T PF10498_consen 280 DELSEVQEKYKQASEGVSERTRELAEISEELEQVKQEMEERGSSMTDGSPL 330 (359)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHH
Confidence 334444555555556666666666777777777777777666556655543
No 171
>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=35.71 E-value=1.5e+02 Score=20.69 Aligned_cols=33 Identities=24% Similarity=0.382 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i 110 (134)
.++...++..+++.++++++.++.....+...+
T Consensus 75 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~ 107 (126)
T cd04783 75 CSEARELAEQKLAEVDEKIADLQRMRASLQELV 107 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555566666665555555444444433
No 172
>cd02769 MopB_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=35.70 E-value=47 Score=29.63 Aligned_cols=27 Identities=22% Similarity=0.523 Sum_probs=24.6
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|++.|.|||.+.+..|++.+.++
T Consensus 69 G~g~~~~ISWdEAld~IA~kl~~i~~~ 95 (609)
T cd02769 69 GKEEFVRVSWDEALDLVAAELKRVRKT 95 (609)
T ss_pred CCCCeEEecHHHHHHHHHHHHHHHHHh
Confidence 578899999999999999999998774
No 173
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=35.68 E-value=2.1e+02 Score=24.46 Aligned_cols=49 Identities=14% Similarity=0.105 Sum_probs=36.9
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLP 124 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~ 124 (134)
..+.+..+-+.+++..++.+.+.+..+....+.++......+.+++..+
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 (398)
T PTZ00454 18 RDLYEKLKELEKELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRIQSVP 66 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 3445555666777888888888888888888888888888888876653
No 174
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=35.56 E-value=1.4e+02 Score=26.59 Aligned_cols=51 Identities=12% Similarity=0.107 Sum_probs=30.9
Q ss_pred EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhcC
Q 032758 73 HVEFTWSEALKFISQREDKIARQIDEYTRLIA-------SIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 73 ~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~-------~ik~~i~~v~~~i~ql~~~ 123 (134)
|-++.-.-|..--+.|.+.|+++++.+++++. ..++.|+..+..+++|+..
T Consensus 62 FddkVnqSALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Q 119 (475)
T PRK13729 62 FDDKVRQHATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQ 119 (475)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHH
Confidence 44455555666667777777777777765544 4555555666666666433
No 175
>PRK07737 fliD flagellar capping protein; Validated
Probab=35.53 E-value=1.3e+02 Score=26.50 Aligned_cols=40 Identities=18% Similarity=0.239 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHhc
Q 032758 83 KFISQREDKIARQIDEYTRLIASIK----AQIKLVCEGICELLQ 122 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~~~l~~ik----~~i~~v~~~i~ql~~ 122 (134)
+.+.++++.++++++.++..+...+ ++...++..|+++++
T Consensus 444 ~~l~~~i~~l~~~i~~~~~rl~~~e~ry~~qf~ale~~~s~mns 487 (501)
T PRK07737 444 FAIGKDLNQIETQIDRFQDRLKQIEDRYYKKFSAMEKAIQKANE 487 (501)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666666665444 444556666666554
No 176
>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=35.52 E-value=2.1e+02 Score=22.34 Aligned_cols=41 Identities=10% Similarity=0.278 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
....-...|+..++..++.+++.+...+.++......++..
T Consensus 63 ~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~ 103 (302)
T PF10186_consen 63 REIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQR 103 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555666666666666666666666665555555443
No 177
>cd02755 MopB_Thiosulfate-R-like The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Members of the MopB_Thiosulfate-R-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=35.44 E-value=57 Score=27.83 Aligned_cols=27 Identities=37% Similarity=0.651 Sum_probs=24.3
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|+|.|.|||.+.+.++++.+.++
T Consensus 67 G~g~~~~iSWdeAl~~ia~~l~~~~~~ 93 (454)
T cd02755 67 GEGKFREASWDEALQYIASKLKEIKEQ 93 (454)
T ss_pred CCCeEEEeCHHHHHHHHHHHHHHHHHh
Confidence 578899999999999999999988764
No 178
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=34.93 E-value=1e+02 Score=27.47 Aligned_cols=24 Identities=13% Similarity=0.105 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 96 IDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 96 ~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
.++++++++++++.++.+...+..
T Consensus 99 ~~dle~KIkeLEaE~~~Lk~Ql~a 122 (475)
T PRK13729 99 RGDDQRRIEKLGQDNAALAEQVKA 122 (475)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHh
Confidence 335555555666666665555543
No 179
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=34.41 E-value=2.1e+02 Score=23.82 Aligned_cols=43 Identities=9% Similarity=0.193 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
..+....+++..++.++..+...+...+++...+...|++++.
T Consensus 218 ~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~ 260 (312)
T smart00787 218 QEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEK 260 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455556666666666666666666666666666666554
No 180
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=34.38 E-value=1.5e+02 Score=20.28 Aligned_cols=36 Identities=17% Similarity=0.182 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
.++|++.|..+...+.++...++.++......-++|
T Consensus 47 wek~v~~L~~e~~~l~~E~e~L~~~l~~e~~Ek~~L 82 (87)
T PF12709_consen 47 WEKKVDELENENKALKRENEQLKKKLDTEREEKQEL 82 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777777777777777777777766555544443
No 181
>PF10438 Cyc-maltodext_C: Cyclo-malto-dextrinase C-terminal domain; InterPro: IPR019492 This domain is at the very C terminus of cyclo-malto-dextrinase proteins and consists of 8 beta strands, is largely globular and appears to help stabilise the active sites created by upstream domains, IPR015171 from INTERPRO, and IPR006047 from INTERPRO. Cyclo-malto-dextrinases hydrolyse cyclodextrans to maltose and glucose and catalyse trans-glycosylation of oligosaccharides to the C3-, C4- or C6-hydroxyl groups of various acceptor sugar molecules. ; PDB: 3EDK_B 3EDD_A 3EDJ_B 3EDE_A 1H3G_B 3EDF_B.
Probab=34.25 E-value=40 Score=22.40 Aligned_cols=20 Identities=20% Similarity=0.250 Sum_probs=17.6
Q ss_pred CCceeEEEEecCCCeeEEEe
Q 032758 49 GSEVYMQADVPDTQHIFVDI 68 (134)
Q Consensus 49 G~~~yv~a~I~d~~kVlV~l 68 (134)
-.|+|+.++..+.+.|+|=+
T Consensus 8 ~~gvYvYfR~~~~~tVmVil 27 (78)
T PF10438_consen 8 QDGVYVYFRYYDGKTVMVIL 27 (78)
T ss_dssp BTTEEEEEEEESSEEEEEEE
T ss_pred cCCEEEEEEEcCCCEEEEEE
Confidence 57999999999999988755
No 182
>cd02765 MopB_4 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=34.23 E-value=31 Score=30.48 Aligned_cols=44 Identities=23% Similarity=0.330 Sum_probs=33.2
Q ss_pred eeEEEEecCCCeeEEEe------cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 52 VYMQADVPDTQHIFVDI------GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 52 ~yv~a~I~d~~kVlV~l------G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
.+..-.+.+++++.-.+ |.|=|++.|.|||.+.+.+|++.+.++
T Consensus 44 ~~~~~~~y~pdRl~~Pl~R~g~rG~g~~~~iSWdEAl~~ia~kl~~~~~~ 93 (567)
T cd02765 44 LSHLQRVYSPDRLKYPMKRVGERGEGKFERITWDEALDTIADKLTEAKRE 93 (567)
T ss_pred chhhhhhcChhhhcCCeeecCCCCCCcEEEecHHHHHHHHHHHHHHHHHH
Confidence 33444455666665554 578999999999999999999888764
No 183
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=33.87 E-value=2.2e+02 Score=23.97 Aligned_cols=46 Identities=4% Similarity=0.057 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+.+..+-+.++.+.++...+.+..+++.++.++..+...+.+++..
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 51 (389)
T PRK03992 6 LEERNSELEEQIRQLELKLRDLEAENEKLERELERLKSELEKLKSP 51 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 3445555677888888888888888888888888888888887764
No 184
>PRK02509 hypothetical protein; Provisional
Probab=33.68 E-value=76 Score=30.65 Aligned_cols=45 Identities=20% Similarity=0.294 Sum_probs=35.2
Q ss_pred CeeEEEecCCc-e-----eEEE---EecCCCeeEEEecceeEEeecHHHHHHHH
Q 032758 41 SLRTLVNLGSE-V-----YMQA---DVPDTQHIFVDIGLGFHVEFTWSEALKFI 85 (134)
Q Consensus 41 ~~eilVplG~~-~-----yv~a---~I~d~~kVlV~lG~g~~VE~~~~eA~~~l 85 (134)
|.-.-+|+|+| + |++| .++.-.+|+|.-|..+-++-|+++|.+-+
T Consensus 902 GNLLviPI~~sLLYVEPvYlqA~~~~lP~L~RVIVs~g~~vvm~~TL~eAL~~l 955 (973)
T PRK02509 902 GNLLVIPIEQSLLYVEPLYLEAEQNSLPTLARVIVAYENRIVMAPTLEEALQAI 955 (973)
T ss_pred cceEEEEeCCeeEEEeeEEEecCCCCCCeeEEEEEEECCEEEEccCHHHHHHHH
Confidence 33455699988 3 5554 35566799999999999999999998765
No 185
>PF10400 Vir_act_alpha_C: Virulence activator alpha C-term; InterPro: IPR018309 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response []. This entry represents the C-terminal domain.; PDB: 1YG2_A.
Probab=33.26 E-value=1.3e+02 Score=19.24 Aligned_cols=31 Identities=16% Similarity=0.406 Sum_probs=24.9
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQIDEYTRLIAS 105 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ 105 (134)
..+.++++..++++.+..++.++.++.....
T Consensus 16 ~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~ 46 (90)
T PF10400_consen 16 HLDPEEAIELLEERREQHEERLAEYEEIEQE 46 (90)
T ss_dssp TS-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3678899999999999999998888876544
No 186
>PRK00068 hypothetical protein; Validated
Probab=33.22 E-value=85 Score=30.33 Aligned_cols=46 Identities=22% Similarity=0.262 Sum_probs=37.5
Q ss_pred CeeEEEecCCc------eeEEEE----ecCCCeeEEEecceeEEeecHHHHHHHHH
Q 032758 41 SLRTLVNLGSE------VYMQAD----VPDTQHIFVDIGLGFHVEFTWSEALKFIS 86 (134)
Q Consensus 41 ~~eilVplG~~------~yv~a~----I~d~~kVlV~lG~g~~VE~~~~eA~~~l~ 86 (134)
|.-.-+|+|+| +|++++ ++.-.+|+|.-|..+-.+-|+++|.+-+-
T Consensus 830 GNLLvlPi~~~lLYVePvYlqa~~~~~~P~L~rVivs~g~~v~~~~TL~eAL~~lf 885 (970)
T PRK00068 830 GNLLTLPVGGSLLYVEPVYLRAGGQNSYPELKRVLVSYNDKVGYAPTIREALTQLF 885 (970)
T ss_pred cceEEEEeCCeeEEEEeEEEecCCCCCCceeEEEEEEECCEeEeccCHHHHHHHHh
Confidence 44456799988 466664 56678999999999999999999999873
No 187
>PF08190 PIH1: pre-RNA processing PIH1/Nop17
Probab=33.21 E-value=1.4e+02 Score=23.96 Aligned_cols=52 Identities=13% Similarity=0.220 Sum_probs=36.9
Q ss_pred HHHHHHHHhhcCCCCCeeEEEecCCceeEEEEecCCCeeEEEecceeEEeecH
Q 032758 26 DLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTW 78 (134)
Q Consensus 26 el~~~I~~L~~~~~~~~eilVplG~~~yv~a~I~d~~kVlV~lG~g~~VE~~~ 78 (134)
+.++-|+.+....+ ....+|.--.|+=++++..+.++|+|||...--|..+.
T Consensus 9 ~~~~~~~~~~~~~~-~~~~~i~P~p~f~ikt~~~~~~k~fiNic~~~~i~~p~ 60 (328)
T PF08190_consen 9 EYEKEIQQLEKERK-KDVIFIHPEPGFVIKTKILKGKKVFINICSSDRIPPPQ 60 (328)
T ss_pred HHHHHHHHHHhccC-CCeEEeCCCCCeEEEEEecCCCEEEEEccCcccCCCCc
Confidence 34445555554442 23667777788889999999999999997776666664
No 188
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=32.88 E-value=2.2e+02 Score=21.68 Aligned_cols=13 Identities=15% Similarity=0.529 Sum_probs=10.0
Q ss_pred eecHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQ 87 (134)
Q Consensus 75 E~~~~eA~~~l~k 87 (134)
.+|+++.+.||..
T Consensus 79 ~ltl~~vI~fLq~ 91 (161)
T TIGR02894 79 SLTLQDVISFLQN 91 (161)
T ss_pred cCCHHHHHHHHHH
Confidence 5888888888753
No 189
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=32.85 E-value=1.8e+02 Score=25.51 Aligned_cols=46 Identities=20% Similarity=0.343 Sum_probs=40.1
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
.+.+...++..++..+...+..+..++.+++.++..+...++++..
T Consensus 128 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~ 173 (525)
T TIGR02231 128 EWFQAFDFNGSEIERLLTEDREAERRIRELEKQLSELQNELNALLT 173 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4678888999999999999999999999999999999888887655
No 190
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=32.79 E-value=84 Score=23.72 Aligned_cols=26 Identities=19% Similarity=0.304 Sum_probs=17.1
Q ss_pred CCCeeEEEecceeEEeecHHHHHHHH
Q 032758 60 DTQHIFVDIGLGFHVEFTWSEALKFI 85 (134)
Q Consensus 60 d~~kVlV~lG~g~~VE~~~~eA~~~l 85 (134)
+..+++|++-+..||-=.+.++.+|+
T Consensus 61 eGk~~LVPLTsSlYVPGkl~d~~k~l 86 (153)
T KOG3048|consen 61 EGKKLLVPLTSSLYVPGKLSDNSKFL 86 (153)
T ss_pred CCCeEEEecccceeccceecccccee
Confidence 45667777777777776666666553
No 191
>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=32.77 E-value=1.8e+02 Score=20.47 Aligned_cols=31 Identities=23% Similarity=0.250 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKA 108 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~ 108 (134)
.+++..++..+.+.++++++.++.....++.
T Consensus 77 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (126)
T cd04785 77 CAEADAIARAHLADVRARIADLRRLEAELKR 107 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555554444444433
No 192
>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=32.75 E-value=1.8e+02 Score=20.54 Aligned_cols=31 Identities=13% Similarity=0.215 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKA 108 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~ 108 (134)
.++...+++.++..++.++++++...+.+..
T Consensus 77 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T TIGR02047 77 CSDVNALLDEHISHVRARIIKLQALIEQLVD 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555544444443
No 193
>cd02770 MopB_DmsA-EC This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=32.51 E-value=59 Score=29.00 Aligned_cols=39 Identities=26% Similarity=0.446 Sum_probs=29.9
Q ss_pred EecCCCeeEEE---e---cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 57 DVPDTQHIFVD---I---GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 57 ~I~d~~kVlV~---l---G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
.+.+++++.-. . |.|=|++.|.|||.+.+.+|++.+.+.
T Consensus 53 ~~y~p~Rl~~Pl~R~g~rG~g~~~~isWDeAl~~ia~kl~~i~~~ 97 (617)
T cd02770 53 RVYNPDRLKYPMKRVGKRGEGKFVRISWDEALDTIASELKRIIEK 97 (617)
T ss_pred hhcChhHhcCCceecCcCCCCCeEEecHHHHHHHHHHHHHHHHHH
Confidence 34455554433 3 578999999999999999999988774
No 194
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=32.48 E-value=2.8e+02 Score=23.79 Aligned_cols=25 Identities=16% Similarity=0.121 Sum_probs=13.0
Q ss_pred eeEEEecCCceeEEEEecCCCeeEE
Q 032758 42 LRTLVNLGSEVYMQADVPDTQHIFV 66 (134)
Q Consensus 42 ~eilVplG~~~yv~a~I~d~~kVlV 66 (134)
..+.+.-+.|..+-+.+.-.+.|.+
T Consensus 286 ~~i~v~~~~g~IiGG~i~a~~~i~a 310 (451)
T PF03961_consen 286 GSIIVNGGKGRIIGGEIKAGNGIEA 310 (451)
T ss_pred CeEEEeCCCCEEECcEEEEcccEEE
Confidence 3455544455555555555455444
No 195
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=32.27 E-value=1.7e+02 Score=23.94 Aligned_cols=17 Identities=18% Similarity=0.249 Sum_probs=7.0
Q ss_pred HHHHhhHHHHHHHHHHh
Q 032758 18 LTLNAGSSDLRKNIENL 34 (134)
Q Consensus 18 ~~~~~ey~el~~~I~~L 34 (134)
.....++..++..++.+
T Consensus 84 ~~l~~~~~~l~a~~~~l 100 (423)
T TIGR01843 84 AELESQVLRLEAEVARL 100 (423)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33344444444444443
No 196
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. 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. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=31.97 E-value=71 Score=21.67 Aligned_cols=15 Identities=20% Similarity=0.089 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHHH
Q 032758 106 IKAQIKLVCEGICEL 120 (134)
Q Consensus 106 ik~~i~~v~~~i~ql 120 (134)
+..+...+.+.++++
T Consensus 81 l~~~~~~l~~~i~~L 95 (99)
T cd04772 81 VDAAHALLQRYRQQL 95 (99)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333344444333
No 197
>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=31.46 E-value=2.4e+02 Score=21.58 Aligned_cols=38 Identities=8% Similarity=0.156 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 82 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
..-+..++..|+...+.|...+..++.+...+.....+
T Consensus 122 ~~~l~~~i~~L~~e~~~L~~~~~~l~~~~e~~ek~~~e 159 (189)
T PF10211_consen 122 KQELEEEIEELEEEKEELEKQVQELKNKCEQLEKREEE 159 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566666666666666666666666666655555444
No 198
>PF04523 Herpes_U30: Herpes virus tegument protein U30; InterPro: IPR007611 This family is named after the human herpesvirus protein, but has been characterised in cytomegalovirus as UL47. Cytomegalovirus UL47 is a component of the tegument, which is a protein layer surrounding the viral capsid. UL47 co-precipitates with UL48 and UL69 tegument proteins, and the major capsid protein UL86. A UL47-containing complex is thought to be involved in the release of viral DNA from the disassembling virus particle [].; GO: 0019068 virion assembly
Probab=31.10 E-value=3.9e+02 Score=25.61 Aligned_cols=63 Identities=13% Similarity=0.213 Sum_probs=51.6
Q ss_pred CCCeeEEEecceeEEeecHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 60 DTQHIFVDIGLGFHVEFTWS---EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 60 d~~kVlV~lG~g~~VE~~~~---eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
+++.|.+.++.+..+-.++. ++.+-+.++-+.+...+..++.++..+..++..+.+.++.+.+
T Consensus 681 ~~~~V~i~~~~~~~~~v~l~~f~~ti~~l~~~~~~l~~~l~~~~~~l~~~~~rl~~~l~d~~~i~~ 746 (887)
T PF04523_consen 681 DTDTVEIPIESKQILSVSLPTFKSTIKALQDQCRELIDRLTQLSERLQTIYRRLLQILEDIEKIKQ 746 (887)
T ss_pred CCceEEEEeccCcceeeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 67888888888777777654 6778888888888888889999988888888888888877666
No 199
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=31.07 E-value=88 Score=20.19 Aligned_cols=22 Identities=14% Similarity=0.229 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASI 106 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~i 106 (134)
++.||..|+..|+.+..++.++
T Consensus 30 l~eRIalLq~EIeRlkAe~~kK 51 (65)
T COG5509 30 LEERIALLQAEIERLKAELAKK 51 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh
Confidence 3445555555555444444433
No 200
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=31.05 E-value=48 Score=29.50 Aligned_cols=34 Identities=15% Similarity=0.265 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
...++.++ ++++|+++++++++++..+...+...
T Consensus 24 ~~~~~~~q-kie~L~kql~~Lk~q~~~l~~~v~k~ 57 (489)
T PF11853_consen 24 ADDIDLLQ-KIEALKKQLEELKAQQDDLNDRVDKV 57 (489)
T ss_pred hhhhHHHH-HHHHHHHHHHHHHHhhcccccccchh
Confidence 34455555 78888888888888877666555543
No 201
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=31.02 E-value=1.5e+02 Score=22.04 Aligned_cols=35 Identities=11% Similarity=0.096 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 89 EDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 89 i~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
++.|+....++...+.+++++++.+....-.++++
T Consensus 3 ~~~Le~ek~~~~~rI~~K~~~LqEL~~Q~va~knL 37 (142)
T PF08781_consen 3 CEELEEEKQRRRERIKKKKEQLQELILQQVAFKNL 37 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666666555544444433
No 202
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=30.99 E-value=95 Score=21.90 Aligned_cols=29 Identities=21% Similarity=0.253 Sum_probs=21.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIAS 105 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ 105 (134)
+.+++++.++.+.+.+++....+.+.+.+
T Consensus 72 ~~ee~k~~~~q~rK~~Ek~Aa~LT~~i~~ 100 (101)
T PF09943_consen 72 ESEEVKKVLRQVRKDLEKNAAKLTRKIEK 100 (101)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34778888888888888888877776543
No 203
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=30.98 E-value=2.6e+02 Score=21.78 Aligned_cols=59 Identities=20% Similarity=0.234 Sum_probs=27.5
Q ss_pred CCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 61 TQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 61 ~~kVlV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
.+-|+-.||.|++|=--.-.+.+-=.+ .+.=+..+.+++..+.+++.++......+++|
T Consensus 74 gE~~iF~vggg~lv~Ey~R~~~~e~~k-ee~~~~e~~elr~~~~~l~~~i~~~~~~~~~L 132 (181)
T KOG3335|consen 74 GELFIFSVGGGVLVFEYWRQARKERKK-EEKRKQEIMELRLKVEKLENAIAELTKFFSQL 132 (181)
T ss_pred hhHHheeecceeeeehhHHhhhcchhh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355777888888886444443332222 11111223444444444444444444444444
No 204
>TIGR02054 MerD mercuric resistence transcriptional repressor protein MerD. This model represents a transcriptional repressor protein of the MerR family (pfam00376) whose expression is regulated by the mercury-sensitive transcriptional activator, MerR. MerD has been shown to repress the transcription of the mer operon.
Probab=30.96 E-value=2e+02 Score=20.48 Aligned_cols=54 Identities=11% Similarity=0.121 Sum_probs=31.1
Q ss_pred ecHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcc
Q 032758 76 FTWSEALKFISQR----EDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSV 129 (134)
Q Consensus 76 ~~~~eA~~~l~kr----i~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~~~ 129 (134)
+++++...+++-. -..+...+......+....+++..+...+..+....++.|+
T Consensus 61 ~~L~eI~~ll~~~~~~~~~~~~~~~~~~~~~i~~ki~~L~~l~~~L~~l~~~~~~~~~ 118 (120)
T TIGR02054 61 IGLGELARLCRALDAANGDDTAACLAVLRQLVEARREALAALEVQLAAMPTAAAQHSE 118 (120)
T ss_pred CCHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence 5777777776521 22344445555555555555566666666666666555543
No 205
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=30.90 E-value=2.1e+02 Score=20.72 Aligned_cols=42 Identities=14% Similarity=0.213 Sum_probs=35.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
+.+.-++|+++.++.+++++...+++..+-+..+-..+...+
T Consensus 73 nV~kRlefI~~Eikr~e~~i~d~q~e~~k~R~~v~k~Q~~~q 114 (120)
T KOG3478|consen 73 NVGKRLEFISKEIKRLENQIRDSQEEFEKQREAVIKLQQAAQ 114 (120)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456788999999999999999999999988888776665544
No 206
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=30.87 E-value=1.8e+02 Score=24.01 Aligned_cols=39 Identities=10% Similarity=0.108 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+..+++.|+++++.++.+....+.++....+.+.+++..
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 42 (364)
T TIGR01242 4 LDVRIRKLEDEKRSLEKEKIRLERELERLRSEIERLRSP 42 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 356777888888888888888888888888888776654
No 207
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=30.84 E-value=2e+02 Score=28.19 Aligned_cols=68 Identities=9% Similarity=0.199 Sum_probs=40.3
Q ss_pred CeeEEEecCCceeEEEEecCCCeeEEEec----ceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 41 SLRTLVNLGSEVYMQADVPDTQHIFVDIG----LGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 41 ~~eilVplG~~~yv~a~I~d~~kVlV~lG----~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
-..+++|=|...|.++-. -.|....| -+-+++.+.++.++.+++-...+++++..++....+.+..+.
T Consensus 621 ~~~aytldg~~~~~~g~~---~~~ySt~~~~~r~~~~~~~s~d~~ie~le~e~~~l~~~~~~l~~~~~~~e~~l~ 692 (1074)
T KOG0250|consen 621 VTKAYTLDGRQIFAGGPN---YRVYSTRGTRARRPGVDEFSFDDEIEDLEREASRLQKEILELENQRREAEKNLE 692 (1074)
T ss_pred ceeeeccCccccccCCCC---cceeccCCCCCCCccccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345777777777777762 12222222 234788999999998887777666644444443333333333
No 208
>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=30.77 E-value=1.7e+02 Score=22.85 Aligned_cols=37 Identities=19% Similarity=0.281 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 83 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
..+..+.+.++.+++.+.+++..+..++...++.+..
T Consensus 189 G~i~~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l~~ 225 (239)
T PF07195_consen 189 GSITSRIDSLNSQIKSLDKQIEDLEERLESKEERLRK 225 (239)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777777777777777777777766666644
No 209
>PHA02107 hypothetical protein
Probab=30.74 E-value=2.3e+02 Score=22.07 Aligned_cols=30 Identities=20% Similarity=0.216 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 94 RQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 94 ~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
.++.++..+++++++.-+.++..|.-+++.
T Consensus 184 ~Ri~EID~EI~~LQA~RKEiEDN~K~IKN~ 213 (216)
T PHA02107 184 VRISEIDEEIKELQARRKEIEDNIKSIKNA 213 (216)
T ss_pred hhHhHHhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 367788888888888888888888776653
No 210
>PF12841 YvrJ: YvrJ protein family; InterPro: IPR024419 This entry is represents a family of uncharacterised protein. The function of the Bacillus subtilis YvrJ protein is not known, but its expression is regulated by the cell envelope stress-inducible sigma factor YvrI [].
Probab=30.44 E-value=59 Score=18.82 Aligned_cols=17 Identities=24% Similarity=0.534 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTR 101 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~ 101 (134)
+++|++.|.+.+.+|.+
T Consensus 20 ~E~kld~L~~~i~~L~~ 36 (38)
T PF12841_consen 20 IEKKLDELTESINELSE 36 (38)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 34555555555555443
No 211
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=30.32 E-value=1.7e+02 Score=19.47 Aligned_cols=34 Identities=9% Similarity=0.239 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKL 112 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~ 112 (134)
..+...+..+.+.+...+..+......++.+...
T Consensus 6 ~~~l~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~ 39 (127)
T smart00502 6 EELLTKLRKKAAELEDALKQLISIIQEVEENAAD 39 (127)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555444444444444444444444433
No 212
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=30.25 E-value=1.9e+02 Score=20.07 Aligned_cols=29 Identities=7% Similarity=0.021 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
+.+++..++.+.++++.+-..+++++..+
T Consensus 32 l~~q~~~~~~e~~~l~~~n~~L~~eI~~L 60 (105)
T PRK00888 32 VNDQVAAQQQTNAKLKARNDQLFAEIDDL 60 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44445555555555555555555544444
No 213
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=30.23 E-value=2.1e+02 Score=20.57 Aligned_cols=43 Identities=12% Similarity=0.168 Sum_probs=25.3
Q ss_pred ecHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ----------REDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 76 ~~~~eA~~~l~k----------ri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
+|+++..++++- ....+.++++.++.++++++.....+...+.
T Consensus 58 ~sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (135)
T PRK10227 58 FNLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIEELQSMRDQLLALAN 110 (135)
T ss_pred CCHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 688888888752 2344555556666666555555555554443
No 214
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=30.21 E-value=1.4e+02 Score=28.53 Aligned_cols=45 Identities=22% Similarity=0.310 Sum_probs=35.0
Q ss_pred eecHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQ-IDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~-~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
++|-++|..+++=|+..|... ++++.++++++++++..+...+..
T Consensus 405 ~lte~qa~aIlemrL~rlt~le~~k~~~e~~~l~~~i~~~~~~L~~ 450 (869)
T PRK12758 405 EVTEDDIVRLTEIKIKRISKFDSDKADELIARLEAEIAEVKHHLAH 450 (869)
T ss_pred CCCHHHHHHHHHhHHHHHhchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 689999999999999888774 777777777777777666665554
No 215
>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=30.04 E-value=2e+02 Score=20.20 Aligned_cols=34 Identities=18% Similarity=0.203 Sum_probs=23.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i 110 (134)
+.++...++.+++..++++++.++...+.+...+
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02044 76 TSADVKARTLEKVAEIERKISELQSMRDQLEALA 109 (127)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777777777777777776666555443
No 216
>COG5391 Phox homology (PX) domain protein [Intracellular trafficking and secretion / General function prediction only]
Probab=30.03 E-value=2.2e+02 Score=25.54 Aligned_cols=54 Identities=15% Similarity=0.095 Sum_probs=44.4
Q ss_pred EEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 65 FVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 65 lV~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
....|.++..|.+...+++.++..+..+.+++....++...+.+.+..-..-..
T Consensus 432 ~~~~~~~~~~e~sr~k~~~~Lqq~~~~l~~~L~~a~~d~~~i~e~~~~el~~~~ 485 (524)
T COG5391 432 LSYKLRDFVQEKSRSKSIESLQQDKEKLEEQLAIAEKDAQEINEELKNELKFFF 485 (524)
T ss_pred ccccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344677888999999999999999999999999999998888887765544443
No 217
>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.
Probab=29.95 E-value=1.6e+02 Score=25.74 Aligned_cols=31 Identities=16% Similarity=0.277 Sum_probs=23.5
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQIDEYTRLIAS 105 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ 105 (134)
.-+..-=.+.+++|++.|+++++.+++.+..
T Consensus 158 ~~p~~vQ~~L~~~Rl~~L~~qi~~~~~~l~~ 188 (475)
T PF10359_consen 158 NDPRRVQIELIQERLDELEEQIEKHEEKLGE 188 (475)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 4555666788899999999888877777655
No 218
>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=29.83 E-value=2.7e+02 Score=21.75 Aligned_cols=35 Identities=26% Similarity=0.388 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 83 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
++..+++..|+..++.+...+...+.....+...|
T Consensus 193 e~aE~~v~~Le~~id~le~eL~~~k~~~~~~~~el 227 (237)
T PF00261_consen 193 EFAERRVKKLEKEIDRLEDELEKEKEKYKKVQEEL 227 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555555555555555444
No 219
>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]
Probab=29.82 E-value=1.5e+02 Score=23.52 Aligned_cols=39 Identities=15% Similarity=0.243 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 82 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
-+|..|++..|.+.++.|...+...+..+..+...+.+.
T Consensus 160 AE~aERsVakLeke~DdlE~kl~~~k~ky~~~~~eLD~~ 198 (205)
T KOG1003|consen 160 AEFAERRVAKLEKERDDLEEKLEEAKEKYEEAKKELDET 198 (205)
T ss_pred HHHHHHHHHHHcccHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 367888888888888888888888888877776666553
No 220
>KOG2685 consensus Cystoskeletal protein Tektin [Cytoskeleton]
Probab=29.68 E-value=1.9e+02 Score=25.30 Aligned_cols=49 Identities=10% Similarity=0.001 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAET 127 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~~ 127 (134)
+.+..-+.+|+...++-..+|...+++....|...+..|..+...-...
T Consensus 270 ~~ve~af~~ri~etqdar~kL~~ql~k~leEi~~~e~~I~~le~airdK 318 (421)
T KOG2685|consen 270 DAVELAFKKRIRETQDARNKLEWQLAKTLEEIADAENNIEALERAIRDK 318 (421)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhcc
Confidence 3445568899999999999999999999999999999998877654433
No 221
>PF04012 PspA_IM30: PspA/IM30 family; InterPro: IPR007157 This family includes PspA a protein that suppresses sigma54-dependent transcription. The PspA protein, a negative regulator of the Escherichia coli phage shock psp operon, is produced when virulence factors are exported through secretins in many Gram-negative pathogenic bacteria and its homologue in plants, VIPP1, plays a critical role in thylakoid biogenesis, essential for photosynthesis. Activation of transcription by the enhancer-dependent bacterial sigma54-containing RNA polymerase occurs through ATP hydrolysis-driven protein conformational changes enabled by activator proteins that belong to the large AAA(+) mechanochemical protein family. It has been shown that PspA directly and specifically acts upon and binds to the AAA(+) domain of the PspF transcription activator [].
Probab=29.47 E-value=2.6e+02 Score=21.33 Aligned_cols=34 Identities=18% Similarity=0.379 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 87 QREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 87 kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
.++..++..++.......+++.++..+...+.++
T Consensus 98 ~~~~~l~~~~~~~~~~~~~l~~~l~~l~~kl~e~ 131 (221)
T PF04012_consen 98 EQAERLEQQLDQAEAQVEKLKEQLEELEAKLEEL 131 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555555555555555555555555443
No 222
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=29.46 E-value=67 Score=19.82 Aligned_cols=19 Identities=5% Similarity=0.342 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLIA 104 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~ 104 (134)
.++++.+++++++++++++
T Consensus 47 r~~~~~~~k~l~~le~e~~ 65 (68)
T PF06305_consen 47 RRRIRRLRKELKKLEKELE 65 (68)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444443
No 223
>PF10960 DUF2762: Protein of unknown function (DUF2762); InterPro: IPR024405 BhlA is a SP-beta prophage-derived protein found in Bacillus subtilis [, ] and other Bacilli. A related protein, UviB, has also been described in Clostridia, where it is believed to be involved in bacteriocin secretion or immunity [, ].
Probab=29.44 E-value=1.2e+02 Score=19.82 Aligned_cols=30 Identities=27% Similarity=0.281 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 84 FISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 84 ~l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
-...|.+.+.+.++++.+.++.+.+-.+.+
T Consensus 36 ~~~~RE~kyq~~I~~lte~~~~~~~~~~dv 65 (71)
T PF10960_consen 36 KQEEREEKYQEQIEKLTEKLNVIEEIKEDV 65 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334666666666666666655555444433
No 224
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=29.06 E-value=2.6e+02 Score=23.17 Aligned_cols=39 Identities=8% Similarity=0.219 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
++..+-+++.++.+++..+.+.+++..+..+-..+...+
T Consensus 42 ~~~~~~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el 80 (314)
T PF04111_consen 42 EEDIEELEEELEKLEQEEEELLQELEELEKEREELDQEL 80 (314)
T ss_dssp HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444444433333333
No 225
>PF05185 PRMT5: PRMT5 arginine-N-methyltransferase; InterPro: IPR007857 The human homologue of Saccharomyces cerevisiae Skb1 (Shk1 kinase-binding protein 1) is a protein methyltransferase []. These proteins seem to play a role in Jak signalling.; GO: 0008168 methyltransferase activity, 0005737 cytoplasm; PDB: 2Y1W_C 2Y1X_D 2V7E_B 2V74_H 3R0Q_G 3B3F_B 3B3J_A 3B3G_A 3UA3_A 3UA4_B ....
Probab=29.05 E-value=54 Score=28.58 Aligned_cols=20 Identities=20% Similarity=0.263 Sum_probs=16.0
Q ss_pred HHHHHHHHhhHHHHHHHHHH
Q 032758 14 YLVYLTLNAGSSDLRKNIEN 33 (134)
Q Consensus 14 ~~~~~~~~~ey~el~~~I~~ 33 (134)
|-.|.+..-+|...+++|..
T Consensus 153 Ye~fE~D~vKY~~Ye~AI~~ 172 (448)
T PF05185_consen 153 YEVFEKDPVKYDQYERAIEE 172 (448)
T ss_dssp HHHHCC-HHHHHHHHHHHHH
T ss_pred HhhHhcCHHHHHHHHHHHHH
Confidence 88888888889888888876
No 226
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=29.02 E-value=1.8e+02 Score=23.34 Aligned_cols=33 Identities=21% Similarity=0.182 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 84 FISQREDKIARQIDEYTRLIASIKAQIKLVCEG 116 (134)
Q Consensus 84 ~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~ 116 (134)
-+..+++.|+..+..|+..+.+...+++++.+.
T Consensus 58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~r 90 (263)
T PRK10803 58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVVER 90 (263)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 345666666666666666666555555555543
No 227
>cd03199 GST_C_GRX2 GST_C family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD (most GRXs range from 9-12kD). GRX2 adopts a GST fold containing an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. It contains a redox active CXXC motif located in the N-terminal domain, but is not able to reduce ribonucleotide reductase like other GRXs. However, it catalyzes GSH-dependent protein disulfide reduction of other substrates efficiently. GRX2 is thought to function primarily in catalyzing the reversible glutathionylation of proteins in cellular redox regulation including stress responses.
Probab=28.80 E-value=1.4e+02 Score=21.71 Aligned_cols=46 Identities=15% Similarity=0.166 Sum_probs=28.4
Q ss_pred EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 73 HVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 73 ~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
+-|...++|++++.+|.+.--...+.+-++-.++-++++.....+.
T Consensus 28 lpEFaT~~A~~yf~~kKe~~~G~F~~~l~~t~~~i~~l~~~L~~l~ 73 (128)
T cd03199 28 LPEFATQSARDYFIEKKEKSIGSFDALLANTPQYIAALNALLEELD 73 (128)
T ss_pred CCccCCHHHHHHHHHHHHhhhCCHHHHHHccHHHHHHHHHHHHHHH
Confidence 5688999999988888776655555554444444444444433333
No 228
>KOG0614 consensus cGMP-dependent protein kinase [Signal transduction mechanisms]
Probab=28.80 E-value=2e+02 Score=26.52 Aligned_cols=66 Identities=15% Similarity=0.218 Sum_probs=39.5
Q ss_pred CCCeeEEEecceeEEee-------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 032758 60 DTQHIFVDIGLGFHVEF-------TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPA 125 (134)
Q Consensus 60 d~~kVlV~lG~g~~VE~-------~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~ 125 (134)
++..--|++|+|-.--. .+++|..--+..+..=+-.++.+.+++.+.+..+..+...+...++..+
T Consensus 4 p~~~~hvd~~~g~~t~~~~~~~v~~l~~~v~~kd~elr~rqt~~~~l~~~~~~~~~~i~~ltnel~k~r~~~p 76 (732)
T KOG0614|consen 4 PPANAHVDVGTGMGTARELQNLVPQLEEAVQRKDAELRQRQTILEELIKEISKLEGEIAKLTNELDKLRSVLP 76 (732)
T ss_pred CCcCCCCccccCccchHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhcCCc
Confidence 34444566777766555 4455554444444333444667777777777777777777777666543
No 229
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=28.77 E-value=2.2e+02 Score=22.23 Aligned_cols=43 Identities=12% Similarity=0.278 Sum_probs=34.4
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
+++.++-...++-++..|.++...+++......+.|+.+..++
T Consensus 74 ~~~~~eel~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~L 116 (201)
T KOG4603|consen 74 DMVSDEELQVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSAL 116 (201)
T ss_pred cCCChHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5667778888899999999988888888888888877665544
No 230
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=28.45 E-value=2.5e+02 Score=25.38 Aligned_cols=33 Identities=12% Similarity=0.195 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i 110 (134)
.+++.+-++.|++.+++.++.+++++.+.....
T Consensus 213 p~~~l~~l~~~l~~l~~~~~~~~~~l~~~~~~~ 245 (646)
T PRK05771 213 PSELIREIKEELEEIEKERESLLEELKELAKKY 245 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666666666666666666555544
No 231
>cd02763 MopB_2 The MopB_2 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=28.20 E-value=73 Score=29.28 Aligned_cols=26 Identities=27% Similarity=0.472 Sum_probs=23.5
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIAR 94 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~ 94 (134)
|.|=|++.|.|||.+++.+|++.+.+
T Consensus 66 G~g~f~~ISWDEAld~IA~kL~~i~~ 91 (679)
T cd02763 66 GSGQFEEIEWEEAFSIATKRLKAARA 91 (679)
T ss_pred CCCceEEeCHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999988765
No 232
>cd02772 MopB_NDH-1_NuoG2 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as a redox pump that uses the redox energy to translocate H+ ions across the membrane, resulting in a significant contribution to energy production. In Escherichia coli NDH-1, the largest subunit is encoded by the nuoG gene, and is part of the 14 distinct subunits constituting the functional enzyme. The NuoG subunit is made of two domains: the first contains three binding sites for FeS clusters (the fer2 domain), the second domain (this CD), is of unknown function or, as postulated, has lost an ancestral formate dehydrogenase activity that became redundant during the evolution of the complex I enzyme. Although only vestigial sequence evidence remains of a molybdopterin binding site, this protein domain belongs to t
Probab=28.16 E-value=59 Score=27.08 Aligned_cols=26 Identities=23% Similarity=0.488 Sum_probs=22.9
Q ss_pred ceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 70 LGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 70 ~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
.|=|+|.|.|||.+.+.+|++.+.++
T Consensus 63 ~g~~~~isWdeAl~~ia~~l~~i~~~ 88 (414)
T cd02772 63 DGQWQEVDWETALEYVAEGLSAIIKK 88 (414)
T ss_pred CCceEEecHHHHHHHHHHHHHHHHHh
Confidence 46799999999999999999888763
No 233
>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=27.93 E-value=2.6e+02 Score=20.90 Aligned_cols=42 Identities=17% Similarity=0.324 Sum_probs=19.2
Q ss_pred ecHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQR----EDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 76 ~~~~eA~~~l~kr----i~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
+|+++...+++.. ...|.++++.+.+++..+++..+.+...+
T Consensus 59 ~sL~eI~~ll~~~~~~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll 104 (172)
T cd04790 59 VSLEDIRSLLQQPGDDATDVLRRRLAELNREIQRLRQQQRAIATLL 104 (172)
T ss_pred CCHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555421 22344444444445444444444444443
No 234
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=27.73 E-value=2.6e+02 Score=20.76 Aligned_cols=42 Identities=12% Similarity=0.025 Sum_probs=21.4
Q ss_pred ecHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFIS-----------QREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 76 ~~~~eA~~~l~-----------kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
+|+++-.++++ .....+.+..+.+.+++.++++....+...+
T Consensus 68 ~sL~eIk~ll~~~~~~~~~~~~~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i 120 (154)
T PRK15002 68 IPLATIGEAFGVLPEGHTLSAKEWKQLSSQWREELDRRIHTLVALRDELDGCI 120 (154)
T ss_pred CCHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666666664 2334444445555555555554444444433
No 235
>PRK10963 hypothetical protein; Provisional
Probab=27.53 E-value=1.6e+02 Score=22.92 Aligned_cols=40 Identities=5% Similarity=0.004 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
.|+...+++++.|+++++.++.++..+-+....=+...++
T Consensus 37 gaVSL~ErQ~~~LR~r~~~Le~~l~~Li~~A~~Ne~l~~~ 76 (223)
T PRK10963 37 GTVSLVEWQMARQRNHIHVLEEEMTLLMEQAIANEDLFYR 76 (223)
T ss_pred CeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3777888888888888888888887776665443333333
No 236
>cd02750 MopB_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. Members of the MopB_Nitrate-R-NarG-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=27.52 E-value=83 Score=26.91 Aligned_cols=27 Identities=26% Similarity=0.465 Sum_probs=23.2
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|.+.|.|||.+.+.+|++.+.++
T Consensus 78 G~g~~~~isWdeAl~~ia~~l~~i~~~ 104 (461)
T cd02750 78 GEGKWKRISWDEALELIADAIIDTIKK 104 (461)
T ss_pred CCCceEEecHHHHHHHHHHHHHHHHHH
Confidence 468899999999999999998877553
No 237
>TIGR00509 bisC_fam molybdopterin guanine dinucleotide-containing S/N-oxide reductases. This enzyme family shares sequence similarity and a requirement for a molydenum cofactor as the only prosthetic group. The form of the cofactor is a single molybdenum atom coordinated by two molybdopterin guanine dinucleotide molecules. Members of the family include biotin sulfoxide reductase, dimethylsulfoxide reductase, and trimethylamine-N-oxide reductase, although a single member may show all those activities and related activities; it may not be possible to resolve the primary function for members of this family by sequence comparison alone. A number of similar molybdoproteins in which the N-terminal region contains a CXXXC motif and may bind an iron-sulfur cluster are excluded from this set, including formate dehydrogenases and nitrate reductases. Also excluded is the A chain of a heteromeric, anaerobic DMSO reductase, which also contains the CXXXC motif.
Probab=27.52 E-value=77 Score=29.10 Aligned_cols=26 Identities=19% Similarity=0.482 Sum_probs=24.0
Q ss_pred ceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 70 LGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 70 ~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
.|=|++.|.|||.+.+..|++.+.++
T Consensus 68 ~g~f~~iSWDEAl~~IA~kl~~i~~~ 93 (770)
T TIGR00509 68 REEFVRVSWDEALDLVAEELKRVRKT 93 (770)
T ss_pred CCCeEEecHHHHHHHHHHHHHHHHHh
Confidence 57899999999999999999998875
No 238
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=27.49 E-value=2.8e+02 Score=21.14 Aligned_cols=39 Identities=5% Similarity=0.274 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 84 FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 84 ~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
-+..+++.|++..+++.++...++..+..+...|.+-..
T Consensus 115 ~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RARk 153 (161)
T TIGR02894 115 SLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRARK 153 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666666666666666666666666655433
No 239
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=27.45 E-value=2.3e+02 Score=20.61 Aligned_cols=24 Identities=21% Similarity=0.303 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 81 ALKFISQREDKIARQIDEYTRLIA 104 (134)
Q Consensus 81 A~~~l~kri~~L~~~~~~l~~~l~ 104 (134)
....+..+...+.++++.++...+
T Consensus 81 ~~~~l~~~~~~l~~ki~~L~~~~~ 104 (142)
T TIGR01950 81 WARLSSQWREELDERIDQLNALRD 104 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444443333
No 240
>PRK06798 fliD flagellar capping protein; Validated
Probab=27.39 E-value=1e+02 Score=26.74 Aligned_cols=34 Identities=24% Similarity=0.318 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
+..|++.|+.+++.+++++..+..++...++.+.
T Consensus 377 i~~r~~~l~~~i~~l~~~~~~~e~rl~~~e~~l~ 410 (440)
T PRK06798 377 IGERSKSIDNRVSKLDLKITDIDTQNKQKQDNIV 410 (440)
T ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555666666666666666666555555543
No 241
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=27.35 E-value=1.5e+02 Score=27.64 Aligned_cols=42 Identities=12% Similarity=0.082 Sum_probs=33.8
Q ss_pred eecHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQ-IDEYTRLIASIKAQIKLVCEG 116 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~-~~~l~~~l~~ik~~i~~v~~~ 116 (134)
..+-.+|..+++-|+..|.+. .+++.++++++++.++.++..
T Consensus 417 ~~~~~qa~~Il~m~L~~Lt~le~~kl~~E~~~l~~ei~~l~~i 459 (742)
T PRK05561 417 DLSEIQAEAILELRLRRLAKLEEIEIRKEQDELRKEIAELEAI 459 (742)
T ss_pred CCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357889999999999998864 788888888888877766665
No 242
>KOG3684 consensus Ca2+-activated K+ channel proteins (intermediate/small conductance classes) [Inorganic ion transport and metabolism]
Probab=27.27 E-value=2.5e+02 Score=25.08 Aligned_cols=43 Identities=9% Similarity=0.209 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 81 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 81 A~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+....-+.+..+...-+.+++++..+..++..+.+.++.+-.+
T Consensus 428 ~~~~myd~~~~l~~~q~~le~qI~~Le~kl~~l~~~l~s~~~~ 470 (489)
T KOG3684|consen 428 TQNDMYDLLQELHSRQEELEKQIDTLESKLEALTASLSSLPGL 470 (489)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchh
Confidence 3333444445555555555555555555555555555444333
No 243
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=27.13 E-value=1.5e+02 Score=25.85 Aligned_cols=34 Identities=9% Similarity=0.174 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
..|.+.+..+++.+.+++..+..++...++.+..
T Consensus 405 ~~~~~~l~~~i~~l~~~i~~~~~rl~~~e~rl~~ 438 (462)
T PRK08032 405 KTATDGVNKTLKKLTKQYNAVSDSIDATIARYKA 438 (462)
T ss_pred hhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3355666666666666666666666666665543
No 244
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. 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. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=27.06 E-value=2.1e+02 Score=19.56 Aligned_cols=47 Identities=4% Similarity=0.054 Sum_probs=29.6
Q ss_pred ecHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 76 FTWSEALKFISQRE--DKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 76 ~~~~eA~~~l~kri--~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
+|+++...+++.-- .......+.+++....+.+++......++++..
T Consensus 58 ~~l~~I~~~l~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~ 106 (108)
T cd04773 58 YLLEQIATVVEQLRHAGGTEALAAALEQRRVALTQRGRAMLDAAAALAA 106 (108)
T ss_pred CCHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788888876421 112344555666667777777777777776654
No 245
>PF12718 Tropomyosin_1: Tropomyosin like; 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 [].
Probab=27.00 E-value=2.5e+02 Score=20.48 Aligned_cols=18 Identities=6% Similarity=0.423 Sum_probs=6.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLI 103 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l 103 (134)
.+|+..|+..++.+...+
T Consensus 41 ~~K~~~lE~eld~~~~~l 58 (143)
T PF12718_consen 41 QKKNQQLEEELDKLEEQL 58 (143)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 246
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=26.87 E-value=2.8e+02 Score=24.28 Aligned_cols=39 Identities=13% Similarity=0.150 Sum_probs=23.1
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCE 115 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~ 115 (134)
+.+++..-++++++.++..+..++.+++.++++++.+..
T Consensus 68 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~ 106 (525)
T TIGR02231 68 PDPERLAELRKQIRELEAELRDLEDRGDALKALAKFLED 106 (525)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666666666666666666666666666554443
No 247
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=26.82 E-value=1.4e+02 Score=24.04 Aligned_cols=34 Identities=26% Similarity=0.333 Sum_probs=27.9
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 74 VEFTWSEALKFISQREDKIARQIDEYTRLIASIK 107 (134)
Q Consensus 74 VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik 107 (134)
-|....+|..++..-|+.|+.+++.+..++..+.
T Consensus 116 ~e~ek~e~~~wl~~~Id~L~~QiE~~E~E~E~L~ 149 (233)
T PF04065_consen 116 KEKEKEEARDWLKDSIDELNRQIEQLEAEIESLS 149 (233)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677889999999999999999888888776443
No 248
>cd02759 MopB_Acetylene-hydratase The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=26.61 E-value=90 Score=26.73 Aligned_cols=27 Identities=26% Similarity=0.430 Sum_probs=23.9
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|++.|.|||.+.+.++++.+.+.
T Consensus 66 G~g~~~~isWdeAl~~ia~~l~~~~~~ 92 (477)
T cd02759 66 GENKWERISWDEALDEIAEKLAEIKAE 92 (477)
T ss_pred CCCcEEEecHHHHHHHHHHHHHHHHHH
Confidence 578999999999999999998887663
No 249
>cd02754 MopB_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. Members of the MopB_Nitrate-R-NapA CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=26.55 E-value=1e+02 Score=26.86 Aligned_cols=39 Identities=23% Similarity=0.397 Sum_probs=29.4
Q ss_pred EEecCCCee---EEEecceeEEeecHHHHHHHHHHHHHHHHH
Q 032758 56 ADVPDTQHI---FVDIGLGFHVEFTWSEALKFISQREDKIAR 94 (134)
Q Consensus 56 a~I~d~~kV---lV~lG~g~~VE~~~~eA~~~l~kri~~L~~ 94 (134)
-.+.+++++ ++-.|-|=|.+.|.|||.+.+.+|++.+.+
T Consensus 47 ~~~y~p~Rl~~Pl~R~~~~~~~~iSWdeAl~~ia~kl~~i~~ 88 (565)
T cd02754 47 KTLNGPERLTRPLLRRNGGELVPVSWDEALDLIAERFKAIQA 88 (565)
T ss_pred hccCCcccccCCeEeCCCCCEEEccHHHHHHHHHHHHHHHHH
Confidence 345555554 444565579999999999999999988775
No 250
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=26.54 E-value=66 Score=22.06 Aligned_cols=31 Identities=16% Similarity=0.188 Sum_probs=25.0
Q ss_pred EecceeEEeecHHHHHHHHHHHHHHHHHHHH
Q 032758 67 DIGLGFHVEFTWSEALKFISQREDKIARQID 97 (134)
Q Consensus 67 ~lG~g~~VE~~~~eA~~~l~kri~~L~~~~~ 97 (134)
.||-|++-=.|++||-+-+.+.|++-++.+.
T Consensus 55 ~lgy~v~tFnDcpeA~~eL~~eI~eAK~dLr 85 (91)
T PF08285_consen 55 TLGYGVATFNDCPEAAKELQKEIKEAKADLR 85 (91)
T ss_pred HHHHhhhccCCCHHHHHHHHHHHHHHHHHHH
Confidence 4788999999999999888888877766543
No 251
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=26.38 E-value=3.2e+02 Score=21.44 Aligned_cols=42 Identities=14% Similarity=0.304 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
....=-.++++.|...++.++.....++..+.-+++.+++.+
T Consensus 151 a~l~e~t~~i~eL~~~ieEy~~~teeLR~e~s~LEeql~q~~ 192 (193)
T PF14662_consen 151 AILSERTQQIEELKKTIEEYRSITEELRLEKSRLEEQLSQMQ 192 (193)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 334444567777777788888888888888888888777643
No 252
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=26.37 E-value=3.1e+02 Score=23.18 Aligned_cols=39 Identities=18% Similarity=0.363 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 82 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
+.-++.|+..+++.++.+.+.+..+..++......+..+
T Consensus 146 i~e~Eeris~lEd~~~~i~~~~~~~~k~i~~l~~kl~Dl 184 (370)
T PF02994_consen 146 IDELEERISELEDRIEEIEQAIKELEKRIKKLEDKLDDL 184 (370)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444444444444444443
No 253
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=26.21 E-value=1.5e+02 Score=17.63 Aligned_cols=37 Identities=5% Similarity=0.107 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
+.+++.++..+=++..++.+-.+.+.-+...|.|...
T Consensus 3 k~~ieelkqll~rle~eirett~sl~ninksidq~dk 39 (46)
T PF08181_consen 3 KKKIEELKQLLWRLENEIRETTDSLRNINKSIDQYDK 39 (46)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhc
Confidence 3567778888888888888888888888777777544
No 254
>KOG2826 consensus Actin-related protein Arp2/3 complex, subunit ARPC2 [Cytoskeleton]
Probab=26.16 E-value=1.2e+02 Score=24.84 Aligned_cols=65 Identities=18% Similarity=0.297 Sum_probs=40.9
Q ss_pred HHHHHHHHHhhcCC-CCCeeE-EEecCCceeEEEEec-CCCeeEEEecceeEEeecHHHHHHHHHHHH
Q 032758 25 SDLRKNIENLEKNS-VTSLRT-LVNLGSEVYMQADVP-DTQHIFVDIGLGFHVEFTWSEALKFISQRE 89 (134)
Q Consensus 25 ~el~~~I~~L~~~~-~~~~ei-lVplG~~~yv~a~I~-d~~kVlV~lG~g~~VE~~~~eA~~~l~kri 89 (134)
+.+....++..+.+ .+..++ ..+..+-.|=-.... |..+|+++|..-+|.|+-..-|.+.+++--
T Consensus 13 etL~~kf~~~~~g~~P~sid~~vaDFDgv~yhiSnp~gdktkillSislK~y~elq~~Ga~~LLk~~y 80 (301)
T KOG2826|consen 13 ETLNEKFENARAGGKPESIDVTVADFDGVLYHISNPNGDKTKILLSISLKFYKELQLHGADDLLKRVY 80 (301)
T ss_pred HHHHHHHHHHhccCCCcceeEEEeccCceEEEccCCCCCceEEEEEEehhhHHHHHHcCHHHHHHHHh
Confidence 34555666665542 233333 333444444333333 566899999999999999999988887643
No 255
>cd02751 MopB_DMSOR-like The MopB_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. Members of the MopB_DMSOR-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=26.10 E-value=89 Score=27.78 Aligned_cols=27 Identities=30% Similarity=0.623 Sum_probs=24.1
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|.+.|.|||.+.+.+|++.+.++
T Consensus 69 g~g~~~~iSWDEAl~~iA~kl~~i~~~ 95 (609)
T cd02751 69 GEGEFVRISWDEALDLVASELKRIREK 95 (609)
T ss_pred CCCCEEEecHHHHHHHHHHHHHHHHHH
Confidence 378899999999999999999888764
No 256
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=25.96 E-value=2e+02 Score=24.29 Aligned_cols=35 Identities=26% Similarity=0.352 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+..|++.+++.+..+.+.+..+.+.+......+..
T Consensus 142 l~~Ri~e~Eeris~lEd~~~~i~~~~~~~~k~i~~ 176 (370)
T PF02994_consen 142 LNSRIDELEERISELEDRIEEIEQAIKELEKRIKK 176 (370)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 55666666666666666666666666555554443
No 257
>PRK15102 trimethylamine N-oxide reductase I catalytic subunit; Provisional
Probab=25.77 E-value=87 Score=29.06 Aligned_cols=27 Identities=22% Similarity=0.516 Sum_probs=24.9
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|++.|.|||.+.+..|++.+.++
T Consensus 113 G~g~f~~ISWDEAld~IA~kl~~i~~~ 139 (825)
T PRK15102 113 GDNRFVRVSWDEALDLFYEELERVQKT 139 (825)
T ss_pred CCCcEEEecHHHHHHHHHHHHHHHHHh
Confidence 578999999999999999999998876
No 258
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=25.66 E-value=2.2e+02 Score=19.24 Aligned_cols=21 Identities=0% Similarity=0.202 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 032758 82 LKFISQREDKIARQIDEYTRL 102 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~ 102 (134)
+..+.-.++.|+++-..+.+.
T Consensus 20 I~LLqmEieELKekn~~L~~e 40 (79)
T PRK15422 20 ITLLQMEIEELKEKNNSLSQE 40 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555444444443
No 259
>PF02646 RmuC: RmuC family; InterPro: IPR003798 This protein contains several bacterial RmuC DNA recombination proteins. The function of the RMUC protein is unknown but it is suspected that it is either a structural protein that protects DNA against nuclease action, or is itself involved in DNA cleavage at the regions of DNA secondary structures []. Proteins in this family are predicted to contain a central endonuclease-like fold domain, surrounded by coiled coils, consistent with a direct role in DNA cleavage [, ].
Probab=25.64 E-value=1.1e+02 Score=25.02 Aligned_cols=17 Identities=18% Similarity=0.188 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIAR 94 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~ 94 (134)
+.+..+-++++++...+
T Consensus 11 l~e~l~~~~~~l~~~~~ 27 (304)
T PF02646_consen 11 LKEQLEKFEKRLEESFE 27 (304)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444444444444333
No 260
>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=25.40 E-value=1.6e+02 Score=22.09 Aligned_cols=33 Identities=18% Similarity=0.313 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQIKL 112 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~ 112 (134)
++...+..++..|+++++.++.....+..-+..
T Consensus 74 ~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~ 106 (172)
T cd04790 74 DATDVLRRRLAELNREIQRLRQQQRAIATLLKQ 106 (172)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566788889999999888888887777776643
No 261
>PRK08724 fliD flagellar capping protein; Validated
Probab=25.35 E-value=2.8e+02 Score=25.81 Aligned_cols=20 Identities=5% Similarity=0.167 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIA 104 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~ 104 (134)
++++++.+.++++.++..+.
T Consensus 622 L~~~i~~l~dqi~~Le~Rle 641 (673)
T PRK08724 622 LREQNYRLNDDQVALDRRME 641 (673)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444
No 262
>PRK14127 cell division protein GpsB; Provisional
Probab=25.28 E-value=2.5e+02 Score=19.87 Aligned_cols=44 Identities=20% Similarity=0.305 Sum_probs=26.0
Q ss_pred ecHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIA---RQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~---~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
++.+|-..||+.=++.++ +....|+.++..+++++......+..
T Consensus 23 Yd~~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~ 69 (109)
T PRK14127 23 YDQDEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVSV 69 (109)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 467888888876554333 34555555555555555555554443
No 263
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=25.23 E-value=2.5e+02 Score=20.82 Aligned_cols=35 Identities=20% Similarity=0.225 Sum_probs=26.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
+.++-...++.+++.++++++.++.....+...+.
T Consensus 87 ~~~~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i~ 121 (154)
T PRK15002 87 SAKEWKQLSSQWREELDRRIHTLVALRDELDGCIG 121 (154)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 35567788888888888888888887777776553
No 264
>TIGR02166 dmsA_ynfE anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family. Members of this family include known and probable dimethyl sulfoxide reductase (DMSO reductase) A chains. In E. coli, dmsA encodes the canonical anaerobic DMSO reductase A chain. The paralog ynfE, as part of ynfFGH expressed from a multicopy plasmid, could complement a dmsABC deletion, suggesting a similar function and some overlap in specificity, although YnfE could not substitute for DmsA in a mixed complex.
Probab=25.14 E-value=90 Score=28.61 Aligned_cols=27 Identities=26% Similarity=0.464 Sum_probs=23.7
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|++.|.|||.+.+.+|++.+.++
T Consensus 116 G~g~~~~iSWdeAl~~ia~kl~~i~~~ 142 (797)
T TIGR02166 116 GEGKFERISWDEATDTIADNLKRIIEK 142 (797)
T ss_pred CCCCeEEecHHHHHHHHHHHHHHHHHH
Confidence 467899999999999999998888764
No 265
>PF05308 Mito_fiss_reg: Mitochondrial fission regulator; InterPro: IPR007972 This family consists of several uncharacterised eukaryotic proteins of unknown function.
Probab=25.11 E-value=96 Score=25.13 Aligned_cols=22 Identities=18% Similarity=0.338 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032758 95 QIDEYTRLIASIKAQIKLVCEG 116 (134)
Q Consensus 95 ~~~~l~~~l~~ik~~i~~v~~~ 116 (134)
+|..|++++..+|+||..+...
T Consensus 123 KIsALEdELs~LRaQIA~IV~~ 144 (253)
T PF05308_consen 123 KISALEDELSRLRAQIAKIVAA 144 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 4566677777777777766544
No 266
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=25.07 E-value=3e+02 Score=21.65 Aligned_cols=46 Identities=11% Similarity=0.235 Sum_probs=30.5
Q ss_pred eecHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQR-------EDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 75 E~~~~eA~~~l~kr-------i~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
..+.|.|+..+.+. ...+.+..+.+.........-+...+..|+++
T Consensus 4 ~~d~d~~~~~~~~e~~~~E~e~~~l~~k~~e~~~~~~~m~~i~~e~Ek~i~~~ 56 (207)
T PF05010_consen 4 QKDLDAAIKKVQEEVAEKEEEEQELKKKYEELHKENQEMRKIMEEYEKTIAQM 56 (207)
T ss_pred HHhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 45677888877777 66666666666666666666666666666553
No 267
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=24.95 E-value=1.6e+02 Score=24.71 Aligned_cols=25 Identities=8% Similarity=0.141 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 81 ALKFISQREDKIARQIDEYTRLIAS 105 (134)
Q Consensus 81 A~~~l~kri~~L~~~~~~l~~~l~~ 105 (134)
|.+|++.++..++++++..+..+..
T Consensus 172 ~~~fl~~ql~~~~~~l~~ae~~l~~ 196 (444)
T TIGR03017 172 AALWFVQQIAALREDLARAQSKLSA 196 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444333
No 268
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=24.90 E-value=3.4e+02 Score=23.80 Aligned_cols=15 Identities=13% Similarity=0.321 Sum_probs=5.4
Q ss_pred HHHHHHHHHHHHHHH
Q 032758 96 IDEYTRLIASIKAQI 110 (134)
Q Consensus 96 ~~~l~~~l~~ik~~i 110 (134)
..+|+++++.++..+
T Consensus 61 ~~kL~~~lk~~e~~i 75 (420)
T COG4942 61 RAKLEKQLKSLETEI 75 (420)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 269
>PRK14990 anaerobic dimethyl sulfoxide reductase subunit A; Provisional
Probab=24.79 E-value=93 Score=28.73 Aligned_cols=27 Identities=22% Similarity=0.535 Sum_probs=24.0
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|++.|.|||.+.+.+|++.+.++
T Consensus 131 G~g~~~~iSWdEAl~~Ia~kl~~i~~~ 157 (814)
T PRK14990 131 GEGKFERISWEEAYDIIATNMQRLIKE 157 (814)
T ss_pred CCCCeEEeCHHHHHHHHHHHHHHHHHh
Confidence 468899999999999999999988764
No 270
>PRK10884 SH3 domain-containing protein; Provisional
Probab=24.77 E-value=3.4e+02 Score=21.18 Aligned_cols=26 Identities=0% Similarity=0.121 Sum_probs=12.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRL 102 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~ 102 (134)
+..+-..-++++++.++.+++++..+
T Consensus 90 ~~~~rlp~le~el~~l~~~l~~~~~~ 115 (206)
T PRK10884 90 SLRTRVPDLENQVKTLTDKLNNIDNT 115 (206)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 44444444555555555444444333
No 271
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=24.65 E-value=2.8e+02 Score=20.19 Aligned_cols=9 Identities=0% Similarity=0.047 Sum_probs=3.8
Q ss_pred HHHHHHHHH
Q 032758 82 LKFISQRED 90 (134)
Q Consensus 82 ~~~l~kri~ 90 (134)
...+++.+.
T Consensus 29 ~~~LE~qL~ 37 (160)
T PF13094_consen 29 KRALERQLA 37 (160)
T ss_pred HHHHHHHHH
Confidence 334444444
No 272
>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=24.61 E-value=2.5e+02 Score=19.49 Aligned_cols=12 Identities=25% Similarity=0.470 Sum_probs=8.3
Q ss_pred ecHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ 87 (134)
Q Consensus 76 ~~~~eA~~~l~k 87 (134)
+|+++..++++.
T Consensus 57 ~~L~eI~~~l~~ 68 (120)
T cd04781 57 FSLDEIQAMLSH 68 (120)
T ss_pred CCHHHHHHHHhc
Confidence 577777777754
No 273
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=24.60 E-value=2.2e+02 Score=18.96 Aligned_cols=29 Identities=14% Similarity=0.318 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 82 LKFISQREDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~l~~ik~~i 110 (134)
...+...|+.+..+.+.++..+..++..+
T Consensus 6 Ll~Ir~dIk~vd~KVdaLq~~V~~l~~~~ 34 (75)
T PF05531_consen 6 LLVIRQDIKAVDDKVDALQTQVDDLESNL 34 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 33444444555555555555544444443
No 274
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=24.29 E-value=2.4e+02 Score=20.11 Aligned_cols=19 Identities=5% Similarity=0.389 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 032758 81 ALKFISQREDKIARQIDEY 99 (134)
Q Consensus 81 A~~~l~kri~~L~~~~~~l 99 (134)
+..-++++++.|+..++++
T Consensus 9 ~~~~L~~~~~~le~~i~~~ 27 (171)
T PF03357_consen 9 TIRRLEKQIKRLEKKIKKL 27 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444433333
No 275
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=24.24 E-value=66 Score=20.26 Aligned_cols=18 Identities=11% Similarity=0.375 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 032758 83 KFISQREDKIARQIDEYT 100 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~ 100 (134)
+-+.++++.++..++.++
T Consensus 7 ~rL~Kel~kl~~~i~~~~ 24 (66)
T PF10458_consen 7 ERLEKELEKLEKEIERLE 24 (66)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 334444444444444433
No 276
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=24.16 E-value=1.6e+02 Score=21.81 Aligned_cols=29 Identities=14% Similarity=0.369 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 85 ISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 85 l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
++|+++.+++++++++++...-+..+...
T Consensus 71 l~Rk~~kl~~el~~~~~~~~~~~~~~~~~ 99 (161)
T PF04420_consen 71 LNRKLDKLEEELEKLNKSLSSEKSSFDKS 99 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57777777777777776666555555443
No 277
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=24.07 E-value=1.4e+02 Score=20.78 Aligned_cols=21 Identities=10% Similarity=0.314 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYT 100 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~ 100 (134)
+|.+-++.|+..++..++++.
T Consensus 8 ~~~~~~~~ki~~ve~~V~~l~ 28 (116)
T PF10552_consen 8 QATEEHNEKIEEVENRVDDLE 28 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444443
No 278
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators 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 predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They 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=24.00 E-value=1.6e+02 Score=19.75 Aligned_cols=11 Identities=9% Similarity=0.350 Sum_probs=6.4
Q ss_pred ecHHHHHHHHH
Q 032758 76 FTWSEALKFIS 86 (134)
Q Consensus 76 ~~~~eA~~~l~ 86 (134)
+|+++..++++
T Consensus 58 ~~l~eI~~~l~ 68 (97)
T cd04782 58 ISLKEIKDYLD 68 (97)
T ss_pred CCHHHHHHHHh
Confidence 45566666554
No 279
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=23.98 E-value=2.6e+02 Score=19.48 Aligned_cols=41 Identities=7% Similarity=0.089 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032758 84 FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLP 124 (134)
Q Consensus 84 ~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~ 124 (134)
=+.+.+.+.++..+-+.+++.++.++=+.+...+++.+...
T Consensus 5 eLR~qLqFvEEEa~LlRRkl~ele~eN~~l~~EL~kyk~~~ 45 (96)
T PF11365_consen 5 ELRRQLQFVEEEAELLRRKLSELEDENKQLTEELNKYKSKY 45 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 36778888899999999999999999888888888866543
No 280
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=23.92 E-value=1.7e+02 Score=19.94 Aligned_cols=30 Identities=7% Similarity=0.269 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKA 108 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~ 108 (134)
+++.+-+++-...+.+.+....+++..++.
T Consensus 35 ~e~R~~lE~E~~~l~~~l~~~E~eL~~Lrk 64 (85)
T PF15188_consen 35 PEARRSLEKELNELKEKLENNEKELKLLRK 64 (85)
T ss_pred hHHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence 455555556666666666666655555544
No 281
>TIGR01706 NAPA periplasmic nitrate reductase, large subunit. The enzymes from Alicagenes eutrophus and Paracoccus pantotrophus have been characterized. In E. coli (as well as other organisms) this gene is part of a large nitrate reduction operon (napFDAGHBC).
Probab=23.90 E-value=65 Score=29.99 Aligned_cols=27 Identities=11% Similarity=0.293 Sum_probs=23.3
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|++.|.|||.+.+.+|++.+.+.
T Consensus 112 g~g~~~~iSWDeAl~~iA~kl~~i~~~ 138 (830)
T TIGR01706 112 KDGEFTPVSWDQAFDEMEEQFKRALKE 138 (830)
T ss_pred cCCCeeEcCHHHHHHHHHHHHHHHHHH
Confidence 357899999999999999999887553
No 282
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=23.88 E-value=2.4e+02 Score=23.34 Aligned_cols=34 Identities=26% Similarity=0.401 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
.++|.+-++.|...|+..+++|++.-.++++.++
T Consensus 2 v~~~L~eL~qrk~~Lq~eIe~LerR~~ri~~Emr 35 (283)
T PF11285_consen 2 VQEALKELEQRKQALQIEIEQLERRRERIEKEMR 35 (283)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578888889999999999999888888888775
No 283
>PRK09039 hypothetical protein; Validated
Probab=23.85 E-value=2.4e+02 Score=23.64 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=9.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 032758 89 EDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 89 i~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
+..|+.+++.|+.++..+++.+.
T Consensus 139 V~~L~~qI~aLr~Qla~le~~L~ 161 (343)
T PRK09039 139 VELLNQQIAALRRQLAALEAALD 161 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344444444444433333
No 284
>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=23.76 E-value=2.4e+02 Score=19.14 Aligned_cols=25 Identities=24% Similarity=0.347 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 99 YTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 99 l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
+-+.+..|.+++..++....+|.++
T Consensus 64 ~l~~Id~Ie~~V~~LE~~v~~LD~y 88 (99)
T PF10046_consen 64 YLQQIDQIEEQVTELEQTVYELDEY 88 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444445666666666665543
No 285
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=23.75 E-value=1.7e+02 Score=22.60 Aligned_cols=31 Identities=16% Similarity=0.155 Sum_probs=21.7
Q ss_pred eeEEEEec--CCCeeEEEecc-eeEEeecHHHHH
Q 032758 52 VYMQADVP--DTQHIFVDIGL-GFHVEFTWSEAL 82 (134)
Q Consensus 52 ~yv~a~I~--d~~kVlV~lG~-g~~VE~~~~eA~ 82 (134)
.|++|+|. .++.|+|++|. ||.|-.|.....
T Consensus 3 ~~l~G~i~~~~~~~vvi~~~GvGY~V~vs~~~~~ 36 (197)
T PRK14603 3 AYLSGVVLEKREGSAVLLAGGVGLEVQCPAPTLA 36 (197)
T ss_pred ceEEEEEEEecCCEEEEEECCEEEEEEcCHHHHH
Confidence 46777776 46678887766 888888765443
No 286
>PF14131 DUF4298: Domain of unknown function (DUF4298)
Probab=23.70 E-value=2.1e+02 Score=19.28 Aligned_cols=22 Identities=9% Similarity=0.386 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 032758 89 EDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 89 i~~L~~~~~~l~~~l~~ik~~i 110 (134)
|..+++..+++.+.+.++.+-+
T Consensus 2 I~eme~~y~~~~~~l~~le~~l 23 (90)
T PF14131_consen 2 IQEMEKIYNEWCELLEELEEAL 23 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444333
No 287
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=23.64 E-value=2.1e+02 Score=26.86 Aligned_cols=43 Identities=7% Similarity=0.091 Sum_probs=32.6
Q ss_pred eecHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIAR-QIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~-~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
.+|-.+|..+++-|+..|.+ ...+++++.+++++++..+...+
T Consensus 404 ~ls~~QaeaIL~mrL~~L~~le~~~i~~E~~~l~~e~~~l~~~L 447 (735)
T TIGR01062 404 KLSAIQAEAILNLRLRHLAKLEEHAIIDEQSELEKERAILEKIL 447 (735)
T ss_pred CCCHHHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 48889999999999999987 46677777777666666555444
No 288
>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=23.62 E-value=3.5e+02 Score=21.93 Aligned_cols=56 Identities=13% Similarity=0.168 Sum_probs=41.7
Q ss_pred eeEEeecHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Q 032758 71 GFHVEFTWSEALKFI--------SQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAE 126 (134)
Q Consensus 71 g~~VE~~~~eA~~~l--------~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~~~ 126 (134)
++=||.=+.-|.+.+ ..|+..|..+...+..+++.+++++..-...++.+..-...
T Consensus 156 d~dvevLL~~ae~L~~vYP~~ga~eki~~Lr~~y~~l~~~i~~lE~~VaeQ~~qL~~~n~~~~~ 219 (259)
T PF08657_consen 156 DVDVEVLLRGAEKLCNVYPLPGAREKIAALRQRYNQLSNSIAYLEAEVAEQEAQLERMNRSSSD 219 (259)
T ss_pred cCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccc
Confidence 344555555566654 46899999999999999999999999888888886544333
No 289
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.55 E-value=2.2e+02 Score=22.61 Aligned_cols=27 Identities=11% Similarity=0.245 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIAS 105 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ 105 (134)
+.+-.-+++||..|..++-+++.++.+
T Consensus 25 ~~r~dSve~KIskLDaeL~k~~~Qi~k 51 (218)
T KOG1655|consen 25 NKRSDSVEKKISKLDAELCKYKDQIKK 51 (218)
T ss_pred HHhhhhHHHHHHHHHHHHHHHHHHHHh
Confidence 344444555555555555555555544
No 290
>PRK09129 NADH dehydrogenase subunit G; Validated
Probab=23.35 E-value=93 Score=28.64 Aligned_cols=42 Identities=14% Similarity=0.299 Sum_probs=30.1
Q ss_pred eEEEEecCCCeeEEEe--cceeEEeecHHHHHHHHHHHHHHHHH
Q 032758 53 YMQADVPDTQHIFVDI--GLGFHVEFTWSEALKFISQREDKIAR 94 (134)
Q Consensus 53 yv~a~I~d~~kVlV~l--G~g~~VE~~~~eA~~~l~kri~~L~~ 94 (134)
|..-.+.+++++.-.+ +.|=|.|.|.|||.+++.+|++.+.+
T Consensus 262 ~~~~~l~~pdRl~~Pl~R~~g~~~~iSWdeAl~~ia~~L~~i~~ 305 (776)
T PRK09129 262 FSYEGLNSEDRLTKPMIKQGGQWKEVDWETALEYVAEGLKGIIE 305 (776)
T ss_pred ccccccccccccCCCeEecCCceEEcCHHHHHHHHHHHHHHHHh
Confidence 3333445555554433 35678999999999999999998865
No 291
>TIGR02763 chlamy_scaf chlamydiaphage internal scaffolding protein. Members of this protein family are encoded by genes in chlamydiaphage such as Chp2, viruses with around eight genes that infect obligately intracellular bacterial pathogens of the genus Chlamydia. This protein, initially designated VP3 (as if a structural protein of mature viral particles), is displaced from procapsids as DNA is packaged, and therefore is described as a scafolding protein.
Probab=23.29 E-value=75 Score=22.71 Aligned_cols=29 Identities=17% Similarity=0.161 Sum_probs=26.1
Q ss_pred ecchHHHHHHHHHHhhHHHHHHHHHHhhc
Q 032758 8 LGDCFFYLVYLTLNAGSSDLRKNIENLEK 36 (134)
Q Consensus 8 ~~~~~~~~~~~~~~~ey~el~~~I~~L~~ 36 (134)
.|||-+.+.|..|..--.+..++-..|++
T Consensus 24 yg~c~sp~D~qeAln~Vie~~eaFdsLPA 52 (114)
T TIGR02763 24 YGECPSPLDYQEALNIVIEGEEAFDSLPA 52 (114)
T ss_pred cccCCCchhHHHHHHHHHHHHHHHHHhhH
Confidence 69999999999999999999998888884
No 292
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=23.28 E-value=2.9e+02 Score=22.70 Aligned_cols=39 Identities=15% Similarity=0.242 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 82 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 120 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql 120 (134)
..-++.+.+.|+++.+.++.+++..++++..-..-+.++
T Consensus 34 ~~~l~~~~~~lr~e~~~l~~~~~~~~~~~~~~d~f~~~~ 72 (308)
T PF11382_consen 34 IDSLEDQFDSLREENDELRAELDALQAQLNAADQFIAAV 72 (308)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556777777777777777777777776555555443
No 293
>PF09675 Chlamy_scaf: Chlamydia-phage Chp2 scaffold (Chlamy_scaf); InterPro: IPR014131 Members of this entry are encoded by genes in chlamydiaphage such as Vp3. These viruses have around eight genes and infect obligately intracellular bacterial pathogens of the genus Chlamydia. This protein is annotated as VP3 or structural protein (as if a protein of mature viral particles), however, it is displaced from procapsids as DNA is packaged, and therefore is more correctly described as a scaffolding protein.
Probab=23.25 E-value=86 Score=22.55 Aligned_cols=31 Identities=16% Similarity=0.226 Sum_probs=26.3
Q ss_pred EeecchHHHHHHHHHHhhHHHHHHHHHHhhc
Q 032758 6 IQLGDCFFYLVYLTLNAGSSDLRKNIENLEK 36 (134)
Q Consensus 6 ~~~~~~~~~~~~~~~~~ey~el~~~I~~L~~ 36 (134)
-+.|||-+.+-|..|+.--.+..++-..|+.
T Consensus 22 ~~Ygd~s~~~DyqeAln~V~e~~eaFd~LPa 52 (114)
T PF09675_consen 22 PEYGDCSSPFDYQEALNMVAEANEAFDELPA 52 (114)
T ss_pred CcccccCCHHhHHHHHHHHHHHHHHHHHchH
Confidence 3679999999999999988888888888773
No 294
>PRK13532 nitrate reductase catalytic subunit; Provisional
Probab=23.19 E-value=94 Score=28.89 Aligned_cols=25 Identities=16% Similarity=0.412 Sum_probs=22.4
Q ss_pred ceeEEeecHHHHHHHHHHHHHHHHH
Q 032758 70 LGFHVEFTWSEALKFISQREDKIAR 94 (134)
Q Consensus 70 ~g~~VE~~~~eA~~~l~kri~~L~~ 94 (134)
.|=|++.|.|||.+.+.+|++.+.+
T Consensus 113 ~g~~~~isWdeAl~~iA~~l~~i~~ 137 (830)
T PRK13532 113 EGEFTPVSWDQAFDVMAEKFKKALK 137 (830)
T ss_pred CCCeEEecHHHHHHHHHHHHHHHHH
Confidence 6789999999999999999888754
No 295
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=23.13 E-value=2.3e+02 Score=18.55 Aligned_cols=32 Identities=19% Similarity=0.267 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 81 ALKFISQREDKIARQIDEYTRLIASIKAQIKL 112 (134)
Q Consensus 81 A~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~ 112 (134)
..+-+++-++.++++++.+.++...+-.+.+.
T Consensus 27 ~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~ 58 (90)
T PF06103_consen 27 TLDEVNKTIDTLQEQVDPITKEINDLLHNTNE 58 (90)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444444444444333
No 296
>PRK12765 flagellar capping protein; Provisional
Probab=23.10 E-value=2.9e+02 Score=25.05 Aligned_cols=34 Identities=6% Similarity=0.074 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIK 111 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~ 111 (134)
++-..+-++++++.|.++++.+++.+....++++
T Consensus 530 l~~~~~~l~~~~~~l~~~~~~~~~rl~~~~~r~~ 563 (595)
T PRK12765 530 LTKYDESLTNEIKSLTTSKESTQELIDTKYETMA 563 (595)
T ss_pred chhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666666666666666555543
No 297
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=23.10 E-value=2.4e+02 Score=18.89 Aligned_cols=31 Identities=10% Similarity=0.141 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i 110 (134)
++.+-+-+++..|+..++.|...+...+..-
T Consensus 16 e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~ 46 (80)
T PF10224_consen 16 EEKEELIQEILELQDSLEALSDRVEEVKEEN 46 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444455555555555555544444444433
No 298
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=23.05 E-value=2.9e+02 Score=20.53 Aligned_cols=35 Identities=11% Similarity=0.322 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKL 112 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~ 112 (134)
+++-..-..++++.+++..+.+++.+..++.....
T Consensus 44 lE~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 78 (151)
T PF14584_consen 44 LEDLLNELFDQIDELKEELEELEKRIEELEEKLRN 78 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35555566666666666666666666666655543
No 299
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=23.04 E-value=1.9e+02 Score=20.81 Aligned_cols=19 Identities=11% Similarity=0.244 Sum_probs=12.4
Q ss_pred EecC-CCeeEEEecceeEEe
Q 032758 57 DVPD-TQHIFVDIGLGFHVE 75 (134)
Q Consensus 57 ~I~d-~~kVlV~lG~g~~VE 75 (134)
+|++ ++.--|++|+++.-|
T Consensus 62 ~i~pL~e~~Aie~Gaell~E 81 (134)
T PF07047_consen 62 KIRPLNEEKAIELGAELLGE 81 (134)
T ss_pred cCCCCCHHHHHHHHHHHHHH
Confidence 4443 455667788888777
No 300
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=23.02 E-value=3.7e+02 Score=25.03 Aligned_cols=22 Identities=18% Similarity=0.206 Sum_probs=12.0
Q ss_pred EeecHHHHHHHHHHHHHHHHHH
Q 032758 74 VEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 74 VE~~~~eA~~~l~kri~~L~~~ 95 (134)
...+.+|..+++.+-.+.+.++
T Consensus 530 ~~p~~~E~l~lL~~a~~vlree 551 (717)
T PF10168_consen 530 SSPSPQECLELLSQATKVLREE 551 (717)
T ss_pred cCCCCHHHHHHHHHHHHHHHHH
Confidence 3335556666665555555554
No 301
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=22.99 E-value=4.4e+02 Score=21.79 Aligned_cols=45 Identities=18% Similarity=0.305 Sum_probs=28.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
..++-.+-++...+.+.+.+++++++-..+.+++...+....++.
T Consensus 47 ~~~~el~~le~Ee~~l~~eL~~LE~e~~~l~~el~~le~e~~~l~ 91 (314)
T PF04111_consen 47 ELEEELEKLEQEEEELLQELEELEKEREELDQELEELEEELEELD 91 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455556666677777777777777777776666666655543
No 302
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=22.88 E-value=3e+02 Score=19.95 Aligned_cols=21 Identities=14% Similarity=0.289 Sum_probs=13.4
Q ss_pred eecHHHHHHHHHHHHHHHHHH
Q 032758 75 EFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 75 E~~~~eA~~~l~kri~~L~~~ 95 (134)
-+++.+|..-+.+.++.+.+.
T Consensus 38 rr~m~~A~~~v~kql~~vs~~ 58 (126)
T PF07889_consen 38 RRSMSDAVASVSKQLEQVSES 58 (126)
T ss_pred HHhHHHHHHHHHHHHHHHHHH
Confidence 356677777777766665553
No 303
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=22.72 E-value=1.5e+02 Score=24.63 Aligned_cols=31 Identities=13% Similarity=0.221 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 032758 93 ARQIDEYTRLIASIKAQIKLVCEGICELLQL 123 (134)
Q Consensus 93 ~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~ 123 (134)
..+++.-++.+..++.++..++..+.++++.
T Consensus 42 ~~Rv~~~~~~l~~i~~Ri~~~qaKi~~l~gs 72 (297)
T PF11945_consen 42 SARVERNRERLQAIQQRIEVAQAKIEKLQGS 72 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 3355666666777777777777777777665
No 304
>PF07097 DUF1359: Protein of unknown function (DUF1359); InterPro: IPR010772 This family consists of several hypothetical bacterial and phage proteins of around 100 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this species. The function of this family is unknown.
Probab=22.64 E-value=2.7e+02 Score=19.32 Aligned_cols=37 Identities=24% Similarity=0.275 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
.+++...+..+..|++-+..++.|-..+.-....+++
T Consensus 8 ~~~I~~~q~K~~RLk~~IH~vr~Q~~~~~i~~D~~k~ 44 (102)
T PF07097_consen 8 SEQIAKIQTKICRLKNVIHAVRRQTELVKIVLDDLKN 44 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhc
Confidence 6777788888888888888888887666666666554
No 305
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=22.62 E-value=4.1e+02 Score=23.53 Aligned_cols=45 Identities=13% Similarity=0.107 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
+..++.-..++...+..+...+..+...+++.+...+..+++|+.
T Consensus 18 ~~~~laq~~k~~s~~~aq~~~~~a~~~ai~a~~~~~E~~l~~Lq~ 62 (459)
T KOG0288|consen 18 LNTELAQCEKAQSRLSAQLVILRAESRAIKAKLQEKELELNRLQE 62 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666677788888888888888888888888888888888764
No 306
>TIGR02164 torA trimethylamine-N-oxide reductase TorA. This very narrowly defined family represents TorA, part of a family of related molybdoenzymes that include biotin sulfoxide reductases, dimethyl sulfoxide reductases, and at least two different subfamilies of trimethylamine-N-oxide reductases. A single enzyme from the larger family may have more than one activity. TorA typically is located in the periplasm, has a Tat (twin-arginine translocation)-dependent signal sequence, and is encoded in a torCAD operon.
Probab=22.60 E-value=1.1e+02 Score=28.46 Aligned_cols=27 Identities=30% Similarity=0.561 Sum_probs=24.7
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 69 GLGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 69 G~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
|.|=|.+.|.|||.+.+..|++.+.++
T Consensus 110 G~g~f~rISWDEAld~IA~kl~~i~~~ 136 (822)
T TIGR02164 110 GDNRFVRVTWDEALDLFYEELERVQKQ 136 (822)
T ss_pred CCCCEEEecHHHHHHHHHHHHHHHHHh
Confidence 578899999999999999999998765
No 307
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=22.60 E-value=3.4e+02 Score=24.53 Aligned_cols=16 Identities=13% Similarity=0.092 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 032758 96 IDEYTRLIASIKAQIK 111 (134)
Q Consensus 96 ~~~l~~~l~~ik~~i~ 111 (134)
+++++.++..++.++.
T Consensus 437 l~~~~~~~~~~~~~~~ 452 (650)
T TIGR03185 437 LFRSEAEIEELLRQLE 452 (650)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333333333333
No 308
>PRK10884 SH3 domain-containing protein; Provisional
Probab=22.45 E-value=3.8e+02 Score=20.91 Aligned_cols=36 Identities=11% Similarity=0.133 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 82 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 82 ~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
..-...|+..++.++++++.+++.++.+.+.....+
T Consensus 88 ~p~~~~rlp~le~el~~l~~~l~~~~~~~~~~~~~l 123 (206)
T PRK10884 88 TPSLRTRVPDLENQVKTLTDKLNNIDNTWNQRTAEM 123 (206)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 345566777788888888888877776655444333
No 309
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=22.37 E-value=2.6e+02 Score=18.89 Aligned_cols=24 Identities=21% Similarity=0.455 Sum_probs=16.9
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHH
Q 032758 74 VEFTWSEALKFISQREDKIARQID 97 (134)
Q Consensus 74 VE~~~~eA~~~l~kri~~L~~~~~ 97 (134)
|..++++|..-|++.++.|+..++
T Consensus 2 ~~~~le~al~rL~~aid~LE~~v~ 25 (89)
T PF13747_consen 2 VTYSLEAALTRLEAAIDRLEKAVD 25 (89)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHH
Confidence 456777888888887777776443
No 310
>PRK15488 thiosulfate reductase PhsA; Provisional
Probab=22.34 E-value=1.1e+02 Score=27.88 Aligned_cols=26 Identities=31% Similarity=0.475 Sum_probs=23.4
Q ss_pred ceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 70 LGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 70 ~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
.|=|++.|.|||.+.+.+|++.+.++
T Consensus 111 ~g~~~~iSWdEAl~~ia~~l~~i~~~ 136 (759)
T PRK15488 111 EGKWQEISWDEAYQEIAAKLNAIKQQ 136 (759)
T ss_pred CCCeEEeCHHHHHHHHHHHHHHHHHH
Confidence 67899999999999999999888764
No 311
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=22.24 E-value=1.1e+02 Score=20.73 Aligned_cols=13 Identities=15% Similarity=0.233 Sum_probs=7.5
Q ss_pred ecHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQR 88 (134)
Q Consensus 76 ~~~~eA~~~l~kr 88 (134)
+|++++.++++..
T Consensus 59 ~~l~~i~~~l~~~ 71 (99)
T cd04765 59 YTIEGAKQALKED 71 (99)
T ss_pred CCHHHHHHHHHhc
Confidence 4566666666543
No 312
>cd02766 MopB_3 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=22.00 E-value=1.2e+02 Score=26.40 Aligned_cols=38 Identities=24% Similarity=0.449 Sum_probs=28.2
Q ss_pred ecCCCee---EEEecc--eeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 58 VPDTQHI---FVDIGL--GFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 58 I~d~~kV---lV~lG~--g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
+.+++++ ++-.|. |=|.+.|.|||.+.+..|++.+.++
T Consensus 50 ~~~pdRl~~Pl~R~g~rgg~~~~isWdeAl~~ia~~l~~i~~~ 92 (501)
T cd02766 50 VYSPDRLLTPLKRVGRKGGQWERISWDEALDTIAAKLKEIKAE 92 (501)
T ss_pred hcChhhhccceeecCCCCCceEEecHHHHHHHHHHHHHHHHHh
Confidence 4445444 344443 6899999999999999999888753
No 313
>cd02757 MopB_Arsenate-R This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=21.99 E-value=1e+02 Score=27.01 Aligned_cols=39 Identities=23% Similarity=0.354 Sum_probs=29.6
Q ss_pred EecCCCeeEEE---e---c----ceeEEeecHHHHHHHHHHHHHHHHHH
Q 032758 57 DVPDTQHIFVD---I---G----LGFHVEFTWSEALKFISQREDKIARQ 95 (134)
Q Consensus 57 ~I~d~~kVlV~---l---G----~g~~VE~~~~eA~~~l~kri~~L~~~ 95 (134)
.+.+++++.-. . | .|=|.+.|.|||.+.+.+|++.+.+.
T Consensus 50 ~~y~pdRi~~Pl~R~~~rg~~~~~g~~~~isWdeAl~~ia~~l~~~~~~ 98 (523)
T cd02757 50 QVYDPDRILYPMKRTNPRKGRDVDPKFVPISWDEALDTIADKIRALRKE 98 (523)
T ss_pred hhcCccccccCeeecCCCCCCCCCCCeeEecHHHHHHHHHHHHHHHHHh
Confidence 44566665443 3 4 78899999999999999998887654
No 314
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=21.98 E-value=2.2e+02 Score=23.41 Aligned_cols=24 Identities=4% Similarity=0.249 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 80 EALKFISQREDKIARQIDEYTRLI 103 (134)
Q Consensus 80 eA~~~l~kri~~L~~~~~~l~~~l 103 (134)
+|.+|+++++..++++++..+..+
T Consensus 170 ~a~~fl~~ql~~~~~~l~~ae~~l 193 (362)
T TIGR01010 170 DTIAFAENEVKEAEQRLNATKAEL 193 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555544444333
No 315
>cd07591 BAR_Rvs161p The Bin/Amphiphysin/Rvs (BAR) domain of Saccharomyces cerevisiae Reduced viability upon starvation protein 161 and similar proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of fungal proteins with similarity to Saccharomyces cerevisiae Reduced viability upon starvation protein 161 (Rvs161p) and Schizosaccharomyces pombe Hob3 (homolog of Bin3). S. cerevisiae Rvs161p plays a role in regulating cell polarity, actin cytoskeleton polarization, vesicle trafficking, endocytosis, bud formation, and the mating response. It forms a heterodimer with another BAR domain protein Rvs167p. Rvs161p and Rvs167p share common functions but are not interchangeable. Their BAR domains cannot be replaced with each other and the overexpression of one cannot suppress the mutant phenotypes of the other. S. pombe Hob3 is important in regulating filamentous actin localization an
Probab=21.96 E-value=3.2e+02 Score=21.43 Aligned_cols=41 Identities=12% Similarity=0.193 Sum_probs=32.4
Q ss_pred EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 73 HVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 113 (134)
Q Consensus 73 ~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v 113 (134)
.+|.|.|+.=+...+|-..++....+|.+.+..-.+.++.+
T Consensus 4 ~~e~T~D~~F~~~e~~f~~~e~~~~kL~k~~k~y~da~~~l 44 (224)
T cd07591 4 QVERTVDREFEFEERRYRTMEKASTKLQKEAKGYLDSLRAL 44 (224)
T ss_pred cccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36888888888889999988888888888877666666543
No 316
>KOG4460 consensus Nuclear pore complex, Nup88/rNup84 component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.85 E-value=3.6e+02 Score=24.96 Aligned_cols=42 Identities=7% Similarity=0.103 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 032758 83 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLP 124 (134)
Q Consensus 83 ~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~~~ 124 (134)
.+++.+++.+++....|.+...++..+-..++..+++|.+..
T Consensus 605 ~~~~eer~~i~e~a~~La~R~eea~e~qe~L~~~~~~L~~~~ 646 (741)
T KOG4460|consen 605 SYCREERKSLREMAERLADRYEEAKEKQEDLMNRMKKLLHSF 646 (741)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcc
Confidence 344555556666666666666666667777777777776653
No 317
>PF15456 Uds1: Up-regulated During Septation
Probab=21.53 E-value=3.2e+02 Score=19.67 Aligned_cols=37 Identities=11% Similarity=0.195 Sum_probs=32.1
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKL 112 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~ 112 (134)
...+++..-.++|++.+...+.++++....++..+-+
T Consensus 77 ~~~eeel~~~~rk~ee~~~eL~~le~R~~~~~~rLLe 113 (124)
T PF15456_consen 77 LKAEEELAESDRKCEELAQELWKLENRLAEVRQRLLE 113 (124)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678889999999999999999999999998887643
No 318
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=21.48 E-value=3.3e+02 Score=21.69 Aligned_cols=45 Identities=13% Similarity=0.182 Sum_probs=26.8
Q ss_pred EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 73 HVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 73 ~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
-+.....++...+..++..++.....-...+...+..+..+...+
T Consensus 181 ~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~ 225 (312)
T PF00038_consen 181 IAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQI 225 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhh
Confidence 445666777778888888877665555444444444444443333
No 319
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=21.42 E-value=3.3e+02 Score=24.73 Aligned_cols=41 Identities=2% Similarity=0.151 Sum_probs=30.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
+++....++++|++.+++....|.++...+..++..+-..+
T Consensus 152 ~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~l 192 (546)
T KOG0977|consen 152 ELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQL 192 (546)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 34566778888888888888888888888777776665433
No 320
>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=21.33 E-value=3.1e+02 Score=19.46 Aligned_cols=36 Identities=6% Similarity=0.114 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 81 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEG 116 (134)
Q Consensus 81 A~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~ 116 (134)
...-++.++..|+...+.++.++..=-.++......
T Consensus 73 ~l~~v~~~v~~L~~s~~RL~~eV~~Py~~~~~~~~~ 108 (132)
T PF10392_consen 73 VLQAVRSSVESLQSSYERLRSEVIEPYEKIQKLTSQ 108 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 333344444444444444444433333333333333
No 321
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=21.28 E-value=2.2e+02 Score=21.82 Aligned_cols=30 Identities=7% Similarity=0.158 Sum_probs=18.7
Q ss_pred eEEEEec--CCCeeEEEecc-eeEEeecHHHHH
Q 032758 53 YMQADVP--DTQHIFVDIGL-GFHVEFTWSEAL 82 (134)
Q Consensus 53 yv~a~I~--d~~kVlV~lG~-g~~VE~~~~eA~ 82 (134)
|++|+|. .++.|++++|. ||-|-.|.....
T Consensus 4 ~l~G~v~~~~~~~vvi~~~GvGY~v~~s~~~~~ 36 (194)
T PRK14605 4 SLNGILEASGKDWAVINVSGVGFRCYMPATSPA 36 (194)
T ss_pred eEEEEEEEecCCEEEEEECCEEEEEEeCHHHHH
Confidence 5666665 35667776655 777777655543
No 322
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=21.22 E-value=2.6e+02 Score=18.62 Aligned_cols=44 Identities=16% Similarity=0.213 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 122 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~~ 122 (134)
.+..++.+.|...+......-.+.+..+|..+..+-..|+.++.
T Consensus 35 ~~~n~~s~~rl~~~~~~f~~~~~~l~~mK~DLd~i~krir~lk~ 78 (88)
T PF10241_consen 35 LNLNDLSQQRLAEARERFARHTKLLKEMKKDLDYIFKRIRSLKA 78 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566777888888887777777777777777777777766554
No 323
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=21.17 E-value=2.3e+02 Score=17.96 Aligned_cols=42 Identities=5% Similarity=0.104 Sum_probs=30.3
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Q 032758 74 VEFTWSEALKFISQREDKIARQIDEYTRLIAS-IKAQIKLVCE 115 (134)
Q Consensus 74 VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~-ik~~i~~v~~ 115 (134)
.-.+=.+.++-+.++.+.+.+..+.+.....+ ++++......
T Consensus 20 aP~sG~e~R~~l~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~ 62 (74)
T PF12732_consen 20 APKSGKETREKLKDKAEDLKDKAKDLYEEAKEKVKEKAEETAD 62 (74)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556778888888888888888877777666 6666666333
No 324
>PF05276 SH3BP5: SH3 domain-binding protein 5 (SH3BP5); InterPro: IPR007940 The SH3 domain-binding protein inhibits the auto and transphophorylation of BTK and acts as a negative regulator of BTK-related signalling in B cells.
Probab=21.14 E-value=4.4e+02 Score=21.16 Aligned_cols=43 Identities=9% Similarity=0.132 Sum_probs=32.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 77 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 77 ~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
|.-+...-++..+...+..+..|+..+..-|..+...+..+.+
T Consensus 174 PYfe~K~~~~~~l~~~k~~v~~Le~~v~~aK~~Y~~ALrnLE~ 216 (239)
T PF05276_consen 174 PYFELKAKFNQQLEEQKEKVEELEAKVKQAKSRYSEALRNLEQ 216 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445666677788888888889999988888888766665544
No 325
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=21.13 E-value=3.3e+02 Score=22.88 Aligned_cols=52 Identities=19% Similarity=0.185 Sum_probs=35.6
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHhcCCC
Q 032758 74 VEFTWSEALKFISQREDKIARQIDE-------YTRLIASIKAQIKLVCEGICELLQLPA 125 (134)
Q Consensus 74 VE~~~~eA~~~l~kri~~L~~~~~~-------l~~~l~~ik~~i~~v~~~i~ql~~~~~ 125 (134)
+|+.+.-|+.-+..+....+.++.+ |..+|.+.++.+......+..||.+.+
T Consensus 106 ~Ekvlk~aIq~i~~~~q~~~~~Lnnvasdea~L~~Kierrk~ElEr~rkRle~LqsiRP 164 (338)
T KOG3647|consen 106 VEKVLKSAIQAIQVRLQSSRAQLNNVASDEAALGSKIERRKAELERTRKRLEALQSIRP 164 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcch
Confidence 4666777777777777777665544 455566666777777777777777644
No 326
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=21.02 E-value=2.4e+02 Score=24.24 Aligned_cols=43 Identities=12% Similarity=0.199 Sum_probs=23.6
Q ss_pred ecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 68 IGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQI 110 (134)
Q Consensus 68 lG~g~~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i 110 (134)
||-|+|-.-...++..-+.......+..+..+.+........+
T Consensus 77 igvG~yGN~e~~~gv~~~~~s~~~~n~t~~~i~~~v~~~~~~l 119 (406)
T PF04906_consen 77 IGVGFYGNSETNDGVYQLIYSLRNANHTLSGIDNLVSDTTEAL 119 (406)
T ss_pred HHcccccchhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667776666666665555555555555444444444444433
No 327
>PRK00561 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=20.83 E-value=2.5e+02 Score=22.69 Aligned_cols=44 Identities=16% Similarity=0.319 Sum_probs=28.9
Q ss_pred CCeeEEEecCCce-eEEE--EecCCC-eeE-EEecc-eeEEeecHHHHHH
Q 032758 40 TSLRTLVNLGSEV-YMQA--DVPDTQ-HIF-VDIGL-GFHVEFTWSEALK 83 (134)
Q Consensus 40 ~~~eilVplG~~~-yv~a--~I~d~~-kVl-V~lG~-g~~VE~~~~eA~~ 83 (134)
++.+..+.+|++- +++| .....+ .|+ |+.|. ||+.|.+.++..+
T Consensus 32 ~~~D~vi~iGGDGT~L~a~~~~~~~~iPilGIN~G~lGFL~~~~~~~~~~ 81 (259)
T PRK00561 32 DGADYLFVLGGDGFFVSTAANYNCAGCKVVGINTGHLGFYTSFNETDLDQ 81 (259)
T ss_pred CCCCEEEEECCcHHHHHHHHHhcCCCCcEEEEecCCCccccccCHHHHHH
Confidence 4567889998774 3322 111222 244 77776 9999999999887
No 328
>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=20.78 E-value=3.8e+02 Score=20.24 Aligned_cols=34 Identities=21% Similarity=0.265 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 86 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 86 ~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
..||..|++.++.+...+..+-.++..+...|..
T Consensus 28 ~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~ 61 (188)
T PF10018_consen 28 QARIQQLRAEIEELDEQIRDILKQLKEARKELRT 61 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555554444444444444444433
No 329
>PTZ00464 SNF-7-like protein; Provisional
Probab=20.67 E-value=3.2e+02 Score=21.41 Aligned_cols=29 Identities=14% Similarity=0.142 Sum_probs=19.4
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIARQIDEYTRLIA 104 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~~~~~l~~~l~ 104 (134)
..+.+-.+.+++|++.++..+....+.+.
T Consensus 21 ~~l~~r~~~l~kKi~~ld~E~~~ak~~~k 49 (211)
T PTZ00464 21 KRIGGRSEVVDARINKIDAELMKLKEQIQ 49 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777777777777776666655553
No 330
>PHA02562 46 endonuclease subunit; Provisional
Probab=20.66 E-value=4.3e+02 Score=22.83 Aligned_cols=43 Identities=28% Similarity=0.234 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 79 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 79 ~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+.+.+....+.+.++.+++.+..++..++.++......+.++.
T Consensus 166 ~~~~~~~k~~~~e~~~~i~~l~~~i~~l~~~i~~~~~~i~~~~ 208 (562)
T PHA02562 166 SEMDKLNKDKIRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQR 208 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 3445555666666666777777776666666665555444443
No 331
>PF12757 DUF3812: Protein of unknown function (DUF3812); InterPro: IPR024527 This family of fungal proteins represents the eisosome 1 family. Eisosome protein 1 is required for normal formation of eisosomes, large cytoplasmic protein assemblies that localize to specialised domains on plasma membrane and mark the site of endocytosis [].
Probab=20.57 E-value=1.1e+02 Score=22.09 Aligned_cols=11 Identities=45% Similarity=0.770 Sum_probs=5.6
Q ss_pred EEEecCCceeE
Q 032758 44 TLVNLGSEVYM 54 (134)
Q Consensus 44 ilVplG~~~yv 54 (134)
-.|+||+|.|+
T Consensus 59 gkV~lGGGl~m 69 (126)
T PF12757_consen 59 GKVNLGGGLFM 69 (126)
T ss_pred CeeeCCCCccc
Confidence 34555555554
No 332
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=20.53 E-value=3e+02 Score=25.85 Aligned_cols=42 Identities=7% Similarity=0.075 Sum_probs=30.9
Q ss_pred ecHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQREDKIAR-QIDEYTRLIASIKAQIKLVCEGI 117 (134)
Q Consensus 76 ~~~~eA~~~l~kri~~L~~-~~~~l~~~l~~ik~~i~~v~~~i 117 (134)
++-.+|..+++-|+..|.+ .++++++++++++++++.++..+
T Consensus 408 ~~~~qa~~il~m~L~~Lt~~e~~kl~~e~~~l~~ei~~l~~iL 450 (800)
T TIGR01063 408 LSEIQAQAILDMRLQRLTGLEREKLQEEYKELLELIADLEDIL 450 (800)
T ss_pred CCHHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4557888888888888876 37777777777777776665555
No 333
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=20.53 E-value=3.4e+02 Score=21.63 Aligned_cols=46 Identities=13% Similarity=0.172 Sum_probs=21.9
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 74 VEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 74 VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
+|..+.+...-++.....+...+..+..++..++.++.......+.
T Consensus 242 Le~~l~~le~~~~~~~~~~~~~i~~le~el~~l~~~~~~~~~ey~~ 287 (312)
T PF00038_consen 242 LERQLRELEQRLDEEREEYQAEIAELEEELAELREEMARQLREYQE 287 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444555555555555555555444443333
No 334
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=20.32 E-value=2.3e+02 Score=26.09 Aligned_cols=24 Identities=8% Similarity=0.238 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 96 IDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 96 ~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
++-+++++..+++++...+..+++
T Consensus 269 ~~fL~~qL~~l~~~L~~aE~~l~~ 292 (726)
T PRK09841 269 LEFLQRQLPEVRSELDQAEEKLNV 292 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444443
No 335
>COG1345 FliD Flagellar capping protein [Cell motility and secretion]
Probab=20.22 E-value=3.7e+02 Score=23.88 Aligned_cols=41 Identities=7% Similarity=0.201 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 032758 78 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 121 (134)
Q Consensus 78 ~~eA~~~l~kri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ql~ 121 (134)
+..=++.++++++.+.++++..++ +++.+...+...+++++
T Consensus 427 l~~~i~~l~~~i~~~~~rl~~~e~---~~~~qf~~m~~~~~~m~ 467 (483)
T COG1345 427 LNKQIKSLDKDIKSLDKRLEAAEE---RYKTQFNTLDDMMTQMN 467 (483)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Confidence 444445555555555554444432 33344445555555543
No 336
>PHA02751 hypothetical protein; Provisional
Probab=20.19 E-value=2.6e+02 Score=21.99 Aligned_cols=64 Identities=13% Similarity=0.099 Sum_probs=41.4
Q ss_pred EEEecCCceeEEEEecCCCeeEEEeccee----------EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 44 TLVNLGSEVYMQADVPDTQHIFVDIGLGF----------HVEFTWSEALKFISQREDKIARQIDEYTRLIASIK 107 (134)
Q Consensus 44 ilVplG~~~yv~a~I~d~~kVlV~lG~g~----------~VE~~~~eA~~~l~kri~~L~~~~~~l~~~l~~ik 107 (134)
-.|.+|.-+|+-|.+...+-+.=++|-=+ .+|+.+.+.-+.+--++..-++.+.++..++++.-
T Consensus 125 nvvglgR~CvIfGalVrddG~~khV~ii~eeeYleWlRam~ek~~adSweVim~~Lqi~ee~ln~l~eeLak~a 198 (233)
T PHA02751 125 NVVGLGRLCVIFGALVRDDGHAKHVGIITEEEYLEWLRAMAEKNLADSWEVIMIPLQIHEELLNELEEELAKCA 198 (233)
T ss_pred cccccceEEEEEeeEEeecCeeeeccccCHHHHHHHHHHHHhcCcccchhheeeeHHHHHHHHHHHHHHHHHHh
Confidence 35677888888888887777777777533 34566666655665566655666666666555543
No 337
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=20.11 E-value=3.5e+02 Score=19.61 Aligned_cols=43 Identities=9% Similarity=-0.026 Sum_probs=25.4
Q ss_pred ecHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 76 FTWSEALKFISQ-----------REDKIARQIDEYTRLIASIKAQIKLVCEGIC 118 (134)
Q Consensus 76 ~~~~eA~~~l~k-----------ri~~L~~~~~~l~~~l~~ik~~i~~v~~~i~ 118 (134)
+|+++..+++.. ....+.+..+.+.++++++++..+.+...+.
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~~~ 111 (142)
T TIGR01950 58 IPLATIGEALAVLPEGRTPTADDWARLSSQWREELDERIDQLNALRDQLDGCIG 111 (142)
T ss_pred CCHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677888887752 2334455566666666666555555555444
No 338
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=20.10 E-value=4.5e+02 Score=20.89 Aligned_cols=31 Identities=10% Similarity=0.069 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 032758 89 EDKIARQIDEYTRLIASIKAQIKLVCEGICE 119 (134)
Q Consensus 89 i~~L~~~~~~l~~~l~~ik~~i~~v~~~i~q 119 (134)
++.|......+.++|..|.+.|..++..|.+
T Consensus 41 ~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkq 71 (230)
T PF10146_consen 41 MEELLQERMAHVEELRQINQDINTLENIIKQ 71 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333344444444444444444444433
Done!