Query psy9934
Match_columns 158
No_of_seqs 219 out of 1815
Neff 6.9
Searched_HMMs 46136
Date Fri Aug 16 23:22:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9934.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9934hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00737 small nuclear ribonuc 99.9 6.6E-23 1.4E-27 137.4 7.4 70 7-76 3-72 (72)
2 cd01726 LSm6 The eukaryotic Sm 99.9 7.2E-23 1.6E-27 135.3 7.1 66 9-74 1-66 (67)
3 KOG3482|consensus 99.9 5.7E-23 1.2E-27 135.0 5.7 76 74-149 4-79 (79)
4 cd01719 Sm_G The eukaryotic Sm 99.9 1.9E-22 4.2E-27 135.1 7.8 71 79-149 1-71 (72)
5 cd01731 archaeal_Sm1 The archa 99.9 2.6E-22 5.6E-27 133.0 7.3 68 9-76 1-68 (68)
6 PRK00737 small nuclear ribonuc 99.9 2.3E-22 5.1E-27 134.7 6.6 70 77-146 3-72 (72)
7 cd01722 Sm_F The eukaryotic Sm 99.9 3.7E-22 8.1E-27 132.3 7.3 67 8-74 1-67 (68)
8 cd01726 LSm6 The eukaryotic Sm 99.9 4.7E-22 1E-26 131.4 7.1 67 79-145 1-67 (67)
9 cd01731 archaeal_Sm1 The archa 99.9 5.3E-22 1.2E-26 131.4 7.2 68 79-146 1-68 (68)
10 cd01732 LSm5 The eukaryotic Sm 99.9 7.1E-22 1.5E-26 133.6 7.1 70 78-147 3-75 (76)
11 cd01732 LSm5 The eukaryotic Sm 99.9 1E-21 2.2E-26 132.9 7.0 70 7-76 2-74 (76)
12 cd01719 Sm_G The eukaryotic Sm 99.9 7.1E-22 1.5E-26 132.4 6.1 71 9-79 1-71 (72)
13 cd01722 Sm_F The eukaryotic Sm 99.9 1.2E-21 2.5E-26 129.9 6.3 68 78-145 1-68 (68)
14 cd01729 LSm7 The eukaryotic Sm 99.8 4.8E-21 1E-25 131.1 7.7 68 82-149 6-81 (81)
15 cd01730 LSm3 The eukaryotic Sm 99.8 3.8E-21 8.3E-26 131.8 6.9 68 79-146 2-82 (82)
16 cd01730 LSm3 The eukaryotic Sm 99.8 4.9E-21 1.1E-25 131.3 7.1 69 8-76 1-82 (82)
17 KOG3482|consensus 99.8 2.7E-21 5.9E-26 127.1 5.5 75 1-75 1-75 (79)
18 cd01721 Sm_D3 The eukaryotic S 99.8 8.3E-21 1.8E-25 126.5 7.8 70 79-148 1-70 (70)
19 cd01721 Sm_D3 The eukaryotic S 99.8 5.7E-21 1.2E-25 127.3 6.9 67 9-76 1-68 (70)
20 cd01723 LSm4 The eukaryotic Sm 99.8 9.4E-21 2E-25 128.1 6.3 69 8-76 1-70 (76)
21 cd01727 LSm8 The eukaryotic Sm 99.8 5E-20 1.1E-24 123.9 7.8 69 81-149 2-74 (74)
22 cd01720 Sm_D2 The eukaryotic S 99.8 3.3E-20 7.2E-25 128.4 6.6 69 8-76 2-85 (87)
23 COG1958 LSM1 Small nuclear rib 99.8 7.1E-20 1.5E-24 124.6 7.9 71 5-75 4-78 (79)
24 cd01723 LSm4 The eukaryotic Sm 99.8 4.9E-20 1.1E-24 124.6 6.8 71 79-149 2-73 (76)
25 cd01720 Sm_D2 The eukaryotic S 99.8 5.3E-20 1.1E-24 127.4 6.4 69 79-147 3-86 (87)
26 cd01718 Sm_E The eukaryotic Sm 99.8 6.2E-20 1.3E-24 124.8 6.5 69 78-146 6-79 (79)
27 cd01724 Sm_D1 The eukaryotic S 99.8 1.1E-19 2.4E-24 126.6 7.6 69 9-77 2-70 (90)
28 cd01729 LSm7 The eukaryotic Sm 99.8 1E-19 2.2E-24 124.5 6.9 69 9-77 3-79 (81)
29 cd01724 Sm_D1 The eukaryotic S 99.8 1.5E-19 3.3E-24 125.9 7.5 72 80-151 3-74 (90)
30 COG1958 LSM1 Small nuclear rib 99.8 1.8E-19 3.9E-24 122.6 7.2 71 76-146 5-79 (79)
31 smart00651 Sm snRNP Sm protein 99.8 4.3E-19 9.3E-24 116.5 7.9 66 81-146 1-67 (67)
32 smart00651 Sm snRNP Sm protein 99.8 2.4E-19 5.1E-24 117.7 6.0 65 11-75 1-66 (67)
33 cd01733 LSm10 The eukaryotic S 99.8 3.4E-19 7.5E-24 121.1 6.9 71 5-75 6-76 (78)
34 cd01718 Sm_E The eukaryotic Sm 99.8 4.3E-19 9.3E-24 120.7 7.4 72 5-76 3-79 (79)
35 cd01728 LSm1 The eukaryotic Sm 99.8 4.5E-19 9.7E-24 119.4 7.3 68 80-147 4-74 (74)
36 PF01423 LSM: LSM domain ; In 99.8 7.3E-19 1.6E-23 115.5 7.8 65 82-146 2-67 (67)
37 PF01423 LSM: LSM domain ; In 99.8 3.9E-19 8.5E-24 116.8 6.3 64 12-75 2-66 (67)
38 cd01733 LSm10 The eukaryotic S 99.8 1E-18 2.3E-23 118.7 7.6 69 79-147 10-78 (78)
39 cd01717 Sm_B The eukaryotic Sm 99.8 1E-18 2.2E-23 119.0 7.4 65 82-146 4-78 (79)
40 cd01725 LSm2 The eukaryotic Sm 99.8 1.4E-18 3.1E-23 118.8 6.4 69 8-76 1-71 (81)
41 KOG1780|consensus 99.8 6.6E-19 1.4E-23 116.3 3.8 74 1-78 1-74 (77)
42 cd01717 Sm_B The eukaryotic Sm 99.7 2E-18 4.4E-23 117.4 6.0 65 11-75 3-77 (79)
43 cd00600 Sm_like The eukaryotic 99.7 3.6E-18 7.8E-23 110.7 6.5 62 13-74 1-62 (63)
44 cd01727 LSm8 The eukaryotic Sm 99.7 3.1E-18 6.7E-23 115.2 6.3 68 11-78 2-73 (74)
45 cd01728 LSm1 The eukaryotic Sm 99.7 5.9E-18 1.3E-22 113.9 7.3 68 8-75 2-72 (74)
46 cd01725 LSm2 The eukaryotic Sm 99.7 4.5E-18 9.6E-23 116.4 6.7 74 79-152 2-77 (81)
47 cd00600 Sm_like The eukaryotic 99.7 1.4E-17 2.9E-22 107.9 7.6 63 83-145 1-63 (63)
48 PTZ00138 small nuclear ribonuc 99.7 1E-17 2.2E-22 116.3 6.8 70 78-147 14-88 (89)
49 KOG1783|consensus 99.7 4E-19 8.7E-24 117.0 -1.0 72 77-148 5-76 (77)
50 cd06168 LSm9 The eukaryotic Sm 99.7 3.5E-17 7.5E-22 110.4 7.6 66 81-146 3-74 (75)
51 KOG1780|consensus 99.7 1.2E-17 2.6E-22 110.3 4.8 68 82-149 8-75 (77)
52 cd06168 LSm9 The eukaryotic Sm 99.7 3.2E-17 6.9E-22 110.6 6.7 64 11-74 3-72 (75)
53 KOG1783|consensus 99.7 2.5E-18 5.4E-23 113.2 -0.7 74 1-76 1-74 (77)
54 PTZ00138 small nuclear ribonuc 99.7 1.2E-16 2.5E-21 111.0 6.2 72 5-76 11-87 (89)
55 KOG3293|consensus 99.6 5.4E-16 1.2E-20 111.7 4.1 76 8-85 2-78 (134)
56 KOG3460|consensus 99.6 2.5E-16 5.4E-21 106.2 1.1 73 5-77 2-87 (91)
57 KOG1781|consensus 99.5 5.5E-16 1.2E-20 107.6 -1.2 73 82-154 21-101 (108)
58 KOG3460|consensus 99.5 1.6E-15 3.5E-20 102.3 0.7 73 77-149 4-89 (91)
59 KOG1775|consensus 99.5 6.2E-15 1.4E-19 98.0 2.2 74 77-150 6-82 (84)
60 KOG1775|consensus 99.4 2.2E-14 4.8E-19 95.3 1.4 74 4-77 3-79 (84)
61 KOG1774|consensus 99.4 2.1E-13 4.6E-18 91.8 3.6 66 81-148 19-87 (88)
62 KOG1782|consensus 99.4 2.8E-14 6.2E-19 102.7 -0.7 70 83-152 14-86 (129)
63 KOG3172|consensus 99.4 5.1E-13 1.1E-17 94.3 5.5 73 6-78 3-75 (119)
64 KOG1781|consensus 99.4 2.3E-14 5.1E-19 99.5 -1.7 70 9-78 18-95 (108)
65 KOG3293|consensus 99.4 4.4E-13 9.5E-18 96.7 4.4 73 79-151 3-76 (134)
66 KOG3448|consensus 99.4 1.5E-12 3.2E-17 89.0 5.6 66 10-75 4-71 (96)
67 KOG1784|consensus 99.3 4.6E-13 1E-17 91.9 2.7 71 82-152 4-78 (96)
68 KOG3428|consensus 99.3 4.5E-12 9.9E-17 89.7 6.1 97 10-107 4-101 (109)
69 KOG1774|consensus 99.3 1.6E-12 3.6E-17 87.5 2.3 70 7-76 11-85 (88)
70 KOG3172|consensus 99.2 4.5E-11 9.7E-16 84.5 6.9 73 77-149 4-76 (119)
71 KOG3448|consensus 99.2 2.3E-11 5E-16 83.1 4.8 72 81-152 5-78 (96)
72 KOG3168|consensus 99.1 5.8E-12 1.3E-16 95.4 -0.3 70 82-151 8-87 (177)
73 KOG3168|consensus 99.0 1.5E-11 3.3E-16 93.2 -1.6 67 12-78 8-84 (177)
74 KOG1784|consensus 99.0 5.3E-10 1.2E-14 76.9 3.7 67 12-78 4-74 (96)
75 KOG1782|consensus 99.0 9.3E-11 2E-15 84.6 -0.2 79 1-79 1-83 (129)
76 KOG3428|consensus 98.8 1.5E-08 3.2E-13 71.9 6.4 69 81-150 5-73 (109)
77 KOG3459|consensus 98.6 1.9E-09 4.2E-14 76.5 -2.3 71 8-79 24-109 (114)
78 PRK14091 RNA-binding protein H 98.2 3.4E-05 7.5E-10 58.9 10.7 119 1-119 5-135 (165)
79 KOG3459|consensus 97.9 9.7E-07 2.1E-11 62.8 -1.8 60 88-147 36-108 (114)
80 cd01739 LSm11_C The eukaryotic 97.9 1.4E-05 3.1E-10 52.1 3.0 36 18-53 8-47 (66)
81 PF14438 SM-ATX: Ataxin 2 SM d 97.8 8E-05 1.7E-09 49.9 5.6 62 10-71 4-75 (77)
82 cd01739 LSm11_C The eukaryotic 97.6 5.7E-05 1.2E-09 49.2 2.8 37 88-124 8-48 (66)
83 PF14438 SM-ATX: Ataxin 2 SM d 97.0 0.0013 2.9E-08 43.9 4.2 60 83-142 7-76 (77)
84 PF12701 LSM14: Scd6-like Sm d 96.6 0.0033 7.1E-08 44.3 4.2 62 14-75 4-75 (96)
85 PF12701 LSM14: Scd6-like Sm d 95.9 0.068 1.5E-06 37.6 7.6 68 84-151 4-81 (96)
86 cd01716 Hfq Hfq, an abundant, 95.9 0.027 5.8E-07 36.4 5.1 34 12-45 3-38 (61)
87 TIGR02383 Hfq RNA chaperone Hf 95.7 0.033 7.1E-07 36.0 5.0 35 11-45 6-42 (61)
88 PF02237 BPL_C: Biotin protein 95.5 0.097 2.1E-06 31.8 6.5 47 17-67 2-48 (48)
89 cd01736 LSm14_N LSm14 (also kn 95.5 0.096 2.1E-06 35.1 6.9 60 14-73 2-72 (74)
90 PF03614 Flag1_repress: Repres 95.5 0.042 9.2E-07 41.6 5.7 93 17-110 28-142 (165)
91 PRK00395 hfq RNA-binding prote 95.2 0.064 1.4E-06 36.4 5.4 39 7-45 6-46 (79)
92 COG1923 Hfq Uncharacterized ho 95.1 0.062 1.4E-06 36.1 4.9 39 9-48 8-48 (77)
93 cd01716 Hfq Hfq, an abundant, 94.7 0.061 1.3E-06 34.8 4.0 31 88-118 11-41 (61)
94 TIGR02383 Hfq RNA chaperone Hf 94.6 0.068 1.5E-06 34.6 4.0 31 88-118 15-45 (61)
95 PF11095 Gemin7: Gem-associate 94.2 0.24 5.3E-06 33.7 6.3 60 10-74 16-76 (80)
96 PF02237 BPL_C: Biotin protein 94.2 0.16 3.4E-06 30.9 4.8 47 87-137 2-48 (48)
97 PRK00395 hfq RNA-binding prote 93.8 0.12 2.6E-06 35.1 4.0 38 82-119 11-50 (79)
98 cd01735 LSm12_N LSm12 belongs 93.2 0.25 5.5E-06 31.9 4.7 34 16-49 4-37 (61)
99 PF11095 Gemin7: Gem-associate 92.7 0.42 9E-06 32.6 5.4 60 82-146 18-78 (80)
100 cd01736 LSm14_N LSm14 (also kn 92.7 0.48 1E-05 31.8 5.5 61 84-144 2-73 (74)
101 PRK14638 hypothetical protein; 92.5 0.24 5.2E-06 37.5 4.5 45 2-47 81-128 (150)
102 PRK14091 RNA-binding protein H 91.5 0.56 1.2E-05 36.0 5.5 64 7-82 91-156 (165)
103 PRK14639 hypothetical protein; 91.4 0.37 8E-06 36.0 4.4 45 2-47 69-116 (140)
104 PRK02001 hypothetical protein; 91.4 0.39 8.4E-06 36.5 4.5 44 2-46 71-117 (152)
105 PF06372 Gemin6: Gemin6 protei 90.9 0.5 1.1E-05 36.5 4.8 61 7-75 7-68 (166)
106 PF06372 Gemin6: Gemin6 protei 90.6 0.38 8.3E-06 37.1 3.9 61 83-150 12-73 (166)
107 PRK14644 hypothetical protein; 90.0 0.73 1.6E-05 34.3 4.8 45 2-47 67-117 (136)
108 COG1923 Hfq Uncharacterized ho 89.9 0.55 1.2E-05 31.6 3.7 37 82-118 11-49 (77)
109 cd01734 YlxS_C YxlS is a Bacil 89.4 0.84 1.8E-05 30.8 4.5 40 2-41 6-52 (83)
110 PF02576 DUF150: Uncharacteris 88.5 0.57 1.2E-05 34.7 3.4 39 2-40 68-113 (141)
111 cd01735 LSm12_N LSm12 belongs 87.5 1.2 2.7E-05 28.7 4.0 35 87-121 5-39 (61)
112 PF10842 DUF2642: Protein of u 87.3 1.3 2.8E-05 29.1 4.1 57 76-146 7-66 (66)
113 PRK14642 hypothetical protein; 86.9 1.2 2.6E-05 35.2 4.5 44 2-46 81-140 (197)
114 PRK14640 hypothetical protein; 86.9 1.2 2.7E-05 33.6 4.4 45 2-47 78-129 (152)
115 PRK14633 hypothetical protein; 86.8 1.3 2.8E-05 33.5 4.4 45 2-47 75-126 (150)
116 PRK14645 hypothetical protein; 86.7 1.2 2.5E-05 33.9 4.2 43 2-46 83-128 (154)
117 PF10842 DUF2642: Protein of u 86.7 3.1 6.7E-05 27.3 5.6 51 11-75 14-65 (66)
118 PRK14638 hypothetical protein; 84.4 1.2 2.5E-05 33.7 3.2 35 82-117 94-128 (150)
119 COG0779 Uncharacterized protei 84.3 2.7 5.8E-05 32.0 5.1 44 2-46 80-130 (153)
120 PRK14634 hypothetical protein; 83.2 2.4 5.2E-05 32.2 4.5 44 2-46 81-131 (155)
121 PRK14636 hypothetical protein; 82.8 2.4 5.2E-05 32.9 4.4 44 2-46 79-129 (176)
122 PRK00092 ribosome maturation p 82.1 2.6 5.6E-05 31.7 4.3 39 2-40 79-124 (154)
123 PRK14632 hypothetical protein; 81.9 2.8 6.2E-05 32.3 4.5 45 2-47 79-133 (172)
124 PRK14647 hypothetical protein; 81.6 3.1 6.6E-05 31.6 4.5 39 2-40 80-130 (159)
125 PRK02001 hypothetical protein; 81.0 1.9 4.1E-05 32.7 3.2 35 81-116 83-117 (152)
126 PRK14639 hypothetical protein; 80.8 2 4.3E-05 32.1 3.2 35 81-116 81-115 (140)
127 PRK14646 hypothetical protein; 80.0 3.8 8.2E-05 31.1 4.6 45 2-47 81-132 (155)
128 PRK14643 hypothetical protein; 79.2 4 8.7E-05 31.3 4.5 45 2-46 85-137 (164)
129 PRK14637 hypothetical protein; 78.6 3.9 8.5E-05 30.9 4.2 45 2-47 79-127 (151)
130 PRK14631 hypothetical protein; 77.6 4.6 0.0001 31.3 4.5 38 2-39 98-142 (174)
131 KOG1073|consensus 76.7 5 0.00011 34.6 4.8 63 13-75 4-77 (361)
132 PRK14641 hypothetical protein; 76.1 4.8 0.0001 31.2 4.2 38 2-39 85-129 (173)
133 PF07073 ROF: Modulator of Rho 69.5 4 8.6E-05 27.7 2.1 63 15-84 14-76 (80)
134 cd01734 YlxS_C YxlS is a Bacil 69.1 6.6 0.00014 26.3 3.1 29 82-110 19-51 (83)
135 PRK14644 hypothetical protein; 69.1 6 0.00013 29.4 3.1 35 82-117 79-117 (136)
136 PRK14640 hypothetical protein; 68.3 6.3 0.00014 29.7 3.2 34 82-116 91-128 (152)
137 PRK14642 hypothetical protein; 68.0 6.2 0.00013 31.3 3.2 34 82-116 94-140 (197)
138 PRK06955 biotin--protein ligas 67.4 21 0.00046 29.6 6.5 50 16-69 247-296 (300)
139 PRK14633 hypothetical protein; 65.4 7.7 0.00017 29.2 3.1 34 82-116 88-125 (150)
140 PRK13325 bifunctional biotin-- 64.5 41 0.00088 30.9 8.1 59 16-78 276-334 (592)
141 PF02576 DUF150: Uncharacteris 62.0 8 0.00017 28.5 2.7 29 82-110 81-113 (141)
142 PRK14645 hypothetical protein; 61.8 9 0.00019 29.1 2.9 29 82-111 96-124 (154)
143 PRK06955 biotin--protein ligas 61.3 33 0.00072 28.5 6.5 49 86-138 247-295 (300)
144 COG0779 Uncharacterized protei 59.9 9.4 0.0002 29.0 2.7 32 81-112 92-127 (153)
145 PRK14636 hypothetical protein; 59.5 11 0.00024 29.2 3.1 29 82-110 92-124 (176)
146 PRK14632 hypothetical protein; 59.3 11 0.00024 29.0 3.1 35 82-117 92-133 (172)
147 PRK14643 hypothetical protein; 59.1 11 0.00025 28.8 3.1 35 82-116 98-137 (164)
148 PRK09618 flgD flagellar basal 58.9 33 0.00072 25.8 5.5 26 14-39 88-113 (142)
149 PRK14630 hypothetical protein; 58.2 18 0.0004 27.0 4.0 43 2-46 78-123 (143)
150 PRK11886 bifunctional biotin-- 57.9 41 0.00089 27.9 6.6 48 16-68 270-317 (319)
151 PRK00092 ribosome maturation p 56.7 13 0.00029 27.8 3.1 30 81-110 91-124 (154)
152 PRK14635 hypothetical protein; 56.3 25 0.00054 26.8 4.6 44 2-46 80-131 (162)
153 PRK14646 hypothetical protein; 56.0 14 0.00031 27.9 3.1 34 82-116 94-131 (155)
154 PRK14634 hypothetical protein; 55.0 15 0.00032 27.8 3.1 34 82-116 94-131 (155)
155 PRK13325 bifunctional biotin-- 54.9 44 0.00094 30.7 6.6 49 86-138 276-324 (592)
156 PF11607 DUF3247: Protein of u 54.8 17 0.00038 25.5 3.1 19 18-36 28-46 (101)
157 PRK14647 hypothetical protein; 54.3 15 0.00033 27.8 3.1 29 82-110 93-130 (159)
158 PF03614 Flag1_repress: Repres 52.9 19 0.00042 27.4 3.4 33 88-120 29-61 (165)
159 PRK11886 bifunctional biotin-- 52.3 49 0.0011 27.5 6.1 48 86-138 270-317 (319)
160 TIGR00121 birA_ligase birA, bi 51.1 59 0.0013 25.8 6.2 31 16-47 191-221 (237)
161 PRK10898 serine endoprotease; 49.7 31 0.00068 29.3 4.6 33 18-50 101-133 (353)
162 PRK14631 hypothetical protein; 48.7 21 0.00045 27.6 3.1 29 81-109 110-142 (174)
163 TIGR02038 protease_degS peripl 48.7 33 0.00071 29.1 4.6 32 19-50 102-133 (351)
164 PRK10898 serine endoprotease; 48.4 45 0.00097 28.4 5.4 57 89-147 102-160 (353)
165 PF14563 DUF4444: Domain of un 46.6 21 0.00044 21.3 2.1 21 101-121 10-30 (42)
166 PRK14637 hypothetical protein; 46.4 23 0.00049 26.7 2.9 34 82-116 92-126 (151)
167 PRK14641 hypothetical protein; 45.3 24 0.00051 27.3 2.9 28 82-109 98-129 (173)
168 KOG1073|consensus 45.2 51 0.0011 28.6 5.1 67 84-150 5-82 (361)
169 TIGR02038 protease_degS peripl 44.3 56 0.0012 27.7 5.4 31 90-120 103-133 (351)
170 PRK10139 serine endoprotease; 40.8 52 0.0011 29.1 4.8 33 18-50 114-146 (455)
171 PRK08330 biotin--protein ligas 40.4 99 0.0021 24.5 6.0 33 16-49 186-219 (236)
172 COG0340 BirA Biotin-(acetyl-Co 39.4 1.2E+02 0.0027 24.4 6.4 34 16-49 188-221 (238)
173 TIGR00121 birA_ligase birA, bi 38.9 90 0.0019 24.7 5.5 31 86-117 191-221 (237)
174 PRK10942 serine endoprotease; 38.5 55 0.0012 29.1 4.6 32 18-49 135-166 (473)
175 PRK10942 serine endoprotease; 37.1 50 0.0011 29.3 4.1 32 89-120 136-167 (473)
176 PRK10708 hypothetical protein; 37.0 38 0.00083 21.6 2.4 26 17-42 3-28 (62)
177 PRK10139 serine endoprotease; 36.6 53 0.0011 29.0 4.1 59 89-148 115-175 (455)
178 TIGR02037 degP_htrA_DO peripla 35.5 67 0.0014 27.8 4.5 32 19-50 82-113 (428)
179 PRK08330 biotin--protein ligas 35.1 1E+02 0.0022 24.4 5.3 33 86-119 186-219 (236)
180 PF14153 Spore_coat_CotO: Spor 35.0 70 0.0015 25.0 4.1 33 9-41 122-157 (185)
181 PF10618 Tail_tube: Phage tail 34.7 70 0.0015 23.0 3.9 30 5-34 61-90 (119)
182 TIGR02603 CxxCH_TIGR02603 puta 34.6 74 0.0016 23.0 4.0 28 20-48 59-86 (133)
183 COG5316 Uncharacterized conser 34.4 85 0.0018 27.6 4.9 47 5-52 69-115 (421)
184 PTZ00275 biotin-acetyl-CoA-car 34.4 95 0.0021 25.6 5.1 31 17-48 236-266 (285)
185 PF08661 Rep_fac-A_3: Replicat 34.1 21 0.00046 25.0 1.1 31 1-39 1-31 (109)
186 PF11607 DUF3247: Protein of u 34.0 47 0.001 23.3 2.7 17 89-105 29-45 (101)
187 KOG3382|consensus 33.9 22 0.00048 26.6 1.1 26 95-120 39-64 (151)
188 PF10781 DSRB: Dextransucrase 31.6 48 0.001 21.1 2.2 26 17-42 3-28 (62)
189 PRK11911 flgD flagellar basal 31.5 82 0.0018 23.6 3.8 26 14-39 89-114 (140)
190 smart00333 TUDOR Tudor domain. 30.8 1.2E+02 0.0026 17.9 4.9 24 17-40 5-28 (57)
191 TIGR02037 degP_htrA_DO peripla 30.0 78 0.0017 27.4 4.1 32 89-120 82-113 (428)
192 COG0340 BirA Biotin-(acetyl-Co 29.4 1.9E+02 0.0041 23.3 6.0 35 86-120 188-222 (238)
193 KOG3493|consensus 28.3 45 0.00097 21.9 1.7 20 12-31 5-24 (73)
194 PF09465 LBR_tudor: Lamin-B re 28.3 1.1E+02 0.0025 19.2 3.5 24 17-40 8-32 (55)
195 PTZ00275 biotin-acetyl-CoA-car 27.6 1E+02 0.0022 25.4 4.2 32 87-119 236-267 (285)
196 PRK05163 rpsL 30S ribosomal pr 26.9 1.1E+02 0.0024 22.5 3.7 44 14-73 46-89 (124)
197 PRK11625 Rho-binding antitermi 25.8 1.1E+02 0.0025 20.8 3.4 50 17-75 22-72 (84)
198 PF05071 NDUFA12: NADH ubiquin 24.5 32 0.0007 24.2 0.6 17 103-119 1-17 (105)
199 PRK09618 flgD flagellar basal 24.0 1.8E+02 0.004 21.8 4.6 26 84-109 88-113 (142)
200 PRK14635 hypothetical protein; 24.0 92 0.002 23.6 3.0 30 82-111 93-127 (162)
201 TIGR03170 flgA_cterm flagella 22.2 1E+02 0.0023 21.5 2.9 23 15-37 93-116 (122)
202 PRK06792 flgD flagellar basal 20.8 1.5E+02 0.0033 23.4 3.7 26 14-39 114-139 (190)
203 PRK08477 biotin--protein ligas 20.6 2.2E+02 0.0048 22.5 4.7 36 14-50 171-206 (211)
No 1
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=99.88 E-value=6.6e-23 Score=137.36 Aligned_cols=70 Identities=37% Similarity=0.468 Sum_probs=65.4
Q ss_pred CCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCC
Q psy9934 7 CNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 7 ~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p 76 (158)
..|+++|+++++++|.|+|+||++|.|+|.+||+|||++|+||+|+++++..+.+|.++|||++|.++.|
T Consensus 3 ~~P~~~L~~~~~k~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~~~~~lg~v~iRG~~V~~i~~ 72 (72)
T PRK00737 3 QRPLDVLNNALNSPVLVRLKGGREFRGELQGYDIHMNLVLDNAEEIQDGEVVRKLGKVVIRGDNVVYVSP 72 (72)
T ss_pred cchHHHHHHhCCCEEEEEECCCCEEEEEEEEEcccceeEEeeEEEEcCCCeEeEcCcEEEeCCEEEEEcC
Confidence 5899999999999999999999999999999999999999999998777667899999999999998754
No 2
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm6 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.88 E-value=7.2e-23 Score=135.32 Aligned_cols=66 Identities=39% Similarity=0.705 Sum_probs=62.6
Q ss_pred chHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCC
Q psy9934 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTP 74 (158)
Q Consensus 9 p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I 74 (158)
|+++|++++|++|+|+|+||++|+|+|.+||+|||++|+||++..+++..+.+|.++|||++|.++
T Consensus 1 p~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~~~~~~~~~~~~~~~~~v~IRG~~I~~I 66 (67)
T cd01726 1 PSEFLKAIIGRPVVVKLNSGVDYRGILACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYI 66 (67)
T ss_pred CHHHHHhhCCCeEEEEECCCCEEEEEEEEEccceeeEEeeEEEEeCCceeeEeCCEEEECCEEEEE
Confidence 899999999999999999999999999999999999999999987776678999999999999875
No 3
>KOG3482|consensus
Probab=99.88 E-value=5.7e-23 Score=135.02 Aligned_cols=76 Identities=71% Similarity=1.165 Sum_probs=72.1
Q ss_pred CCCCCCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCCC
Q psy9934 74 PLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAEE 149 (158)
Q Consensus 74 I~p~dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~~ 149 (158)
.+|.+|.+||+.+.+++|.|+||+|.+|+|+|.+.|.|||++|.+|+|+++|.....+|.++||++||.+|...++
T Consensus 4 ~~PvNPKpFL~~l~gk~V~vkLKwg~eYkG~LvsvD~YmNlqL~~~eE~idG~~~g~lGEilIRCNNvlyi~gv~~ 79 (79)
T KOG3482|consen 4 KQPVNPKPFLNGLTGKPVLVKLKWGQEYKGTLVSVDNYMNLQLANAEEYIDGVSTGNLGEILIRCNNVLYIRGVPE 79 (79)
T ss_pred cccCCchHHHhhccCCeEEEEEecCcEEEEEEEEecchhheehhhhhhhhcccccccceeEEEEeccEEEEecCCC
Confidence 4688999999999999999999999999999999999999999999999999888899999999999999987653
No 4
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit G binds subunits E and F to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.88 E-value=1.9e-22 Score=135.12 Aligned_cols=71 Identities=30% Similarity=0.387 Sum_probs=66.0
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCCC
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAEE 149 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~~ 149 (158)
|.++|+++++|+|.|+|++|++|+|+|.|||+||||+|+||+|+..+...+++|.++|||++|++|++.|+
T Consensus 1 ~~~~L~~~i~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~E~~~~~~~~~lg~v~IRG~~I~~i~~~~~ 71 (72)
T cd01719 1 HPPELKKYMDKKLSLKLNGNRKVSGILRGFDPFMNLVLDDAVEVNSGGEKNNIGMVVIRGNSIVMLEALER 71 (72)
T ss_pred CchhhHHhCCCeEEEEECCCeEEEEEEEEEcccccEEeccEEEEccCCceeEeceEEECCCEEEEEEcccc
Confidence 56789999999999999999999999999999999999999999766667899999999999999998864
No 5
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences. They function to mediate RNA-RNA interactions and RNA biogenesis. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. Eukaryotic Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6). Since archaebacteria do not have any splicing apparatus, Sm proteins of archaebacteria may play a more general role. Archaeal Lsm proteins are likely to represent the ancestral Sm domain.
Probab=99.87 E-value=2.6e-22 Score=132.96 Aligned_cols=68 Identities=40% Similarity=0.423 Sum_probs=63.8
Q ss_pred chHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCC
Q psy9934 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 9 p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p 76 (158)
|+++|++++|++|.|+|+||++|.|+|.+||+|||++|+||+|++.+...+.+|.++|||++|.++.|
T Consensus 1 p~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~I~~i~~ 68 (68)
T cd01731 1 PLDVLKDSLNKPVLVKLKGGKEVRGRLKSYDQHMNLVLEDAEEIDDGEPVRKYGRVVIRGDNVLFISP 68 (68)
T ss_pred ChHHHHHhcCCEEEEEECCCCEEEEEEEEECCcceEEEeeEEEEecCCeEeEcCcEEEeCCEEEEEcC
Confidence 89999999999999999999999999999999999999999999766567899999999999998764
No 6
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=99.87 E-value=2.3e-22 Score=134.68 Aligned_cols=70 Identities=39% Similarity=0.557 Sum_probs=65.3
Q ss_pred CCCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEe
Q psy9934 77 CNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 77 ~dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~ 146 (158)
..|.++|+++++++|.|+|+||++|+|+|.|||+|||++|+||+|..+++..+++|.++|||++|++|++
T Consensus 3 ~~P~~~L~~~~~k~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~~~~~lg~v~iRG~~V~~i~~ 72 (72)
T PRK00737 3 QRPLDVLNNALNSPVLVRLKGGREFRGELQGYDIHMNLVLDNAEEIQDGEVVRKLGKVVIRGDNVVYVSP 72 (72)
T ss_pred cchHHHHHHhCCCEEEEEECCCCEEEEEEEEEcccceeEEeeEEEEcCCCeEeEcCcEEEeCCEEEEEcC
Confidence 3688899999999999999999999999999999999999999998777667899999999999999974
No 7
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Probab=99.87 E-value=3.7e-22 Score=132.28 Aligned_cols=67 Identities=70% Similarity=1.016 Sum_probs=63.0
Q ss_pred CchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCC
Q psy9934 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTP 74 (158)
Q Consensus 8 ~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I 74 (158)
+|+++|++++|++|+|+|+||++|.|+|.+||+|||++|+||+|+.++.....+|.++|||++|.++
T Consensus 1 ~p~~~L~~~~g~~V~V~Lk~g~~~~G~L~~~D~~mNi~L~~~~e~~~~~~~~~lg~~~IRG~~I~~i 67 (68)
T cd01722 1 NPKPFLNDLTGKPVIVKLKWGMEYKGTLVSVDSYMNLQLANTEEYIDGKSTGNLGEVLIRCNNVLYI 67 (68)
T ss_pred CHHHHHHHcCCCEEEEEECCCcEEEEEEEEECCCEEEEEeeEEEEeCCccccCcCcEEEECCEEEEE
Confidence 5999999999999999999999999999999999999999999987666578899999999999875
No 8
>cd01726 LSm6 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm6 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.86 E-value=4.7e-22 Score=131.43 Aligned_cols=67 Identities=46% Similarity=0.850 Sum_probs=63.1
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEE
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIR 145 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~ 145 (158)
|.++|+++++++|.|+|++|++|+|+|.|||+|||++|+||++..++.....+|.++|||++|++|+
T Consensus 1 p~~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~~~~~~~~~~~~~~~~~v~IRG~~I~~I~ 67 (67)
T cd01726 1 PSEFLKAIIGRPVVVKLNSGVDYRGILACLDGYMNIALEQTEEYVNGQLKNKYGDAFIRGNNVLYIS 67 (67)
T ss_pred CHHHHHhhCCCeEEEEECCCCEEEEEEEEEccceeeEEeeEEEEeCCceeeEeCCEEEECCEEEEEC
Confidence 6789999999999999999999999999999999999999999877777789999999999999985
No 9
>cd01731 archaeal_Sm1 The archaeal sm1 proteins: The Sm proteins are conserved in all three domains of life and are always associated with U-rich RNA sequences. They function to mediate RNA-RNA interactions and RNA biogenesis. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. Eukaryotic Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6). Since archaebacteria do not have any splicing apparatus, Sm proteins of archaebacteria may play a more general role. Archaeal Lsm proteins are likely to represent the ancestral Sm domain.
Probab=99.86 E-value=5.3e-22 Score=131.45 Aligned_cols=68 Identities=43% Similarity=0.527 Sum_probs=63.5
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEe
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~ 146 (158)
|.++|+++++++|.|+|++|++|+|+|.|||+|||++|+||+|+..+...+.+|.++|||++|++|++
T Consensus 1 p~~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~I~~i~~ 68 (68)
T cd01731 1 PLDVLKDSLNKPVLVKLKGGKEVRGRLKSYDQHMNLVLEDAEEIDDGEPVRKYGRVVIRGDNVLFISP 68 (68)
T ss_pred ChHHHHHhcCCEEEEEECCCCEEEEEEEEECCcceEEEeeEEEEecCCeEeEcCcEEEeCCEEEEEcC
Confidence 66789999999999999999999999999999999999999998776667899999999999999975
No 10
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.86 E-value=7.1e-22 Score=133.65 Aligned_cols=70 Identities=26% Similarity=0.395 Sum_probs=64.0
Q ss_pred CCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEe---cCeeeeecCcEEEeeCcEEEEEeC
Q psy9934 78 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII---DGHCTGKLGEVLIRCNNILYIRGA 147 (158)
Q Consensus 78 dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~---~~~~~~~~g~~~iRG~~I~~i~~~ 147 (158)
-|.++|+++++++|.|++++|+++.|+|.|||+|||++|+||+|+. ++++.+.+|.++|||+||++|+|.
T Consensus 3 ~P~~~L~~~~~~~V~V~l~~gr~~~G~L~g~D~~mNlvL~da~E~~~~~~~~~~~~lg~v~iRG~nV~~i~p~ 75 (76)
T cd01732 3 LPLELIDKCIGSRIWIVMKSDKEFVGTLLGFDDYVNMVLEDVTEYEITPEGRKITKLDQILLNGNNICMLVPG 75 (76)
T ss_pred ChHHHHHHhCCCEEEEEECCCeEEEEEEEEeccceEEEEccEEEEEEcCCCceeeEcCeEEEeCCeEEEEECC
Confidence 3678899999999999999999999999999999999999999986 454567899999999999999974
No 11
>cd01732 LSm5 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.86 E-value=1e-21 Score=132.85 Aligned_cols=70 Identities=23% Similarity=0.385 Sum_probs=64.3
Q ss_pred CCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEE---eccceecceeEEEEecCCCCCCC
Q psy9934 7 CNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII---DGHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 7 ~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~---~~~~~~~lg~~~iRG~~i~~I~p 76 (158)
-.|+++|+++++++|+|++++|+++.|+|.|||+|||++|+||+|++ ++++.+.+|.++|||++|..+.|
T Consensus 2 ~~P~~~L~~~~~~~V~V~l~~gr~~~G~L~g~D~~mNlvL~da~E~~~~~~~~~~~~lg~v~iRG~nV~~i~p 74 (76)
T cd01732 2 LLPLELIDKCIGSRIWIVMKSDKEFVGTLLGFDDYVNMVLEDVTEYEITPEGRKITKLDQILLNGNNICMLVP 74 (76)
T ss_pred cChHHHHHHhCCCEEEEEECCCeEEEEEEEEeccceEEEEccEEEEEEcCCCceeeEcCeEEEeCCeEEEEEC
Confidence 36999999999999999999999999999999999999999999986 44446789999999999998876
No 12
>cd01719 Sm_G The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit G binds subunits E and F to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.86 E-value=7.1e-22 Score=132.38 Aligned_cols=71 Identities=25% Similarity=0.287 Sum_probs=65.8
Q ss_pred chHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCCCCC
Q psy9934 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPCNP 79 (158)
Q Consensus 9 p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p~dP 79 (158)
|-++|+++++|+|.|+|++|++|.|+|.|||+|||++|+||+|+..+...+.+|.++|||++|.++.+.+|
T Consensus 1 ~~~~L~~~i~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~E~~~~~~~~~lg~v~IRG~~I~~i~~~~~ 71 (72)
T cd01719 1 HPPELKKYMDKKLSLKLNGNRKVSGILRGFDPFMNLVLDDAVEVNSGGEKNNIGMVVIRGNSIVMLEALER 71 (72)
T ss_pred CchhhHHhCCCeEEEEECCCeEEEEEEEEEcccccEEeccEEEEccCCceeEeceEEECCCEEEEEEcccc
Confidence 56899999999999999999999999999999999999999999766567899999999999999887765
No 13
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Probab=99.85 E-value=1.2e-21 Score=129.90 Aligned_cols=68 Identities=79% Similarity=1.246 Sum_probs=63.2
Q ss_pred CCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEE
Q psy9934 78 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIR 145 (158)
Q Consensus 78 dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~ 145 (158)
.|.++|+++++++|.|+|++|++|+|+|.|||+|||++|+||+|+.++.....+|.++|||++|++|+
T Consensus 1 ~p~~~L~~~~g~~V~V~Lk~g~~~~G~L~~~D~~mNi~L~~~~e~~~~~~~~~lg~~~IRG~~I~~i~ 68 (68)
T cd01722 1 NPKPFLNDLTGKPVIVKLKWGMEYKGTLVSVDSYMNLQLANTEEYIDGKSTGNLGEVLIRCNNVLYIR 68 (68)
T ss_pred CHHHHHHHcCCCEEEEEECCCcEEEEEEEEECCCEEEEEeeEEEEeCCccccCcCcEEEECCEEEEEC
Confidence 47789999999999999999999999999999999999999999877766678999999999999984
No 14
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm7 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.84 E-value=4.8e-21 Score=131.08 Aligned_cols=68 Identities=28% Similarity=0.343 Sum_probs=61.3
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecC--------eeeeecCcEEEeeCcEEEEEeCCC
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG--------HCTGKLGEVLIRCNNILYIRGAEE 149 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~--------~~~~~~g~~~iRG~~I~~i~~~~~ 149 (158)
-|.++++++|.|+|++||+|.|+|.|||+||||+|++|+|+..+ ...+.+|.++|||+||++|++.++
T Consensus 6 ~L~~~i~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~~~~E~~~~~~~~~~~~~~~~~lG~v~iRG~nV~~i~~~~~ 81 (81)
T cd01729 6 DLSKYVDKKIRVKFQGGREVTGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDKTRQLGLVVCRGTSVVLISPVDG 81 (81)
T ss_pred hHHHhcCCeEEEEECCCcEEEEEEEEEcCcccEEecCEEEEEccCCcccccccceeEccEEEEcCCEEEEEecCCC
Confidence 47889999999999999999999999999999999999998653 245789999999999999998763
No 15
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm3 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.84 E-value=3.8e-21 Score=131.81 Aligned_cols=68 Identities=22% Similarity=0.347 Sum_probs=61.7
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecC-------------eeeeecCcEEEeeCcEEEEE
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG-------------HCTGKLGEVLIRCNNILYIR 145 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~-------------~~~~~~g~~~iRG~~I~~i~ 145 (158)
|.++|+...+++|.|++++||++.|+|.|||+||||+|+||+|++.+ ...+.+|.+||||++|++|+
T Consensus 2 pl~~l~~~~~k~V~V~l~~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lg~~~iRGd~Vv~i~ 81 (82)
T cd01730 2 PLDLIRLSLDERVYVKLRGDRELRGRLHAYDQHLNMILGDVEETITTVEIDEETYEEIVKTTKRNIPMLFVRGDSVILVS 81 (82)
T ss_pred chHHHHHhCCCEEEEEECCCCEEEEEEEEEccceEEeccceEEEeecccccccccccccceeEEEcCeEEEeCCEEEEEC
Confidence 67889999999999999999999999999999999999999998643 13578999999999999997
Q ss_pred e
Q psy9934 146 G 146 (158)
Q Consensus 146 ~ 146 (158)
+
T Consensus 82 ~ 82 (82)
T cd01730 82 P 82 (82)
T ss_pred C
Confidence 4
No 16
>cd01730 LSm3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm3 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.84 E-value=4.9e-21 Score=131.30 Aligned_cols=69 Identities=23% Similarity=0.299 Sum_probs=62.4
Q ss_pred CchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEecc-------------ceecceeEEEEecCCCCC
Q psy9934 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGH-------------CTGKLGEVLIRSLTMSTP 74 (158)
Q Consensus 8 ~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-------------~~~~lg~~~iRG~~i~~I 74 (158)
.|+++|+.+++++|.|+|+|||+|.|+|.|||.|||++|+||+|++.+. ..+.+|.++|||++|.++
T Consensus 1 ~pl~~l~~~~~k~V~V~l~~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lg~~~iRGd~Vv~i 80 (82)
T cd01730 1 EPLDLIRLSLDERVYVKLRGDRELRGRLHAYDQHLNMILGDVEETITTVEIDEETYEEIVKTTKRNIPMLFVRGDSVILV 80 (82)
T ss_pred CchHHHHHhCCCEEEEEECCCCEEEEEEEEEccceEEeccceEEEeecccccccccccccceeEEEcCeEEEeCCEEEEE
Confidence 4999999999999999999999999999999999999999999996431 256899999999999987
Q ss_pred CC
Q psy9934 75 LP 76 (158)
Q Consensus 75 ~p 76 (158)
.|
T Consensus 81 ~~ 82 (82)
T cd01730 81 SP 82 (82)
T ss_pred CC
Confidence 64
No 17
>KOG3482|consensus
Probab=99.84 E-value=2.7e-21 Score=127.12 Aligned_cols=75 Identities=61% Similarity=0.911 Sum_probs=72.0
Q ss_pred CCCCCCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCC
Q psy9934 1 MSTPLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 1 m~~~~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~ 75 (158)
||+..|.+|.+||+.+.||+|.|+||.|.+|.|+|++.|.|||+.|.+|+|+++|.....+|+++||+++|.++.
T Consensus 1 ~~a~~PvNPKpFL~~l~gk~V~vkLKwg~eYkG~LvsvD~YmNlqL~~~eE~idG~~~g~lGEilIRCNNvlyi~ 75 (79)
T KOG3482|consen 1 SSAKQPVNPKPFLNGLTGKPVLVKLKWGQEYKGTLVSVDNYMNLQLANAEEYIDGVSTGNLGEILIRCNNVLYIR 75 (79)
T ss_pred CCCcccCCchHHHhhccCCeEEEEEecCcEEEEEEEEecchhheehhhhhhhhcccccccceeEEEEeccEEEEe
Confidence 688899999999999999999999999999999999999999999999999999988889999999999999874
No 18
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.84 E-value=8.3e-21 Score=126.53 Aligned_cols=70 Identities=29% Similarity=0.441 Sum_probs=63.1
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCC
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAE 148 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~ 148 (158)
|.++|+++.+++|.|+||||.+|+|+|.++|+|||++|+||++...+.+..+++.+||||+||.+|..||
T Consensus 1 P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~~~~~~g~~~~~~~v~IRG~nI~~v~lPd 70 (70)
T cd01721 1 PIKLLHEAEGHIVTVELKTGEVYRGKLIEAEDNMNCQLKDVTVTARDGRVSQLEQVYIRGSKIRFFILPD 70 (70)
T ss_pred ChHHHhhCCCCEEEEEECCCcEEEEEEEEEcCCceeEEEEEEEECCCCcEeEcCcEEEeCCEEEEEEeCC
Confidence 6678999999999999999999999999999999999999987643333578899999999999999886
No 19
>cd01721 Sm_D3 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.84 E-value=5.7e-21 Score=127.30 Aligned_cols=67 Identities=31% Similarity=0.496 Sum_probs=61.5
Q ss_pred chHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEE-eccceecceeEEEEecCCCCCCC
Q psy9934 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII-DGHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 9 p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~-~~~~~~~lg~~~iRG~~i~~I~p 76 (158)
|+++|+++.|++|+|+||||.+|+|+|.++|.|||++|+||++.. +++ ..+++.+||||++|+++..
T Consensus 1 P~~~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~~~~~~g~-~~~~~~v~IRG~nI~~v~l 68 (70)
T cd01721 1 PIKLLHEAEGHIVTVELKTGEVYRGKLIEAEDNMNCQLKDVTVTARDGR-VSQLEQVYIRGSKIRFFIL 68 (70)
T ss_pred ChHHHhhCCCCEEEEEECCCcEEEEEEEEEcCCceeEEEEEEEECCCCc-EeEcCcEEEeCCEEEEEEe
Confidence 899999999999999999999999999999999999999999874 444 6788999999999999763
No 20
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.83 E-value=9.4e-21 Score=128.14 Aligned_cols=69 Identities=29% Similarity=0.348 Sum_probs=62.8
Q ss_pred CchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEE-EeccceecceeEEEEecCCCCCCC
Q psy9934 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEI-IDGHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 8 ~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~-~~~~~~~~lg~~~iRG~~i~~I~p 76 (158)
.|+++|+++.|++|.|+|+||++|+|+|.+||+|||++|+||+++ .+|+....++.+||||++|+++..
T Consensus 1 ~Pl~~L~~~~g~~V~VeLkng~~~~G~L~~~D~~mNi~L~~~~~~~~~g~~~~~~~~v~IRG~~I~~i~~ 70 (76)
T cd01723 1 LPLSLLKTAQNHPMLVELKNGETYNGHLVNCDNWMNIHLREVICTSKDGDKFWKMPECYIRGNTIKYLRV 70 (76)
T ss_pred CchHHHHhcCCCEEEEEECCCCEEEEEEEEEcCCCceEEEeEEEECCCCcEeeeCCcEEEeCCEEEEEEc
Confidence 499999999999999999999999999999999999999999998 455545678999999999999763
No 21
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm8 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.82 E-value=5e-20 Score=123.94 Aligned_cols=69 Identities=26% Similarity=0.194 Sum_probs=62.2
Q ss_pred CcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEec----CeeeeecCcEEEeeCcEEEEEeCCC
Q psy9934 81 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIID----GHCTGKLGEVLIRCNNILYIRGAEE 149 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~----~~~~~~~g~~~iRG~~I~~i~~~~~ 149 (158)
+.|+++++++|.|++++||.|.|+|.|||+|||++|++|+|+.. +...+.+|.+++||+||++|++.|+
T Consensus 2 ~~L~~~l~~~V~V~l~dgr~~~G~L~~~D~~~NlvL~~~~E~~~~~~~~~~~~~lG~~~iRG~~I~~i~~~d~ 74 (74)
T cd01727 2 STLEDYLNKTVSVITVDGRVIVGTLKGFDQATNLILDDSHERVYSSDEGVEQVVLGLYIIRGDNIAVVGEIDE 74 (74)
T ss_pred hhHHHhcCCEEEEEECCCcEEEEEEEEEccccCEEccceEEEEecCCCCceeeEeceEEECCCEEEEEEccCC
Confidence 46788999999999999999999999999999999999999853 3345789999999999999999875
No 22
>cd01720 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D2 heterodimerizes with subunit D1 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing D2, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.81 E-value=3.3e-20 Score=128.39 Aligned_cols=69 Identities=14% Similarity=0.162 Sum_probs=61.6
Q ss_pred CchHHHhhcC--CCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEecc-------------ceecceeEEEEecCCC
Q psy9934 8 NPKPFLNLLT--GKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGH-------------CTGKLGEVLIRSLTMS 72 (158)
Q Consensus 8 ~p~~~L~~~~--~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-------------~~~~lg~~~iRG~~i~ 72 (158)
-|+++|++++ +++|.|+|++|+++.|+|.|||.|||++|+||+|.+.+. ..+.+|.+||||++|.
T Consensus 2 gPl~~L~~~~~~~~~V~V~lr~~r~~~G~L~~fD~hmNlvL~d~~E~~~~~~k~~~~~~~~~~~~~r~lg~v~iRGd~Vv 81 (87)
T cd01720 2 GPLSLLTQAVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKTGKGKKAKPVNKDRFISKMFLRGDSVI 81 (87)
T ss_pred ChHHHHHHHHcCCCEEEEEEcCCCEEEEEEEEecCccEEEEcceEEEeeccccccccccccceeeeeEcccEEEeCCEEE
Confidence 5999999996 899999999999999999999999999999999986442 1457899999999999
Q ss_pred CCCC
Q psy9934 73 TPLP 76 (158)
Q Consensus 73 ~I~p 76 (158)
++.+
T Consensus 82 ~Is~ 85 (87)
T cd01720 82 LVLR 85 (87)
T ss_pred EEec
Confidence 8764
No 23
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription]
Probab=99.81 E-value=7.1e-20 Score=124.57 Aligned_cols=71 Identities=48% Similarity=0.626 Sum_probs=62.9
Q ss_pred CCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEE--eccc-eecce-eEEEEecCCCCCC
Q psy9934 5 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII--DGHC-TGKLG-EVLIRSLTMSTPL 75 (158)
Q Consensus 5 ~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~--~~~~-~~~lg-~~~iRG~~i~~I~ 75 (158)
....|+++|+++++++|.|+|+||++|.|+|.|||+|||++|+||+|.. ++.. ....+ .++|||++|.++.
T Consensus 4 ~~~~~~~~l~~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~IRG~~I~~I~ 78 (79)
T COG1958 4 LGPLPLSFLKKLLNKRVLVKLKNGREYRGTLVGFDQYMNLVLDDVEEIISHDGEKNVRRLGGEVLIRGDNIVLIS 78 (79)
T ss_pred ccCCcHHHHHHhhCCEEEEEECCCCEEEEEEEEEccceeEEEeceEEEeccCCccccceeccEEEEECCcEEEEe
Confidence 4567999999999999999999999999999999999999999999996 5543 24455 9999999998864
No 24
>cd01723 LSm4 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm4 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.81 E-value=4.9e-20 Score=124.62 Aligned_cols=71 Identities=34% Similarity=0.486 Sum_probs=64.7
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEE-ecCeeeeecCcEEEeeCcEEEEEeCCC
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEI-IDGHCTGKLGEVLIRCNNILYIRGAEE 149 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~-~~~~~~~~~g~~~iRG~~I~~i~~~~~ 149 (158)
|..+|+++.+++|.|+|+||++|+|+|.+||+|||++|+||++. .+|+....++.+||||++|.+|+.+++
T Consensus 2 Pl~~L~~~~g~~V~VeLkng~~~~G~L~~~D~~mNi~L~~~~~~~~~g~~~~~~~~v~IRG~~I~~i~~p~~ 73 (76)
T cd01723 2 PLSLLKTAQNHPMLVELKNGETYNGHLVNCDNWMNIHLREVICTSKDGDKFWKMPECYIRGNTIKYLRVPDE 73 (76)
T ss_pred chHHHHhcCCCEEEEEECCCCEEEEEEEEEcCCCceEEEeEEEECCCCcEeeeCCcEEEeCCEEEEEEcCHH
Confidence 77899999999999999999999999999999999999999987 456555678999999999999998764
No 25
>cd01720 Sm_D2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D2 heterodimerizes with subunit D1 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing D2, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.81 E-value=5.3e-20 Score=127.39 Aligned_cols=69 Identities=13% Similarity=0.203 Sum_probs=60.6
Q ss_pred CCCcccccc--cceeeEeeccccEEEEEEEEeccccceeecceEEEecCe-------------eeeecCcEEEeeCcEEE
Q psy9934 79 PKPFLNLLT--GKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGH-------------CTGKLGEVLIRCNNILY 143 (158)
Q Consensus 79 P~~~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-------------~~~~~g~~~iRG~~I~~ 143 (158)
|.++|+..+ +++|.|+|++|+++.|+|.|||+||||+|+||+|.+.+. ..+.+|.+||||++|++
T Consensus 3 Pl~~L~~~~~~~~~V~V~lr~~r~~~G~L~~fD~hmNlvL~d~~E~~~~~~k~~~~~~~~~~~~~r~lg~v~iRGd~Vv~ 82 (87)
T cd01720 3 PLSLLTQAVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTEVPKTGKGKKAKPVNKDRFISKMFLRGDSVIL 82 (87)
T ss_pred hHHHHHHHHcCCCEEEEEEcCCCEEEEEEEEecCccEEEEcceEEEeeccccccccccccceeeeeEcccEEEeCCEEEE
Confidence 677888886 899999999999999999999999999999999976432 24578999999999999
Q ss_pred EEeC
Q psy9934 144 IRGA 147 (158)
Q Consensus 144 i~~~ 147 (158)
|++-
T Consensus 83 Is~~ 86 (87)
T cd01720 83 VLRN 86 (87)
T ss_pred EecC
Confidence 9864
No 26
>cd01718 Sm_E The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit E binds subunits F and G to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.81 E-value=6.2e-20 Score=124.81 Aligned_cols=69 Identities=25% Similarity=0.347 Sum_probs=60.5
Q ss_pred CCCCcccccccc--eeeEeec--cccEEEEEEEEeccccceeecceEEEec-CeeeeecCcEEEeeCcEEEEEe
Q psy9934 78 NPKPFLNLLTGK--SVICKLK--WGHEYKGILVSTDGYMNCQLASTEEIID-GHCTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 78 dP~~~L~~~~~k--~V~V~L~--~g~~~~G~L~~~D~~mNlvL~~~~e~~~-~~~~~~~g~~~iRG~~I~~i~~ 146 (158)
.|...+.+++++ +|.|+++ +|+++.|+|.|||+|||++|+||+|+.. +...+.+|.++|||+||++|+|
T Consensus 6 ~P~~~l~~~l~~~~~V~V~l~~~~g~~~~G~L~gfD~~mNlvL~d~~E~~~~~~~~~~lG~iliRGnnV~~I~p 79 (79)
T cd01718 6 QPINLIFRFLQSKQRVQIWLYEQTDLRIEGVIIGFDEYMNLVLDDAEEVHLKTKTRKPLGRILLKGDNITLIQN 79 (79)
T ss_pred CCHHHHHHHHccCcEEEEEEEeCCCcEEEEEEEEEccceeEEEcCEEEEecCCceEeEcCcEEEeCCEEEEEcC
Confidence 466677777777 8888887 8999999999999999999999999975 5566789999999999999985
No 27
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.80 E-value=1.1e-19 Score=126.59 Aligned_cols=69 Identities=25% Similarity=0.251 Sum_probs=64.0
Q ss_pred chHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCCC
Q psy9934 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPC 77 (158)
Q Consensus 9 p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p~ 77 (158)
|+.||+++.|++|+|+|+||.+|+|+|.++|+|||++|+||+++.+++....++.++|||++|+++..+
T Consensus 2 ~~~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~a~~~~~~~~~~~~~~v~IRG~nI~yi~lP 70 (90)
T cd01724 2 LVRFLMKLTNETVTIELKNGTIVHGTITGVDPSMNTHLKNVKLTLKGRNPVPLDTLSIRGNNIRYFILP 70 (90)
T ss_pred HhHHHHhCCCCEEEEEECCCCEEEEEEEEEcCceeEEEEEEEEEcCCCceeEcceEEEeCCEEEEEEcC
Confidence 678999999999999999999999999999999999999999986665678899999999999998743
No 28
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm7 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.80 E-value=1e-19 Score=124.55 Aligned_cols=69 Identities=28% Similarity=0.291 Sum_probs=60.6
Q ss_pred chHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEec--------cceecceeEEEEecCCCCCCCC
Q psy9934 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG--------HCTGKLGEVLIRSLTMSTPLPC 77 (158)
Q Consensus 9 p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~--------~~~~~lg~~~iRG~~i~~I~p~ 77 (158)
+..-|.++++++|.|.|+|||+|.|+|.+||+||||+|+||+|+..+ +..+.+|.++|||++|.++.|.
T Consensus 3 ~~~~L~~~i~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~~~~E~~~~~~~~~~~~~~~~~lG~v~iRG~nV~~i~~~ 79 (81)
T cd01729 3 SILDLSKYVDKKIRVKFQGGREVTGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDKTRQLGLVVCRGTSVVLISPV 79 (81)
T ss_pred chhhHHHhcCCeEEEEECCCcEEEEEEEEEcCcccEEecCEEEEEccCCcccccccceeEccEEEEcCCEEEEEecC
Confidence 34459999999999999999999999999999999999999998543 2357899999999999987654
No 29
>cd01724 Sm_D1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit D1 heterodimerizes with subunit D2 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing DB, D3, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.80 E-value=1.5e-19 Score=125.94 Aligned_cols=72 Identities=29% Similarity=0.337 Sum_probs=66.3
Q ss_pred CCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCCCCC
Q psy9934 80 KPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAEEGD 151 (158)
Q Consensus 80 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~~~~ 151 (158)
..||+++.+++|.|+|+||.+|+|+|.++|+|||++|+||++...+.....++.++|||+||.||..|+.-.
T Consensus 3 ~~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~a~~~~~~~~~~~~~~v~IRG~nI~yi~lPd~l~ 74 (90)
T cd01724 3 VRFLMKLTNETVTIELKNGTIVHGTITGVDPSMNTHLKNVKLTLKGRNPVPLDTLSIRGNNIRYFILPDSLN 74 (90)
T ss_pred hHHHHhCCCCEEEEEECCCCEEEEEEEEEcCceeEEEEEEEEEcCCCceeEcceEEEeCCEEEEEEcCCcCC
Confidence 458899999999999999999999999999999999999999877666778999999999999999998753
No 30
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription]
Probab=99.80 E-value=1.8e-19 Score=122.59 Aligned_cols=71 Identities=51% Similarity=0.699 Sum_probs=62.7
Q ss_pred CCCCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEe--cCee-eeecC-cEEEeeCcEEEEEe
Q psy9934 76 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII--DGHC-TGKLG-EVLIRCNNILYIRG 146 (158)
Q Consensus 76 p~dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~--~~~~-~~~~g-~~~iRG~~I~~i~~ 146 (158)
...|.++|+++++++|.|+|++|++|.|+|.|||+|||++|+||+|+. ++.. .+.++ .++|||++|++|.+
T Consensus 5 ~~~~~~~l~~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~IRG~~I~~I~~ 79 (79)
T COG1958 5 GPLPLSFLKKLLNKRVLVKLKNGREYRGTLVGFDQYMNLVLDDVEEIISHDGEKNVRRLGGEVLIRGDNIVLISP 79 (79)
T ss_pred cCCcHHHHHHhhCCEEEEEECCCCEEEEEEEEEccceeEEEeceEEEeccCCccccceeccEEEEECCcEEEEeC
Confidence 346788999999999999999999999999999999999999999987 5554 34555 99999999999974
No 31
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=99.79 E-value=4.3e-19 Score=116.51 Aligned_cols=66 Identities=45% Similarity=0.646 Sum_probs=60.7
Q ss_pred CcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecC-eeeeecCcEEEeeCcEEEEEe
Q psy9934 81 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG-HCTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~-~~~~~~g~~~iRG~~I~~i~~ 146 (158)
++|+++.+++|.|+|+||+++.|+|.+||+|||++|+||+|+..+ ...+++|.++|||++|++|++
T Consensus 1 ~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~~NlvL~~~~e~~~~~~~~~~~~~~~IrG~~I~~i~~ 67 (67)
T smart00651 1 KFLKKLIGKRVLVELKNGREYRGTLKGFDQFMNLVLEDVEETVKDGEKKRKLGLVFIRGNNIVYIIL 67 (67)
T ss_pred ChhHHhCCcEEEEEECCCcEEEEEEEEECccccEEEccEEEEecCCcEEeEeCCEEEcCCEEEEEeC
Confidence 368889999999999999999999999999999999999998765 567899999999999999974
No 32
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=99.79 E-value=2.4e-19 Score=117.75 Aligned_cols=65 Identities=38% Similarity=0.560 Sum_probs=59.9
Q ss_pred HHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEec-cceecceeEEEEecCCCCCC
Q psy9934 11 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG-HCTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 11 ~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~-~~~~~lg~~~iRG~~i~~I~ 75 (158)
.+|++++|++|+|+|+||+++.|+|.+||+|||++|+||+|+..+ ...+.++.++|||++|.++.
T Consensus 1 ~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~~NlvL~~~~e~~~~~~~~~~~~~~~IrG~~I~~i~ 66 (67)
T smart00651 1 KFLKKLIGKRVLVELKNGREYRGTLKGFDQFMNLVLEDVEETVKDGEKKRKLGLVFIRGNNIVYII 66 (67)
T ss_pred ChhHHhCCcEEEEEECCCcEEEEEEEEECccccEEEccEEEEecCCcEEeEeCCEEEcCCEEEEEe
Confidence 378999999999999999999999999999999999999999654 45789999999999999865
No 33
>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm10 is an SmD1-like protein which is thought to bind U7 snRNA along with LSm11 and five other Sm subunits to form a 7-member ring structure. LSm10 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=99.78 E-value=3.4e-19 Score=121.08 Aligned_cols=71 Identities=23% Similarity=0.237 Sum_probs=64.3
Q ss_pred CCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCC
Q psy9934 5 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 5 ~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~ 75 (158)
+.-++..||+++.|++|.|+||||.+|+|+|.++|.|||++|+||++...+....+++.++|||++|++++
T Consensus 6 ~~~tl~~~L~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~~~~~~~~~~~~~~~~v~IRG~nI~yI~ 76 (78)
T cd01733 6 LENTLIILLQGLQGKVVTVELRNETTVTGRIASVDAFMNIRLAKVTIIDRNGKQVQVEEIMVTGRNIRYVH 76 (78)
T ss_pred hhchHHHHHHHCCCCEEEEEECCCCEEEEEEEEEcCCceeEEEEEEEEcCCCceeECCcEEEECCEEEEEE
Confidence 45678899999999999999999999999999999999999999998865544568999999999999875
No 34
>cd01718 Sm_E The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit E binds subunits F and G to form a trimer which then assembles onto snRNA along with the D1/D2 and D3/B heterodimers forming a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.78 E-value=4.3e-19 Score=120.68 Aligned_cols=72 Identities=19% Similarity=0.247 Sum_probs=63.9
Q ss_pred CCCCchHHHhhcCCC--EEEEEEe--CCcEEEEEEeEecCcceeEEceeeEEEe-ccceecceeEEEEecCCCCCCC
Q psy9934 5 LPCNPKPFLNLLTGK--SVICKLK--WGHEYKGILVSTDGYMNCQLASTEEIID-GHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 5 ~~~~p~~~L~~~~~k--~V~V~l~--~g~~~~G~L~~~D~~mNlvL~~~~e~~~-~~~~~~lg~~~iRG~~i~~I~p 76 (158)
+-..|+..+.+++++ +|.|+++ +|+.+.|+|.|||+|||++|+||+|+.. ++....+|.++|||++|.++.|
T Consensus 3 ~~~~P~~~l~~~l~~~~~V~V~l~~~~g~~~~G~L~gfD~~mNlvL~d~~E~~~~~~~~~~lG~iliRGnnV~~I~p 79 (79)
T cd01718 3 VMVQPINLIFRFLQSKQRVQIWLYEQTDLRIEGVIIGFDEYMNLVLDDAEEVHLKTKTRKPLGRILLKGDNITLIQN 79 (79)
T ss_pred cccCCHHHHHHHHccCcEEEEEEEeCCCcEEEEEEEEEccceeEEEcCEEEEecCCceEeEcCcEEEeCCEEEEEcC
Confidence 446899999999999 7888887 9999999999999999999999999964 4556789999999999998764
No 35
>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm1 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.78 E-value=4.5e-19 Score=119.36 Aligned_cols=68 Identities=29% Similarity=0.274 Sum_probs=59.8
Q ss_pred CCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEec-Ce--eeeecCcEEEeeCcEEEEEeC
Q psy9934 80 KPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIID-GH--CTGKLGEVLIRCNNILYIRGA 147 (158)
Q Consensus 80 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~-~~--~~~~~g~~~iRG~~I~~i~~~ 147 (158)
...|.++++++|.|++++||+|.|+|.|||+|||++|+||+|+.. +. ..+.+|.++|||+||++|++.
T Consensus 4 ~~~L~~~l~k~v~V~l~~gr~~~G~L~~fD~~~NlvL~d~~E~~~~~~~~~~~~lG~~viRG~~V~~ig~~ 74 (74)
T cd01728 4 TASLVDDLDKKVVVLLRDGRKLIGILRSFDQFANLVLQDTVERIYVGDKYGDIPRGIFIIRGENVVLLGEI 74 (74)
T ss_pred hHHHHHhcCCEEEEEEcCCeEEEEEEEEECCcccEEecceEEEEecCCccceeEeeEEEEECCEEEEEEcC
Confidence 456888999999999999999999999999999999999999742 21 357899999999999999863
No 36
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins. In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....
Probab=99.78 E-value=7.3e-19 Score=115.50 Aligned_cols=65 Identities=45% Similarity=0.591 Sum_probs=61.0
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCe-eeeecCcEEEeeCcEEEEEe
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGH-CTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-~~~~~g~~~iRG~~I~~i~~ 146 (158)
+|+++++++|.|.|++|++|+|+|.+||+|||++|+||.+...+. ..+.+|.+||||++|.+|++
T Consensus 2 ~L~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Nl~L~~~~~~~~~~~~~~~~~~~~irG~~I~~I~~ 67 (67)
T PF01423_consen 2 FLQKLIGKRVRVELKNGRTYRGTLVSFDQFMNLVLSDVTETIKNGPEKRSLGLVFIRGSNIRYISL 67 (67)
T ss_dssp HHHHTTTSEEEEEETTSEEEEEEEEEEETTEEEEEEEEEEEETTESEEEEEEEEEEEGGGEEEEEE
T ss_pred hhHHhCCcEEEEEEeCCEEEEEEEEEeechheEEeeeEEEEECCCCcEeECcEEEEECCEEEEEEC
Confidence 578899999999999999999999999999999999999997765 77899999999999999985
No 37
>PF01423 LSM: LSM domain ; InterPro: IPR001163 This family is found in Lsm (like-Sm) proteins and in bacterial Lsm-related Hfq proteins. In each case, the domain adopts a core structure consisting of an open beta-barrel with an SH3-like topology. Lsm (like-Sm) proteins have diverse functions, and are thought to be important modulators of RNA biogenesis and function [, ]. The Sm proteins form part of specific small nuclear ribonucleoproteins (snRNPs) that are involved in the processing of pre-mRNAs to mature mRNAs, and are a major component of the eukaryotic spliceosome. Most snRNPs consist of seven Sm proteins (B/B', D1, D2, D3, E, F and G) arranged in a ring on a uridine-rich sequence (Sm site), plus a small nuclear RNA (snRNA) (either U1, U2, U5 or U4/6) []. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker []. In other snRNPs, certain Sm proteins are replaced with different Lsm proteins, such as with U7 snRNPs, in which the D1 and D2 Sm proteins are replaced with U7-specific Lsm10 and Lsm11 proteins, where Lsm11 plays a role in histone U7-specific RNA processing []. Lsm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Lsm proteins. The pleiotropic translational regulator Hfq (host factor Q) is a bacterial Lsm-like protein, which modulates the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences in RNA []. Hfq forms an Lsm-like fold, however, unlike the heptameric Sm proteins, Hfq forms a homo-hexameric ring.; PDB: 1D3B_K 2Y9D_D 2Y9A_D 2Y9C_R 3VRI_C 2Y9B_K 3QUI_D 3M4G_H 3INZ_E 1U1S_C ....
Probab=99.78 E-value=3.9e-19 Score=116.79 Aligned_cols=64 Identities=39% Similarity=0.511 Sum_probs=59.7
Q ss_pred HHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEecc-ceecceeEEEEecCCCCCC
Q psy9934 12 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGH-CTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 12 ~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-~~~~lg~~~iRG~~i~~I~ 75 (158)
+|++++|++|+|+|+||++|.|+|.+||+|||++|+||+++.... ..+.+|.++|||++|.++.
T Consensus 2 ~L~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Nl~L~~~~~~~~~~~~~~~~~~~~irG~~I~~I~ 66 (67)
T PF01423_consen 2 FLQKLIGKRVRVELKNGRTYRGTLVSFDQFMNLVLSDVTETIKNGPEKRSLGLVFIRGSNIRYIS 66 (67)
T ss_dssp HHHHTTTSEEEEEETTSEEEEEEEEEEETTEEEEEEEEEEEETTESEEEEEEEEEEEGGGEEEEE
T ss_pred hhHHhCCcEEEEEEeCCEEEEEEEEEeechheEEeeeEEEEECCCCcEeECcEEEEECCEEEEEE
Confidence 799999999999999999999999999999999999999997654 6789999999999999865
No 38
>cd01733 LSm10 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm10 is an SmD1-like protein which is thought to bind U7 snRNA along with LSm11 and five other Sm subunits to form a 7-member ring structure. LSm10 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=99.77 E-value=1e-18 Score=118.71 Aligned_cols=69 Identities=26% Similarity=0.309 Sum_probs=62.6
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeC
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGA 147 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~ 147 (158)
+..||+.+.+++|.|+||||.+|+|+|.++|+|||++|+||++...+....++|.++|||++|.+|..|
T Consensus 10 l~~~L~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~~~~~~~~~~~~~~~~v~IRG~nI~yI~lP 78 (78)
T cd01733 10 LIILLQGLQGKVVTVELRNETTVTGRIASVDAFMNIRLAKVTIIDRNGKQVQVEEIMVTGRNIRYVHIP 78 (78)
T ss_pred HHHHHHHCCCCEEEEEECCCCEEEEEEEEEcCCceeEEEEEEEEcCCCceeECCcEEEECCEEEEEEcC
Confidence 446889999999999999999999999999999999999999876555556899999999999999875
No 39
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit B heterodimerizes with subunit D3 and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.77 E-value=1e-18 Score=118.97 Aligned_cols=65 Identities=26% Similarity=0.286 Sum_probs=58.0
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecC----------eeeeecCcEEEeeCcEEEEEe
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG----------HCTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~----------~~~~~~g~~~iRG~~I~~i~~ 146 (158)
-|..+++++|.|+|++||++.|+|.|||+||||+|+||+|+... .+.+.+|.++|||++|++|+.
T Consensus 4 ~l~~~l~~~V~V~l~dgR~~~G~L~~~D~~~NlVL~~~~E~~~~~~~~~~~~~~~~~r~lG~v~iRG~~Vv~i~v 78 (79)
T cd01717 4 KMLQLINYRLRVTLQDGRQFVGQFLAFDKHMNLVLSDCEEFRKVKKKKSKNSEREEKRTLGLVLLRGENIVSMTV 78 (79)
T ss_pred hhHHHcCCEEEEEECCCcEEEEEEEEEcCccCEEcCCEEEEEeccccccccccCcceeEeeeEEEcCCEEEEEEE
Confidence 46778999999999999999999999999999999999997532 245789999999999999974
No 40
>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm2 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.76 E-value=1.4e-18 Score=118.83 Aligned_cols=69 Identities=23% Similarity=0.222 Sum_probs=60.5
Q ss_pred CchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEecc--ceecceeEEEEecCCCCCCC
Q psy9934 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGH--CTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 8 ~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~--~~~~lg~~~iRG~~i~~I~p 76 (158)
.|+.||+++.|++|+|+||||.+|+|+|.++|+|||++|+||+++.... ....+++++|||++|+++..
T Consensus 1 l~~~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNi~L~n~~~~~~~~~~~~~~~~~v~IRG~~I~~I~l 71 (81)
T cd01725 1 LFFSFFKTLVGKEVTVELKNDLSIRGTLHSVDQYLNIKLTNISVTDPEKYPHMLSVKNCFIRGSVVRYVQL 71 (81)
T ss_pred ChhHHHHhCCCCEEEEEECCCcEEEEEEEEECCCcccEEEEEEEEcCCCcccccccCeEEEECCEEEEEEe
Confidence 3789999999999999999999999999999999999999998874221 23567899999999999863
No 41
>KOG1780|consensus
Probab=99.75 E-value=6.6e-19 Score=116.33 Aligned_cols=74 Identities=28% Similarity=0.326 Sum_probs=64.6
Q ss_pred CCCCCCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCCCC
Q psy9934 1 MSTPLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPCN 78 (158)
Q Consensus 1 m~~~~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p~d 78 (158)
||+ ...| .|++|++|++.++|.+||++.|.|+|||+|||+||++|+|.........+|.++|||++|..+.+.+
T Consensus 1 Msk--sg~P--eLkkymdKki~lklnG~r~v~GiLrGyD~FmNiVlde~vE~~~~~~~~~ig~~vIrgnsiv~~eaL~ 74 (77)
T KOG1780|consen 1 MSK--SGHP--ELKKYMDKKIVLKLNGGRKVTGILRGYDPFMNIVLDETVEPNGDGDKNNIGMVVIRGNSIVMVEALE 74 (77)
T ss_pred CCc--ccCc--hHHHhhhheEEEEeCCCcEEEEEEeccchHHhhhhhhceeecCcCCcceeeeEEEeccEEEEEeecc
Confidence 664 3346 8999999999999999999999999999999999999999854445778999999999999876544
No 42
>cd01717 Sm_B The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit B heterodimerizes with subunit D3 and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits. Sm-like proteins exist in archaea as well as prokaryotes which form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.75 E-value=2e-18 Score=117.45 Aligned_cols=65 Identities=23% Similarity=0.246 Sum_probs=57.6
Q ss_pred HHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEec----------cceecceeEEEEecCCCCCC
Q psy9934 11 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG----------HCTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 11 ~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~----------~~~~~lg~~~iRG~~i~~I~ 75 (158)
+-|.+++|++|.|.|+|||.+.|+|.|||+|||++|+||+|++.. .+.+.+|.++|||++|.++.
T Consensus 3 ~~l~~~l~~~V~V~l~dgR~~~G~L~~~D~~~NlVL~~~~E~~~~~~~~~~~~~~~~~r~lG~v~iRG~~Vv~i~ 77 (79)
T cd01717 3 SKMLQLINYRLRVTLQDGRQFVGQFLAFDKHMNLVLSDCEEFRKVKKKKSKNSEREEKRTLGLVLLRGENIVSMT 77 (79)
T ss_pred chhHHHcCCEEEEEECCCcEEEEEEEEEcCccCEEcCCEEEEEeccccccccccCcceeEeeeEEEcCCEEEEEE
Confidence 458899999999999999999999999999999999999998532 23578999999999998753
No 43
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.74 E-value=3.6e-18 Score=110.65 Aligned_cols=62 Identities=40% Similarity=0.464 Sum_probs=57.4
Q ss_pred HhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCC
Q psy9934 13 LNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTP 74 (158)
Q Consensus 13 L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I 74 (158)
|++++|++|+|+|+||+.|.|+|.+||+|||++|+||+++..+...+.++.++|||++|.++
T Consensus 1 l~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Ni~L~~~~~~~~~~~~~~~~~~~irG~~I~~I 62 (63)
T cd00600 1 LKDLVGKTVRVELKDGRVLEGVLVAFDKYMNLVLDDVEETIKEGKKRVLGLVLIRGDNVRLV 62 (63)
T ss_pred ChHHCCCEEEEEECCCcEEEEEEEEECCCCCEEECCEEEEecCCcEEECCeEEEECCEEEEE
Confidence 57889999999999999999999999999999999999997655678999999999999875
No 44
>cd01727 LSm8 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm8 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.74 E-value=3.1e-18 Score=115.22 Aligned_cols=68 Identities=22% Similarity=0.111 Sum_probs=60.6
Q ss_pred HHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEe----ccceecceeEEEEecCCCCCCCCC
Q psy9934 11 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIID----GHCTGKLGEVLIRSLTMSTPLPCN 78 (158)
Q Consensus 11 ~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~----~~~~~~lg~~~iRG~~i~~I~p~d 78 (158)
+.|.++++++|.|.+++||.|.|+|.+||+|||++|++|.|... +.....+|.++|||++|.++.|.+
T Consensus 2 ~~L~~~l~~~V~V~l~dgr~~~G~L~~~D~~~NlvL~~~~E~~~~~~~~~~~~~lG~~~iRG~~I~~i~~~d 73 (74)
T cd01727 2 STLEDYLNKTVSVITVDGRVIVGTLKGFDQATNLILDDSHERVYSSDEGVEQVVLGLYIIRGDNIAVVGEID 73 (74)
T ss_pred hhHHHhcCCEEEEEECCCcEEEEEEEEEccccCEEccceEEEEecCCCCceeeEeceEEECCCEEEEEEccC
Confidence 46899999999999999999999999999999999999999842 224568999999999999988765
No 45
>cd01728 LSm1 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm1 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.74 E-value=5.9e-18 Score=113.90 Aligned_cols=68 Identities=28% Similarity=0.177 Sum_probs=59.5
Q ss_pred CchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEE-ecc--ceecceeEEEEecCCCCCC
Q psy9934 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII-DGH--CTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 8 ~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~-~~~--~~~~lg~~~iRG~~i~~I~ 75 (158)
.++..|.++++++|.|.++|||+|.|+|.|||+|||++|+||.|.. .++ ..+.+|.++|||++|.++.
T Consensus 2 ~~~~~L~~~l~k~v~V~l~~gr~~~G~L~~fD~~~NlvL~d~~E~~~~~~~~~~~~lG~~viRG~~V~~ig 72 (74)
T cd01728 2 PGTASLVDDLDKKVVVLLRDGRKLIGILRSFDQFANLVLQDTVERIYVGDKYGDIPRGIFIIRGENVVLLG 72 (74)
T ss_pred CchHHHHHhcCCEEEEEEcCCeEEEEEEEEECCcccEEecceEEEEecCCccceeEeeEEEEECCEEEEEE
Confidence 3577899999999999999999999999999999999999999984 221 2568999999999998754
No 46
>cd01725 LSm2 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm2 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.74 E-value=4.5e-18 Score=116.38 Aligned_cols=74 Identities=23% Similarity=0.290 Sum_probs=64.1
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCe--eeeecCcEEEeeCcEEEEEeCCCCCc
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGH--CTGKLGEVLIRCNNILYIRGAEEGDE 152 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~--~~~~~g~~~iRG~~I~~i~~~~~~~~ 152 (158)
|..||+++.+++|.|+||+|.+|+|+|.++|+|||++|+||++...+. ....++.++|||++|.+|..|+...+
T Consensus 2 ~~~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNi~L~n~~~~~~~~~~~~~~~~~v~IRG~~I~~I~lp~~~i~ 77 (81)
T cd01725 2 FFSFFKTLVGKEVTVELKNDLSIRGTLHSVDQYLNIKLTNISVTDPEKYPHMLSVKNCFIRGSVVRYVQLPADEVD 77 (81)
T ss_pred hhHHHHhCCCCEEEEEECCCcEEEEEEEEECCCcccEEEEEEEEcCCCcccccccCeEEEECCEEEEEEeChhHcC
Confidence 346889999999999999999999999999999999999998764322 23457899999999999999987765
No 47
>cd00600 Sm_like The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.73 E-value=1.4e-17 Score=107.91 Aligned_cols=63 Identities=41% Similarity=0.523 Sum_probs=57.8
Q ss_pred ccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEE
Q psy9934 83 LNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIR 145 (158)
Q Consensus 83 L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~ 145 (158)
|+++++++|.|+|++|+.|.|+|.+||+|||++|++|.++..+...++++.++|||++|.+|.
T Consensus 1 l~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Ni~L~~~~~~~~~~~~~~~~~~~irG~~I~~I~ 63 (63)
T cd00600 1 LKDLVGKTVRVELKDGRVLEGVLVAFDKYMNLVLDDVEETIKEGKKRVLGLVLIRGDNVRLVT 63 (63)
T ss_pred ChHHCCCEEEEEECCCcEEEEEEEEECCCCCEEECCEEEEecCCcEEECCeEEEECCEEEEEC
Confidence 467889999999999999999999999999999999999876556789999999999999984
No 48
>PTZ00138 small nuclear ribonucleoprotein; Provisional
Probab=99.73 E-value=1e-17 Score=116.28 Aligned_cols=70 Identities=26% Similarity=0.312 Sum_probs=57.5
Q ss_pred CCCCccccccc--ceeeEeecc--ccEEEEEEEEeccccceeecceEEEec-CeeeeecCcEEEeeCcEEEEEeC
Q psy9934 78 NPKPFLNLLTG--KSVICKLKW--GHEYKGILVSTDGYMNCQLASTEEIID-GHCTGKLGEVLIRCNNILYIRGA 147 (158)
Q Consensus 78 dP~~~L~~~~~--k~V~V~L~~--g~~~~G~L~~~D~~mNlvL~~~~e~~~-~~~~~~~g~~~iRG~~I~~i~~~ 147 (158)
.|...+..+.. .+|.|++.+ ++++.|+|.|||+|||++|+||+|+.. +...+.+|.++||||||++|++.
T Consensus 14 ~P~~~~~~~~~~~~~V~i~l~~~~~r~~~G~L~gfD~~mNlVL~d~~E~~~~~~~~~~lG~ilIRGnnV~~I~~~ 88 (89)
T PTZ00138 14 QPINQIFRFFTEKTRVQIWLYDHPNLRIEGKILGFDEYMNMVLDDAEEVYTKKNTRKDLGRILLKGDNITLIMAA 88 (89)
T ss_pred CCHHHHHHHhcCCcEEEEEEEeCCCcEEEEEEEEEcccceEEEccEEEEecCCceeeEcCeEEEcCCEEEEEEcC
Confidence 45555555543 388888877 489999999999999999999999865 34567899999999999999875
No 49
>KOG1783|consensus
Probab=99.72 E-value=4e-19 Score=116.97 Aligned_cols=72 Identities=44% Similarity=0.784 Sum_probs=68.3
Q ss_pred CCCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCC
Q psy9934 77 CNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAE 148 (158)
Q Consensus 77 ~dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~ 148 (158)
..|.+||++.++++|.|+|.+|-.|+|+|.++|.|||+.|+.|+|+.+|+.++++|..||||+||.+|+...
T Consensus 5 ~~~~~fl~~iiGr~V~VKl~sgvdyrG~l~~lDgymNiaLe~tee~~ngql~n~ygdaFirGnnVlyIs~~~ 76 (77)
T KOG1783|consen 5 SMPGEFLKAIIGRTVVVKLNSGVDYRGTLVCLDGYMNIALESTEEYVNGQLKNKYGDAFIRGNNVLYISTQK 76 (77)
T ss_pred cCcHHHHHHHhCCeEEEEecCCccccceehhhhhHHHHHHHHHHHHhcCcccccccceeeccccEEEEEecc
Confidence 357789999999999999999999999999999999999999999999999999999999999999999754
No 50
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm9 proteins have a single Sm-like domain structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.71 E-value=3.5e-17 Score=110.43 Aligned_cols=66 Identities=26% Similarity=0.278 Sum_probs=59.4
Q ss_pred CcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecC------eeeeecCcEEEeeCcEEEEEe
Q psy9934 81 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG------HCTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~------~~~~~~g~~~iRG~~I~~i~~ 146 (158)
+.|++++++++.|+|+|||.|.|+|.+||++||++|++|.|+..+ ...+.+|.++|||++|+.|+.
T Consensus 3 ~~L~~~l~~~v~V~l~dgR~~~G~l~~~D~~~NivL~~~~E~~~~~~~~~~~~~r~lGlv~IrG~~Iv~i~v 74 (75)
T cd06168 3 QKLRSLLGRTMRIHMTDGRTLVGVFLCTDRDCNIILGSAQEYRPPPDSFSPTEPRVLGLVMIPGHHIVSIEV 74 (75)
T ss_pred hHHHHhcCCeEEEEEcCCeEEEEEEEEEcCCCcEEecCcEEEEcccCccCCccEEEeeeEEEeCCeEEEEEE
Confidence 357788999999999999999999999999999999999998632 356899999999999999874
No 51
>KOG1780|consensus
Probab=99.71 E-value=1.2e-17 Score=110.34 Aligned_cols=68 Identities=31% Similarity=0.386 Sum_probs=61.7
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCCC
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAEE 149 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~~ 149 (158)
-|++|.+|++.++|++||...|+|+|||.|||+||++|+|.........+|.++|||++|+.+.+.+.
T Consensus 8 eLkkymdKki~lklnG~r~v~GiLrGyD~FmNiVlde~vE~~~~~~~~~ig~~vIrgnsiv~~eaL~~ 75 (77)
T KOG1780|consen 8 ELKKYMDKKIVLKLNGGRKVTGILRGYDPFMNIVLDETVEPNGDGDKNNIGMVVIRGNSIVMVEALER 75 (77)
T ss_pred hHHHhhhheEEEEeCCCcEEEEEEeccchHHhhhhhhceeecCcCCcceeeeEEEeccEEEEEeeccc
Confidence 78999999999999999999999999999999999999997544445789999999999999988763
No 52
>cd06168 LSm9 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm9 proteins have a single Sm-like domain structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.70 E-value=3.2e-17 Score=110.63 Aligned_cols=64 Identities=23% Similarity=0.251 Sum_probs=58.2
Q ss_pred HHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEec------cceecceeEEEEecCCCCC
Q psy9934 11 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG------HCTGKLGEVLIRSLTMSTP 74 (158)
Q Consensus 11 ~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~------~~~~~lg~~~iRG~~i~~I 74 (158)
+.|+++++++|.|.|+|||.|.|+|.|||.|||++|+||.|++.. .+.+.+|+++|||++|..+
T Consensus 3 ~~L~~~l~~~v~V~l~dgR~~~G~l~~~D~~~NivL~~~~E~~~~~~~~~~~~~r~lGlv~IrG~~Iv~i 72 (75)
T cd06168 3 QKLRSLLGRTMRIHMTDGRTLVGVFLCTDRDCNIILGSAQEYRPPPDSFSPTEPRVLGLVMIPGHHIVSI 72 (75)
T ss_pred hHHHHhcCCeEEEEEcCCeEEEEEEEEEcCCCcEEecCcEEEEcccCccCCccEEEeeeEEEeCCeEEEE
Confidence 568999999999999999999999999999999999999999532 3578999999999999865
No 53
>KOG1783|consensus
Probab=99.68 E-value=2.5e-18 Score=113.21 Aligned_cols=74 Identities=39% Similarity=0.623 Sum_probs=69.8
Q ss_pred CCCCCCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCC
Q psy9934 1 MSTPLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 1 m~~~~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p 76 (158)
|| ....|.+||++.+||+|.|+|.+|-.|+|+|.|.|.|||+-|+.++|+.+|+.++..|..||||++|.+|..
T Consensus 1 ~s--~~~~~~~fl~~iiGr~V~VKl~sgvdyrG~l~~lDgymNiaLe~tee~~ngql~n~ygdaFirGnnVlyIs~ 74 (77)
T KOG1783|consen 1 MS--EGSMPGEFLKAIIGRTVVVKLNSGVDYRGTLVCLDGYMNIALESTEEYVNGQLKNKYGDAFIRGNNVLYIST 74 (77)
T ss_pred CC--cccCcHHHHHHHhCCeEEEEecCCccccceehhhhhHHHHHHHHHHHHhcCcccccccceeeccccEEEEEe
Confidence 56 578899999999999999999999999999999999999999999999999999999999999999998753
No 54
>PTZ00138 small nuclear ribonucleoprotein; Provisional
Probab=99.67 E-value=1.2e-16 Score=110.96 Aligned_cols=72 Identities=19% Similarity=0.245 Sum_probs=61.0
Q ss_pred CCCCchHHHhhcCCC--EEEEEEeCC--cEEEEEEeEecCcceeEEceeeEEEe-ccceecceeEEEEecCCCCCCC
Q psy9934 5 LPCNPKPFLNLLTGK--SVICKLKWG--HEYKGILVSTDGYMNCQLASTEEIID-GHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 5 ~~~~p~~~L~~~~~k--~V~V~l~~g--~~~~G~L~~~D~~mNlvL~~~~e~~~-~~~~~~lg~~~iRG~~i~~I~p 76 (158)
.-..|+..+.+++.+ +|.|+++++ +++.|+|.|||+|||++|+||+|... ++..+.+|.++|||++|.++.+
T Consensus 11 ~~~~P~~~~~~~~~~~~~V~i~l~~~~~r~~~G~L~gfD~~mNlVL~d~~E~~~~~~~~~~lG~ilIRGnnV~~I~~ 87 (89)
T PTZ00138 11 IMTQPINQIFRFFTEKTRVQIWLYDHPNLRIEGKILGFDEYMNMVLDDAEEVYTKKNTRKDLGRILLKGDNITLIMA 87 (89)
T ss_pred eecCCHHHHHHHhcCCcEEEEEEEeCCCcEEEEEEEEEcccceEEEccEEEEecCCceeeEcCeEEEcCCEEEEEEc
Confidence 346799999999665 488888774 89999999999999999999999864 3446789999999999998754
No 55
>KOG3293|consensus
Probab=99.61 E-value=5.4e-16 Score=111.67 Aligned_cols=76 Identities=26% Similarity=0.359 Sum_probs=67.3
Q ss_pred CchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEE-EeccceecceeEEEEecCCCCCCCCCCCCcccc
Q psy9934 8 NPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEI-IDGHCTGKLGEVLIRSLTMSTPLPCNPKPFLNL 85 (158)
Q Consensus 8 ~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~-~~~~~~~~lg~~~iRG~~i~~I~p~dP~~~L~~ 85 (158)
.||++|+...++++.|+||||.+|.|.|+.||.||||.|.+|+++ .++.....+++++|||++|.|+.. |.+.+.+
T Consensus 2 lPLsLL~~aq~~pmlvELKNget~nGhL~~cD~wMNl~L~~Vi~ts~Dgdkf~r~pEcYirGttIkylri--~d~iid~ 78 (134)
T KOG3293|consen 2 LPLSLLKTAQNHPMLVELKNGETYNGHLVNCDNWMNLHLREVICTSEDGDKFFRMPECYIRGTTIKYLRI--PDEIIDK 78 (134)
T ss_pred cchhHHHhcCCCeEEEEecCCCEecceeecchhhhhcchheeEEeccCCCceeecceeEEecceeEEEec--cHHHHHH
Confidence 599999999999999999999999999999999999999999999 456668899999999999999763 3344443
No 56
>KOG3460|consensus
Probab=99.59 E-value=2.5e-16 Score=106.23 Aligned_cols=73 Identities=23% Similarity=0.235 Sum_probs=64.7
Q ss_pred CCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEe---c----------cceecceeEEEEecCC
Q psy9934 5 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIID---G----------HCTGKLGEVLIRSLTM 71 (158)
Q Consensus 5 ~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~---~----------~~~~~lg~~~iRG~~i 71 (158)
+...|+++|+-+++.+|.|+++++|+++|+|.|||.|+|++|.||+|+.. . +..+.+..+|+||++|
T Consensus 2 ~v~ePldllrlsLdErVyVKlr~drel~G~L~afD~HlNmvL~d~eetit~~e~~E~~~e~~~k~~~r~~emlFvRGd~V 81 (91)
T KOG3460|consen 2 TVEEPLDLLRLSLDERVYVKLRSDRELRGTLHAFDEHLNMVLGDVEETITTVEIDEDTYEEIVKTTKRTVEMLFVRGDGV 81 (91)
T ss_pred cccccHHHHhhcccceEEEEecCChhhhcchhhhHHhhhhhhhhhhheEEEeeccchhHHHHHhhhhcceeEEEEeCCeE
Confidence 45789999999999999999999999999999999999999999999842 1 1256888999999999
Q ss_pred CCCCCC
Q psy9934 72 STPLPC 77 (158)
Q Consensus 72 ~~I~p~ 77 (158)
.++.|+
T Consensus 82 ilvspp 87 (91)
T KOG3460|consen 82 ILVSPP 87 (91)
T ss_pred EEEcCc
Confidence 998763
No 57
>KOG1781|consensus
Probab=99.53 E-value=5.5e-16 Score=107.56 Aligned_cols=73 Identities=30% Similarity=0.327 Sum_probs=65.0
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccccceeecceEEEec--------CeeeeecCcEEEeeCcEEEEEeCCCCCcc
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIID--------GHCTGKLGEVLIRCNNILYIRGAEEGDEE 153 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~--------~~~~~~~g~~~iRG~~I~~i~~~~~~~~~ 153 (158)
-|.+++++.|+|++.+||+..|+|.|||+.|||||++|+|+.. +.+.|++|.+++||..+++|++.|+.+++
T Consensus 21 DLsky~Dk~Irvkf~GGr~~sGiLkGyDqLlNlVLDd~vEylrdpdd~~~~~~~tR~LGLvV~RGTalvlisp~dG~e~I 100 (108)
T KOG1781|consen 21 DLSKYLDKKIRVKFTGGREASGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDETRKLGLVVCRGTALVLISPADGSEEI 100 (108)
T ss_pred hHHHhhccceEEEeecCceeeeehhhHHHHHHHHHHHHHHHhcCCCCccchhhhhheeeeEEEcccEEEEEcCCcchhhh
Confidence 3778999999999999999999999999999999999999832 12458999999999999999999998865
Q ss_pred c
Q psy9934 154 G 154 (158)
Q Consensus 154 ~ 154 (158)
.
T Consensus 101 ~ 101 (108)
T KOG1781|consen 101 A 101 (108)
T ss_pred c
Confidence 3
No 58
>KOG3460|consensus
Probab=99.53 E-value=1.6e-15 Score=102.35 Aligned_cols=73 Identities=22% Similarity=0.313 Sum_probs=64.0
Q ss_pred CCCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEe---cC----------eeeeecCcEEEeeCcEEE
Q psy9934 77 CNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII---DG----------HCTGKLGEVLIRCNNILY 143 (158)
Q Consensus 77 ~dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~---~~----------~~~~~~g~~~iRG~~I~~ 143 (158)
..|..+++-.++.+|.|+++++|+++|+|.+||+|+|++|.|++|.+ ++ ..++.+..+|+||++|++
T Consensus 4 ~ePldllrlsLdErVyVKlr~drel~G~L~afD~HlNmvL~d~eetit~~e~~E~~~e~~~k~~~r~~emlFvRGd~Vil 83 (91)
T KOG3460|consen 4 EEPLDLLRLSLDERVYVKLRSDRELRGTLHAFDEHLNMVLGDVEETITTVEIDEDTYEEIVKTTKRTVEMLFVRGDGVIL 83 (91)
T ss_pred cccHHHHhhcccceEEEEecCChhhhcchhhhHHhhhhhhhhhhheEEEeeccchhHHHHHhhhhcceeEEEEeCCeEEE
Confidence 36788999999999999999999999999999999999999999874 21 124678899999999999
Q ss_pred EEeCCC
Q psy9934 144 IRGAEE 149 (158)
Q Consensus 144 i~~~~~ 149 (158)
|+++-.
T Consensus 84 vspp~~ 89 (91)
T KOG3460|consen 84 VSPPLR 89 (91)
T ss_pred EcCccc
Confidence 999864
No 59
>KOG1775|consensus
Probab=99.51 E-value=6.2e-15 Score=97.96 Aligned_cols=74 Identities=27% Similarity=0.407 Sum_probs=66.4
Q ss_pred CCCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEe---cCeeeeecCcEEEeeCcEEEEEeCCCC
Q psy9934 77 CNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII---DGHCTGKLGEVLIRCNNILYIRGAEEG 150 (158)
Q Consensus 77 ~dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~---~~~~~~~~g~~~iRG~~I~~i~~~~~~ 150 (158)
.-|.+++.++++++++|.+++.|++.|+|.|||.|.|++|+|++|+- +|+...+++++++.||||.++-|.-+.
T Consensus 6 llPlEliDkcIgski~iimksdkE~~GtL~GFDd~VNmvLeDvtEye~~~egr~~tk~~~iLLnGNni~mLvPGGe~ 82 (84)
T KOG1775|consen 6 LLPLELIDKCIGSKIWIIMKSDKEFVGTLVGFDDFVNMVLEDVTEYEITPEGRRMTKLDQILLNGNNITMLVPGGEG 82 (84)
T ss_pred cccHHHHHHhcCceEEEEEccCceeeeEEechHHHHHHHHHhhhheeeCCCcceeeeeeeeeecCCcEEEEecCCCC
Confidence 45788999999999999999999999999999999999999999983 466677999999999999999877643
No 60
>KOG1775|consensus
Probab=99.45 E-value=2.2e-14 Score=95.33 Aligned_cols=74 Identities=24% Similarity=0.402 Sum_probs=66.0
Q ss_pred CCCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEE-Ee--ccceecceeEEEEecCCCCCCCC
Q psy9934 4 PLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEI-ID--GHCTGKLGEVLIRSLTMSTPLPC 77 (158)
Q Consensus 4 ~~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~-~~--~~~~~~lg~~~iRG~~i~~I~p~ 77 (158)
+....|+.++.+++|.++.|.+|+.+++.|+|.|||.|.|++|+||+|+ .. +....+++++++.|++|..+.|.
T Consensus 3 ~~~llPlEliDkcIgski~iimksdkE~~GtL~GFDd~VNmvLeDvtEye~~~egr~~tk~~~iLLnGNni~mLvPG 79 (84)
T KOG1775|consen 3 PSTLLPLELIDKCIGSKIWIIMKSDKEFVGTLVGFDDFVNMVLEDVTEYEITPEGRRMTKLDQILLNGNNITMLVPG 79 (84)
T ss_pred hhhcccHHHHHHhcCceEEEEEccCceeeeEEechHHHHHHHHHhhhheeeCCCcceeeeeeeeeecCCcEEEEecC
Confidence 4568899999999999999999999999999999999999999999998 32 33456899999999999987763
No 61
>KOG1774|consensus
Probab=99.40 E-value=2.1e-13 Score=91.75 Aligned_cols=66 Identities=33% Similarity=0.420 Sum_probs=54.5
Q ss_pred CcccccccceeeEeecc--ccEEEEEEEEeccccceeecceEEEe-cCeeeeecCcEEEeeCcEEEEEeCC
Q psy9934 81 PFLNLLTGKSVICKLKW--GHEYKGILVSTDGYMNCQLASTEEII-DGHCTGKLGEVLIRCNNILYIRGAE 148 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~~--g~~~~G~L~~~D~~mNlvL~~~~e~~-~~~~~~~~g~~~iRG~~I~~i~~~~ 148 (158)
.||++.. +|.|||.. |-.+.|.+.|||+|||+||++|+|.. +.+..+.+|.++++|+||.+|....
T Consensus 19 r~Lq~~t--~VqIWl~eq~~~rieG~IvGFDEyMNvVlD~aeev~~k~~~rk~lGRilLKGDnItli~~~~ 87 (88)
T KOG1774|consen 19 RFLQNRT--RVQIWLFEQVGLRIEGRIVGFDEYMNLVLDDAEEVHSKTKSRKELGRILLKGDNITLIQSAG 87 (88)
T ss_pred HHHhcCC--ceEEEEEeccCcEEeEEEechHHhhhhhhcchhhccccccCCCccccEEEcCCcEEEEeecC
Confidence 4555543 89999987 78999999999999999999999973 3333358999999999999997653
No 62
>KOG1782|consensus
Probab=99.40 E-value=2.8e-14 Score=102.72 Aligned_cols=70 Identities=27% Similarity=0.359 Sum_probs=62.4
Q ss_pred ccccccceeeEeeccccEEEEEEEEeccccceeecceEEEe-cCe--eeeecCcEEEeeCcEEEEEeCCCCCc
Q psy9934 83 LNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII-DGH--CTGKLGEVLIRCNNILYIRGAEEGDE 152 (158)
Q Consensus 83 L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~-~~~--~~~~~g~~~iRG~~I~~i~~~~~~~~ 152 (158)
+-+++++++.|-|+|||...|.|+|||||.|++|++|+|++ .++ .....|.++|||.||++++..|.+.|
T Consensus 14 l~~~~dkKllVlLRDGR~L~G~LRSfDQFaNlvL~~~iERi~v~~~Y~di~~glfiIRGENVvllGeid~dkE 86 (129)
T KOG1782|consen 14 LVEYLDKKLLVLLRDGRKLIGVLRSFDQFANLVLQGVIERIFVGNKYCDIPRGLFIIRGENVVLLGEIDLDKE 86 (129)
T ss_pred HHHHhcceEEEEEecCcchhhhhhhHHHHHHHHHHhhhhheeecceecccCceEEEEecCcEEEEecCCcchh
Confidence 66778999999999999999999999999999999999985 233 23567999999999999999999987
No 63
>KOG3172|consensus
Probab=99.39 E-value=5.1e-13 Score=94.26 Aligned_cols=73 Identities=25% Similarity=0.337 Sum_probs=65.6
Q ss_pred CCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCCCC
Q psy9934 6 PCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPCN 78 (158)
Q Consensus 6 ~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p~d 78 (158)
...|+++|+...|.-|+++++.|..|+|+|...|++||++|+|++-+.......++..+||||+.|+++..++
T Consensus 3 ~gvpiKlLhEaqGhIVt~Et~tGe~YRGkliEaeDnmNcql~di~vT~~dg~vs~le~V~IRGS~IRFlvlPd 75 (119)
T KOG3172|consen 3 VGVPIKLLHEAQGHIVTVETKTGEVYRGKLIEAEDNMNCQLRDITVTARDGRVSQLEQVFIRGSKIRFLVLPD 75 (119)
T ss_pred cccceeeeecccCcEEEEEecCCceeeeeeEEeccccccEEEEEEEEccCCcceeeeeEEEecCeEEEEECch
Confidence 5679999999999999999999999999999999999999999999844435789999999999999976443
No 64
>KOG1781|consensus
Probab=99.38 E-value=2.3e-14 Score=99.45 Aligned_cols=70 Identities=30% Similarity=0.281 Sum_probs=61.8
Q ss_pred chHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEE-Eec-------cceecceeEEEEecCCCCCCCCC
Q psy9934 9 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEI-IDG-------HCTGKLGEVLIRSLTMSTPLPCN 78 (158)
Q Consensus 9 p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~-~~~-------~~~~~lg~~~iRG~~i~~I~p~d 78 (158)
..--|.+|++|+|+|++.+||...|+|.|||+.|||||+++.|+ ++. .+.+++|.+++||..+..+.|.+
T Consensus 18 silDLsky~Dk~Irvkf~GGr~~sGiLkGyDqLlNlVLDd~vEylrdpdd~~~~~~~tR~LGLvV~RGTalvlisp~d 95 (108)
T KOG1781|consen 18 SILDLSKYLDKKIRVKFTGGREASGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDETRKLGLVVCRGTALVLISPAD 95 (108)
T ss_pred HHhhHHHhhccceEEEeecCceeeeehhhHHHHHHHHHHHHHHHhcCCCCccchhhhhheeeeEEEcccEEEEEcCCc
Confidence 34468999999999999999999999999999999999999998 332 23589999999999999998754
No 65
>KOG3293|consensus
Probab=99.38 E-value=4.4e-13 Score=96.66 Aligned_cols=73 Identities=30% Similarity=0.406 Sum_probs=66.2
Q ss_pred CCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEe-cCeeeeecCcEEEeeCcEEEEEeCCCCC
Q psy9934 79 PKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII-DGHCTGKLGEVLIRCNNILYIRGAEEGD 151 (158)
Q Consensus 79 P~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~-~~~~~~~~g~~~iRG~~I~~i~~~~~~~ 151 (158)
|..+|....+.++.|+||+|.+|.|.|..+|.+|||.|.++.++. +|.+...+..++|||++|.|+..+|+-.
T Consensus 3 PLsLL~~aq~~pmlvELKNget~nGhL~~cD~wMNl~L~~Vi~ts~Dgdkf~r~pEcYirGttIkylri~d~ii 76 (134)
T KOG3293|consen 3 PLSLLKTAQNHPMLVELKNGETYNGHLVNCDNWMNLHLREVICTSEDGDKFFRMPECYIRGTTIKYLRIPDEII 76 (134)
T ss_pred chhHHHhcCCCeEEEEecCCCEecceeecchhhhhcchheeEEeccCCCceeecceeEEecceeEEEeccHHHH
Confidence 677888899999999999999999999999999999999999985 5666678899999999999999988643
No 66
>KOG3448|consensus
Probab=99.35 E-value=1.5e-12 Score=89.00 Aligned_cols=66 Identities=24% Similarity=0.271 Sum_probs=57.9
Q ss_pred hHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEecc--ceecceeEEEEecCCCCCC
Q psy9934 10 KPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGH--CTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 10 ~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~--~~~~lg~~~iRG~~i~~I~ 75 (158)
.+|+++++|+.|.|+|||+-.+.|+|.++|+|+|+.|.|+.-....+ .-.....+||||+.|+|++
T Consensus 4 ysfFkslvg~~V~VeLKnd~~i~GtL~svDqyLNlkL~di~v~d~~kyPhm~Sv~ncfIRGSvvrYv~ 71 (96)
T KOG3448|consen 4 YSFFKSLVGKEVVVELKNDLSICGTLHSVDQYLNLKLTDISVTDPDKYPHMLSVKNCFIRGSVVRYVQ 71 (96)
T ss_pred HHHHHHhcCCeEEEEEcCCcEEEEEecccchhheeEEeeeEeeCcccCCCeeeeeeEEEeccEEEEEE
Confidence 47899999999999999999999999999999999999998774322 2346778999999999987
No 67
>KOG1784|consensus
Probab=99.34 E-value=4.6e-13 Score=91.91 Aligned_cols=71 Identities=24% Similarity=0.183 Sum_probs=64.5
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccccceeecceEEEe----cCeeeeecCcEEEeeCcEEEEEeCCCCCc
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----DGHCTGKLGEVLIRCNNILYIRGAEEGDE 152 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~----~~~~~~~~g~~~iRG~~I~~i~~~~~~~~ 152 (158)
-|..|++++|.|...|||.+.|.|.|||+..||.|+++-|++ .|.....+|..+|||+||..|++.||+.+
T Consensus 4 ~L~~y~n~~V~vIt~DGr~ivgsLkGFDq~tNlii~~~heRi~s~~~gv~q~~lGlyiirgeNva~ig~iDEe~d 78 (96)
T KOG1784|consen 4 TLEDYMNQRVSVITNDGRVIVGSLKGFDQTTNLIIDESHERIFSETEGVEQIVLGLYIIRGENVAVIGEIDEELD 78 (96)
T ss_pred hHHHHhhceEEEEecCCeEEEEEeccccccceeeehhhHhhhhhhhcchhheeeEEEEEecCccceeeecchhhh
Confidence 467889999999999999999999999999999999999984 35556789999999999999999999875
No 68
>KOG3428|consensus
Probab=99.31 E-value=4.5e-12 Score=89.73 Aligned_cols=97 Identities=22% Similarity=0.183 Sum_probs=77.2
Q ss_pred hHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCCCCCCCcccccccc
Q psy9934 10 KPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPCNPKPFLNLLTGK 89 (158)
Q Consensus 10 ~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p~dP~~~L~~~~~k 89 (158)
..||+++.+.+|+|+|++|....|++.++|.+||..|.+++-+.++ ++.++..++|||++|+|+..+|+.++-.-+++.
T Consensus 4 vr~L~kl~~e~vtIeLkngt~v~G~I~~Vd~~Mn~~l~~v~~t~~~-~pv~l~~lsirgnniRy~~lpD~l~ld~Llvd~ 82 (109)
T KOG3428|consen 4 VRFLKKLLNERVTIELKNGTIVHGTIDSVDVQMNTHLKHVKMTVKG-EPVRLDTLSIRGNNIRYYILPDSLNLDTLLVDD 82 (109)
T ss_pred HHHHHHhhCCeEEEEecCCcEEeeeEEEEEhhheeEEEEEEEecCC-CceeEEEEEeecceEEEEEccCCcCcceeeeeh
Confidence 5799999999999999999999999999999999999999988766 467889999999999998876765554445544
Q ss_pred eeeEeecccc-EEEEEEEE
Q psy9934 90 SVICKLKWGH-EYKGILVS 107 (158)
Q Consensus 90 ~V~V~L~~g~-~~~G~L~~ 107 (158)
.-.++++... ..+|..+|
T Consensus 83 ~~~~~~~~~~~~~rgrgrg 101 (109)
T KOG3428|consen 83 APRLHLRKNEKVGRGRGRG 101 (109)
T ss_pred hhhhhhhcccccccccccc
Confidence 4445554332 45555544
No 69
>KOG1774|consensus
Probab=99.28 E-value=1.6e-12 Score=87.46 Aligned_cols=70 Identities=23% Similarity=0.294 Sum_probs=56.2
Q ss_pred CCchHHHhhcCC--CEEEEEEeC--CcEEEEEEeEecCcceeEEceeeEE-EeccceecceeEEEEecCCCCCCC
Q psy9934 7 CNPKPFLNLLTG--KSVICKLKW--GHEYKGILVSTDGYMNCQLASTEEI-IDGHCTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 7 ~~p~~~L~~~~~--k~V~V~l~~--g~~~~G~L~~~D~~mNlvL~~~~e~-~~~~~~~~lg~~~iRG~~i~~I~p 76 (158)
..|+.++=.++. .+|.|||.+ |-.+.|.++|||+|||+||++|+|. .+......+|.++++|++|..++.
T Consensus 11 v~Pin~Ifr~Lq~~t~VqIWl~eq~~~rieG~IvGFDEyMNvVlD~aeev~~k~~~rk~lGRilLKGDnItli~~ 85 (88)
T KOG1774|consen 11 VQPINLIFRFLQNRTRVQIWLFEQVGLRIEGRIVGFDEYMNLVLDDAEEVHSKTKSRKELGRILLKGDNITLIQS 85 (88)
T ss_pred cCcHHHHHHHHhcCCceEEEEEeccCcEEeEEEechHHhhhhhhcchhhccccccCCCccccEEEcCCcEEEEee
Confidence 457666665543 458888887 7999999999999999999999998 333334589999999999988764
No 70
>KOG3172|consensus
Probab=99.21 E-value=4.5e-11 Score=84.46 Aligned_cols=73 Identities=26% Similarity=0.387 Sum_probs=65.7
Q ss_pred CCCCCcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCCC
Q psy9934 77 CNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAEE 149 (158)
Q Consensus 77 ~dP~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~~ 149 (158)
..|.++|.+..+.-|.++++.|..|+|+|+..+++||++|+|.+-+..+.....+..+||||+.|.++-.||-
T Consensus 4 gvpiKlLhEaqGhIVt~Et~tGe~YRGkliEaeDnmNcql~di~vT~~dg~vs~le~V~IRGS~IRFlvlPdm 76 (119)
T KOG3172|consen 4 GVPIKLLHEAQGHIVTVETKTGEVYRGKLIEAEDNMNCQLRDITVTARDGRVSQLEQVFIRGSKIRFLVLPDM 76 (119)
T ss_pred ccceeeeecccCcEEEEEecCCceeeeeeEEeccccccEEEEEEEEccCCcceeeeeEEEecCeEEEEECchH
Confidence 3578899999999999999999999999999999999999999987555456789999999999999988764
No 71
>KOG3448|consensus
Probab=99.20 E-value=2.3e-11 Score=83.13 Aligned_cols=72 Identities=24% Similarity=0.335 Sum_probs=60.7
Q ss_pred CcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCee--eeecCcEEEeeCcEEEEEeCCCCCc
Q psy9934 81 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHC--TGKLGEVLIRCNNILYIRGAEEGDE 152 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~--~~~~g~~~iRG~~I~~i~~~~~~~~ 152 (158)
.|++.+++++|.|.||++-.+.|+|.|+|+|+|+.|.|.......+- -.....+||||+.|.||..+.+..+
T Consensus 5 sfFkslvg~~V~VeLKnd~~i~GtL~svDqyLNlkL~di~v~d~~kyPhm~Sv~ncfIRGSvvrYv~l~kd~vd 78 (96)
T KOG3448|consen 5 SFFKSLVGKEVVVELKNDLSICGTLHSVDQYLNLKLTDISVTDPDKYPHMLSVKNCFIRGSVVRYVQLPKDAVD 78 (96)
T ss_pred HHHHHhcCCeEEEEEcCCcEEEEEecccchhheeEEeeeEeeCcccCCCeeeeeeEEEeccEEEEEEeChhHHH
Confidence 46788999999999999999999999999999999999986643321 1245689999999999999877654
No 72
>KOG3168|consensus
Probab=99.14 E-value=5.8e-12 Score=95.44 Aligned_cols=70 Identities=26% Similarity=0.257 Sum_probs=59.7
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccccceeecceEEEe----------cCeeeeecCcEEEeeCcEEEEEeCCCCC
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----------DGHCTGKLGEVLIRCNNILYIRGAEEGD 151 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~----------~~~~~~~~g~~~iRG~~I~~i~~~~~~~ 151 (158)
.+-++++.++.|.++|||+|.|++.+||.||||+|.||+|+. ++++++.+|.+++||.||++.+..+-..
T Consensus 8 kml~~iNyr~rv~~qDgr~~ig~~~afDkhmNlvl~dceE~r~~k~k~~~~~~~eEkr~lgLvllRgenIvs~tVegppp 87 (177)
T KOG3168|consen 8 KMLQHINYRMRVRLQDGRTFIGQFKAFDKHMNLVLQDCEEFRKIKPKNRKMTDGEEKRVLGLVLLRGENIVSMTVEGPPP 87 (177)
T ss_pred HHHHhhcceEEEEeccCceeechhhhhHHHHHHHHHHHHHHhccccccccccccceeeEEEEEEecCCcEEEEeccCCCC
Confidence 355677899999999999999999999999999999999863 2346788999999999999987655433
No 73
>KOG3168|consensus
Probab=99.05 E-value=1.5e-11 Score=93.20 Aligned_cols=67 Identities=24% Similarity=0.224 Sum_probs=58.4
Q ss_pred HHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEE----------eccceecceeEEEEecCCCCCCCCC
Q psy9934 12 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----------DGHCTGKLGEVLIRSLTMSTPLPCN 78 (158)
Q Consensus 12 ~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~----------~~~~~~~lg~~~iRG~~i~~I~p~d 78 (158)
-|.+.+|.++.|.++|||.+.|++.+||.|||++|.||+|.. ++++.+.+|++++||.+|++.....
T Consensus 8 kml~~iNyr~rv~~qDgr~~ig~~~afDkhmNlvl~dceE~r~~k~k~~~~~~~eEkr~lgLvllRgenIvs~tVeg 84 (177)
T KOG3168|consen 8 KMLQHINYRMRVRLQDGRTFIGQFKAFDKHMNLVLQDCEEFRKIKPKNRKMTDGEEKRVLGLVLLRGENIVSMTVEG 84 (177)
T ss_pred HHHHhhcceEEEEeccCceeechhhhhHHHHHHHHHHHHHHhccccccccccccceeeEEEEEEecCCcEEEEeccC
Confidence 456779999999999999999999999999999999999973 2346789999999999999876433
No 74
>KOG1784|consensus
Probab=98.97 E-value=5.3e-10 Score=76.87 Aligned_cols=67 Identities=21% Similarity=0.121 Sum_probs=59.6
Q ss_pred HHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEE----eccceecceeEEEEecCCCCCCCCC
Q psy9934 12 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII----DGHCTGKLGEVLIRSLTMSTPLPCN 78 (158)
Q Consensus 12 ~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~----~~~~~~~lg~~~iRG~~i~~I~p~d 78 (158)
-|.+|++++|.|-..|||.+.|.|.|||+..||.++++-|+. .+.+...+|...|||+++..+.+.+
T Consensus 4 ~L~~y~n~~V~vIt~DGr~ivgsLkGFDq~tNlii~~~heRi~s~~~gv~q~~lGlyiirgeNva~ig~iD 74 (96)
T KOG1784|consen 4 TLEDYMNQRVSVITNDGRVIVGSLKGFDQTTNLIIDESHERIFSETEGVEQIVLGLYIIRGENVAVIGEID 74 (96)
T ss_pred hHHHHhhceEEEEecCCeEEEEEeccccccceeeehhhHhhhhhhhcchhheeeEEEEEecCccceeeecc
Confidence 478999999999999999999999999999999999999973 2334678999999999999988755
No 75
>KOG1782|consensus
Probab=98.96 E-value=9.3e-11 Score=84.63 Aligned_cols=79 Identities=24% Similarity=0.209 Sum_probs=62.7
Q ss_pred CCCCCCCCc-hHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEE-ecc--ceecceeEEEEecCCCCCCC
Q psy9934 1 MSTPLPCNP-KPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII-DGH--CTGKLGEVLIRSLTMSTPLP 76 (158)
Q Consensus 1 m~~~~~~~p-~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~-~~~--~~~~lg~~~iRG~~i~~I~p 76 (158)
|+.+.+..| ..-|-+++++++.|-|+|||++.|.|++||+|-|++|.+|.|.+ -++ .-...|...|||.||..+..
T Consensus 1 md~~~~~~~~t~sl~~~~dkKllVlLRDGR~L~G~LRSfDQFaNlvL~~~iERi~v~~~Y~di~~glfiIRGENVvllGe 80 (129)
T KOG1782|consen 1 MDLADGDLPFTTSLVEYLDKKLLVLLRDGRKLIGVLRSFDQFANLVLQGVIERIFVGNKYCDIPRGLFIIRGENVVLLGE 80 (129)
T ss_pred CCccccCCCchhHHHHHhcceEEEEEecCcchhhhhhhHHHHHHHHHHhhhhheeecceecccCceEEEEecCcEEEEec
Confidence 444443333 34488899999999999999999999999999999999999984 222 13567899999999999876
Q ss_pred CCC
Q psy9934 77 CNP 79 (158)
Q Consensus 77 ~dP 79 (158)
.++
T Consensus 81 id~ 83 (129)
T KOG1782|consen 81 IDL 83 (129)
T ss_pred CCc
Confidence 554
No 76
>KOG3428|consensus
Probab=98.80 E-value=1.5e-08 Score=71.95 Aligned_cols=69 Identities=30% Similarity=0.324 Sum_probs=62.1
Q ss_pred CcccccccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCCCC
Q psy9934 81 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAEEG 150 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~~~ 150 (158)
.+|+.+.+.++.|.|++|...+|++.+.|.+||..|.+..-...| ...++....|||+||.|+-.||.-
T Consensus 5 r~L~kl~~e~vtIeLkngt~v~G~I~~Vd~~Mn~~l~~v~~t~~~-~pv~l~~lsirgnniRy~~lpD~l 73 (109)
T KOG3428|consen 5 RFLKKLLNERVTIELKNGTIVHGTIDSVDVQMNTHLKHVKMTVKG-EPVRLDTLSIRGNNIRYYILPDSL 73 (109)
T ss_pred HHHHHhhCCeEEEEecCCcEEeeeEEEEEhhheeEEEEEEEecCC-CceeEEEEEeecceEEEEEccCCc
Confidence 367888999999999999999999999999999999999977777 456889999999999999988864
No 77
>KOG3459|consensus
Probab=98.63 E-value=1.9e-09 Score=76.47 Aligned_cols=71 Identities=17% Similarity=0.191 Sum_probs=58.5
Q ss_pred CchHHHhhc--CCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEec-------c------ceecceeEEEEecCCC
Q psy9934 8 NPKPFLNLL--TGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDG-------H------CTGKLGEVLIRSLTMS 72 (158)
Q Consensus 8 ~p~~~L~~~--~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~-------~------~~~~lg~~~iRG~~i~ 72 (158)
=|++.+... -..+|.|.++|++.+.|.+.|||.|+|++|+|+.|.+.. . ..+.++.+||||++|+
T Consensus 24 Gpls~~~~~~~~~~~vLi~cRnn~k~l~Rv~afdrhcnmvlenvkelwte~~ks~kgkk~~~~~~~r~isK~flRGdsvI 103 (114)
T KOG3459|consen 24 GPLSVLPASVKNNTQVLINCRNNVKLLGRVKAFDRHCNMVLENVKELWTEVPKSGKGKKAKPVNKDRFISKMFLRGDSVI 103 (114)
T ss_pred CchhhhHHHhhcCceeEEEecccHHHHhhhhhhhccccchhhcHHHHCCccccCCCcccCCccchhhhhheeeecCCeEE
Confidence 477777776 456799999999999999999999999999999998532 1 1467899999999998
Q ss_pred CCCCCCC
Q psy9934 73 TPLPCNP 79 (158)
Q Consensus 73 ~I~p~dP 79 (158)
... .+|
T Consensus 104 ~v~-r~p 109 (114)
T KOG3459|consen 104 LVL-RNP 109 (114)
T ss_pred EEE-ecc
Confidence 754 444
No 78
>PRK14091 RNA-binding protein Hfq; Provisional
Probab=98.17 E-value=3.4e-05 Score=58.91 Aligned_cols=119 Identities=18% Similarity=0.081 Sum_probs=71.1
Q ss_pred CCCCCCCCchHHHhhc--CCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEE---Eec----cceecceeEEEEecCC
Q psy9934 1 MSTPLPCNPKPFLNLL--TGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEI---IDG----HCTGKLGEVLIRSLTM 71 (158)
Q Consensus 1 m~~~~~~~p~~~L~~~--~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~---~~~----~~~~~lg~~~iRG~~i 71 (158)
|++...-..-.||..+ ...+|+|.|.+|-.++|.+.+||.|.=|.-.+.... ... .+.+.....++--+..
T Consensus 5 m~~~~~nlQD~fLn~~Rk~k~~VtvfL~nG~rl~G~I~~fD~ftVlL~~~gkqqLIYKHAISTI~p~~~i~~~~~~~~~~ 84 (165)
T PRK14091 5 MAEKVNNLQDIFLNSLRKTKTPVTMFLVKGVKLQGIITWFDNFSILLRRDGQSQLVYKHAISTIMPAHPLDLSRFSKSLD 84 (165)
T ss_pred ccccccchHHHHHHHHHhcCCcEEEEEecCcEEEEEEEEEcceEEEEEeCCceEEEEeeeeeeecccCCcchhhhcchhh
Confidence 5554455566778777 455699999999999999999999984443343221 000 0011111111100000
Q ss_pred CCCCCCCC-CCcccccc--cceeeEeeccccEEEEEEEEeccccceeecce
Q psy9934 72 STPLPCNP-KPFLNLLT--GKSVICKLKWGHEYKGILVSTDGYMNCQLAST 119 (158)
Q Consensus 72 ~~I~p~dP-~~~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~ 119 (158)
..-...+. ..||+.+. +.+|.|-|.+|-.++|.+.|||+|.=|.-.+.
T Consensus 85 ~~~~~~nlQd~fLn~~rk~k~~VtvfL~NG~~l~G~I~~fD~ftvlL~~~g 135 (165)
T PRK14091 85 ANKKSRLLQDVFLSAVRDSGEPVTMFLVNGVMLQGEIAAFDLFCMLLERDG 135 (165)
T ss_pred hcccccccHHHHHHHHHhcCCcEEEEEecCcEEEEEEEEEcceEEEEEeCC
Confidence 00000111 13455543 44899999999999999999999987765554
No 79
>KOG3459|consensus
Probab=97.91 E-value=9.7e-07 Score=62.81 Aligned_cols=60 Identities=13% Similarity=0.226 Sum_probs=50.6
Q ss_pred cceeeEeeccccEEEEEEEEeccccceeecceEEEe-------cCee------eeecCcEEEeeCcEEEEEeC
Q psy9934 88 GKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEII-------DGHC------TGKLGEVLIRCNNILYIRGA 147 (158)
Q Consensus 88 ~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~-------~~~~------~~~~g~~~iRG~~I~~i~~~ 147 (158)
..+|.+-.+|++..-|...+||-|+|++|+++.|.+ +|+. .+.+|.+||||++|+.+.-.
T Consensus 36 ~~~vLi~cRnn~k~l~Rv~afdrhcnmvlenvkelwte~~ks~kgkk~~~~~~~r~isK~flRGdsvI~v~r~ 108 (114)
T KOG3459|consen 36 NTQVLINCRNNVKLLGRVKAFDRHCNMVLENVKELWTEVPKSGKGKKAKPVNKDRFISKMFLRGDSVILVLRN 108 (114)
T ss_pred CceeEEEecccHHHHhhhhhhhccccchhhcHHHHCCccccCCCcccCCccchhhhhheeeecCCeEEEEEec
Confidence 448889999999999999999999999999998863 2322 46789999999999988643
No 80
>cd01739 LSm11_C The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm11 is an SmD2 - like subunit which binds U7 snRNA along with LSm10 and five other Sm subunits to form a 7-member ring structure. LSm11 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=97.85 E-value=1.4e-05 Score=52.07 Aligned_cols=36 Identities=22% Similarity=0.236 Sum_probs=30.7
Q ss_pred CCEEEEEEeCC----cEEEEEEeEecCcceeEEceeeEEE
Q psy9934 18 GKSVICKLKWG----HEYKGILVSTDGYMNCQLASTEEII 53 (158)
Q Consensus 18 ~k~V~V~l~~g----~~~~G~L~~~D~~mNlvL~~~~e~~ 53 (158)
+++|.|.++.- -.+.|.|.+||.|+||+|.||.|..
T Consensus 8 r~RVrV~iR~~~gvrG~~~G~lvAFDK~wNm~L~DV~E~y 47 (66)
T cd01739 8 RIRVRVHIRTFKGLRGVCSGFLVAFDKFWNMALVDVDETY 47 (66)
T ss_pred CcEEEEEEecccCcccEEEEEEEeeeeehhheehhhhhhh
Confidence 57788888764 3678899999999999999999984
No 81
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=97.76 E-value=8e-05 Score=49.94 Aligned_cols=62 Identities=19% Similarity=0.275 Sum_probs=40.8
Q ss_pred hHHHhhcCCCEEEEEEeCCcEEEEEEeEecC---cceeEEceeeEEEecc-------ceecceeEEEEecCC
Q psy9934 10 KPFLNLLTGKSVICKLKWGHEYKGILVSTDG---YMNCQLASTEEIIDGH-------CTGKLGEVLIRSLTM 71 (158)
Q Consensus 10 ~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~---~mNlvL~~~~e~~~~~-------~~~~lg~~~iRG~~i 71 (158)
..++..++|++|.|.++||..|.|.|.+++. -+-++|+-|.....+. ......++.|.++.|
T Consensus 4 ~~l~~~lvG~~V~V~~~~G~~yeGif~s~s~~~~~~~vvLk~a~~~~~~~~~~~~~~~~~~~~tlii~~~dv 75 (77)
T PF14438_consen 4 VYLLTNLVGQTVEVTTKNGSVYEGIFHSASPESNEFDVVLKMARKVPKSDQSNSDPLSSEIVETLIIPAKDV 75 (77)
T ss_dssp HHHHHTTTTSEEEEEETTS-EEEEEEEEE-T---T--EEEEEEEETTS------EEEEEEE-GGGEEE----
T ss_pred HHHHHhCcCCEEEEEECCCCEEEEEEEeCCCcccceeEEEEeeeeccccccccCCccCCCCCceEEEecccc
Confidence 3578889999999999999999999999998 8999999998763221 012334566666554
No 82
>cd01739 LSm11_C The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm11 is an SmD2 - like subunit which binds U7 snRNA along with LSm10 and five other Sm subunits to form a 7-member ring structure. LSm11 and the U7 snRNP of which it is a part are thought to play an important role in histone mRNA 3' processing.
Probab=97.59 E-value=5.7e-05 Score=49.24 Aligned_cols=37 Identities=24% Similarity=0.333 Sum_probs=29.7
Q ss_pred cceeeEeecc--c--cEEEEEEEEeccccceeecceEEEec
Q psy9934 88 GKSVICKLKW--G--HEYKGILVSTDGYMNCQLASTEEIID 124 (158)
Q Consensus 88 ~k~V~V~L~~--g--~~~~G~L~~~D~~mNlvL~~~~e~~~ 124 (158)
..+|.|.++. | -.++|.|.+||+|+||+|.|+.|...
T Consensus 8 r~RVrV~iR~~~gvrG~~~G~lvAFDK~wNm~L~DV~E~y~ 48 (66)
T cd01739 8 RIRVRVHIRTFKGLRGVCSGFLVAFDKFWNMALVDVDETYR 48 (66)
T ss_pred CcEEEEEEecccCcccEEEEEEEeeeeehhheehhhhhhhc
Confidence 3566666664 3 48899999999999999999999643
No 83
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=96.97 E-value=0.0013 Score=43.95 Aligned_cols=60 Identities=20% Similarity=0.343 Sum_probs=38.2
Q ss_pred ccccccceeeEeeccccEEEEEEEEecc---ccceeecceEEEecCe-------eeeecCcEEEeeCcEE
Q psy9934 83 LNLLTGKSVICKLKWGHEYKGILVSTDG---YMNCQLASTEEIIDGH-------CTGKLGEVLIRCNNIL 142 (158)
Q Consensus 83 L~~~~~k~V~V~L~~g~~~~G~L~~~D~---~mNlvL~~~~e~~~~~-------~~~~~g~~~iRG~~I~ 142 (158)
+..++|++|.|.++||..|+|.|.+++. -+.++|.-|.....+. .......++|.++.|+
T Consensus 7 ~~~lvG~~V~V~~~~G~~yeGif~s~s~~~~~~~vvLk~a~~~~~~~~~~~~~~~~~~~~tlii~~~dvv 76 (77)
T PF14438_consen 7 LTNLVGQTVEVTTKNGSVYEGIFHSASPESNEFDVVLKMARKVPKSDQSNSDPLSSEIVETLIIPAKDVV 76 (77)
T ss_dssp HHTTTTSEEEEEETTS-EEEEEEEEE-T---T--EEEEEEEETTS------EEEEEEE-GGGEEE-----
T ss_pred HHhCcCCEEEEEECCCCEEEEEEEeCCCcccceeEEEEeeeeccccccccCCccCCCCCceEEEeccccC
Confidence 4568899999999999999999999998 8999998888653321 1123456666666554
No 84
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A.
Probab=96.62 E-value=0.0033 Score=44.27 Aligned_cols=62 Identities=18% Similarity=0.218 Sum_probs=50.5
Q ss_pred hhcCCCEEEEEEeCCcEEEEEEeEecC-cceeEEceeeEE-Eecc--------ceecceeEEEEecCCCCCC
Q psy9934 14 NLLTGKSVICKLKWGHEYKGILVSTDG-YMNCQLASTEEI-IDGH--------CTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 14 ~~~~~k~V~V~l~~g~~~~G~L~~~D~-~mNlvL~~~~e~-~~~~--------~~~~lg~~~iRG~~i~~I~ 75 (158)
.+++|++|.+..+.+-.|.|+|..+|. --.+.|.||..+ ..+. .......+..||+.|.-+.
T Consensus 4 ~~~IGs~ISlisk~~iRYeG~L~~Id~~~sTItL~nVr~~GtE~R~~~~~ipp~~~v~~~I~Fr~sDIkdL~ 75 (96)
T PF12701_consen 4 DPYIGSKISLISKSDIRYEGILYSIDTEDSTITLKNVRSFGTEGRPTDREIPPSDEVYDYIVFRGSDIKDLK 75 (96)
T ss_dssp CCCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEETTETTSS-SS---C-CSSSSEEEEETTTEEEEE
T ss_pred ccccCCEEEEEECCCcEEEEEEEEEcCCCCEEEeeeeeecCcCCCCcCcccCCCCceeeEEEEEccccceEE
Confidence 468999999999999999999999994 788999999876 2221 1235678999999998865
No 85
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A.
Probab=95.89 E-value=0.068 Score=37.60 Aligned_cols=68 Identities=19% Similarity=0.228 Sum_probs=53.8
Q ss_pred cccccceeeEeeccccEEEEEEEEecc-ccceeecceEEE-ecCe--------eeeecCcEEEeeCcEEEEEeCCCCC
Q psy9934 84 NLLTGKSVICKLKWGHEYKGILVSTDG-YMNCQLASTEEI-IDGH--------CTGKLGEVLIRCNNILYIRGAEEGD 151 (158)
Q Consensus 84 ~~~~~k~V~V~L~~g~~~~G~L~~~D~-~mNlvL~~~~e~-~~~~--------~~~~~g~~~iRG~~I~~i~~~~~~~ 151 (158)
.+++|+.|.+..+.+-.|+|+|..+|. --.+.|.++..+ .+|. ....+..+..||+.|.-+...+...
T Consensus 4 ~~~IGs~ISlisk~~iRYeG~L~~Id~~~sTItL~nVr~~GtE~R~~~~~ipp~~~v~~~I~Fr~sDIkdL~v~e~~~ 81 (96)
T PF12701_consen 4 DPYIGSKISLISKSDIRYEGILYSIDTEDSTITLKNVRSFGTEGRPTDREIPPSDEVYDYIVFRGSDIKDLKVIEPPP 81 (96)
T ss_dssp CCCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEETTETTSS-SS---C-CSSSSEEEEETTTEEEEEECE-S-
T ss_pred ccccCCEEEEEECCCcEEEEEEEEEcCCCCEEEeeeeeecCcCCCCcCcccCCCCceeeEEEEEccccceEEEEcCCC
Confidence 468899999999999999999999995 789999998865 2221 1235789999999999988776554
No 86
>cd01716 Hfq Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that modulate the stability or translation efficiency of RNA transcripts. Hfq binds preferentially to unstructured A/U-rich RNA sequences and is similar to the eukaryotic Sm proteins in both sequence and structure. Hfq forms a homo-hexameric ring similar to the heptameric ring of the Sm proteins.
Probab=95.87 E-value=0.027 Score=36.45 Aligned_cols=34 Identities=29% Similarity=0.268 Sum_probs=27.9
Q ss_pred HHhhc--CCCEEEEEEeCCcEEEEEEeEecCcceeE
Q psy9934 12 FLNLL--TGKSVICKLKWGHEYKGILVSTDGYMNCQ 45 (158)
Q Consensus 12 ~L~~~--~~k~V~V~l~~g~~~~G~L~~~D~~mNlv 45 (158)
||+++ ...+|+|.|.||-.+.|.+.+||.|+=+.
T Consensus 3 fln~~r~~~~~Vtv~L~NG~~l~G~I~~fD~ftVll 38 (61)
T cd01716 3 FLNAARKEKIPVTIYLVNGVQLKGQIESFDNFTVLL 38 (61)
T ss_pred HHHHHHHcCCcEEEEEeCCcEEEEEEEEEcceEEEE
Confidence 45554 45679999999999999999999998444
No 87
>TIGR02383 Hfq RNA chaperone Hfq. This model represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria. It helps pair regulatory noncoding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA. It appears also to protect RNase E recognition sites (A/U-rich sequences with adjacent stem-loop structures) from cleavage. Being pleiotropic, it differs in some of its activities in different species. Hfq binds the non-coding regulatory RNA DsrA (see Rfam RF00014) in the few species known to have it: Escherichia coli, Shigella flexneri, Salmonella spp. In Azorhizobium caulinodans, an hfq mutant is unable to express nifA, and Hfq is called NrfA, for nif regulatory factor (see PubMed:8197116). The name hfq reflects phenomenology as a host factor for phage Q-beta RNA replication.
Probab=95.73 E-value=0.033 Score=36.05 Aligned_cols=35 Identities=31% Similarity=0.355 Sum_probs=28.9
Q ss_pred HHHhhc--CCCEEEEEEeCCcEEEEEEeEecCcceeE
Q psy9934 11 PFLNLL--TGKSVICKLKWGHEYKGILVSTDGYMNCQ 45 (158)
Q Consensus 11 ~~L~~~--~~k~V~V~l~~g~~~~G~L~~~D~~mNlv 45 (158)
.||+.+ ...+|+|.|.||-.+.|.+.+||.|+=+.
T Consensus 6 ~fln~~r~~~~~Vti~L~nG~~l~G~I~~fD~ftVll 42 (61)
T TIGR02383 6 QFLNTLRKERIPVTVFLVNGVQLKGVIESFDNFTVLL 42 (61)
T ss_pred HHHHHHHHcCCcEEEEEeCCcEEEEEEEEEeeeEEEE
Confidence 455555 56679999999999999999999998444
No 88
>PF02237 BPL_C: Biotin protein ligase C terminal domain; InterPro: IPR003142 This C-terminal domain has an SH3-like barrel fold, the function of which is unknown. It is found associated with prokaryotic bifunctional transcriptional repressors [] and eukaryotic enzymes involved in biotin utilization [, ]. In Escherichia coli the biotin operon repressor (BirA) is a bifunctional protein. BirA acts both as the acetyl-coA carboxylase biotin holoenzyme synthetase (6.3.4.15 from EC) and as the biotin operon repressor. DNA sequence analysis of mutations indicates that the helix-turn-helix DNA binding region is located at the N terminus while mutations affecting enzyme function, although mapping over a large region, are found mainly in the central part of the protein's primary sequence [].; GO: 0006464 protein modification process; PDB: 3RUX_A 2CGH_A 3L1A_B 3L2Z_A 1HXD_A 1BIB_A 2EWN_B 1BIA_A 2EJ9_A 3FJP_A ....
Probab=95.55 E-value=0.097 Score=31.83 Aligned_cols=47 Identities=23% Similarity=0.198 Sum_probs=36.6
Q ss_pred CCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEE
Q psy9934 17 TGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 67 (158)
Q Consensus 17 ~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iR 67 (158)
+|++|.+.. ++..+.|+..++|+.-.|+++...... ..-..|.+++|
T Consensus 2 lG~~V~v~~-~~~~~~G~~~gId~~G~L~v~~~~g~~---~~i~sGdv~~r 48 (48)
T PF02237_consen 2 LGQEVRVET-GDGEIEGIAEGIDDDGALLVRTEDGSI---RTISSGDVSLR 48 (48)
T ss_dssp TTSEEEEEE-TSCEEEEEEEEEETTSEEEEEETTEEE---EEESSSEEEEE
T ss_pred CCCEEEEEE-CCeEEEEEEEEECCCCEEEEEECCCCE---EEEEEEEEEeC
Confidence 699999999 778889999999999999998766521 13345666665
No 89
>cd01736 LSm14_N LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold, containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet, that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm14 has an uncharacterized C-terminal domain containing a conserved DFDF box. In Xenopus laevis, LSm14 is an oocyte-specific constituent of ribonucleoprotein particles.
Probab=95.55 E-value=0.096 Score=35.13 Aligned_cols=60 Identities=15% Similarity=0.202 Sum_probs=44.9
Q ss_pred hhcCCCEEEEEEeCCcEEEEEEeEec-CcceeEEceeeEEE-ecc---------ceecceeEEEEecCCCC
Q psy9934 14 NLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEII-DGH---------CTGKLGEVLIRSLTMST 73 (158)
Q Consensus 14 ~~~~~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~~~e~~-~~~---------~~~~lg~~~iRG~~i~~ 73 (158)
.+++|+++.+.-+.+-.|.|.|.++| .---+.|+||..+- .+. .......+..||+.|.-
T Consensus 2 ~~~IG~~isLISk~~iRYeGiL~~In~~~sTi~L~nVr~fGTEgR~~~~~~ipp~~~vyd~IvFrgsDIkD 72 (74)
T cd01736 2 TPYIGSKISLISKSDIRYEGILYTINTEDSTIALKNVRSFGTEGRPTDGPEIPPSDEVYDYIVFRGSDIKD 72 (74)
T ss_pred ccccCceEEEEecCCcEEEEEEEeeccccCEEEeeeeEeecccCCCCCCCccCCCCcceeEEEEcCCcccc
Confidence 46899999999999999999999999 44558899988762 111 11234567788887754
No 90
>PF03614 Flag1_repress: Repressor of phase-1 flagellin; InterPro: IPR003223 Flagellin is the subunit which polymerises to form the filaments of bacterial flagella. The proteins in this family are transcriptional repressors of phase-1 flagellin genes.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent
Probab=95.50 E-value=0.042 Score=41.60 Aligned_cols=93 Identities=17% Similarity=0.148 Sum_probs=68.5
Q ss_pred CCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEe---------------ccceecceeEEEEecCCCCCCCCCC--
Q psy9934 17 TGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIID---------------GHCTGKLGEVLIRSLTMSTPLPCNP-- 79 (158)
Q Consensus 17 ~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~---------------~~~~~~lg~~~iRG~~i~~I~p~dP-- 79 (158)
-.-+|.|.+.||+.+.|.+-+|+.--|.+|.-+.-..+ .-.....|...|+.+.+-. ++..|
T Consensus 28 ~~~pVrvv~~ng~~f~myV~gf~~~~n~iL~p~~~~~~nRi~~plE~I~t~Ee~~~~d~~g~~ti~~d~~~~-q~~~psr 106 (165)
T PF03614_consen 28 NDIPVRVVSENGQVFCMYVSGFMSKENKILAPDPFKKENRIRLPLERISTIEELIVSDFKGRLTIHPDYFNN-QPYKPSR 106 (165)
T ss_pred cCCceEEEecCCcEEEEEEeccCcccCEEeccCCCCCCceEEEEhHHhhhHhhhccccccccEEechhhccc-ccCCCcc
Confidence 46679999999999999999999999999977653210 0012346778888887765 33444
Q ss_pred CCcccc-----cccceeeEeeccccEEEEEEEEecc
Q psy9934 80 KPFLNL-----LTGKSVICKLKWGHEYKGILVSTDG 110 (158)
Q Consensus 80 ~~~L~~-----~~~k~V~V~L~~g~~~~G~L~~~D~ 110 (158)
..|++- ..++.|.|-+.|||+++|+-.|.|.
T Consensus 107 rDFF~Icrka~qqg~sIrVyM~DgR~ieG~stGvna 142 (165)
T PF03614_consen 107 RDFFSICRKAHQQGKSIRVYMADGREIEGKSTGVNA 142 (165)
T ss_pred chHHHHHHHHHHCCCeEEEEEcCCcEEEeeecccce
Confidence 234432 1367999999999999999999884
No 91
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=95.24 E-value=0.064 Score=36.40 Aligned_cols=39 Identities=28% Similarity=0.308 Sum_probs=31.4
Q ss_pred CCchHHHhhc--CCCEEEEEEeCCcEEEEEEeEecCcceeE
Q psy9934 7 CNPKPFLNLL--TGKSVICKLKWGHEYKGILVSTDGYMNCQ 45 (158)
Q Consensus 7 ~~p~~~L~~~--~~k~V~V~l~~g~~~~G~L~~~D~~mNlv 45 (158)
-..-.||..+ .+.+|+|.|.||-.+.|.+.+||.|+=+.
T Consensus 6 nlQd~fLn~lr~~~~~VtifL~NG~~l~G~I~~fD~ftVll 46 (79)
T PRK00395 6 NLQDPFLNALRKERVPVTIYLVNGIKLQGQIESFDNFVVLL 46 (79)
T ss_pred chHHHHHHHHHHcCCCEEEEEeCCcEEEEEEEEEccEEEEE
Confidence 3445566666 56679999999999999999999998444
No 92
>COG1923 Hfq Uncharacterized host factor I protein [General function prediction only]
Probab=95.11 E-value=0.062 Score=36.14 Aligned_cols=39 Identities=31% Similarity=0.413 Sum_probs=31.2
Q ss_pred chHHHhhc--CCCEEEEEEeCCcEEEEEEeEecCcceeEEce
Q psy9934 9 PKPFLNLL--TGKSVICKLKWGHEYKGILVSTDGYMNCQLAS 48 (158)
Q Consensus 9 p~~~L~~~--~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~ 48 (158)
.-.||.++ -+.+|.|.|.||-.+.|.+.+||.|. +.|++
T Consensus 8 QD~fLn~~Rk~~i~VtIfLvNG~~L~G~V~sfD~f~-VlL~~ 48 (77)
T COG1923 8 QDPFLNALRKEKIPVTIFLVNGFKLQGQVESFDNFV-VLLKN 48 (77)
T ss_pred chHHHHHHHhcCCeEEEEEEcCEEEEEEEEeeeeEE-EEEEc
Confidence 34566665 66779999999999999999999997 44444
No 93
>cd01716 Hfq Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that modulate the stability or translation efficiency of RNA transcripts. Hfq binds preferentially to unstructured A/U-rich RNA sequences and is similar to the eukaryotic Sm proteins in both sequence and structure. Hfq forms a homo-hexameric ring similar to the heptameric ring of the Sm proteins.
Probab=94.73 E-value=0.061 Score=34.77 Aligned_cols=31 Identities=23% Similarity=0.149 Sum_probs=26.8
Q ss_pred cceeeEeeccccEEEEEEEEeccccceeecc
Q psy9934 88 GKSVICKLKWGHEYKGILVSTDGYMNCQLAS 118 (158)
Q Consensus 88 ~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~ 118 (158)
+.+|.|-|.||-.++|.+.|||+|+=+.-.+
T Consensus 11 ~~~Vtv~L~NG~~l~G~I~~fD~ftVll~~~ 41 (61)
T cd01716 11 KIPVTIYLVNGVQLKGQIESFDNFTVLLESD 41 (61)
T ss_pred CCcEEEEEeCCcEEEEEEEEEcceEEEEEEC
Confidence 4589999999999999999999998766443
No 94
>TIGR02383 Hfq RNA chaperone Hfq. This model represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria. It helps pair regulatory noncoding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA. It appears also to protect RNase E recognition sites (A/U-rich sequences with adjacent stem-loop structures) from cleavage. Being pleiotropic, it differs in some of its activities in different species. Hfq binds the non-coding regulatory RNA DsrA (see Rfam RF00014) in the few species known to have it: Escherichia coli, Shigella flexneri, Salmonella spp. In Azorhizobium caulinodans, an hfq mutant is unable to express nifA, and Hfq is called NrfA, for nif regulatory factor (see PubMed:8197116). The name hfq reflects phenomenology as a host factor for phage Q-beta RNA replication.
Probab=94.59 E-value=0.068 Score=34.56 Aligned_cols=31 Identities=23% Similarity=0.200 Sum_probs=26.7
Q ss_pred cceeeEeeccccEEEEEEEEeccccceeecc
Q psy9934 88 GKSVICKLKWGHEYKGILVSTDGYMNCQLAS 118 (158)
Q Consensus 88 ~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~ 118 (158)
+.+|.|-|.+|-.++|.+.|||+|+=|.-.+
T Consensus 15 ~~~Vti~L~nG~~l~G~I~~fD~ftVll~~~ 45 (61)
T TIGR02383 15 RIPVTVFLVNGVQLKGVIESFDNFTVLLESQ 45 (61)
T ss_pred CCcEEEEEeCCcEEEEEEEEEeeeEEEEEEC
Confidence 4589999999999999999999998766433
No 95
>PF11095 Gemin7: Gem-associated protein 7 (Gemin7); InterPro: IPR020338 Gem-associated protein 7 (Gemin7) is a component of the survival of motor neuron complex, which functions in the assembly of spliceosomal small nuclear ribonucleoproteins. Gemin7 interacts with several Sm proteins of spliceosomal small nuclear ribonucleoproteins, especially SmE []. Gem-associated protein 7 is found in the nucleoplasm, in nuclear "gems" (Gemini of Cajal bodies), and in the cytoplasm. Three transcript variants encoding the same protein have been found for this gene [].; GO: 0032797 SMN complex; PDB: 1Y96_D.
Probab=94.23 E-value=0.24 Score=33.69 Aligned_cols=60 Identities=20% Similarity=0.140 Sum_probs=44.9
Q ss_pred hHHHhhcCCCEEEEEEeCCcEEEEEEeEec-CcceeEEceeeEEEeccceecceeEEEEecCCCCC
Q psy9934 10 KPFLNLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTP 74 (158)
Q Consensus 10 ~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I 74 (158)
|.+|..+.|++|.+.|.++.++.|+..++| ...|+..+|-. .+-...+...+|.+.|+.+
T Consensus 16 Lr~l~~~~gk~v~f~l~e~t~V~a~F~a~d~~~~~f~Vs~L~-----TPlGv~~eAlLR~~DVi~~ 76 (80)
T PF11095_consen 16 LRSLLAMVGKPVEFTLHENTTVSARFGACDIDVSNFQVSNLQ-----TPLGVQPEALLRCSDVISI 76 (80)
T ss_dssp HHHHHHCTTSEEEEEEGGG-EEEEEEEEE-TTS-EEEEEEEE-----TTTTEEEEEEEEGGGEEEE
T ss_pred HHHHHHhcCCceEEEEeCCeEEEEEEEEecCchheEEhhhcC-----CCcccChhheeecCCEEEE
Confidence 567888899999999999999999999999 67777766532 1233457889999988754
No 96
>PF02237 BPL_C: Biotin protein ligase C terminal domain; InterPro: IPR003142 This C-terminal domain has an SH3-like barrel fold, the function of which is unknown. It is found associated with prokaryotic bifunctional transcriptional repressors [] and eukaryotic enzymes involved in biotin utilization [, ]. In Escherichia coli the biotin operon repressor (BirA) is a bifunctional protein. BirA acts both as the acetyl-coA carboxylase biotin holoenzyme synthetase (6.3.4.15 from EC) and as the biotin operon repressor. DNA sequence analysis of mutations indicates that the helix-turn-helix DNA binding region is located at the N terminus while mutations affecting enzyme function, although mapping over a large region, are found mainly in the central part of the protein's primary sequence [].; GO: 0006464 protein modification process; PDB: 3RUX_A 2CGH_A 3L1A_B 3L2Z_A 1HXD_A 1BIB_A 2EWN_B 1BIA_A 2EJ9_A 3FJP_A ....
Probab=94.19 E-value=0.16 Score=30.90 Aligned_cols=47 Identities=21% Similarity=0.155 Sum_probs=34.7
Q ss_pred ccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEe
Q psy9934 87 TGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIR 137 (158)
Q Consensus 87 ~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iR 137 (158)
++++|.+.+ ++..++|+..++|+.-.|+++..... .....-|.+++|
T Consensus 2 lG~~V~v~~-~~~~~~G~~~gId~~G~L~v~~~~g~---~~~i~sGdv~~r 48 (48)
T PF02237_consen 2 LGQEVRVET-GDGEIEGIAEGIDDDGALLVRTEDGS---IRTISSGDVSLR 48 (48)
T ss_dssp TTSEEEEEE-TSCEEEEEEEEEETTSEEEEEETTEE---EEEESSSEEEEE
T ss_pred CCCEEEEEE-CCeEEEEEEEEECCCCEEEEEECCCC---EEEEEEEEEEeC
Confidence 578999998 67778999999999999998765541 122344666655
No 97
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=93.76 E-value=0.12 Score=35.12 Aligned_cols=38 Identities=26% Similarity=0.269 Sum_probs=30.1
Q ss_pred cccccc--cceeeEeeccccEEEEEEEEeccccceeecce
Q psy9934 82 FLNLLT--GKSVICKLKWGHEYKGILVSTDGYMNCQLAST 119 (158)
Q Consensus 82 ~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~ 119 (158)
+|+.+. +.+|.|-|.||-.++|.+.|||+|+=|.-.+-
T Consensus 11 fLn~lr~~~~~VtifL~NG~~l~G~I~~fD~ftVll~~~g 50 (79)
T PRK00395 11 FLNALRKERVPVTIYLVNGIKLQGQIESFDNFVVLLRNTG 50 (79)
T ss_pred HHHHHHHcCCCEEEEEeCCcEEEEEEEEEccEEEEEEECC
Confidence 444443 45899999999999999999999987775443
No 98
>cd01735 LSm12_N LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.
Probab=93.24 E-value=0.25 Score=31.88 Aligned_cols=34 Identities=18% Similarity=0.258 Sum_probs=28.7
Q ss_pred cCCCEEEEEEeCCcEEEEEEeEecCcceeEEcee
Q psy9934 16 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLAST 49 (158)
Q Consensus 16 ~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 49 (158)
.+|.+|.+++..|.+++|.+.+||...++..=.+
T Consensus 4 ~iGs~V~~kTc~g~~ieGEV~afD~~tk~lIlk~ 37 (61)
T cd01735 4 SVGSQVSCRTCFEQRLQGEVVAFDYPSKMLILKC 37 (61)
T ss_pred ccccEEEEEecCCceEEEEEEEecCCCcEEEEEC
Confidence 4799999999999999999999997776664443
No 99
>PF11095 Gemin7: Gem-associated protein 7 (Gemin7); InterPro: IPR020338 Gem-associated protein 7 (Gemin7) is a component of the survival of motor neuron complex, which functions in the assembly of spliceosomal small nuclear ribonucleoproteins. Gemin7 interacts with several Sm proteins of spliceosomal small nuclear ribonucleoproteins, especially SmE []. Gem-associated protein 7 is found in the nucleoplasm, in nuclear "gems" (Gemini of Cajal bodies), and in the cytoplasm. Three transcript variants encoding the same protein have been found for this gene [].; GO: 0032797 SMN complex; PDB: 1Y96_D.
Probab=92.70 E-value=0.42 Score=32.55 Aligned_cols=60 Identities=23% Similarity=0.256 Sum_probs=44.3
Q ss_pred cccccccceeeEeeccccEEEEEEEEec-cccceeecceEEEecCeeeeecCcEEEeeCcEEEEEe
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~ 146 (158)
+|..+.+++|.+.|.++.+..|++.++| ...|+..++=. +.=| .....++|++-|+.++-
T Consensus 18 ~l~~~~gk~v~f~l~e~t~V~a~F~a~d~~~~~f~Vs~L~-TPlG----v~~eAlLR~~DVi~~~f 78 (80)
T PF11095_consen 18 SLLAMVGKPVEFTLHENTTVSARFGACDIDVSNFQVSNLQ-TPLG----VQPEALLRCSDVISISF 78 (80)
T ss_dssp HHHHCTTSEEEEEEGGG-EEEEEEEEE-TTS-EEEEEEEE-TTTT----EEEEEEEEGGGEEEEEE
T ss_pred HHHHhcCCceEEEEeCCeEEEEEEEEecCchheEEhhhcC-CCcc----cChhheeecCCEEEEEe
Confidence 4566789999999999999999999999 55677655544 2223 34688999999999874
No 100
>cd01736 LSm14_N LSm14 (also known as RAP55) belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold, containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet, that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm14 has an uncharacterized C-terminal domain containing a conserved DFDF box. In Xenopus laevis, LSm14 is an oocyte-specific constituent of ribonucleoprotein particles.
Probab=92.65 E-value=0.48 Score=31.79 Aligned_cols=61 Identities=16% Similarity=0.210 Sum_probs=45.5
Q ss_pred cccccceeeEeeccccEEEEEEEEec-cccceeecceEEEe-cCe---------eeeecCcEEEeeCcEEEE
Q psy9934 84 NLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEII-DGH---------CTGKLGEVLIRCNNILYI 144 (158)
Q Consensus 84 ~~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNlvL~~~~e~~-~~~---------~~~~~g~~~iRG~~I~~i 144 (158)
.+++++++.+..+.+-.|.|+|.++| +---+.|.++..+- +|. ...-++.++.||+.|.-+
T Consensus 2 ~~~IG~~isLISk~~iRYeGiL~~In~~~sTi~L~nVr~fGTEgR~~~~~~ipp~~~vyd~IvFrgsDIkDL 73 (74)
T cd01736 2 TPYIGSKISLISKSDIRYEGILYTINTEDSTIALKNVRSFGTEGRPTDGPEIPPSDEVYDYIVFRGSDIKDL 73 (74)
T ss_pred ccccCceEEEEecCCcEEEEEEEeeccccCEEEeeeeEeecccCCCCCCCccCCCCcceeEEEEcCCccccc
Confidence 35789999999999999999999999 44667788877551 111 123467889999887543
No 101
>PRK14638 hypothetical protein; Provisional
Probab=92.47 E-value=0.24 Score=37.46 Aligned_cols=45 Identities=22% Similarity=0.102 Sum_probs=34.1
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEc
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLA 47 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 47 (158)
|+|.-.-|+ ..+..+.|++|.|++++++.+.|+|.++|.- ++.|.
T Consensus 81 SSPGldRpL~~~~~f~r~~G~~v~V~~~~~k~~~G~L~~~~~~-~i~l~ 128 (150)
T PRK14638 81 SSPGLDRPLRGPKDYVRFTGKLAKIVTKDGKTFIGRIESFVDG-TITIS 128 (150)
T ss_pred eCCCCCCCCCCHHHHHHhCCCEEEEEECCCcEEEEEEEEEeCC-EEEEE
Confidence 455444444 4566779999999999999999999999963 35443
No 102
>PRK14091 RNA-binding protein Hfq; Provisional
Probab=91.49 E-value=0.56 Score=36.04 Aligned_cols=64 Identities=20% Similarity=0.185 Sum_probs=42.0
Q ss_pred CCchHHHhhc--CCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCCCCCCCc
Q psy9934 7 CNPKPFLNLL--TGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPCNPKPF 82 (158)
Q Consensus 7 ~~p~~~L~~~--~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p~dP~~~ 82 (158)
-..-.||..+ ...+|+|.|.||-.+.|.+.+||.|.=|...+.. .-+|-=.-|+.+.|..|..+
T Consensus 91 nlQd~fLn~~rk~k~~VtvfL~NG~~l~G~I~~fD~ftvlL~~~gk------------qqLIYKHAISTI~P~~~v~~ 156 (165)
T PRK14091 91 LLQDVFLSAVRDSGEPVTMFLVNGVMLQGEIAAFDLFCMLLERDGY------------VQLVYKHAVSTVQPAGPVDL 156 (165)
T ss_pred ccHHHHHHHHHhcCCcEEEEEecCcEEEEEEEEEcceEEEEEeCCc------------EEEEEEeEEEEEccCCCccc
Confidence 3444566666 5566999999999999999999999844432322 12444445566666555443
No 103
>PRK14639 hypothetical protein; Provisional
Probab=91.45 E-value=0.37 Score=36.00 Aligned_cols=45 Identities=22% Similarity=0.189 Sum_probs=34.4
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEc
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLA 47 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 47 (158)
|+|.-.-|+ ..+..++|++|.|++.+++.+.|+|.++|+- ++.|.
T Consensus 69 SSPGl~RpL~~~~~f~r~~G~~v~v~l~~~~~~~G~L~~~~~~-~i~l~ 116 (140)
T PRK14639 69 SSPGLERKLSKIEHFAKSIGELVKITTNEKEKFEGKIVSVDDE-NITLE 116 (140)
T ss_pred eCCCCCCcCCCHHHHHHhCCCEEEEEECCCcEEEEEEEEEeCC-EEEEE
Confidence 455444444 5566779999999999999999999999973 45553
No 104
>PRK02001 hypothetical protein; Validated
Probab=91.36 E-value=0.39 Score=36.48 Aligned_cols=44 Identities=20% Similarity=0.179 Sum_probs=34.0
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEE
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQL 46 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL 46 (158)
|+|.-.-|+ ..+..++|+.|.|.+.+++.+.|+|.++|+- +++|
T Consensus 71 SSPGldRpL~~~~~f~r~~G~~v~V~l~~~~~~~G~L~~~~~~-~i~l 117 (152)
T PRK02001 71 GSAGLTSPLKVPRQYKKNIGRELEVLTKNGKKIEGELKSADEN-DITL 117 (152)
T ss_pred eCCCCCCcCCCHHHHHHhCCCEEEEEECCCCEEEEEEEEEeCC-EEEE
Confidence 555544454 4566679999999999999999999999964 3444
No 105
>PF06372 Gemin6: Gemin6 protein; InterPro: IPR009422 This family consists of several mammalian Gemin6 proteins. The exact function of Gemin6 is unknown but it has been found to form part of the Survival of motor neuron complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles [].; GO: 0000245 spliceosome assembly, 0005634 nucleus; PDB: 1Y96_A.
Probab=90.92 E-value=0.5 Score=36.45 Aligned_cols=61 Identities=23% Similarity=0.177 Sum_probs=40.0
Q ss_pred CCchHHHhhcCCCEEEEEEeCCcEEEEEEeEec-CcceeEEceeeEEEeccceecceeEEEEecCCCCCC
Q psy9934 7 CNPKPFLNLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 7 ~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~ 75 (158)
.+|+ .+..|++|.|.|.+.| +++.|.|..+| -.-|+||-+-.|- + . ..--+|-|.+|..+.
T Consensus 7 ~~p~-~~~~yv~K~VkV~~~d-~~~~G~v~TiDPVS~siVL~~~~e~--~--~--~sv~~I~ghaVk~ve 68 (166)
T PF06372_consen 7 KSPL-EWQDYVGKEVKVTLSD-KEYKGWVYTIDPVSASIVLVNFQED--G--K--RSVKVIMGHAVKSVE 68 (166)
T ss_dssp S-HH-HHHCTTT-EEEEEETT-EEEEEEEEEE-TTT--EEEEEE-TT--S-----EEEEEE-GGGEEEEE
T ss_pred CCHH-HHHHhhCcEEEEEEec-cEEEEEEEEeCCCCCeEEEEEcccC--C--c--eeEEEEEccceEEEE
Confidence 4555 4578999999999999 99999999999 5788898865541 1 1 123566777777654
No 106
>PF06372 Gemin6: Gemin6 protein; InterPro: IPR009422 This family consists of several mammalian Gemin6 proteins. The exact function of Gemin6 is unknown but it has been found to form part of the Survival of motor neuron complex. The SMN complex plays a key role in the biogenesis of spliceosomal small nuclear ribonucleoproteins (snRNPs) and other ribonucleoprotein particles [].; GO: 0000245 spliceosome assembly, 0005634 nucleus; PDB: 1Y96_A.
Probab=90.65 E-value=0.38 Score=37.08 Aligned_cols=61 Identities=26% Similarity=0.287 Sum_probs=43.8
Q ss_pred ccccccceeeEeeccccEEEEEEEEec-cccceeecceEEEecCeeeeecCcEEEeeCcEEEEEeCCCC
Q psy9934 83 LNLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRGAEEG 150 (158)
Q Consensus 83 L~~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~~~~~ 150 (158)
+..|++|+|.|.+.+ +++.|.|..+| -.-|++|-+..| +++ . ..-+|-|..|..|...++.
T Consensus 12 ~~~yv~K~VkV~~~d-~~~~G~v~TiDPVS~siVL~~~~e--~~~--~--sv~~I~ghaVk~vevl~~~ 73 (166)
T PF06372_consen 12 WQDYVGKEVKVTLSD-KEYKGWVYTIDPVSASIVLVNFQE--DGK--R--SVKVIMGHAVKSVEVLSEG 73 (166)
T ss_dssp HHCTTT-EEEEEETT-EEEEEEEEEE-TTT--EEEEEE-T--TS---E--EEEEE-GGGEEEEEEEE--
T ss_pred HHHhhCcEEEEEEec-cEEEEEEEEeCCCCCeEEEEEccc--CCc--e--eEEEEEccceEEEEEccCC
Confidence 567899999999999 99999999999 578999987665 332 2 3478899999999888764
No 107
>PRK14644 hypothetical protein; Provisional
Probab=89.95 E-value=0.73 Score=34.30 Aligned_cols=45 Identities=18% Similarity=0.025 Sum_probs=34.4
Q ss_pred CCCCCCCchH--HHhhcCCCEEEEEEeCC----cEEEEEEeEecCcceeEEc
Q psy9934 2 STPLPCNPKP--FLNLLTGKSVICKLKWG----HEYKGILVSTDGYMNCQLA 47 (158)
Q Consensus 2 ~~~~~~~p~~--~L~~~~~k~V~V~l~~g----~~~~G~L~~~D~~mNlvL~ 47 (158)
|+|.-.-|+. .+..++|+.|.|++++. +.+.|.|.++|+. ++.|.
T Consensus 67 SSPGldRpL~~~~f~r~~G~~v~V~l~~~~~~~~~~~G~L~~v~~~-~i~l~ 117 (136)
T PRK14644 67 SSPGFDMDYETDELENHIGEIIDVSLNKEVNKTDFITGELLENNPE-TITLK 117 (136)
T ss_pred ECCCCCCCCCHHHHHHhCCCeEEEEEccCcCCeEEEEEEEEEEeCC-EEEEE
Confidence 4554444544 47788999999999987 9999999999973 45554
No 108
>COG1923 Hfq Uncharacterized host factor I protein [General function prediction only]
Probab=89.93 E-value=0.55 Score=31.63 Aligned_cols=37 Identities=27% Similarity=0.283 Sum_probs=28.9
Q ss_pred ccccc--ccceeeEeeccccEEEEEEEEeccccceeecc
Q psy9934 82 FLNLL--TGKSVICKLKWGHEYKGILVSTDGYMNCQLAS 118 (158)
Q Consensus 82 ~L~~~--~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~ 118 (158)
||..+ .+.+|.|-|.||-..+|.+.|||+|.=|.=++
T Consensus 11 fLn~~Rk~~i~VtIfLvNG~~L~G~V~sfD~f~VlL~~~ 49 (77)
T COG1923 11 FLNALRKEKIPVTIFLVNGFKLQGQVESFDNFVVLLKNT 49 (77)
T ss_pred HHHHHHhcCCeEEEEEEcCEEEEEEEEeeeeEEEEEEcC
Confidence 44443 35589999999999999999999997655333
No 109
>cd01734 YlxS_C YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix and a five-stranded beta-sheet. This CD represents the C-terminal domain which has a fold similar to the Sm fold of proteins like Sm-D3.
Probab=89.42 E-value=0.84 Score=30.78 Aligned_cols=40 Identities=33% Similarity=0.381 Sum_probs=30.5
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEe---CC-cEEEEEEeEecCc
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLK---WG-HEYKGILVSTDGY 41 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~---~g-~~~~G~L~~~D~~ 41 (158)
|+|.-.-|| ..+..++|+.|.|+++ +| +.+.|.|.++|+-
T Consensus 6 SSPGl~RpL~~~~~~~r~~G~~v~v~~~~~~~~~~~~~G~L~~~~~~ 52 (83)
T cd01734 6 SSPGAERPLKKEADFERAVGKYVHVKLYQPIDGQKEFEGTLLGVDDD 52 (83)
T ss_pred cCCCCCCcCCCHHHHHHhCCCEEEEEEEcccCCeEEEEEEEEeEeCC
Confidence 555555555 4556669999999998 56 6899999999973
No 110
>PF02576 DUF150: Uncharacterised BCR, YhbC family COG0779; InterPro: IPR003728 The RimP protein facilitates maturation of the 30S ribsomal subunit, and is required for the efficient production of translationally competent ribosmomes [].; PDB: 1IB8_A.
Probab=88.50 E-value=0.57 Score=34.66 Aligned_cols=39 Identities=31% Similarity=0.382 Sum_probs=26.9
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEe----CCcEEEEEEeEecC
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLK----WGHEYKGILVSTDG 40 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~----~g~~~~G~L~~~D~ 40 (158)
|+|.-.-|+ ..+..++|+.|.|+++ +.+++.|+|.++|+
T Consensus 68 SSPG~~r~L~~~~~~~~~iG~~v~v~~~~~~~~~~~~~G~L~~~~~ 113 (141)
T PF02576_consen 68 SSPGIDRPLKSPRDFERFIGRKVKVKLKQPVNGRKEFEGKLLEVDE 113 (141)
T ss_dssp E--SSSS--SSHHHHHHH-SEEEEEE-SS-SSS-SEEEEEEEEEET
T ss_pred eCCCCCCcCCCHHHHHHhcCCeEEEEEeccCCCcEEEEEEEEEEeC
Confidence 566666666 5778889999999994 55799999999997
No 111
>cd01735 LSm12_N LSm12 belongs to a family of Sm-like proteins that associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet that associates with other Sm proteins to form hexameric and heptameric ring structures. In addition to the N-terminal Sm-like domain, LSm12 has a novel methyltransferase domain.
Probab=87.49 E-value=1.2 Score=28.70 Aligned_cols=35 Identities=17% Similarity=0.267 Sum_probs=30.0
Q ss_pred ccceeeEeeccccEEEEEEEEeccccceeecceEE
Q psy9934 87 TGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEE 121 (158)
Q Consensus 87 ~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e 121 (158)
+|..|.+++..|.+++|.+.+||.-.++..-.|.+
T Consensus 5 iGs~V~~kTc~g~~ieGEV~afD~~tk~lIlk~~s 39 (61)
T cd01735 5 VGSQVSCRTCFEQRLQGEVVAFDYPSKMLILKCPS 39 (61)
T ss_pred cccEEEEEecCCceEEEEEEEecCCCcEEEEECcc
Confidence 58899999999999999999999888877665544
No 112
>PF10842 DUF2642: Protein of unknown function (DUF2642); InterPro: IPR020139 This entry contains proteins with no known function.
Probab=87.35 E-value=1.3 Score=29.07 Aligned_cols=57 Identities=26% Similarity=0.450 Sum_probs=41.1
Q ss_pred CCCC--CCcccccccceeeEeeccccEEEEEEEEec-cccceeecceEEEecCeeeeecCcEEEeeCcEEEEEe
Q psy9934 76 PCNP--KPFLNLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEIIDGHCTGKLGEVLIRCNNILYIRG 146 (158)
Q Consensus 76 p~dP--~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNlvL~~~~e~~~~~~~~~~g~~~iRG~~I~~i~~ 146 (158)
..|| ...|++++|+++.|.+..|.. +|+|.+.. +|. +|+.+ + ..+|||=..|++|.|
T Consensus 7 ~vdpyvyq~lq~liG~~vvV~T~~g~v-~G~L~~V~pDhI--vl~~~-----~------~~~~IR~~~IV~v~p 66 (66)
T PF10842_consen 7 LVDPYVYQTLQSLIGQRVVVQTTRGSV-RGILVDVKPDHI--VLEEN-----G------TPFFIRIAQIVWVMP 66 (66)
T ss_pred ccCHHHHHHHHHhcCCEEEEEEcCCcE-EEEEEeecCCEE--EEEeC-----C------cEEEEEeeeEEEEcC
Confidence 3455 356889999999999977765 99999886 333 33222 1 467899999988754
No 113
>PRK14642 hypothetical protein; Provisional
Probab=86.90 E-value=1.2 Score=35.23 Aligned_cols=44 Identities=20% Similarity=0.297 Sum_probs=32.9
Q ss_pred CCCCCCCchHH---HhhcCCCEEEEEEe-------------CCcEEEEEEeEecCcceeEE
Q psy9934 2 STPLPCNPKPF---LNLLTGKSVICKLK-------------WGHEYKGILVSTDGYMNCQL 46 (158)
Q Consensus 2 ~~~~~~~p~~~---L~~~~~k~V~V~l~-------------~g~~~~G~L~~~D~~mNlvL 46 (158)
|+|.-.-||.. +..++|+.|.|+|+ +.+.++|+|.++|+. ++.|
T Consensus 81 SSPGldRPLk~~~df~rfiG~~V~V~l~~pi~~~~~~~~~~~rk~f~G~L~~~~~~-~i~l 140 (197)
T PRK14642 81 SSPGIDRPLRHEQDFERFAGEVIDITLKAPIGAAAGGQVSANRKKFRGTLERAESG-GWQI 140 (197)
T ss_pred eCCCCCCCCCCHHHHHHhCCCeEEEEEeccccccccccccCCceEEEEEEEEEcCC-EEEE
Confidence 45555555544 55569999999998 779999999999964 3444
No 114
>PRK14640 hypothetical protein; Provisional
Probab=86.86 E-value=1.2 Score=33.57 Aligned_cols=45 Identities=20% Similarity=0.310 Sum_probs=33.3
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEE----eCCcEEEEEEeEecCcceeEEc
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKL----KWGHEYKGILVSTDGYMNCQLA 47 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l----~~g~~~~G~L~~~D~~mNlvL~ 47 (158)
|+|.-.-|+ ..+..++|+.|.|++ .+.+.+.|+|.++|+. ++.|.
T Consensus 78 SSPGl~RpL~~~~~f~r~~G~~v~V~l~~~~~~~k~~~G~L~~v~~~-~v~l~ 129 (152)
T PRK14640 78 SSPGLDRPLFKVAQFEKYVGQEAAVTLRMATNNRRKFKGVIKAVQGD-MITLT 129 (152)
T ss_pred eCCCCCCcCCCHHHHHHhCCCeEEEEEecccCCceEEEEEEEEEeCC-EEEEE
Confidence 555444454 456677999999999 5679999999999974 35543
No 115
>PRK14633 hypothetical protein; Provisional
Probab=86.78 E-value=1.3 Score=33.46 Aligned_cols=45 Identities=24% Similarity=0.214 Sum_probs=33.0
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEe----CCcEEEEEEeEecCcceeEEc
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLK----WGHEYKGILVSTDGYMNCQLA 47 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~----~g~~~~G~L~~~D~~mNlvL~ 47 (158)
|+|.-.-|| ..+..++|++|.|+++ +.+++.|+|.++++. ++.|.
T Consensus 75 SSPGldRpL~~~~~f~r~~G~~v~V~~~~~~~~~~~~~G~L~~v~~~-~i~l~ 126 (150)
T PRK14633 75 SSPGMNRQIFNIIQAQALVGFNVKAVTLAPVGSQTKFKGVLERVEGN-NVILN 126 (150)
T ss_pred eCCCCCCCCCCHHHHHHhCCCeEEEEEecccCCcEEEEEEEEEEeCC-EEEEE
Confidence 555555555 4556669999999994 679999999999974 45553
No 116
>PRK14645 hypothetical protein; Provisional
Probab=86.74 E-value=1.2 Score=33.91 Aligned_cols=43 Identities=16% Similarity=0.277 Sum_probs=32.0
Q ss_pred CCCCCCCchH---HHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEE
Q psy9934 2 STPLPCNPKP---FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQL 46 (158)
Q Consensus 2 ~~~~~~~p~~---~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL 46 (158)
|+|...-||. .+..++|++|.|.+ +++++.|+|.++|+.. +.|
T Consensus 83 SSPGldRpL~~~~df~r~~G~~v~v~~-~~k~~~G~L~~~~d~~-i~l 128 (154)
T PRK14645 83 ESPGPKRPLFTARHFERFAGLKAKVRG-PGENFTGRIKAVSGDQ-VTF 128 (154)
T ss_pred eCCCCCCCCCCHHHHHHhCCCEEEEEc-CCeEEEEEEEEEeCCE-EEE
Confidence 5565555554 55666999999986 7899999999999743 444
No 117
>PF10842 DUF2642: Protein of unknown function (DUF2642); InterPro: IPR020139 This entry contains proteins with no known function.
Probab=86.68 E-value=3.1 Score=27.27 Aligned_cols=51 Identities=24% Similarity=0.311 Sum_probs=36.8
Q ss_pred HHHhhcCCCEEEEEEeCCcEEEEEEeEec-CcceeEEceeeEEEeccceecceeEEEEecCCCCCC
Q psy9934 11 PFLNLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 11 ~~L~~~~~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~ 75 (158)
..|++++|++|.|++..|.. +|+|.++- +|. +|+.. -...|||=..|..+.
T Consensus 14 q~lq~liG~~vvV~T~~g~v-~G~L~~V~pDhI--vl~~~-----------~~~~~IR~~~IV~v~ 65 (66)
T PF10842_consen 14 QTLQSLIGQRVVVQTTRGSV-RGILVDVKPDHI--VLEEN-----------GTPFFIRIAQIVWVM 65 (66)
T ss_pred HHHHHhcCCEEEEEEcCCcE-EEEEEeecCCEE--EEEeC-----------CcEEEEEeeeEEEEc
Confidence 56899999999999987765 99999987 443 44432 134677777666554
No 118
>PRK14638 hypothetical protein; Provisional
Probab=84.43 E-value=1.2 Score=33.72 Aligned_cols=35 Identities=20% Similarity=0.068 Sum_probs=28.5
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccccceeec
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLA 117 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~ 117 (158)
-+..++|+.|.|++++++.++|+|.++|+- ++.|.
T Consensus 94 ~f~r~~G~~v~V~~~~~k~~~G~L~~~~~~-~i~l~ 128 (150)
T PRK14638 94 DYVRFTGKLAKIVTKDGKTFIGRIESFVDG-TITIS 128 (150)
T ss_pred HHHHhCCCEEEEEECCCcEEEEEEEEEeCC-EEEEE
Confidence 455788999999999999999999999963 34443
No 119
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=84.34 E-value=2.7 Score=31.99 Aligned_cols=44 Identities=27% Similarity=0.443 Sum_probs=34.5
Q ss_pred CCCC---CCCchHHHhhcCCCEEEEEE----eCCcEEEEEEeEecCcceeEE
Q psy9934 2 STPL---PCNPKPFLNLLTGKSVICKL----KWGHEYKGILVSTDGYMNCQL 46 (158)
Q Consensus 2 ~~~~---~~~p~~~L~~~~~k~V~V~l----~~g~~~~G~L~~~D~~mNlvL 46 (158)
|+|. |-.-.+.+..++|+.|.|+| .+.+.+.|+|.++|+-. +++
T Consensus 80 SSPGldRpL~~~~~f~r~~G~~Vkv~l~~~~~~~k~~~G~i~~~d~~~-v~~ 130 (153)
T COG0779 80 SSPGLDRPLKTAEHFARFIGEKVKVKLRLPIEGRKKFEGKIVAVDGET-VTL 130 (153)
T ss_pred eCCCCCCCcCCHHHHHHhcCcEEEEEEecccCCceEEEEEEEEEcCCe-EEE
Confidence 4554 33445677778999999999 78999999999999776 444
No 120
>PRK14634 hypothetical protein; Provisional
Probab=83.19 E-value=2.4 Score=32.18 Aligned_cols=44 Identities=16% Similarity=0.169 Sum_probs=32.2
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeCC----cEEEEEEeEecCcceeEE
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKWG----HEYKGILVSTDGYMNCQL 46 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~g----~~~~G~L~~~D~~mNlvL 46 (158)
|+|...-|| ..+..++|++|.|++++. +.+.|+|.++|+- ++.|
T Consensus 81 SSPGldRpL~~~~~f~r~~G~~V~V~l~~~~~~~k~~~G~L~~~~~~-~v~l 131 (155)
T PRK14634 81 SSPGIGDQLSSDRDFQTFRGFPVEVSHRDDDGSEQRLEGLLLERNED-HLQI 131 (155)
T ss_pred eCCCCCCcCCCHHHHHHhCCCeEEEEEecCCCCeEEEEEEEEEEeCC-EEEE
Confidence 555444454 456667999999999743 8999999999963 3544
No 121
>PRK14636 hypothetical protein; Provisional
Probab=82.82 E-value=2.4 Score=32.91 Aligned_cols=44 Identities=23% Similarity=0.277 Sum_probs=32.1
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEe---CC-cEEEEEEeEecCcceeEE
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLK---WG-HEYKGILVSTDGYMNCQL 46 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~---~g-~~~~G~L~~~D~~mNlvL 46 (158)
|+|.-.-|+ ..+..++|++|.|+++ +| +++.|+|.++|+- ++.|
T Consensus 79 SSPGldRpL~~~~df~r~~G~~V~V~l~~~~~g~k~~~G~L~~v~~~-~v~l 129 (176)
T PRK14636 79 SSPGIDRPLTRPKDFADWAGHEARIALSEPLDGRKQFRGELKGIDGD-TVTI 129 (176)
T ss_pred eCCCCCCCCCCHHHHHHhCCCeEEEEEecccCCeEEEEEEEEEEeCC-EEEE
Confidence 455444444 4566779999999998 55 7999999999863 3444
No 122
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=82.15 E-value=2.6 Score=31.72 Aligned_cols=39 Identities=31% Similarity=0.462 Sum_probs=31.0
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEE----eCCcEEEEEEeEecC
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKL----KWGHEYKGILVSTDG 40 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l----~~g~~~~G~L~~~D~ 40 (158)
|+|.-.-|+ ..+..++|+.|.|++ .+++.+.|+|.++|+
T Consensus 79 SSPGi~RpL~~~~~f~r~~G~~v~V~~~~~~~~~~~~~G~L~~~~~ 124 (154)
T PRK00092 79 SSPGLDRPLKKARDFRRFIGREVKVKLYEPIDGRKKFQGILLAVDG 124 (154)
T ss_pred eCCCCCCcCCCHHHHHHhCCCeEEEEEEcccCCceEEEEEEEEeeC
Confidence 556555554 557777999999997 567999999999997
No 123
>PRK14632 hypothetical protein; Provisional
Probab=81.87 E-value=2.8 Score=32.32 Aligned_cols=45 Identities=20% Similarity=0.283 Sum_probs=33.0
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeC-------CcEEEEEEeEecCcceeEEc
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKW-------GHEYKGILVSTDGYMNCQLA 47 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~-------g~~~~G~L~~~D~~mNlvL~ 47 (158)
|+|.-.-|| ..+..++|+.|.|++++ .+++.|+|.++|+- ++.|.
T Consensus 79 SSPGldRpL~~~~~f~r~iG~~V~V~l~~~~~~~~g~k~~~G~L~~v~~~-~i~l~ 133 (172)
T PRK14632 79 SSPGLERPFFRAEQMSPYVGRQIELTLIDPTPEWPGRRKFRGELLAVEGD-TVVLR 133 (172)
T ss_pred eCCCCCCcCCCHHHHHHhCCCEEEEEEeccccccCCceEEEEEEEEEeCC-EEEEE
Confidence 455444444 45667799999999986 58999999999953 45543
No 124
>PRK14647 hypothetical protein; Provisional
Probab=81.57 E-value=3.1 Score=31.64 Aligned_cols=39 Identities=18% Similarity=0.112 Sum_probs=30.1
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEe---------CCcEEEEEEeEecC
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLK---------WGHEYKGILVSTDG 40 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~---------~g~~~~G~L~~~D~ 40 (158)
|+|.-.-|| ..+..++|++|.|+++ +.+++.|+|.++|.
T Consensus 80 SSPG~~RpL~~~~~f~r~~G~~v~V~l~~~~~~~~~~~~~~~~G~L~~~~~ 130 (159)
T PRK14647 80 SSPGLDRPLKKEADYERYAGRLVKVRTFELLADEAGNKRKTFLGELEGLAD 130 (159)
T ss_pred cCCCCCCcCCCHHHHHHhCCcEEEEEEeccccccccCCceEEEEEEEeecC
Confidence 556545554 4566679999999996 35999999999995
No 125
>PRK02001 hypothetical protein; Validated
Probab=80.95 E-value=1.9 Score=32.72 Aligned_cols=35 Identities=23% Similarity=0.211 Sum_probs=28.5
Q ss_pred CcccccccceeeEeeccccEEEEEEEEeccccceee
Q psy9934 81 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQL 116 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL 116 (158)
.-+..++|+.|.|++.+++.+.|+|.++|+- ++.|
T Consensus 83 ~~f~r~~G~~v~V~l~~~~~~~G~L~~~~~~-~i~l 117 (152)
T PRK02001 83 RQYKKNIGRELEVLTKNGKKIEGELKSADEN-DITL 117 (152)
T ss_pred HHHHHhCCCEEEEEECCCCEEEEEEEEEeCC-EEEE
Confidence 3456788999999999999999999999964 3444
No 126
>PRK14639 hypothetical protein; Provisional
Probab=80.78 E-value=2 Score=32.09 Aligned_cols=35 Identities=23% Similarity=0.256 Sum_probs=28.8
Q ss_pred CcccccccceeeEeeccccEEEEEEEEeccccceee
Q psy9934 81 PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQL 116 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL 116 (158)
.-+....|+.|.|++.+++.+.|+|.++|+ -++.|
T Consensus 81 ~~f~r~~G~~v~v~l~~~~~~~G~L~~~~~-~~i~l 115 (140)
T PRK14639 81 EHFAKSIGELVKITTNEKEKFEGKIVSVDD-ENITL 115 (140)
T ss_pred HHHHHhCCCEEEEEECCCcEEEEEEEEEeC-CEEEE
Confidence 345678899999999999999999999997 34444
No 127
>PRK14646 hypothetical protein; Provisional
Probab=80.01 E-value=3.8 Score=31.08 Aligned_cols=45 Identities=13% Similarity=0.060 Sum_probs=32.9
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeCC----cEEEEEEeEecCcceeEEc
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKWG----HEYKGILVSTDGYMNCQLA 47 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~g----~~~~G~L~~~D~~mNlvL~ 47 (158)
|+|.-.-|| ..+..++|++|.|++++. +.+.|+|.++|+- ++.|.
T Consensus 81 SSPGldRpL~~~~df~r~~G~~v~V~l~~~~~~~~~~~G~L~~~~~~-~v~l~ 132 (155)
T PRK14646 81 SSQGVSDELTSERDFKTFKGFPVNVELNQKNSKIKFLNGLLYEKSKD-YLAIN 132 (155)
T ss_pred cCCCCCCcCCCHHHHHHhCCCEEEEEEecCcCCeEEEEEEEEEEeCC-EEEEE
Confidence 555444454 456677999999999753 7889999999974 45553
No 128
>PRK14643 hypothetical protein; Provisional
Probab=79.19 E-value=4 Score=31.29 Aligned_cols=45 Identities=13% Similarity=0.006 Sum_probs=33.2
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeC----CcEEEEEEeEecC-cceeEE
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKW----GHEYKGILVSTDG-YMNCQL 46 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~----g~~~~G~L~~~D~-~mNlvL 46 (158)
|+|.-.-|+ ..+..++|++|.|+++. .+.+.|+|.++|. ...+.|
T Consensus 85 SSPGleRpL~~~~df~r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~~~~l~l 137 (164)
T PRK14643 85 SSSGIEKQIRSQEELVKALNQWVYVQLNNEIKKVKEFEGYVTKYNVNTNTFRF 137 (164)
T ss_pred cCCCCCCCCCCHHHHHHhcCCeEEEEEecccCCceEEEEEEEEEeCCcEEEEE
Confidence 555444454 46677899999999976 5999999999995 444443
No 129
>PRK14637 hypothetical protein; Provisional
Probab=78.57 E-value=3.9 Score=30.90 Aligned_cols=45 Identities=16% Similarity=0.181 Sum_probs=31.2
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeCCcEE-EEEEeEecCcceeEEc
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKWGHEY-KGILVSTDGYMNCQLA 47 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~g~~~-~G~L~~~D~~mNlvL~ 47 (158)
|+|.-.-|+ ..+..++|++|.|++.+.+.+ .|+|.++|+- ++.|.
T Consensus 79 SSPGldRpL~~~~~f~r~~G~~V~V~l~~~~~~~~G~L~~~~d~-~v~l~ 127 (151)
T PRK14637 79 SSPGIERVIKNAAEFSIFVGETVKVWFECTGQWQVGTIAEADET-CLVLT 127 (151)
T ss_pred eCCCCCCCCCCHHHHHHhCCCEEEEEECCCCcEEEEEEEEEeCC-EEEEE
Confidence 455444444 456667999999999544556 7999999964 34443
No 130
>PRK14631 hypothetical protein; Provisional
Probab=77.57 E-value=4.6 Score=31.25 Aligned_cols=38 Identities=24% Similarity=0.245 Sum_probs=29.6
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEe----CCcEEEEEEeEec
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLK----WGHEYKGILVSTD 39 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~----~g~~~~G~L~~~D 39 (158)
|+|.-.-|| ..+..++|+.|.|+++ +.+.+.|+|.++|
T Consensus 98 SSPGldRpL~~~~df~r~~G~~V~V~l~~~~~~~k~~~G~L~~v~ 142 (174)
T PRK14631 98 SSPGWDRPFFQLEQLQGYIGQQVALRLIAAVENRRKFQAKLLAVD 142 (174)
T ss_pred eCCCCCCcCCCHHHHHHhCCCeEEEEEecccCCceEEEEEEEEee
Confidence 455444444 5667779999999996 4599999999998
No 131
>KOG1073|consensus
Probab=76.68 E-value=5 Score=34.62 Aligned_cols=63 Identities=16% Similarity=0.196 Sum_probs=48.4
Q ss_pred HhhcCCCEEEEEEeCCcEEEEEEeEec-CcceeEEceeeEE-Eecc---------ceecceeEEEEecCCCCCC
Q psy9934 13 LNLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEI-IDGH---------CTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 13 L~~~~~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~~~e~-~~~~---------~~~~lg~~~iRG~~i~~I~ 75 (158)
...|+|++|.+.=|..-.|+|.|.-+| .--=|-|.+|.-. ..+. .......|+.||+.|+-+.
T Consensus 4 ~t~yIGS~ISLISk~DIRYEGILy~in~qdSTlgLqnVRsfGTEgRk~~~pq~p~~~kVy~YIlFRGSDIKDL~ 77 (361)
T KOG1073|consen 4 VTSYIGSFISLISKNDIRYEGILYTINLQDSTLGLQNVRSFGTEGRKTDGPQVPPDDKVYDYILFRGSDIKDLI 77 (361)
T ss_pred ccccccceeEEeecccceeeeEEEeccccccceehhheeecccccCCCCCCcCCCCccceeeEEecCcccceee
Confidence 457899999999999999999999999 5566888887544 1111 0115678999999999654
No 132
>PRK14641 hypothetical protein; Provisional
Probab=76.06 E-value=4.8 Score=31.16 Aligned_cols=38 Identities=21% Similarity=0.190 Sum_probs=28.8
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeC----CcEEEEEEeEec
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKW----GHEYKGILVSTD 39 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~----g~~~~G~L~~~D 39 (158)
|+|.-.-|| ..+..++|+.|.|++++ .+.+.|+|.++|
T Consensus 85 SSPGldRpL~~~~~f~r~~G~~V~V~l~~~~~~~~~~~G~L~~~~ 129 (173)
T PRK14641 85 SSPGLGEPIILPRQYGRHVGRLLRVTYRDEEGSEHEVTGHLQEVS 129 (173)
T ss_pred eCCCCCCcCCCHHHHHHhCCCEEEEEEecccCCeEEEEEEEEeee
Confidence 455444444 45667799999999976 568999999995
No 133
>PF07073 ROF: Modulator of Rho-dependent transcription termination (ROF); InterPro: IPR009778 This family consists of several bacterial modulator of Rho-dependent transcription termination (ROF) proteins. ROF binds transcription termination factor Rho and inhibits Rho-dependent termination in vivo [].; PDB: 1SG5_A.
Probab=69.51 E-value=4 Score=27.69 Aligned_cols=63 Identities=22% Similarity=0.191 Sum_probs=29.5
Q ss_pred hcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCCCCCCCccc
Q psy9934 15 LLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPCNPKPFLN 84 (158)
Q Consensus 15 ~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p~dP~~~L~ 84 (158)
-.-+.+|.++|+||..+.|+ +.|-..|- +=.|..- -...-+...||=+.|..+.+..|.|.++
T Consensus 14 C~~~~~v~L~l~dG~~~~g~--A~dt~~~~---~k~E~L~--l~~~~~~~~i~Ld~I~~~~al~~nPhF~ 76 (80)
T PF07073_consen 14 CMYRYPVKLTLKDGEQIEGK--ALDTRTNA---KKEECLV--LEQDGGEQEIRLDQIASMSALTDNPHFG 76 (80)
T ss_dssp HTTTT-EEEE-TTT--EEES--S-EEE------SSS-EEE--EEETTEEEEESTT--SEEE----ETTTE
T ss_pred HhcCCeEEEEEeCCCEEEEE--EEEEEEec---CceEEEE--EecCCcEEEEEhhheeeeeecCCCCeee
Confidence 34678999999999999997 55544442 1111100 0112356778888888887766655544
No 134
>cd01734 YlxS_C YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix and a five-stranded beta-sheet. This CD represents the C-terminal domain which has a fold similar to the Sm fold of proteins like Sm-D3.
Probab=69.08 E-value=6.6 Score=26.33 Aligned_cols=29 Identities=34% Similarity=0.439 Sum_probs=24.3
Q ss_pred cccccccceeeEeec---cc-cEEEEEEEEecc
Q psy9934 82 FLNLLTGKSVICKLK---WG-HEYKGILVSTDG 110 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~---~g-~~~~G~L~~~D~ 110 (158)
-+...+++.|.|+++ +| +.+.|.|.++|+
T Consensus 19 ~~~r~~G~~v~v~~~~~~~~~~~~~G~L~~~~~ 51 (83)
T cd01734 19 DFERAVGKYVHVKLYQPIDGQKEFEGTLLGVDD 51 (83)
T ss_pred HHHHhCCCEEEEEEEcccCCeEEEEEEEEeEeC
Confidence 355678999999997 55 699999999997
No 135
>PRK14644 hypothetical protein; Provisional
Probab=69.07 E-value=6 Score=29.40 Aligned_cols=35 Identities=17% Similarity=0.084 Sum_probs=28.4
Q ss_pred cccccccceeeEeeccc----cEEEEEEEEeccccceeec
Q psy9934 82 FLNLLTGKSVICKLKWG----HEYKGILVSTDGYMNCQLA 117 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g----~~~~G~L~~~D~~mNlvL~ 117 (158)
-+..++|+.|.|+|++. +.+.|.|.++|+- ++.|.
T Consensus 79 ~f~r~~G~~v~V~l~~~~~~~~~~~G~L~~v~~~-~i~l~ 117 (136)
T PRK14644 79 ELENHIGEIIDVSLNKEVNKTDFITGELLENNPE-TITLK 117 (136)
T ss_pred HHHHhCCCeEEEEEccCcCCeEEEEEEEEEEeCC-EEEEE
Confidence 46678899999999886 8999999999973 45553
No 136
>PRK14640 hypothetical protein; Provisional
Probab=68.30 E-value=6.3 Score=29.73 Aligned_cols=34 Identities=18% Similarity=0.330 Sum_probs=26.9
Q ss_pred cccccccceeeEee----ccccEEEEEEEEeccccceee
Q psy9934 82 FLNLLTGKSVICKL----KWGHEYKGILVSTDGYMNCQL 116 (158)
Q Consensus 82 ~L~~~~~k~V~V~L----~~g~~~~G~L~~~D~~mNlvL 116 (158)
-+..++|+.|.|++ .+.+.++|+|.++|+- ++.|
T Consensus 91 ~f~r~~G~~v~V~l~~~~~~~k~~~G~L~~v~~~-~v~l 128 (152)
T PRK14640 91 QFEKYVGQEAAVTLRMATNNRRKFKGVIKAVQGD-MITL 128 (152)
T ss_pred HHHHhCCCeEEEEEecccCCceEEEEEEEEEeCC-EEEE
Confidence 45678899999999 4569999999999973 3444
No 137
>PRK14642 hypothetical protein; Provisional
Probab=67.99 E-value=6.2 Score=31.27 Aligned_cols=34 Identities=18% Similarity=0.282 Sum_probs=27.2
Q ss_pred cccccccceeeEeec-------------cccEEEEEEEEeccccceee
Q psy9934 82 FLNLLTGKSVICKLK-------------WGHEYKGILVSTDGYMNCQL 116 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~-------------~g~~~~G~L~~~D~~mNlvL 116 (158)
-+...+++.|.|+|+ +.+.|+|+|.++|+. ++.|
T Consensus 94 df~rfiG~~V~V~l~~pi~~~~~~~~~~~rk~f~G~L~~~~~~-~i~l 140 (197)
T PRK14642 94 DFERFAGEVIDITLKAPIGAAAGGQVSANRKKFRGTLERAESG-GWQI 140 (197)
T ss_pred HHHHhCCCeEEEEEeccccccccccccCCceEEEEEEEEEcCC-EEEE
Confidence 355678999999998 679999999999974 4444
No 138
>PRK06955 biotin--protein ligase; Provisional
Probab=67.36 E-value=21 Score=29.63 Aligned_cols=50 Identities=16% Similarity=0.129 Sum_probs=36.0
Q ss_pred cCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEec
Q psy9934 16 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSL 69 (158)
Q Consensus 16 ~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~ 69 (158)
++|++|.|...+++.+.|+..++|+.-.|+++..... ..-..|.+.+|..
T Consensus 247 ~~g~~V~v~~~~~~~~~G~~~gId~~G~L~v~~~~g~----~~~~sGeV~~~~~ 296 (300)
T PRK06955 247 YAGREVVLLEDGAELARGVAHGIDETGQLLLDTPAGR----QAIAAGDVSLREA 296 (300)
T ss_pred cCCCeEEEEECCCcEEEEEEeeECCCceEEEEeCCCe----EEEEEEEEEEecc
Confidence 5899999976677889999999999998988633221 1223466666654
No 139
>PRK14633 hypothetical protein; Provisional
Probab=65.38 E-value=7.7 Score=29.20 Aligned_cols=34 Identities=26% Similarity=0.304 Sum_probs=26.3
Q ss_pred cccccccceeeEeec----cccEEEEEEEEeccccceee
Q psy9934 82 FLNLLTGKSVICKLK----WGHEYKGILVSTDGYMNCQL 116 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~----~g~~~~G~L~~~D~~mNlvL 116 (158)
-+..++|+.|.|+++ +++.++|+|.++++- ++.|
T Consensus 88 ~f~r~~G~~v~V~~~~~~~~~~~~~G~L~~v~~~-~i~l 125 (150)
T PRK14633 88 QAQALVGFNVKAVTLAPVGSQTKFKGVLERVEGN-NVIL 125 (150)
T ss_pred HHHHhCCCeEEEEEecccCCcEEEEEEEEEEeCC-EEEE
Confidence 355678999999984 568999999999973 4444
No 140
>PRK13325 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed
Probab=64.48 E-value=41 Score=30.91 Aligned_cols=59 Identities=24% Similarity=0.241 Sum_probs=42.9
Q ss_pred cCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCCCCCCC
Q psy9934 16 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMSTPLPCN 78 (158)
Q Consensus 16 ~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~I~p~d 78 (158)
+.|++|.+...+++.+.|+..++|+.-.|+|+.... ...-.-|++.+|...-....|.+
T Consensus 276 ~~gk~V~v~~~~~~~~~Gi~~GId~~G~L~l~~~~g----~~~~~sGEVslr~~~~~~~~~~~ 334 (592)
T PRK13325 276 DHGKAVLLLRDGETVFEGTVKGVDGQGVLHLETAEG----KQTVVSGEISLRSDDRPVSVPKR 334 (592)
T ss_pred cCCCeEEEEeCCCcEEEEEEEEECCCCEEEEEECCC----eEEEEEEeEEEeecCCcccCCCC
Confidence 589999987667778999999999999999964321 12335688888877665544433
No 141
>PF02576 DUF150: Uncharacterised BCR, YhbC family COG0779; InterPro: IPR003728 The RimP protein facilitates maturation of the 30S ribsomal subunit, and is required for the efficient production of translationally competent ribosmomes [].; PDB: 1IB8_A.
Probab=62.04 E-value=8 Score=28.47 Aligned_cols=29 Identities=31% Similarity=0.445 Sum_probs=22.3
Q ss_pred cccccccceeeEeec----cccEEEEEEEEecc
Q psy9934 82 FLNLLTGKSVICKLK----WGHEYKGILVSTDG 110 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~----~g~~~~G~L~~~D~ 110 (158)
-+..++|++|.|+++ +.+.+.|+|.++|+
T Consensus 81 ~~~~~iG~~v~v~~~~~~~~~~~~~G~L~~~~~ 113 (141)
T PF02576_consen 81 DFERFIGRKVKVKLKQPVNGRKEFEGKLLEVDE 113 (141)
T ss_dssp HHHHH-SEEEEEE-SS-SSS-SEEEEEEEEEET
T ss_pred HHHHhcCCeEEEEEeccCCCcEEEEEEEEEEeC
Confidence 456788999999994 45799999999997
No 142
>PRK14645 hypothetical protein; Provisional
Probab=61.84 E-value=9 Score=29.06 Aligned_cols=29 Identities=14% Similarity=0.265 Sum_probs=23.9
Q ss_pred cccccccceeeEeeccccEEEEEEEEeccc
Q psy9934 82 FLNLLTGKSVICKLKWGHEYKGILVSTDGY 111 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~ 111 (158)
-+...+|+.|.|++ +++.++|+|.++|+-
T Consensus 96 df~r~~G~~v~v~~-~~k~~~G~L~~~~d~ 124 (154)
T PRK14645 96 HFERFAGLKAKVRG-PGENFTGRIKAVSGD 124 (154)
T ss_pred HHHHhCCCEEEEEc-CCeEEEEEEEEEeCC
Confidence 35567788999976 789999999999963
No 143
>PRK06955 biotin--protein ligase; Provisional
Probab=61.30 E-value=33 Score=28.47 Aligned_cols=49 Identities=18% Similarity=0.188 Sum_probs=33.8
Q ss_pred cccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEee
Q psy9934 86 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRC 138 (158)
Q Consensus 86 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG 138 (158)
+.+++|.+...+++.++|+..|+|+.-.|+++... |......|.+.+|.
T Consensus 247 ~~g~~V~v~~~~~~~~~G~~~gId~~G~L~v~~~~----g~~~~~sGeV~~~~ 295 (300)
T PRK06955 247 YAGREVVLLEDGAELARGVAHGIDETGQLLLDTPA----GRQAIAAGDVSLRE 295 (300)
T ss_pred cCCCeEEEEECCCcEEEEEEeeECCCceEEEEeCC----CeEEEEEEEEEEec
Confidence 46778888655677899999999999999985322 22223345665554
No 144
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.93 E-value=9.4 Score=29.03 Aligned_cols=32 Identities=25% Similarity=0.426 Sum_probs=27.4
Q ss_pred CcccccccceeeEee----ccccEEEEEEEEecccc
Q psy9934 81 PFLNLLTGKSVICKL----KWGHEYKGILVSTDGYM 112 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L----~~g~~~~G~L~~~D~~m 112 (158)
+-+..+.|+.|.|+| .+++.++|+|.++|+-.
T Consensus 92 ~~f~r~~G~~Vkv~l~~~~~~~k~~~G~i~~~d~~~ 127 (153)
T COG0779 92 EHFARFIGEKVKVKLRLPIEGRKKFEGKIVAVDGET 127 (153)
T ss_pred HHHHHhcCcEEEEEEecccCCceEEEEEEEEEcCCe
Confidence 346678899999999 77899999999999765
No 145
>PRK14636 hypothetical protein; Provisional
Probab=59.51 E-value=11 Score=29.24 Aligned_cols=29 Identities=24% Similarity=0.342 Sum_probs=24.6
Q ss_pred cccccccceeeEeec---cc-cEEEEEEEEecc
Q psy9934 82 FLNLLTGKSVICKLK---WG-HEYKGILVSTDG 110 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~---~g-~~~~G~L~~~D~ 110 (158)
-+..++|+.|.|+++ +| +.++|+|.++|+
T Consensus 92 df~r~~G~~V~V~l~~~~~g~k~~~G~L~~v~~ 124 (176)
T PRK14636 92 DFADWAGHEARIALSEPLDGRKQFRGELKGIDG 124 (176)
T ss_pred HHHHhCCCeEEEEEecccCCeEEEEEEEEEEeC
Confidence 456788999999997 45 799999999986
No 146
>PRK14632 hypothetical protein; Provisional
Probab=59.26 E-value=11 Score=28.99 Aligned_cols=35 Identities=17% Similarity=0.309 Sum_probs=27.2
Q ss_pred cccccccceeeEeecc-------ccEEEEEEEEeccccceeec
Q psy9934 82 FLNLLTGKSVICKLKW-------GHEYKGILVSTDGYMNCQLA 117 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~-------g~~~~G~L~~~D~~mNlvL~ 117 (158)
-+..++|+.|.|++++ .+.+.|+|.++|+- ++.|.
T Consensus 92 ~f~r~iG~~V~V~l~~~~~~~~g~k~~~G~L~~v~~~-~i~l~ 133 (172)
T PRK14632 92 QMSPYVGRQIELTLIDPTPEWPGRRKFRGELLAVEGD-TVVLR 133 (172)
T ss_pred HHHHhCCCEEEEEEeccccccCCceEEEEEEEEEeCC-EEEEE
Confidence 4567889999999975 57999999999863 44443
No 147
>PRK14643 hypothetical protein; Provisional
Probab=59.08 E-value=11 Score=28.80 Aligned_cols=35 Identities=14% Similarity=0.082 Sum_probs=27.0
Q ss_pred cccccccceeeEeecc----ccEEEEEEEEecc-ccceee
Q psy9934 82 FLNLLTGKSVICKLKW----GHEYKGILVSTDG-YMNCQL 116 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~----g~~~~G~L~~~D~-~mNlvL 116 (158)
-+..++|++|.|+++. .+.++|+|.++|. ...+.|
T Consensus 98 df~r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~~~~l~l 137 (164)
T PRK14643 98 ELVKALNQWVYVQLNNEIKKVKEFEGYVTKYNVNTNTFRF 137 (164)
T ss_pred HHHHhcCCeEEEEEecccCCceEEEEEEEEEeCCcEEEEE
Confidence 3557789999999875 5899999999985 344443
No 148
>PRK09618 flgD flagellar basal body rod modification protein; Provisional
Probab=58.89 E-value=33 Score=25.77 Aligned_cols=26 Identities=27% Similarity=0.230 Sum_probs=23.8
Q ss_pred hhcCCCEEEEEEeCCcEEEEEEeEec
Q psy9934 14 NLLTGKSVICKLKWGHEYKGILVSTD 39 (158)
Q Consensus 14 ~~~~~k~V~V~l~~g~~~~G~L~~~D 39 (158)
.+++||.|.+...+|..+.|++.++.
T Consensus 88 ~slVGk~V~~~~~~g~~~tG~V~~V~ 113 (142)
T PRK09618 88 SELIGKEVEWEGEDGEIVSGTVTSVK 113 (142)
T ss_pred HHHhCCEEEEEeCCCCEEEEEEEEEE
Confidence 46899999999999999999999985
No 149
>PRK14630 hypothetical protein; Provisional
Probab=58.16 E-value=18 Score=26.97 Aligned_cols=43 Identities=16% Similarity=0.150 Sum_probs=30.1
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEE
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQL 46 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL 46 (158)
|+|.-.-|+ ..+..++|++|.|++.. ....|+|.++|+. ++.|
T Consensus 78 SSPGldRpL~~~~df~r~~G~~v~V~l~~-~~~~G~L~~~~d~-~i~l 123 (143)
T PRK14630 78 STPGINRKIKSDREFKIFEGKKIKLMLDN-DFEEGFILEAKAD-SFIF 123 (143)
T ss_pred eCCCCCCcCCCHHHHHHhCCCEEEEEEcC-cceEEEEEEEeCC-EEEE
Confidence 455444444 45666799999999965 4459999999963 3444
No 150
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=57.92 E-value=41 Score=27.90 Aligned_cols=48 Identities=23% Similarity=0.151 Sum_probs=34.3
Q ss_pred cCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEe
Q psy9934 16 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRS 68 (158)
Q Consensus 16 ~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG 68 (158)
+.|++|.+.. ++..+.|++.++|+.-.|++...-.. ..-..|.+.+|.
T Consensus 270 ~~g~~v~~~~-~~~~~~G~~~gi~~~G~L~i~~~g~~----~~~~~gev~~~~ 317 (319)
T PRK11886 270 FLGREVKLII-GDKEISGIARGIDEQGALLLEDDGVE----KPFNGGEISLRS 317 (319)
T ss_pred ccCCeEEEEe-CCcEEEEEEEEECCCceEEEEeCCcE----EEEEEeEEEEec
Confidence 4899999987 45679999999999999998621111 123456777664
No 151
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=56.71 E-value=13 Score=27.81 Aligned_cols=30 Identities=30% Similarity=0.521 Sum_probs=25.1
Q ss_pred CcccccccceeeEee----ccccEEEEEEEEecc
Q psy9934 81 PFLNLLTGKSVICKL----KWGHEYKGILVSTDG 110 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L----~~g~~~~G~L~~~D~ 110 (158)
.-+..++|+.|.|++ .+++.+.|+|.++|+
T Consensus 91 ~~f~r~~G~~v~V~~~~~~~~~~~~~G~L~~~~~ 124 (154)
T PRK00092 91 RDFRRFIGREVKVKLYEPIDGRKKFQGILLAVDG 124 (154)
T ss_pred HHHHHhCCCeEEEEEEcccCCceEEEEEEEEeeC
Confidence 345678899999997 467899999999997
No 152
>PRK14635 hypothetical protein; Provisional
Probab=56.30 E-value=25 Score=26.76 Aligned_cols=44 Identities=20% Similarity=0.197 Sum_probs=31.0
Q ss_pred CCCCCCCch---HHHhhcCCCEEEEEEe--CCcEEEE---EEeEecCcceeEE
Q psy9934 2 STPLPCNPK---PFLNLLTGKSVICKLK--WGHEYKG---ILVSTDGYMNCQL 46 (158)
Q Consensus 2 ~~~~~~~p~---~~L~~~~~k~V~V~l~--~g~~~~G---~L~~~D~~mNlvL 46 (158)
|+|.-.-|| ..+..+.|+.|.|++. ++..+.| +|.++|+- ++.|
T Consensus 80 SSPGldRpL~~~~~~~r~~G~~v~v~~~~~~~~~~~g~~g~L~~~~~~-~v~l 131 (162)
T PRK14635 80 SSAGAERKLRLPEDLDRFRGIPVRLVFRSEESEKWQEGIFRLVNRDGD-QVEL 131 (162)
T ss_pred cCCCCCCcCCCHHHHHHhCCCEEEEEEecCCCcEEEecceEEEEEcCC-EEEE
Confidence 555444454 4566779999999886 4678888 99999963 3444
No 153
>PRK14646 hypothetical protein; Provisional
Probab=56.00 E-value=14 Score=27.94 Aligned_cols=34 Identities=15% Similarity=0.120 Sum_probs=26.5
Q ss_pred cccccccceeeEeecc---c-cEEEEEEEEeccccceee
Q psy9934 82 FLNLLTGKSVICKLKW---G-HEYKGILVSTDGYMNCQL 116 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~---g-~~~~G~L~~~D~~mNlvL 116 (158)
-+....|+.|.|+|+. | +.++|+|.++|+- ++.|
T Consensus 94 df~r~~G~~v~V~l~~~~~~~~~~~G~L~~~~~~-~v~l 131 (155)
T PRK14646 94 DFKTFKGFPVNVELNQKNSKIKFLNGLLYEKSKD-YLAI 131 (155)
T ss_pred HHHHhCCCEEEEEEecCcCCeEEEEEEEEEEeCC-EEEE
Confidence 4567789999999865 3 7889999999973 4554
No 154
>PRK14634 hypothetical protein; Provisional
Probab=54.97 E-value=15 Score=27.80 Aligned_cols=34 Identities=15% Similarity=0.196 Sum_probs=26.1
Q ss_pred cccccccceeeEeecc----ccEEEEEEEEeccccceee
Q psy9934 82 FLNLLTGKSVICKLKW----GHEYKGILVSTDGYMNCQL 116 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~----g~~~~G~L~~~D~~mNlvL 116 (158)
-+...+|+.|.|+++. .+.++|+|.++|+- ++.|
T Consensus 94 ~f~r~~G~~V~V~l~~~~~~~k~~~G~L~~~~~~-~v~l 131 (155)
T PRK14634 94 DFQTFRGFPVEVSHRDDDGSEQRLEGLLLERNED-HLQI 131 (155)
T ss_pred HHHHhCCCeEEEEEecCCCCeEEEEEEEEEEeCC-EEEE
Confidence 4567789999999874 27999999999963 3444
No 155
>PRK13325 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed
Probab=54.87 E-value=44 Score=30.71 Aligned_cols=49 Identities=27% Similarity=0.312 Sum_probs=34.1
Q ss_pred cccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEee
Q psy9934 86 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRC 138 (158)
Q Consensus 86 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG 138 (158)
..+++|.+...++++++|+..|+|+.-.|+|+... |.....-|.+.+|.
T Consensus 276 ~~gk~V~v~~~~~~~~~Gi~~GId~~G~L~l~~~~----g~~~~~sGEVslr~ 324 (592)
T PRK13325 276 DHGKAVLLLRDGETVFEGTVKGVDGQGVLHLETAE----GKQTVVSGEISLRS 324 (592)
T ss_pred cCCCeEEEEeCCCcEEEEEEEEECCCCEEEEEECC----CeEEEEEEeEEEee
Confidence 56788887656667899999999999999996322 22223345565554
No 156
>PF11607 DUF3247: Protein of unknown function (DUF3247); InterPro: IPR021649 This family of proteins is the protein product of the gene XC5848 from Xanthomonas campestris. The protein has no known function however its structure has been determined. The protein adopts a Lsm fold however differences with the fold were observed at the N-terminal and internal regions []. ; PDB: 2E12_B.
Probab=54.82 E-value=17 Score=25.47 Aligned_cols=19 Identities=21% Similarity=0.263 Sum_probs=15.2
Q ss_pred CCEEEEEEeCCcEEEEEEe
Q psy9934 18 GKSVICKLKWGHEYKGILV 36 (158)
Q Consensus 18 ~k~V~V~l~~g~~~~G~L~ 36 (158)
..+|.++|+||+.+.|++.
T Consensus 28 e~~V~l~L~DGs~l~Gtv~ 46 (101)
T PF11607_consen 28 EERVELELDDGSMLRGTVA 46 (101)
T ss_dssp T-EEEEEETTS-EEEEEEC
T ss_pred cceEEEEEcCCCeeeeeec
Confidence 4579999999999999974
No 157
>PRK14647 hypothetical protein; Provisional
Probab=54.34 E-value=15 Score=27.80 Aligned_cols=29 Identities=14% Similarity=0.063 Sum_probs=24.2
Q ss_pred cccccccceeeEeec---------cccEEEEEEEEecc
Q psy9934 82 FLNLLTGKSVICKLK---------WGHEYKGILVSTDG 110 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~---------~g~~~~G~L~~~D~ 110 (158)
-+...+|+.|.|+++ +.+.+.|+|.++|+
T Consensus 93 ~f~r~~G~~v~V~l~~~~~~~~~~~~~~~~G~L~~~~~ 130 (159)
T PRK14647 93 DYERYAGRLVKVRTFELLADEAGNKRKTFLGELEGLAD 130 (159)
T ss_pred HHHHhCCcEEEEEEeccccccccCCceEEEEEEEeecC
Confidence 456778999999995 34899999999996
No 158
>PF03614 Flag1_repress: Repressor of phase-1 flagellin; InterPro: IPR003223 Flagellin is the subunit which polymerises to form the filaments of bacterial flagella. The proteins in this family are transcriptional repressors of phase-1 flagellin genes.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent
Probab=52.88 E-value=19 Score=27.41 Aligned_cols=33 Identities=15% Similarity=-0.049 Sum_probs=30.3
Q ss_pred cceeeEeeccccEEEEEEEEeccccceeecceE
Q psy9934 88 GKSVICKLKWGHEYKGILVSTDGYMNCQLASTE 120 (158)
Q Consensus 88 ~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~ 120 (158)
+-||.|.+.||..+.|.+.+|++-=|.+|.-+.
T Consensus 29 ~~pVrvv~~ng~~f~myV~gf~~~~n~iL~p~~ 61 (165)
T PF03614_consen 29 DIPVRVVSENGQVFCMYVSGFMSKENKILAPDP 61 (165)
T ss_pred CCceEEEecCCcEEEEEEeccCcccCEEeccCC
Confidence 459999999999999999999999999988765
No 159
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=52.31 E-value=49 Score=27.46 Aligned_cols=48 Identities=21% Similarity=0.173 Sum_probs=33.5
Q ss_pred cccceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCcEEEee
Q psy9934 86 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRC 138 (158)
Q Consensus 86 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~~~iRG 138 (158)
+.+++|.+.. ++..++|++.++|+.-.|++.+ . .+...-..|.+.+|.
T Consensus 270 ~~g~~v~~~~-~~~~~~G~~~gi~~~G~L~i~~-~---g~~~~~~~gev~~~~ 317 (319)
T PRK11886 270 FLGREVKLII-GDKEISGIARGIDEQGALLLED-D---GVEKPFNGGEISLRS 317 (319)
T ss_pred ccCCeEEEEe-CCcEEEEEEEEECCCceEEEEe-C---CcEEEEEEeEEEEec
Confidence 4678888876 4567999999999999999961 1 122233456666654
No 160
>TIGR00121 birA_ligase birA, biotin-[acetyl-CoA-carboxylase] ligase region. The protein name suggests that this enzyme transfers biotin only to acetyl-CoA-carboxylase but it also transfers the biotin moiety to other proteins. The apparent orthologs among the eukaryotes are larger proteins that contain a single copy of this domain.
Probab=51.09 E-value=59 Score=25.78 Aligned_cols=31 Identities=23% Similarity=0.142 Sum_probs=26.8
Q ss_pred cCCCEEEEEEeCCcEEEEEEeEecCcceeEEc
Q psy9934 16 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLA 47 (158)
Q Consensus 16 ~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 47 (158)
.+|++|.+... +..+.|+..++|+.-.|+++
T Consensus 191 ~~g~~V~v~~~-~~~~~G~~~gI~~~G~L~v~ 221 (237)
T TIGR00121 191 HIGREVSLTTG-NGEIEGIARGIDKDGALLLE 221 (237)
T ss_pred ccCCeEEEEeC-CcEEEEEEEeECCCceEEEE
Confidence 47999999874 46799999999999999986
No 161
>PRK10898 serine endoprotease; Provisional
Probab=49.70 E-value=31 Score=29.31 Aligned_cols=33 Identities=18% Similarity=0.389 Sum_probs=28.3
Q ss_pred CCEEEEEEeCCcEEEEEEeEecCcceeEEceee
Q psy9934 18 GKSVICKLKWGHEYKGILVSTDGYMNCQLASTE 50 (158)
Q Consensus 18 ~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 50 (158)
...+.|.+.||+.|.+++.++|+...|-+=.+.
T Consensus 101 a~~i~V~~~dg~~~~a~vv~~d~~~DlAvl~v~ 133 (353)
T PRK10898 101 ADQIIVALQDGRVFEALLVGSDSLTDLAVLKIN 133 (353)
T ss_pred CCEEEEEeCCCCEEEEEEEEEcCCCCEEEEEEc
Confidence 357999999999999999999999988665553
No 162
>PRK14631 hypothetical protein; Provisional
Probab=48.75 E-value=21 Score=27.63 Aligned_cols=29 Identities=21% Similarity=0.282 Sum_probs=24.3
Q ss_pred CcccccccceeeEeec----cccEEEEEEEEec
Q psy9934 81 PFLNLLTGKSVICKLK----WGHEYKGILVSTD 109 (158)
Q Consensus 81 ~~L~~~~~k~V~V~L~----~g~~~~G~L~~~D 109 (158)
.-+..+.|+.|.|+++ +.+.++|+|.++|
T Consensus 110 ~df~r~~G~~V~V~l~~~~~~~k~~~G~L~~v~ 142 (174)
T PRK14631 110 EQLQGYIGQQVALRLIAAVENRRKFQAKLLAVD 142 (174)
T ss_pred HHHHHhCCCeEEEEEecccCCceEEEEEEEEee
Confidence 3456788999999996 4599999999998
No 163
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=48.71 E-value=33 Score=29.12 Aligned_cols=32 Identities=19% Similarity=0.369 Sum_probs=28.1
Q ss_pred CEEEEEEeCCcEEEEEEeEecCcceeEEceee
Q psy9934 19 KSVICKLKWGHEYKGILVSTDGYMNCQLASTE 50 (158)
Q Consensus 19 k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 50 (158)
.++.|.+.||+.+.+++.++|...++-+=.+.
T Consensus 102 ~~i~V~~~dg~~~~a~vv~~d~~~DlAvlkv~ 133 (351)
T TIGR02038 102 DQIVVALQDGRKFEAELVGSDPLTDLAVLKIE 133 (351)
T ss_pred CEEEEEECCCCEEEEEEEEecCCCCEEEEEec
Confidence 46899999999999999999999998875554
No 164
>PRK10898 serine endoprotease; Provisional
Probab=48.45 E-value=45 Score=28.37 Aligned_cols=57 Identities=16% Similarity=0.202 Sum_probs=37.5
Q ss_pred ceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecC--cEEEeeCcEEEEEeC
Q psy9934 89 KSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLG--EVLIRCNNILYIRGA 147 (158)
Q Consensus 89 k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g--~~~iRG~~I~~i~~~ 147 (158)
..+.|.+.+|+.|.+++.++|....|.+=..... .-....++ .-.-.|+.|..|+-+
T Consensus 102 ~~i~V~~~dg~~~~a~vv~~d~~~DlAvl~v~~~--~l~~~~l~~~~~~~~G~~V~aiG~P 160 (353)
T PRK10898 102 DQIIVALQDGRVFEALLVGSDSLTDLAVLKINAT--NLPVIPINPKRVPHIGDVVLAIGNP 160 (353)
T ss_pred CEEEEEeCCCCEEEEEEEEEcCCCCEEEEEEcCC--CCCeeeccCcCcCCCCCEEEEEeCC
Confidence 3688999999999999999999999877666421 00111222 123356666666654
No 165
>PF14563 DUF4444: Domain of unknown function (DUF4444); PDB: 3BFM_A.
Probab=46.63 E-value=21 Score=21.30 Aligned_cols=21 Identities=14% Similarity=0.278 Sum_probs=14.3
Q ss_pred EEEEEEEeccccceeecceEE
Q psy9934 101 YKGILVSTDGYMNCQLASTEE 121 (158)
Q Consensus 101 ~~G~L~~~D~~mNlvL~~~~e 121 (158)
..|+..|+|+.+.+.|.+...
T Consensus 10 ~tGtFlGvDE~FGmLLr~~~~ 30 (42)
T PF14563_consen 10 LTGTFLGVDEDFGMLLRDDDT 30 (42)
T ss_dssp EEEEEEEE-TT--EEEE-SS-
T ss_pred cceeEEeeccccceEEEeCCc
Confidence 579999999999999988764
No 166
>PRK14637 hypothetical protein; Provisional
Probab=46.45 E-value=23 Score=26.73 Aligned_cols=34 Identities=15% Similarity=0.253 Sum_probs=25.0
Q ss_pred cccccccceeeEeeccccEE-EEEEEEeccccceee
Q psy9934 82 FLNLLTGKSVICKLKWGHEY-KGILVSTDGYMNCQL 116 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~g~~~-~G~L~~~D~~mNlvL 116 (158)
-+...+|+.|.|++.+.+.+ +|+|.++|+- ++.|
T Consensus 92 ~f~r~~G~~V~V~l~~~~~~~~G~L~~~~d~-~v~l 126 (151)
T PRK14637 92 EFSIFVGETVKVWFECTGQWQVGTIAEADET-CLVL 126 (151)
T ss_pred HHHHhCCCEEEEEECCCCcEEEEEEEEEeCC-EEEE
Confidence 45677899999999544455 7999999964 4444
No 167
>PRK14641 hypothetical protein; Provisional
Probab=45.30 E-value=24 Score=27.33 Aligned_cols=28 Identities=18% Similarity=0.160 Sum_probs=23.3
Q ss_pred cccccccceeeEeecc----ccEEEEEEEEec
Q psy9934 82 FLNLLTGKSVICKLKW----GHEYKGILVSTD 109 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~~----g~~~~G~L~~~D 109 (158)
-+..++|+.|.|++++ .+.++|+|.++|
T Consensus 98 ~f~r~~G~~V~V~l~~~~~~~~~~~G~L~~~~ 129 (173)
T PRK14641 98 QYGRHVGRLLRVTYRDEEGSEHEVTGHLQEVS 129 (173)
T ss_pred HHHHhCCCEEEEEEecccCCeEEEEEEEEeee
Confidence 4567789999999976 468999999995
No 168
>KOG1073|consensus
Probab=45.20 E-value=51 Score=28.57 Aligned_cols=67 Identities=18% Similarity=0.155 Sum_probs=49.9
Q ss_pred cccccceeeEeeccccEEEEEEEEec-cccceeecceEEE-ecC-----e----eeeecCcEEEeeCcEEEEEeCCCC
Q psy9934 84 NLLTGKSVICKLKWGHEYKGILVSTD-GYMNCQLASTEEI-IDG-----H----CTGKLGEVLIRCNNILYIRGAEEG 150 (158)
Q Consensus 84 ~~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNlvL~~~~e~-~~~-----~----~~~~~g~~~iRG~~I~~i~~~~~~ 150 (158)
..++++.|.+.-|..-.|+|+|.-+| +=-=|-|.++..+ .+| . ....+.-|+.||+.|.-+...+..
T Consensus 5 t~yIGS~ISLISk~DIRYEGILy~in~qdSTlgLqnVRsfGTEgRk~~~pq~p~~~kVy~YIlFRGSDIKDL~V~~~p 82 (361)
T KOG1073|consen 5 TSYIGSFISLISKNDIRYEGILYTINLQDSTLGLQNVRSFGTEGRKTDGPQVPPDDKVYDYILFRGSDIKDLIVQETP 82 (361)
T ss_pred cccccceeEEeecccceeeeEEEeccccccceehhheeecccccCCCCCCcCCCCccceeeEEecCcccceeeeccCc
Confidence 45889999999999999999998888 5566777776433 111 1 112678899999999988776643
No 169
>TIGR02038 protease_degS periplasmic serine pepetdase DegS. This family consists of the periplasmic serine protease DegS (HhoB), a shorter paralog of protease DO (HtrA, DegP) and DegQ (HhoA). It is found in E. coli and several other Proteobacteria of the gamma subdivision. It contains a trypsin domain and a single copy of PDZ domain (in contrast to DegP with two copies). A critical role of this DegS is to sense stress in the periplasm and partially degrade an inhibitor of sigma(E).
Probab=44.32 E-value=56 Score=27.67 Aligned_cols=31 Identities=19% Similarity=0.375 Sum_probs=27.7
Q ss_pred eeeEeeccccEEEEEEEEeccccceeecceE
Q psy9934 90 SVICKLKWGHEYKGILVSTDGYMNCQLASTE 120 (158)
Q Consensus 90 ~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~ 120 (158)
.+.|.+.+|+.+.+++.++|...+|.+-...
T Consensus 103 ~i~V~~~dg~~~~a~vv~~d~~~DlAvlkv~ 133 (351)
T TIGR02038 103 QIVVALQDGRKFEAELVGSDPLTDLAVLKIE 133 (351)
T ss_pred EEEEEECCCCEEEEEEEEecCCCCEEEEEec
Confidence 6889999999999999999999999886654
No 170
>PRK10139 serine endoprotease; Provisional
Probab=40.83 E-value=52 Score=29.06 Aligned_cols=33 Identities=18% Similarity=0.344 Sum_probs=28.3
Q ss_pred CCEEEEEEeCCcEEEEEEeEecCcceeEEceee
Q psy9934 18 GKSVICKLKWGHEYKGILVSTDGYMNCQLASTE 50 (158)
Q Consensus 18 ~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 50 (158)
...+.|.+.||++|.+++.++|+...|-+=.+.
T Consensus 114 a~~i~V~~~dg~~~~a~vvg~D~~~DlAvlkv~ 146 (455)
T PRK10139 114 AQKISIQLNDGREFDAKLIGSDDQSDIALLQIQ 146 (455)
T ss_pred CCEEEEEECCCCEEEEEEEEEcCCCCEEEEEec
Confidence 457999999999999999999999888765553
No 171
>PRK08330 biotin--protein ligase; Provisional
Probab=40.40 E-value=99 Score=24.51 Aligned_cols=33 Identities=24% Similarity=0.160 Sum_probs=26.9
Q ss_pred cCCCEEEEEEeCCcEE-EEEEeEecCcceeEEcee
Q psy9934 16 LTGKSVICKLKWGHEY-KGILVSTDGYMNCQLAST 49 (158)
Q Consensus 16 ~~~k~V~V~l~~g~~~-~G~L~~~D~~mNlvL~~~ 49 (158)
.+|++|.+.. +++.+ .|+..++|+.-.|++...
T Consensus 186 ~~g~~v~~~~-~~~~~~~G~~~gI~~~G~L~v~~~ 219 (236)
T PRK08330 186 ILGKRVKIIG-DGEILVEGIAEDIDEFGALILRLD 219 (236)
T ss_pred hcCCeEEEEE-CCcEEEEEEEEEECCCCEEEEEEC
Confidence 5899999975 56665 799999999988888643
No 172
>COG0340 BirA Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]
Probab=39.45 E-value=1.2e+02 Score=24.39 Aligned_cols=34 Identities=26% Similarity=0.180 Sum_probs=31.5
Q ss_pred cCCCEEEEEEeCCcEEEEEEeEecCcceeEEcee
Q psy9934 16 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLAST 49 (158)
Q Consensus 16 ~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 49 (158)
.+|++|.+...++....|+..++|..-.|+++..
T Consensus 188 ~~g~~V~~~~~~~~~~gg~a~~id~~G~L~l~~~ 221 (238)
T COG0340 188 SLGKEVRLTLGGGVIFGGIAKGIDEDGALLLETD 221 (238)
T ss_pred cCCCEEEEEeCCCcEeeeEEEEECCCceEEEEeC
Confidence 4899999999999999999999999999998876
No 173
>TIGR00121 birA_ligase birA, biotin-[acetyl-CoA-carboxylase] ligase region. The protein name suggests that this enzyme transfers biotin only to acetyl-CoA-carboxylase but it also transfers the biotin moiety to other proteins. The apparent orthologs among the eukaryotes are larger proteins that contain a single copy of this domain.
Probab=38.94 E-value=90 Score=24.74 Aligned_cols=31 Identities=23% Similarity=0.142 Sum_probs=25.8
Q ss_pred cccceeeEeeccccEEEEEEEEeccccceeec
Q psy9934 86 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLA 117 (158)
Q Consensus 86 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~ 117 (158)
..+++|.+... +..+.|+..|+|+.-.|+++
T Consensus 191 ~~g~~V~v~~~-~~~~~G~~~gI~~~G~L~v~ 221 (237)
T TIGR00121 191 HIGREVSLTTG-NGEIEGIARGIDKDGALLLE 221 (237)
T ss_pred ccCCeEEEEeC-CcEEEEEEEeECCCceEEEE
Confidence 45788888764 46799999999999999996
No 174
>PRK10942 serine endoprotease; Provisional
Probab=38.45 E-value=55 Score=29.06 Aligned_cols=32 Identities=16% Similarity=0.242 Sum_probs=27.3
Q ss_pred CCEEEEEEeCCcEEEEEEeEecCcceeEEcee
Q psy9934 18 GKSVICKLKWGHEYKGILVSTDGYMNCQLAST 49 (158)
Q Consensus 18 ~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 49 (158)
...+.|.+.||++|.+++.++|...+|-|=.+
T Consensus 135 a~~i~V~~~dg~~~~a~vv~~D~~~DlAvlki 166 (473)
T PRK10942 135 ATKIKVQLSDGRKFDAKVVGKDPRSDIALIQL 166 (473)
T ss_pred CCEEEEEECCCCEEEEEEEEecCCCCEEEEEe
Confidence 35689999999999999999999988866544
No 175
>PRK10942 serine endoprotease; Provisional
Probab=37.09 E-value=50 Score=29.32 Aligned_cols=32 Identities=16% Similarity=0.255 Sum_probs=28.0
Q ss_pred ceeeEeeccccEEEEEEEEeccccceeecceE
Q psy9934 89 KSVICKLKWGHEYKGILVSTDGYMNCQLASTE 120 (158)
Q Consensus 89 k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~ 120 (158)
..+.|++.+|++|.+++.++|...+|-|-...
T Consensus 136 ~~i~V~~~dg~~~~a~vv~~D~~~DlAvlki~ 167 (473)
T PRK10942 136 TKIKVQLSDGRKFDAKVVGKDPRSDIALIQLQ 167 (473)
T ss_pred CEEEEEECCCCEEEEEEEEecCCCCEEEEEec
Confidence 37889999999999999999999998877543
No 176
>PRK10708 hypothetical protein; Provisional
Probab=37.02 E-value=38 Score=21.57 Aligned_cols=26 Identities=15% Similarity=0.327 Sum_probs=22.6
Q ss_pred CCCEEEEEEeCCcEEEEEEeEecCcc
Q psy9934 17 TGKSVICKLKWGHEYKGILVSTDGYM 42 (158)
Q Consensus 17 ~~k~V~V~l~~g~~~~G~L~~~D~~m 42 (158)
.+.+|+|++.+|..-.|++.++.+|-
T Consensus 3 vnD~VtVKTDG~~rR~G~iLavE~F~ 28 (62)
T PRK10708 3 VNDRVTVKTDGGPRRPGVVLAVEEFS 28 (62)
T ss_pred cccEEEEecCCCccccceEEEEeecc
Confidence 47789999999999999999988763
No 177
>PRK10139 serine endoprotease; Provisional
Probab=36.64 E-value=53 Score=29.03 Aligned_cols=59 Identities=12% Similarity=0.129 Sum_probs=39.7
Q ss_pred ceeeEeeccccEEEEEEEEeccccceeecceEEEecCeeeeecCc--EEEeeCcEEEEEeCC
Q psy9934 89 KSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGE--VLIRCNNILYIRGAE 148 (158)
Q Consensus 89 k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~~g~--~~iRG~~I~~i~~~~ 148 (158)
..+.|++.+|++|.+++.++|....|-+=..... ..-....+|. -+-.|+.|+.|+-|-
T Consensus 115 ~~i~V~~~dg~~~~a~vvg~D~~~DlAvlkv~~~-~~l~~~~lg~s~~~~~G~~V~aiG~P~ 175 (455)
T PRK10139 115 QKISIQLNDGREFDAKLIGSDDQSDIALLQIQNP-SKLTQIAIADSDKLRVGDFAVAVGNPF 175 (455)
T ss_pred CEEEEEECCCCEEEEEEEEEcCCCCEEEEEecCC-CCCceeEecCccccCCCCEEEEEecCC
Confidence 4789999999999999999999999887665421 1111123332 233477777776654
No 178
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=35.54 E-value=67 Score=27.84 Aligned_cols=32 Identities=22% Similarity=0.335 Sum_probs=28.0
Q ss_pred CEEEEEEeCCcEEEEEEeEecCcceeEEceee
Q psy9934 19 KSVICKLKWGHEYKGILVSTDGYMNCQLASTE 50 (158)
Q Consensus 19 k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 50 (158)
..+.|.+.||+.|.+++.++|+..+|-|=.+.
T Consensus 82 ~~i~V~~~~~~~~~a~vv~~d~~~DlAllkv~ 113 (428)
T TIGR02037 82 DEITVTLSDGREFKAKLVGKDPRTDIAVLKID 113 (428)
T ss_pred CeEEEEeCCCCEEEEEEEEecCCCCEEEEEec
Confidence 46889999999999999999999998776654
No 179
>PRK08330 biotin--protein ligase; Provisional
Probab=35.07 E-value=1e+02 Score=24.43 Aligned_cols=33 Identities=24% Similarity=0.160 Sum_probs=25.7
Q ss_pred cccceeeEeeccccEE-EEEEEEeccccceeecce
Q psy9934 86 LTGKSVICKLKWGHEY-KGILVSTDGYMNCQLAST 119 (158)
Q Consensus 86 ~~~k~V~V~L~~g~~~-~G~L~~~D~~mNlvL~~~ 119 (158)
..+++|.+.. ++..+ .|+..++|+.-.|++...
T Consensus 186 ~~g~~v~~~~-~~~~~~~G~~~gI~~~G~L~v~~~ 219 (236)
T PRK08330 186 ILGKRVKIIG-DGEILVEGIAEDIDEFGALILRLD 219 (236)
T ss_pred hcCCeEEEEE-CCcEEEEEEEEEECCCCEEEEEEC
Confidence 4577888764 56665 799999999999988744
No 180
>PF14153 Spore_coat_CotO: Spore coat protein CotO
Probab=35.01 E-value=70 Score=25.04 Aligned_cols=33 Identities=24% Similarity=0.164 Sum_probs=23.4
Q ss_pred chHHHhhcCCC---EEEEEEeCCcEEEEEEeEecCc
Q psy9934 9 PKPFLNLLTGK---SVICKLKWGHEYKGILVSTDGY 41 (158)
Q Consensus 9 p~~~L~~~~~k---~V~V~l~~g~~~~G~L~~~D~~ 41 (158)
=++||.++.+. --+-...++.+|+|.+.++|+-
T Consensus 122 KI~fL~~~P~~lp~i~C~i~t~~~~Y~G~I~~~~~~ 157 (185)
T PF14153_consen 122 KIDFLINLPHHLPPIKCEIETKDKSYRGIILSYDEG 157 (185)
T ss_pred HHHHHHhCcccCCCCceEEEeCCceEEEEEEeccCC
Confidence 35677777443 3444556789999999999943
No 181
>PF10618 Tail_tube: Phage tail tube protein; InterPro: IPR019596 This entry is represented by Bacteriophage Mu, GpM tail tube protein. Bacteriophage Mu has an eicosahedral head and contractile tail. The tail is composed of an outer sheath and an inner tube.
Probab=34.73 E-value=70 Score=23.03 Aligned_cols=30 Identities=20% Similarity=0.071 Sum_probs=26.3
Q ss_pred CCCCchHHHhhcCCCEEEEEEeCCcEEEEE
Q psy9934 5 LPCNPKPFLNLLTGKSVICKLKWGHEYKGI 34 (158)
Q Consensus 5 ~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~ 34 (158)
..-.|+.-|.+..+-+|..++.+|+.|.+.
T Consensus 61 ~~~~~~~~i~~~~~~tvt~e~~nG~~y~l~ 90 (119)
T PF10618_consen 61 TKDTDVDDINDITDATVTFELDNGKVYVLS 90 (119)
T ss_pred CCCCCHHHHhCCcccEEEEEecCCcEEEec
Confidence 355789999999999999999999999764
No 182
>TIGR02603 CxxCH_TIGR02603 putative heme-binding domain, Pirellula/Verrucomicrobium type. This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).
Probab=34.62 E-value=74 Score=23.01 Aligned_cols=28 Identities=21% Similarity=0.204 Sum_probs=20.9
Q ss_pred EEEEEEeCCcEEEEEEeEecCcceeEEce
Q psy9934 20 SVICKLKWGHEYKGILVSTDGYMNCQLAS 48 (158)
Q Consensus 20 ~V~V~l~~g~~~~G~L~~~D~~mNlvL~~ 48 (158)
...|.++||+.+.|.+..=|.. .+.|.+
T Consensus 59 ~~~v~~~dG~~~~G~~~~e~~~-~~~l~~ 86 (133)
T TIGR02603 59 AYRVTLKDGRILSGIVASETAD-GVTVKM 86 (133)
T ss_pred cEEEEECCCCEEEEEEEecCCC-eEEEEc
Confidence 3899999999999999985532 244444
No 183
>COG5316 Uncharacterized conserved protein [Function unknown]
Probab=34.39 E-value=85 Score=27.64 Aligned_cols=47 Identities=19% Similarity=0.113 Sum_probs=39.0
Q ss_pred CCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEE
Q psy9934 5 LPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEI 52 (158)
Q Consensus 5 ~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~ 52 (158)
...+|-.++.+++||.|+- =++|++++++|.+-|.-.=+.+.+-.|.
T Consensus 69 ~l~s~~~l~~~~~GK~v~~-~kdG~~~t~tl~a~d~gv~~~~~~~~~v 115 (421)
T COG5316 69 DLLSPGKLVEKSLGKVVRT-RKDGRQTTATLLAGDYGVVLRTGDGVEV 115 (421)
T ss_pred cccCchhHHhhhhCcEEEe-cCCCceeEEEEEecCceEEEecCCcEEE
Confidence 4568999999999999999 8999999999999996665666665554
No 184
>PTZ00275 biotin-acetyl-CoA-carboxylase ligase; Provisional
Probab=34.37 E-value=95 Score=25.63 Aligned_cols=31 Identities=16% Similarity=-0.061 Sum_probs=26.8
Q ss_pred CCCEEEEEEeCCcEEEEEEeEecCcceeEEce
Q psy9934 17 TGKSVICKLKWGHEYKGILVSTDGYMNCQLAS 48 (158)
Q Consensus 17 ~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~ 48 (158)
+|++|.|.. ++..+.|++.++|+.-.|++..
T Consensus 236 ~g~~V~v~~-~~~~~~G~~~gId~~G~L~i~~ 266 (285)
T PTZ00275 236 KDKKVLIDQ-DNELIVGYLQGLLHDGSLLLLR 266 (285)
T ss_pred CCCEEEEEe-CCCEEEEEEEEECCCCeEEEEe
Confidence 799999875 6789999999999888888864
No 185
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=34.12 E-value=21 Score=24.98 Aligned_cols=31 Identities=32% Similarity=0.442 Sum_probs=21.4
Q ss_pred CCCCCCCCchHHHhhcCCCEEEEEEeCCcEEEEEEeEec
Q psy9934 1 MSTPLPCNPKPFLNLLTGKSVICKLKWGHEYKGILVSTD 39 (158)
Q Consensus 1 m~~~~~~~p~~~L~~~~~k~V~V~l~~g~~~~G~L~~~D 39 (158)
|+.++|-.--+.|.++.|++|++. |++.++|
T Consensus 1 M~~~~pRVn~~~L~~~~gk~Vriv--------Gkv~~~~ 31 (109)
T PF08661_consen 1 MDAPTPRVNGSMLSQFVGKTVRIV--------GKVESVD 31 (109)
T ss_dssp GGS--EEE-GGGGGGGTTSEEEEE--------EEEEEE-
T ss_pred CCCCcceECHHHHHhhCCCeEEEE--------EEEeeEc
Confidence 676777777789999999999864 6666666
No 186
>PF11607 DUF3247: Protein of unknown function (DUF3247); InterPro: IPR021649 This family of proteins is the protein product of the gene XC5848 from Xanthomonas campestris. The protein has no known function however its structure has been determined. The protein adopts a Lsm fold however differences with the fold were observed at the N-terminal and internal regions []. ; PDB: 2E12_B.
Probab=34.01 E-value=47 Score=23.31 Aligned_cols=17 Identities=24% Similarity=0.308 Sum_probs=14.2
Q ss_pred ceeeEeeccccEEEEEE
Q psy9934 89 KSVICKLKWGHEYKGIL 105 (158)
Q Consensus 89 k~V~V~L~~g~~~~G~L 105 (158)
.+|.+.|+||+.+.||+
T Consensus 29 ~~V~l~L~DGs~l~Gtv 45 (101)
T PF11607_consen 29 ERVELELDDGSMLRGTV 45 (101)
T ss_dssp -EEEEEETTS-EEEEEE
T ss_pred ceEEEEEcCCCeeeeee
Confidence 38999999999999996
No 187
>KOG3382|consensus
Probab=33.85 E-value=22 Score=26.56 Aligned_cols=26 Identities=19% Similarity=0.236 Sum_probs=19.9
Q ss_pred eccccEEEEEEEEeccccceeecceE
Q psy9934 95 LKWGHEYKGILVSTDGYMNCQLASTE 120 (158)
Q Consensus 95 L~~g~~~~G~L~~~D~~mNlvL~~~~ 120 (158)
++..-.=.|||+|.|+|-|=.-++-.
T Consensus 39 yrtd~~kiGTLVG~DkfGNkYyen~~ 64 (151)
T KOG3382|consen 39 YRTDDHKIGTLVGVDKFGNKYYENND 64 (151)
T ss_pred Hhcccccceeeeeecccccchhcccc
Confidence 34455567999999999998877764
No 188
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=31.61 E-value=48 Score=21.15 Aligned_cols=26 Identities=15% Similarity=0.342 Sum_probs=22.3
Q ss_pred CCCEEEEEEeCCcEEEEEEeEecCcc
Q psy9934 17 TGKSVICKLKWGHEYKGILVSTDGYM 42 (158)
Q Consensus 17 ~~k~V~V~l~~g~~~~G~L~~~D~~m 42 (158)
.+.+|+|++.+|..-.|++.++.+|-
T Consensus 3 vnD~VtVKTDG~~rR~G~ilavE~F~ 28 (62)
T PF10781_consen 3 VNDRVTVKTDGGPRREGVILAVEPFN 28 (62)
T ss_pred cccEEEEecCCcccccceEEEEeecc
Confidence 46789999999999999999988763
No 189
>PRK11911 flgD flagellar basal body rod modification protein; Provisional
Probab=31.49 E-value=82 Score=23.61 Aligned_cols=26 Identities=19% Similarity=0.105 Sum_probs=22.7
Q ss_pred hhcCCCEEEEEEeCCcEEEEEEeEec
Q psy9934 14 NLLTGKSVICKLKWGHEYKGILVSTD 39 (158)
Q Consensus 14 ~~~~~k~V~V~l~~g~~~~G~L~~~D 39 (158)
.+++||.|.....+|..+.|++.++.
T Consensus 89 ~~lIGk~V~~~~~~g~~~tG~V~sV~ 114 (140)
T PRK11911 89 VNFIGKDIKGVSLNGEVISGKVESVQ 114 (140)
T ss_pred HHhhCceeEEEecCCCEEEEEEEEEE
Confidence 36899999988899999999998775
No 190
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=30.77 E-value=1.2e+02 Score=17.93 Aligned_cols=24 Identities=25% Similarity=0.514 Sum_probs=21.1
Q ss_pred CCCEEEEEEeCCcEEEEEEeEecC
Q psy9934 17 TGKSVICKLKWGHEYKGILVSTDG 40 (158)
Q Consensus 17 ~~k~V~V~l~~g~~~~G~L~~~D~ 40 (158)
.|..+.+...+|.-|+|++.++++
T Consensus 5 ~G~~~~a~~~d~~wyra~I~~~~~ 28 (57)
T smart00333 5 VGDKVAARWEDGEWYRARIIKVDG 28 (57)
T ss_pred CCCEEEEEeCCCCEEEEEEEEECC
Confidence 477788888899999999999996
No 191
>TIGR02037 degP_htrA_DO periplasmic serine protease, Do/DeqQ family. This family consists of a set proteins various designated DegP, heat shock protein HtrA, and protease DO. The ortholog in Pseudomonas aeruginosa is designated MucD and is found in an operon that controls mucoid phenotype. This family also includes the DegQ (HhoA) paralog in E. coli which can rescue a DegP mutant, but not the smaller DegS paralog, which cannot. Members of this family are located in the periplasm and have separable functions as both protease and chaperone. Members have a trypsin domain and two copies of a PDZ domain. This protein protects bacteria from thermal and other stresses and may be important for the survival of bacterial pathogens.// The chaperone function is dominant at low temperatures, whereas the proteolytic activity is turned on at elevated temperatures.
Probab=30.04 E-value=78 Score=27.41 Aligned_cols=32 Identities=22% Similarity=0.335 Sum_probs=28.0
Q ss_pred ceeeEeeccccEEEEEEEEeccccceeecceE
Q psy9934 89 KSVICKLKWGHEYKGILVSTDGYMNCQLASTE 120 (158)
Q Consensus 89 k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~ 120 (158)
..+.|++.+|++|.+++.++|...+|.|=...
T Consensus 82 ~~i~V~~~~~~~~~a~vv~~d~~~DlAllkv~ 113 (428)
T TIGR02037 82 DEITVTLSDGREFKAKLVGKDPRTDIAVLKID 113 (428)
T ss_pred CeEEEEeCCCCEEEEEEEEecCCCCEEEEEec
Confidence 36889999999999999999999998876664
No 192
>COG0340 BirA Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]
Probab=29.42 E-value=1.9e+02 Score=23.31 Aligned_cols=35 Identities=26% Similarity=0.201 Sum_probs=30.4
Q ss_pred cccceeeEeeccccEEEEEEEEeccccceeecceE
Q psy9934 86 LTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTE 120 (158)
Q Consensus 86 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~ 120 (158)
.++++|.+...++....|+..++|..-.|+++...
T Consensus 188 ~~g~~V~~~~~~~~~~gg~a~~id~~G~L~l~~~~ 222 (238)
T COG0340 188 SLGKEVRLTLGGGVIFGGIAKGIDEDGALLLETDD 222 (238)
T ss_pred cCCCEEEEEeCCCcEeeeEEEEECCCceEEEEeCC
Confidence 46788999888888888899999999999988773
No 193
>KOG3493|consensus
Probab=28.34 E-value=45 Score=21.94 Aligned_cols=20 Identities=30% Similarity=0.169 Sum_probs=15.8
Q ss_pred HHhhcCCCEEEEEEeCCcEE
Q psy9934 12 FLNLLTGKSVICKLKWGHEY 31 (158)
Q Consensus 12 ~L~~~~~k~V~V~l~~g~~~ 31 (158)
.++..+||+|+|++....++
T Consensus 5 ~~nDrLGKKVRvKCn~dDti 24 (73)
T KOG3493|consen 5 VLNDRLGKKVRVKCNTDDTI 24 (73)
T ss_pred hhhhhcCceEEEEeCCcccc
Confidence 46778999999999876554
No 194
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=28.32 E-value=1.1e+02 Score=19.22 Aligned_cols=24 Identities=25% Similarity=0.409 Sum_probs=18.3
Q ss_pred CCCEEEEEEeCCcEE-EEEEeEecC
Q psy9934 17 TGKSVICKLKWGHEY-KGILVSTDG 40 (158)
Q Consensus 17 ~~k~V~V~l~~g~~~-~G~L~~~D~ 40 (158)
.|.+|.++--++..| .|++.+||.
T Consensus 8 ~Ge~V~~rWP~s~lYYe~kV~~~d~ 32 (55)
T PF09465_consen 8 IGEVVMVRWPGSSLYYEGKVLSYDS 32 (55)
T ss_dssp SS-EEEEE-TTTS-EEEEEEEEEET
T ss_pred CCCEEEEECCCCCcEEEEEEEEecc
Confidence 689999999888655 999999994
No 195
>PTZ00275 biotin-acetyl-CoA-carboxylase ligase; Provisional
Probab=27.63 E-value=1e+02 Score=25.40 Aligned_cols=32 Identities=16% Similarity=-0.060 Sum_probs=26.3
Q ss_pred ccceeeEeeccccEEEEEEEEeccccceeecce
Q psy9934 87 TGKSVICKLKWGHEYKGILVSTDGYMNCQLAST 119 (158)
Q Consensus 87 ~~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~ 119 (158)
.++.|.+.. ++..+.|++.++|+.-.|++...
T Consensus 236 ~g~~V~v~~-~~~~~~G~~~gId~~G~L~i~~~ 267 (285)
T PTZ00275 236 KDKKVLIDQ-DNELIVGYLQGLLHDGSLLLLRE 267 (285)
T ss_pred CCCEEEEEe-CCCEEEEEEEEECCCCeEEEEeC
Confidence 577888764 56899999999999999988643
No 196
>PRK05163 rpsL 30S ribosomal protein S12; Validated
Probab=26.93 E-value=1.1e+02 Score=22.50 Aligned_cols=44 Identities=23% Similarity=0.198 Sum_probs=29.4
Q ss_pred hhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEEEeccceecceeEEEEecCCCC
Q psy9934 14 NLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEIIDGHCTGKLGEVLIRSLTMST 73 (158)
Q Consensus 14 ~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~iRG~~i~~ 73 (158)
++.+-|-+.|.|+||+++...+=+-. .+..| -..++|||..+.-
T Consensus 46 NSA~RKvarVrL~ngk~v~AyIPGeG-------hnlqe---------hs~VLvrGGrv~D 89 (124)
T PRK05163 46 NSALRKVARVRLTNGFEVTAYIPGEG-------HNLQE---------HSVVLIRGGRVKD 89 (124)
T ss_pred CchhheEEEEEeCCCCEEEEEcCCCC-------CCccc---------cCEEEEeCCccCC
Confidence 34566789999999999987776655 11112 2467788776654
No 197
>PRK11625 Rho-binding antiterminator; Provisional
Probab=25.77 E-value=1.1e+02 Score=20.81 Aligned_cols=50 Identities=12% Similarity=0.015 Sum_probs=32.7
Q ss_pred CCCEEEEEEeCCcEEEEEEeEecCcceeEEceeeEE-EeccceecceeEEEEecCCCCCC
Q psy9934 17 TGKSVICKLKWGHEYKGILVSTDGYMNCQLASTEEI-IDGHCTGKLGEVLIRSLTMSTPL 75 (158)
Q Consensus 17 ~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~-~~~~~~~~lg~~~iRG~~i~~I~ 75 (158)
-+.++.++++||..+.|+. .|-+.+ +.++.. .+. .-+.-.||=+.|..+.
T Consensus 22 ~~~~l~l~l~dGe~~~g~A--~D~~~~---~k~EyL~l~~----~g~~~~iRLD~I~s~~ 72 (84)
T PRK11625 22 HHLMLTLELKDGEVLQAKA--SDLVSR---KNVEYLVVEA----AGETRELRLDKIASFS 72 (84)
T ss_pred cCCeEEEEECCCCEEEEEE--EeeecC---CceEEEEEEc----CCCEEEEEeeeEeecc
Confidence 6788999999999999986 554433 444433 211 1135567777777665
No 198
>PF05071 NDUFA12: NADH ubiquinone oxidoreductase subunit NDUFA12; InterPro: IPR007763 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. this entry represents the 17.2kDa subunit from NADH:ubiquinone oxidoreductase and its homologues []. This subunit is believed to be one of the 36 structural complex I proteins.; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0009055 electron carrier activity, 0016020 membrane
Probab=24.47 E-value=32 Score=24.21 Aligned_cols=17 Identities=35% Similarity=0.434 Sum_probs=15.3
Q ss_pred EEEEEeccccceeecce
Q psy9934 103 GILVSTDGYMNCQLAST 119 (158)
Q Consensus 103 G~L~~~D~~mNlvL~~~ 119 (158)
|+|+|.|.|-|-.-+.-
T Consensus 1 G~lVG~D~~GN~YyE~~ 17 (105)
T PF05071_consen 1 GTLVGTDEFGNKYYENP 17 (105)
T ss_pred CCEeeEeCCCCEEEeec
Confidence 78999999999988776
No 199
>PRK09618 flgD flagellar basal body rod modification protein; Provisional
Probab=24.02 E-value=1.8e+02 Score=21.76 Aligned_cols=26 Identities=27% Similarity=0.230 Sum_probs=23.1
Q ss_pred cccccceeeEeeccccEEEEEEEEec
Q psy9934 84 NLLTGKSVICKLKWGHEYKGILVSTD 109 (158)
Q Consensus 84 ~~~~~k~V~V~L~~g~~~~G~L~~~D 109 (158)
..++||.|.+...+|..+.|+..++.
T Consensus 88 ~slVGk~V~~~~~~g~~~tG~V~~V~ 113 (142)
T PRK09618 88 SELIGKEVEWEGEDGEIVSGTVTSVK 113 (142)
T ss_pred HHHhCCEEEEEeCCCCEEEEEEEEEE
Confidence 46889999999899999999998886
No 200
>PRK14635 hypothetical protein; Provisional
Probab=23.96 E-value=92 Score=23.61 Aligned_cols=30 Identities=23% Similarity=0.284 Sum_probs=23.4
Q ss_pred cccccccceeeEeec--cccEEEE---EEEEeccc
Q psy9934 82 FLNLLTGKSVICKLK--WGHEYKG---ILVSTDGY 111 (158)
Q Consensus 82 ~L~~~~~k~V~V~L~--~g~~~~G---~L~~~D~~ 111 (158)
-+..+.|+.|.|++. ++..+.| .|.++|+-
T Consensus 93 ~~~r~~G~~v~v~~~~~~~~~~~g~~g~L~~~~~~ 127 (162)
T PRK14635 93 DLDRFRGIPVRLVFRSEESEKWQEGIFRLVNRDGD 127 (162)
T ss_pred HHHHhCCCEEEEEEecCCCcEEEecceEEEEEcCC
Confidence 456778899988876 4678888 99999863
No 201
>TIGR03170 flgA_cterm flagella basal body P-ring formation protein FlgA. This model describes a conserved C-terminal region of the flagellar basal body P-ring formation protein FlgA. This sequence region contains a SAF domain, now described by Pfam model pfam08666.
Probab=22.24 E-value=1e+02 Score=21.53 Aligned_cols=23 Identities=22% Similarity=0.329 Sum_probs=18.3
Q ss_pred hcCCCEEEEE-EeCCcEEEEEEeE
Q psy9934 15 LLTGKSVICK-LKWGHEYKGILVS 37 (158)
Q Consensus 15 ~~~~k~V~V~-l~~g~~~~G~L~~ 37 (158)
...|..|.|+ +..|+.+.|++.+
T Consensus 93 g~~G~~I~V~N~~s~k~i~~~V~~ 116 (122)
T TIGR03170 93 GAVGDQIRVRNLSSGKIISGIVTG 116 (122)
T ss_pred cCCCCEEEEEECCCCCEEEEEEeC
Confidence 3578888888 7888888888765
No 202
>PRK06792 flgD flagellar basal body rod modification protein; Validated
Probab=20.75 E-value=1.5e+02 Score=23.38 Aligned_cols=26 Identities=19% Similarity=0.115 Sum_probs=22.7
Q ss_pred hhcCCCEEEEEEeCCcEEEEEEeEec
Q psy9934 14 NLLTGKSVICKLKWGHEYKGILVSTD 39 (158)
Q Consensus 14 ~~~~~k~V~V~l~~g~~~~G~L~~~D 39 (158)
.+++||.|.+.-.+|..+.|++.++.
T Consensus 114 ~slIGK~V~~~~~dG~~vtG~V~sV~ 139 (190)
T PRK06792 114 MKFLGKYVRGVSNDGKQVTGQVETVR 139 (190)
T ss_pred HHhcCcEEEEEcCCCCEEEEEEEEEE
Confidence 46799999998889999999998775
No 203
>PRK08477 biotin--protein ligase; Provisional
Probab=20.61 E-value=2.2e+02 Score=22.49 Aligned_cols=36 Identities=8% Similarity=-0.182 Sum_probs=29.3
Q ss_pred hhcCCCEEEEEEeCCcEEEEEEeEecCcceeEEceee
Q psy9934 14 NLLTGKSVICKLKWGHEYKGILVSTDGYMNCQLASTE 50 (158)
Q Consensus 14 ~~~~~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 50 (158)
.-.+++.|.|. .+++.++|+..++|+.--|++..-+
T Consensus 171 ~~~~~~~v~v~-~~~~~~~g~a~~I~~~G~L~v~~~~ 206 (211)
T PRK08477 171 EFEKSKSFSFH-IDGKLVSLKDAELLEDGSILINGKK 206 (211)
T ss_pred HHHcCCEEEEE-ECCEEEEEEEeeECCCCeEEECCEE
Confidence 33489999986 5789999999999998888776544
Done!