Query psy10835
Match_columns 80
No_of_seqs 102 out of 1082
Neff 6.9
Searched_HMMs 46136
Date Fri Aug 16 19:41:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10835.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10835hhsearch_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 1E-26 2.2E-31 136.2 5.0 70 5-74 3-72 (72)
2 cd01726 LSm6 The eukaryotic Sm 99.9 2.1E-26 4.4E-31 133.1 4.2 67 7-73 1-67 (67)
3 cd01722 Sm_F The eukaryotic Sm 99.9 5.6E-26 1.2E-30 131.7 4.3 68 6-73 1-68 (68)
4 cd01721 Sm_D3 The eukaryotic S 99.9 6.1E-26 1.3E-30 132.3 4.1 70 7-76 1-70 (70)
5 cd01731 archaeal_Sm1 The archa 99.9 1.1E-25 2.3E-30 130.3 4.2 68 7-74 1-68 (68)
6 cd01723 LSm4 The eukaryotic Sm 99.9 3.3E-25 7.2E-30 130.9 4.6 72 6-77 1-73 (76)
7 cd01719 Sm_G The eukaryotic Sm 99.9 2.3E-25 5E-30 130.6 3.9 71 7-77 1-71 (72)
8 cd01732 LSm5 The eukaryotic Sm 99.9 8.3E-25 1.8E-29 129.5 4.7 70 5-74 2-74 (76)
9 cd01724 Sm_D1 The eukaryotic S 99.9 2.3E-24 5.1E-29 131.1 4.3 72 6-77 1-72 (90)
10 cd01733 LSm10 The eukaryotic S 99.9 4.3E-24 9.4E-29 126.9 4.5 72 4-75 7-78 (78)
11 cd01730 LSm3 The eukaryotic Sm 99.9 7.1E-24 1.5E-28 126.8 4.6 69 6-74 1-82 (82)
12 COG1958 LSM1 Small nuclear rib 99.9 2E-23 4.4E-28 123.8 4.7 72 3-74 4-79 (79)
13 KOG1783|consensus 99.9 4.8E-23 1E-27 120.0 5.9 76 1-76 1-76 (77)
14 cd01729 LSm7 The eukaryotic Sm 99.9 3.2E-23 6.9E-28 123.9 4.3 68 9-76 5-80 (81)
15 KOG3482|consensus 99.9 9.3E-23 2E-27 118.8 5.9 74 2-75 4-77 (79)
16 cd01725 LSm2 The eukaryotic Sm 99.9 4.3E-23 9.4E-28 123.3 4.6 71 7-77 2-74 (81)
17 cd01720 Sm_D2 The eukaryotic S 99.9 8.7E-23 1.9E-27 123.6 4.8 70 6-75 2-86 (87)
18 PF01423 LSM: LSM domain ; In 99.9 7.4E-23 1.6E-27 117.3 4.2 66 9-74 1-67 (67)
19 smart00651 Sm snRNP Sm protein 99.9 9.2E-23 2E-27 116.8 4.4 65 10-74 2-67 (67)
20 KOG1780|consensus 99.9 3.1E-22 6.8E-27 116.9 5.1 77 1-79 1-77 (77)
21 cd01718 Sm_E The eukaryotic Sm 99.9 2.3E-22 5.1E-27 119.8 4.3 69 6-74 6-79 (79)
22 cd01717 Sm_B The eukaryotic Sm 99.8 7.3E-22 1.6E-26 117.2 4.2 65 10-74 4-78 (79)
23 cd01727 LSm8 The eukaryotic Sm 99.8 1.2E-21 2.6E-26 115.1 4.5 68 9-76 2-73 (74)
24 cd01728 LSm1 The eukaryotic Sm 99.8 1.8E-21 3.9E-26 114.7 4.3 68 7-74 3-73 (74)
25 cd00600 Sm_like The eukaryotic 99.8 1.8E-21 4E-26 110.0 3.2 63 11-73 1-63 (63)
26 cd06168 LSm9 The eukaryotic Sm 99.8 5.1E-21 1.1E-25 113.0 4.5 66 9-74 3-74 (75)
27 PTZ00138 small nuclear ribonuc 99.8 8.1E-20 1.7E-24 111.0 4.4 71 6-76 14-89 (89)
28 KOG3460|consensus 99.7 1.4E-18 3.1E-23 103.6 3.1 76 3-78 2-90 (91)
29 KOG3293|consensus 99.7 2.6E-18 5.6E-23 108.9 4.0 72 6-77 2-74 (134)
30 KOG1775|consensus 99.7 1.1E-16 2.5E-21 94.1 5.3 73 3-75 4-79 (84)
31 KOG1781|consensus 99.6 2.7E-16 5.9E-21 96.4 3.7 71 8-78 19-97 (108)
32 KOG3448|consensus 99.6 4.2E-16 9.1E-21 94.0 3.5 71 7-77 3-75 (96)
33 KOG3172|consensus 99.5 3.7E-15 8E-20 92.7 1.8 73 4-76 3-75 (119)
34 KOG3168|consensus 99.5 4.6E-14 9.9E-19 93.6 4.4 66 11-76 9-84 (177)
35 KOG1782|consensus 99.5 6.4E-14 1.4E-18 88.8 4.3 70 8-77 11-83 (129)
36 KOG1774|consensus 99.4 1.7E-13 3.6E-18 81.6 4.8 70 6-75 12-86 (88)
37 KOG3428|consensus 99.4 2E-13 4.2E-18 85.0 3.7 70 7-77 3-72 (109)
38 KOG1784|consensus 99.4 1.9E-13 4.1E-18 82.8 3.5 67 10-76 4-74 (96)
39 KOG3459|consensus 98.8 3.6E-09 7.9E-14 66.1 2.7 69 5-73 23-106 (114)
40 cd01739 LSm11_C The eukaryotic 98.2 8E-07 1.7E-11 51.1 2.5 35 16-50 8-46 (66)
41 PF14438 SM-ATX: Ataxin 2 SM d 98.2 1.2E-06 2.5E-11 51.3 2.5 63 8-70 4-76 (77)
42 PF12701 LSM14: Scd6-like Sm d 97.4 0.0002 4.4E-09 44.0 2.9 65 13-77 5-79 (96)
43 PRK00395 hfq RNA-binding prote 97.1 0.0012 2.7E-08 39.3 4.1 43 1-43 1-46 (79)
44 cd01716 Hfq Hfq, an abundant, 96.9 0.0014 3E-08 37.3 3.4 34 10-43 3-38 (61)
45 TIGR02383 Hfq RNA chaperone Hf 96.9 0.0016 3.5E-08 37.0 3.4 34 10-43 7-42 (61)
46 PF02237 BPL_C: Biotin protein 96.9 0.0016 3.5E-08 34.9 3.2 46 15-65 2-48 (48)
47 PF11095 Gemin7: Gem-associate 96.5 0.0058 1.3E-07 36.5 4.0 64 7-75 15-79 (80)
48 PF06372 Gemin6: Gemin6 protei 96.2 0.0076 1.6E-07 40.4 3.7 65 5-77 7-72 (166)
49 COG1923 Hfq Uncharacterized ho 96.1 0.0097 2.1E-07 35.2 3.5 36 10-46 11-48 (77)
50 cd01736 LSm14_N LSm14 (also kn 95.7 0.0062 1.3E-07 35.9 1.3 60 13-72 3-73 (74)
51 PRK14091 RNA-binding protein H 95.6 0.019 4.2E-07 38.4 3.8 34 10-43 16-51 (165)
52 PRK14638 hypothetical protein; 95.0 0.046 9.9E-07 35.9 4.1 37 8-45 92-128 (150)
53 PRK14639 hypothetical protein; 94.9 0.051 1.1E-06 35.2 4.1 37 8-45 80-116 (140)
54 PF10842 DUF2642: Protein of u 94.9 0.091 2E-06 30.2 4.6 54 8-74 13-66 (66)
55 PRK02001 hypothetical protein; 94.5 0.078 1.7E-06 35.0 4.1 36 9-45 83-118 (152)
56 PRK14091 RNA-binding protein H 94.2 0.07 1.5E-06 35.8 3.5 34 10-43 96-131 (165)
57 cd01735 LSm12_N LSm12 belongs 93.7 0.058 1.3E-06 30.6 2.1 36 14-49 4-39 (61)
58 PRK14644 hypothetical protein; 92.6 0.26 5.6E-06 31.9 4.1 36 9-45 78-117 (136)
59 PRK14642 hypothetical protein; 92.4 0.25 5.3E-06 34.0 4.0 36 8-44 92-140 (197)
60 cd01734 YlxS_C YxlS is a Bacil 91.8 0.4 8.6E-06 28.1 3.9 32 8-39 17-52 (83)
61 PRK14640 hypothetical protein; 91.5 0.38 8.2E-06 31.5 4.0 37 8-45 89-129 (152)
62 PRK14633 hypothetical protein; 91.4 0.4 8.6E-06 31.4 4.0 36 8-44 86-125 (150)
63 KOG1073|consensus 91.4 0.22 4.8E-06 37.1 3.1 66 12-77 5-81 (361)
64 PRK14645 hypothetical protein; 91.1 0.4 8.6E-06 31.6 3.8 35 8-44 94-128 (154)
65 COG0779 Uncharacterized protei 90.8 0.49 1.1E-05 31.3 4.0 36 8-44 91-130 (153)
66 PRK14643 hypothetical protein; 90.7 0.47 1E-05 31.6 3.9 32 8-39 96-131 (164)
67 PRK00092 ribosome maturation p 90.5 0.54 1.2E-05 30.7 4.0 32 8-39 90-125 (154)
68 PRK14636 hypothetical protein; 90.3 0.51 1.1E-05 31.8 3.8 36 8-44 90-129 (176)
69 PF02576 DUF150: Uncharacteris 90.0 0.44 9.6E-06 30.5 3.2 35 9-44 80-118 (141)
70 PRK14632 hypothetical protein; 90.0 0.59 1.3E-05 31.3 3.9 37 8-45 90-133 (172)
71 PRK14634 hypothetical protein; 89.8 0.64 1.4E-05 30.6 3.9 36 8-44 92-131 (155)
72 PRK14646 hypothetical protein; 89.4 0.71 1.5E-05 30.4 3.9 37 8-45 92-132 (155)
73 PRK14647 hypothetical protein; 88.7 0.84 1.8E-05 30.1 3.9 31 8-38 91-130 (159)
74 PRK14637 hypothetical protein; 87.9 1.2 2.6E-05 29.2 4.2 37 8-45 90-127 (151)
75 PRK06955 biotin--protein ligas 87.9 0.65 1.4E-05 33.3 3.1 50 14-67 247-296 (300)
76 PRK14631 hypothetical protein; 87.2 1.2 2.5E-05 30.0 3.9 30 8-37 109-142 (174)
77 PRK14641 hypothetical protein; 86.0 1.3 2.8E-05 29.8 3.6 30 8-37 96-129 (173)
78 PRK13325 bifunctional biotin-- 86.0 0.91 2E-05 35.7 3.3 50 14-67 276-325 (592)
79 PRK11886 bifunctional biotin-- 83.6 1.4 3.1E-05 31.4 3.2 48 14-66 270-317 (319)
80 PRK14630 hypothetical protein; 81.5 3.5 7.5E-05 26.8 4.1 35 8-44 89-123 (143)
81 PRK09618 flgD flagellar basal 77.8 2.9 6.3E-05 27.4 2.8 26 12-37 88-113 (142)
82 PF03614 Flag1_repress: Repres 76.7 2 4.3E-05 28.7 1.9 24 15-38 119-142 (165)
83 TIGR00121 birA_ligase birA, bi 75.7 3 6.6E-05 28.6 2.7 31 14-45 191-221 (237)
84 PF07073 ROF: Modulator of Rho 75.7 2.8 6E-05 24.9 2.1 57 10-73 11-67 (80)
85 PRK08330 biotin--protein ligas 73.9 4.1 8.9E-05 28.0 3.0 33 14-47 186-219 (236)
86 PF11607 DUF3247: Protein of u 72.3 3.3 7E-05 25.6 1.9 19 16-34 28-46 (101)
87 PRK14635 hypothetical protein; 72.0 8.3 0.00018 25.4 4.0 35 9-44 92-131 (162)
88 PF03614 Flag1_repress: Repres 66.0 4.2 9.1E-05 27.1 1.6 33 16-48 29-61 (165)
89 KOG3382|consensus 65.1 3.1 6.8E-05 27.2 0.8 27 23-49 39-65 (151)
90 PRK10898 serine endoprotease; 62.3 7.7 0.00017 28.4 2.5 32 16-47 101-132 (353)
91 PTZ00275 biotin-acetyl-CoA-car 61.1 6.5 0.00014 28.1 1.9 31 15-46 236-266 (285)
92 PF05071 NDUFA12: NADH ubiquin 60.4 4.1 8.8E-05 25.0 0.7 17 31-47 1-17 (105)
93 PRK11911 flgD flagellar basal 60.3 11 0.00025 24.6 2.8 27 12-38 89-115 (140)
94 PRK10139 serine endoprotease; 59.9 8.9 0.00019 29.2 2.6 32 16-47 114-145 (455)
95 COG0340 BirA Biotin-(acetyl-Co 59.3 7.8 0.00017 27.1 2.0 34 14-47 188-221 (238)
96 TIGR02038 protease_degS peripl 59.0 7.8 0.00017 28.3 2.1 31 17-47 102-132 (351)
97 PF10894 DUF2689: Protein of u 56.2 3.3 7.2E-05 23.2 -0.2 15 36-50 20-34 (61)
98 PRK10942 serine endoprotease; 52.6 14 0.00029 28.3 2.5 31 16-46 135-165 (473)
99 smart00333 TUDOR Tudor domain. 51.2 23 0.00049 18.4 2.7 25 15-39 5-29 (57)
100 PF14563 DUF4444: Domain of un 50.8 6.4 0.00014 20.7 0.4 21 29-49 10-30 (42)
101 PF14485 DUF4431: Domain of un 50.4 18 0.00038 19.3 2.1 15 8-22 11-25 (48)
102 PRK11625 Rho-binding antitermi 49.9 21 0.00045 21.3 2.5 59 10-76 17-75 (84)
103 TIGR02603 CxxCH_TIGR02603 puta 46.8 21 0.00045 22.4 2.4 21 17-37 58-78 (133)
104 PF05037 DUF669: Protein of un 46.5 23 0.0005 22.5 2.6 27 6-32 93-120 (141)
105 PRK06630 hypothetical protein; 46.4 11 0.00023 23.4 0.9 19 29-47 11-29 (99)
106 TIGR03170 flgA_cterm flagella 46.2 15 0.00033 22.4 1.6 24 13-36 93-117 (122)
107 TIGR02037 degP_htrA_DO peripla 45.4 17 0.00037 27.0 2.0 31 17-47 82-112 (428)
108 PF10618 Tail_tube: Phage tail 45.2 22 0.00049 22.3 2.3 29 4-32 62-90 (119)
109 PF06257 DUF1021: Protein of u 43.3 29 0.00064 20.3 2.4 29 8-36 9-41 (76)
110 cd04479 RPA3 RPA3: A subfamily 43.2 32 0.00069 20.7 2.7 40 5-46 4-48 (101)
111 PRK08477 biotin--protein ligas 42.8 23 0.0005 24.3 2.3 34 12-46 171-204 (211)
112 PRK06792 flgD flagellar basal 42.1 30 0.00065 23.8 2.7 26 12-37 114-139 (190)
113 PF09465 LBR_tudor: Lamin-B re 39.3 37 0.0008 18.8 2.3 25 14-38 7-32 (55)
114 PRK07018 flgA flagellar basal 39.2 20 0.00043 24.8 1.5 24 13-36 204-228 (235)
115 KOG3493|consensus 38.4 29 0.00063 20.1 1.8 19 10-28 5-23 (73)
116 PLN02732 Probable NADH dehydro 36.8 21 0.00046 23.8 1.3 19 30-48 48-66 (159)
117 COG5316 Uncharacterized conser 36.7 39 0.00085 25.9 2.8 39 6-45 72-110 (421)
118 PLN03095 NADH:ubiquinone oxido 36.4 19 0.00041 22.8 1.0 20 30-49 9-28 (115)
119 PF05186 Dpy-30: Dpy-30 motif; 36.1 28 0.0006 18.0 1.4 13 3-15 25-37 (42)
120 COG4466 Veg Uncharacterized pr 34.9 44 0.00095 19.9 2.3 27 8-34 11-41 (80)
121 PF13437 HlyD_3: HlyD family s 32.8 55 0.0012 19.0 2.6 32 7-38 43-78 (105)
122 PF14153 Spore_coat_CotO: Spor 31.1 27 0.00058 23.8 1.1 47 18-74 135-182 (185)
123 PRK08183 NADH dehydrogenase; V 30.0 27 0.00059 22.6 0.9 20 29-48 24-43 (133)
124 PF02604 PhdYeFM_antitox: Anti 29.9 51 0.0011 18.0 2.0 38 5-43 11-49 (75)
125 PF02245 Pur_DNA_glyco: Methyl 29.1 82 0.0018 21.3 3.2 36 5-41 7-42 (184)
126 TIGR00567 3mg DNA-3-methyladen 28.9 1.1E+02 0.0023 21.0 3.7 36 6-41 9-44 (192)
127 PF11743 DUF3301: Protein of u 27.7 41 0.00088 20.3 1.4 21 56-76 76-96 (97)
128 PRK10708 hypothetical protein; 27.6 78 0.0017 17.8 2.4 25 15-39 3-27 (62)
129 PRK06005 flgA flagellar basal 26.8 46 0.001 21.9 1.6 23 13-35 128-151 (160)
130 COG4568 Rof Transcriptional an 26.4 81 0.0018 18.8 2.4 23 10-32 17-39 (84)
131 COG0265 DegQ Trypsin-like seri 26.4 62 0.0013 23.2 2.3 30 16-45 95-124 (347)
132 smart00166 UBX Domain present 25.7 50 0.0011 18.7 1.4 22 17-38 5-26 (80)
133 PF05954 Phage_GPD: Phage late 24.9 50 0.0011 22.4 1.6 27 11-37 23-49 (292)
134 PRK12617 flgA flagellar basal 24.2 63 0.0014 22.3 1.9 23 13-35 183-206 (214)
135 PF10781 DSRB: Dextransucrase 24.0 97 0.0021 17.4 2.3 25 15-39 3-27 (62)
136 PF14685 Tricorn_PDZ: Tricorn 23.4 1.1E+02 0.0023 18.2 2.6 25 3-27 56-80 (88)
137 PRK06789 flagellar motor switc 23.3 73 0.0016 18.5 1.8 33 11-43 36-68 (74)
138 COG1588 POP4 RNase P/RNase MRP 23.3 99 0.0022 19.0 2.5 33 10-42 11-44 (95)
139 PRK08515 flgA flagellar basal 23.2 64 0.0014 22.2 1.8 24 13-36 193-216 (222)
140 cd01767 UBX UBX (ubiquitin reg 23.1 63 0.0014 18.1 1.5 20 18-37 4-23 (77)
141 COG3466 ISA1214 Putative trans 22.8 77 0.0017 17.3 1.7 15 11-25 37-51 (52)
142 PF00789 UBX: UBX domain; Int 21.9 78 0.0017 17.7 1.8 21 18-38 8-28 (82)
143 PRK06804 flgA flagellar basal 21.3 65 0.0014 23.0 1.6 24 13-36 230-254 (261)
144 PRK12618 flgA flagellar basal 21.2 69 0.0015 20.6 1.6 23 13-35 109-132 (141)
145 TIGR03361 VI_Rhs_Vgr type VI s 20.8 1.1E+02 0.0024 23.3 2.8 27 11-37 42-72 (513)
146 COG1363 FrvX Cellulase M and r 20.8 80 0.0017 23.6 2.0 23 12-34 93-115 (355)
147 PF09642 YonK: YonK protein; 20.7 81 0.0018 17.7 1.6 22 7-28 34-55 (62)
148 PF02014 Reeler: Reeler domain 20.2 1.1E+02 0.0023 18.9 2.2 22 15-36 32-55 (132)
No 1
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=99.93 E-value=1e-26 Score=136.16 Aligned_cols=70 Identities=34% Similarity=0.610 Sum_probs=65.4
Q ss_pred CChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEe
Q psy10835 5 ESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 5 ~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~ 74 (80)
..|+++|+++++++|.|+|+||++|+|+|.+||+|||++|+||.|..+++..+.+|.++|||++|++|.+
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 5899999999999999999999999999999999999999999997666667789999999999999963
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=99.93 E-value=2.1e-26 Score=133.13 Aligned_cols=67 Identities=84% Similarity=1.347 Sum_probs=62.9
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEE
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYIS 73 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~ 73 (80)
|+++|++++|++|+|+|+||++|+|+|.+||+|||++|+||++..+++....++.++|||++|++|+
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 8899999999999999999999999999999999999999998766766778999999999999984
No 3
>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=99.92 E-value=5.6e-26 Score=131.69 Aligned_cols=68 Identities=46% Similarity=0.873 Sum_probs=63.4
Q ss_pred ChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEE
Q psy10835 6 SLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYIS 73 (80)
Q Consensus 6 ~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~ 73 (80)
+|+++|++++|++|+|+|+||++|+|+|.+||+|||++|+||+|..++.....+|.++|||++|++|+
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 59999999999999999999999999999999999999999998766656678999999999999984
No 4
>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=99.92 E-value=6.1e-26 Score=132.29 Aligned_cols=70 Identities=21% Similarity=0.345 Sum_probs=63.4
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeec
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
|+++|+++.|++|+|+|+||.+|+|+|.++|+|||++|+||.+...+.+...++.++|||++|+||++||
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 7899999999999999999999999999999999999999987533323467899999999999999986
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=99.92 E-value=1.1e-25 Score=130.29 Aligned_cols=68 Identities=41% Similarity=0.647 Sum_probs=63.0
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEe
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~ 74 (80)
|+++|++++|++|+|+|+||++|+|+|.+||+|||++|+||+|...+.....+|.++|||++|++|++
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 78999999999999999999999999999999999999999997555456789999999999999974
No 6
>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=99.91 E-value=3.3e-25 Score=130.90 Aligned_cols=72 Identities=26% Similarity=0.442 Sum_probs=65.9
Q ss_pred ChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhh-hccEeeccccCeEEecCcEEEEEeecc
Q psy10835 6 SLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEY-INGQLKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 6 ~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~-~~~~~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
.|+++|+++.|++|.|+|+||++|+|+|.+||+|||++|+||++. .+|+....++.++|||++|+||++|++
T Consensus 1 ~Pl~~L~~~~g~~V~VeLkng~~~~G~L~~~D~~mNi~L~~~~~~~~~g~~~~~~~~v~IRG~~I~~i~~p~~ 73 (76)
T cd01723 1 LPLSLLKTAQNHPMLVELKNGETYNGHLVNCDNWMNIHLREVICTSKDGDKFWKMPECYIRGNTIKYLRVPDE 73 (76)
T ss_pred CchHHHHhcCCCEEEEEECCCCEEEEEEEEEcCCCceEEEeEEEECCCCcEeeeCCcEEEeCCEEEEEEcCHH
Confidence 489999999999999999999999999999999999999999886 456555668999999999999999875
No 7
>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=99.91 E-value=2.3e-25 Score=130.59 Aligned_cols=71 Identities=25% Similarity=0.432 Sum_probs=64.9
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeecc
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
|.++|+++++|+|.|+|++|++|+|+|.|||+||||+|+||.|+.++...+.+|.++|||++|.+|++.++
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 56789999999999999999999999999999999999999997656556789999999999999998764
No 8
>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=99.91 E-value=8.3e-25 Score=129.49 Aligned_cols=70 Identities=24% Similarity=0.430 Sum_probs=64.2
Q ss_pred CChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhh---ccEeeccccCeEEecCcEEEEEe
Q psy10835 5 ESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYI---NGQLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 5 ~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~---~~~~~~~~g~v~irG~~I~~I~~ 74 (80)
..|+++|+++++++|+|++++|+++.|+|.|||+|||++|+||.|+. +++....+|.++|||++|.+|++
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 46999999999999999999999999999999999999999999864 44455789999999999999986
No 9
>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=99.90 E-value=2.3e-24 Score=131.09 Aligned_cols=72 Identities=24% Similarity=0.387 Sum_probs=66.4
Q ss_pred ChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeecc
Q psy10835 6 SLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 6 ~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
.|..||+++.|++|+|+|+||.+|+|+|.++|+|||++|+||++...++....++.++|||++|+||++|+.
T Consensus 1 ~~~~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~a~~~~~~~~~~~~~~v~IRG~nI~yi~lPd~ 72 (90)
T cd01724 1 KLVRFLMKLTNETVTIELKNGTIVHGTITGVDPSMNTHLKNVKLTLKGRNPVPLDTLSIRGNNIRYFILPDS 72 (90)
T ss_pred CHhHHHHhCCCCEEEEEECCCCEEEEEEEEEcCceeEEEEEEEEEcCCCceeEcceEEEeCCEEEEEEcCCc
Confidence 367899999999999999999999999999999999999999987666566789999999999999999975
No 10
>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=99.90 E-value=4.3e-24 Score=126.93 Aligned_cols=72 Identities=21% Similarity=0.398 Sum_probs=65.2
Q ss_pred CCChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEee
Q psy10835 4 KESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQ 75 (80)
Q Consensus 4 ~~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~ 75 (80)
...+..+|+++.|++|+|+||||.+|+|+|.++|+|||++|+||++...++....++.++|||++|+||++|
T Consensus 7 ~~tl~~~L~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~~~~~~~~~~~~~~~~v~IRG~nI~yI~lP 78 (78)
T cd01733 7 ENTLIILLQGLQGKVVTVELRNETTVTGRIASVDAFMNIRLAKVTIIDRNGKQVQVEEIMVTGRNIRYVHIP 78 (78)
T ss_pred hchHHHHHHHCCCCEEEEEECCCCEEEEEEEEEcCCceeEEEEEEEEcCCCceeECCcEEEECCEEEEEEcC
Confidence 456788999999999999999999999999999999999999999875555555789999999999999987
No 11
>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=99.89 E-value=7.1e-24 Score=126.78 Aligned_cols=69 Identities=29% Similarity=0.384 Sum_probs=61.7
Q ss_pred ChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhcc-------------EeeccccCeEEecCcEEEE
Q psy10835 6 SLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYING-------------QLKNKYGDTFIRGNNVLYI 72 (80)
Q Consensus 6 ~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~-------------~~~~~~g~v~irG~~I~~I 72 (80)
.|+++|+..++|+|.|+|+||++|.|+|.|||+||||+|+||.|...+ +..+.+|.++|||++|++|
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 389999999999999999999999999999999999999999996422 1356889999999999998
Q ss_pred Ee
Q psy10835 73 ST 74 (80)
Q Consensus 73 ~~ 74 (80)
++
T Consensus 81 ~~ 82 (82)
T cd01730 81 SP 82 (82)
T ss_pred CC
Confidence 63
No 12
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription]
Probab=99.88 E-value=2e-23 Score=123.81 Aligned_cols=72 Identities=36% Similarity=0.668 Sum_probs=63.7
Q ss_pred CCCChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhh--ccEe-ecccc-CeEEecCcEEEEEe
Q psy10835 3 RKESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYI--NGQL-KNKYG-DTFIRGNNVLYIST 74 (80)
Q Consensus 3 ~~~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~--~~~~-~~~~g-~v~irG~~I~~I~~ 74 (80)
....|+++|+++++++|.|+|+||++|+|+|.|||+|||++|+||+|.. +++. ...++ .++|||++|.+|.+
T Consensus 4 ~~~~~~~~l~~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~~~~~~~~~~~~~~IRG~~I~~I~~ 79 (79)
T COG1958 4 LGPLPLSFLKKLLNKRVLVKLKNGREYRGTLVGFDQYMNLVLDDVEEIISHDGEKNVRRLGGEVLIRGDNIVLISP 79 (79)
T ss_pred ccCCcHHHHHHhhCCEEEEEECCCCEEEEEEEEEccceeEEEeceEEEeccCCccccceeccEEEEECCcEEEEeC
Confidence 4567999999999999999999999999999999999999999999975 5554 34555 99999999999863
No 13
>KOG1783|consensus
Probab=99.88 E-value=4.8e-23 Score=120.03 Aligned_cols=76 Identities=76% Similarity=1.170 Sum_probs=73.4
Q ss_pred CCCCCChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeec
Q psy10835 1 MSRKESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 1 m~~~~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
||+...|.+||++.+||+|.|+|.+|..|+|+|.++|.||||-|+.++|+.+|+..+.++..||||++|.||+..+
T Consensus 1 ~s~~~~~~~fl~~iiGr~V~VKl~sgvdyrG~l~~lDgymNiaLe~tee~~ngql~n~ygdaFirGnnVlyIs~~~ 76 (77)
T KOG1783|consen 1 MSEGSMPGEFLKAIIGRTVVVKLNSGVDYRGTLVCLDGYMNIALESTEEYVNGQLKNKYGDAFIRGNNVLYISTQK 76 (77)
T ss_pred CCcccCcHHHHHHHhCCeEEEEecCCccccceehhhhhHHHHHHHHHHHHhcCcccccccceeeccccEEEEEecc
Confidence 7888999999999999999999999999999999999999999999999999998999999999999999999875
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=99.88 E-value=3.2e-23 Score=123.90 Aligned_cols=68 Identities=25% Similarity=0.422 Sum_probs=60.4
Q ss_pred HHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhcc--------EeeccccCeEEecCcEEEEEeec
Q psy10835 9 QFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYING--------QLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 9 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~--------~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
..|+++++|+|.|+|+||++|.|+|.|||+||||+|++|.|+..+ +..+.+|.++|||++|.+|++.+
T Consensus 5 ~~L~~~i~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~~~~E~~~~~~~~~~~~~~~~~lG~v~iRG~nV~~i~~~~ 80 (81)
T cd01729 5 LDLSKYVDKKIRVKFQGGREVTGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDKTRQLGLVVCRGTSVVLISPVD 80 (81)
T ss_pred hhHHHhcCCeEEEEECCCcEEEEEEEEEcCcccEEecCEEEEEccCCcccccccceeEccEEEEcCCEEEEEecCC
Confidence 359999999999999999999999999999999999999997432 23567899999999999998764
No 15
>KOG3482|consensus
Probab=99.88 E-value=9.3e-23 Score=118.84 Aligned_cols=74 Identities=41% Similarity=0.734 Sum_probs=69.9
Q ss_pred CCCCChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEee
Q psy10835 2 SRKESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQ 75 (80)
Q Consensus 2 ~~~~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~ 75 (80)
..|.+|.+||+.+.||+|.|+||.|.+|.|+|.+.|.|||+.|.+|+|+.+|.....+|+++||++||.+|.-.
T Consensus 4 ~~PvNPKpFL~~l~gk~V~vkLKwg~eYkG~LvsvD~YmNlqL~~~eE~idG~~~g~lGEilIRCNNvlyi~gv 77 (79)
T KOG3482|consen 4 KQPVNPKPFLNGLTGKPVLVKLKWGQEYKGTLVSVDNYMNLQLANAEEYIDGVSTGNLGEILIRCNNVLYIRGV 77 (79)
T ss_pred cccCCchHHHhhccCCeEEEEEecCcEEEEEEEEecchhheehhhhhhhhcccccccceeEEEEeccEEEEecC
Confidence 36889999999999999999999999999999999999999999999999998888999999999999999643
No 16
>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=99.88 E-value=4.3e-23 Score=123.28 Aligned_cols=71 Identities=27% Similarity=0.428 Sum_probs=62.7
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccE--eeccccCeEEecCcEEEEEeecc
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQ--LKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~--~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
|+.||+++.|++|+|+|+||.+|+|+|.++|+|||++|+||++...+. ....++.++|||++|+||++|++
T Consensus 2 ~~~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNi~L~n~~~~~~~~~~~~~~~~~v~IRG~~I~~I~lp~~ 74 (81)
T cd01725 2 FFSFFKTLVGKEVTVELKNDLSIRGTLHSVDQYLNIKLTNISVTDPEKYPHMLSVKNCFIRGSVVRYVQLPAD 74 (81)
T ss_pred hhHHHHhCCCCEEEEEECCCcEEEEEEEEECCCcccEEEEEEEEcCCCcccccccCeEEEECCEEEEEEeChh
Confidence 789999999999999999999999999999999999999998753221 23456899999999999999975
No 17
>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=99.87 E-value=8.7e-23 Score=123.58 Aligned_cols=70 Identities=17% Similarity=0.282 Sum_probs=61.7
Q ss_pred ChHHHHHhhh--CCceEEEecCCcccceeeeeecccchhhhhhhhhhhcc-------------EeeccccCeEEecCcEE
Q psy10835 6 SLSQFIQQIH--GRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYING-------------QLKNKYGDTFIRGNNVL 70 (80)
Q Consensus 6 ~p~~~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~-------------~~~~~~g~v~irG~~I~ 70 (80)
.|+++|...+ +++|.|+|++|+++.|+|.|||+||||+|+||.|...+ ...+.+|.+||||++|+
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 6999999997 89999999999999999999999999999999985322 12456899999999999
Q ss_pred EEEee
Q psy10835 71 YISTQ 75 (80)
Q Consensus 71 ~I~~~ 75 (80)
+|+..
T Consensus 82 ~Is~~ 86 (87)
T cd01720 82 LVLRN 86 (87)
T ss_pred EEecC
Confidence 99864
No 18
>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=99.87 E-value=7.4e-23 Score=117.29 Aligned_cols=66 Identities=41% Similarity=0.689 Sum_probs=61.0
Q ss_pred HHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccE-eeccccCeEEecCcEEEEEe
Q psy10835 9 QFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQ-LKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 9 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~-~~~~~g~v~irG~~I~~I~~ 74 (80)
.+|++++|++|+|+|+||++|+|+|.+||+|||++|+||.+...+. +.+.++.++|||++|++|++
T Consensus 1 ~~L~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Nl~L~~~~~~~~~~~~~~~~~~~~irG~~I~~I~~ 67 (67)
T PF01423_consen 1 NFLQKLIGKRVRVELKNGRTYRGTLVSFDQFMNLVLSDVTETIKNGPEKRSLGLVFIRGSNIRYISL 67 (67)
T ss_dssp HHHHHTTTSEEEEEETTSEEEEEEEEEEETTEEEEEEEEEEEETTESEEEEEEEEEEEGGGEEEEEE
T ss_pred ChhHHhCCcEEEEEEeCCEEEEEEEEEeechheEEeeeEEEEECCCCcEeECcEEEEECCEEEEEEC
Confidence 3799999999999999999999999999999999999999976554 67889999999999999985
No 19
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=99.87 E-value=9.2e-23 Score=116.77 Aligned_cols=65 Identities=43% Similarity=0.796 Sum_probs=59.8
Q ss_pred HHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhcc-EeeccccCeEEecCcEEEEEe
Q psy10835 10 FIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYING-QLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 10 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~-~~~~~~g~v~irG~~I~~I~~ 74 (80)
+|++++|++|+|+|+||+++.|+|.+||+|||++|+||++...+ .....++.++|||++|++|++
T Consensus 2 ~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~~NlvL~~~~e~~~~~~~~~~~~~~~IrG~~I~~i~~ 67 (67)
T smart00651 2 FLKKLIGKRVLVELKNGREYRGTLKGFDQFMNLVLEDVEETVKDGEKKRKLGLVFIRGNNIVYIIL 67 (67)
T ss_pred hhHHhCCcEEEEEECCCcEEEEEEEEECccccEEEccEEEEecCCcEEeEeCCEEEcCCEEEEEeC
Confidence 68999999999999999999999999999999999999997544 456789999999999999974
No 20
>KOG1780|consensus
Probab=99.86 E-value=3.1e-22 Score=116.91 Aligned_cols=77 Identities=31% Similarity=0.468 Sum_probs=69.6
Q ss_pred CCCCCChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeecccC
Q psy10835 1 MSRKESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQKRRG 79 (80)
Q Consensus 1 m~~~~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~~~~ 79 (80)
||++.-| .|++|++|++.++|..|+...|+|.|||.|||++|++++|....+.+..++.++|||++|+.+...++-|
T Consensus 1 Msksg~P--eLkkymdKki~lklnG~r~v~GiLrGyD~FmNiVlde~vE~~~~~~~~~ig~~vIrgnsiv~~eaL~~~g 77 (77)
T KOG1780|consen 1 MSKSGHP--ELKKYMDKKIVLKLNGGRKVTGILRGYDPFMNIVLDETVEPNGDGDKNNIGMVVIRGNSIVMVEALERVG 77 (77)
T ss_pred CCcccCc--hHHHhhhheEEEEeCCCcEEEEEEeccchHHhhhhhhceeecCcCCcceeeeEEEeccEEEEEeeccccC
Confidence 8999899 7999999999999999999999999999999999999999754444578999999999999999887643
No 21
>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=99.86 E-value=2.3e-22 Score=119.80 Aligned_cols=69 Identities=23% Similarity=0.402 Sum_probs=61.5
Q ss_pred ChHHHHHhhhCC--ceEEEec--CCcccceeeeeecccchhhhhhhhhhhc-cEeeccccCeEEecCcEEEEEe
Q psy10835 6 SLSQFIQQIHGR--PVVVKLV--SGVDYRGVLSCLDGYMNIALEQTEEYIN-GQLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 6 ~p~~~L~~~~~k--~V~V~L~--~g~~~~G~L~~~D~~mNivL~~~~~~~~-~~~~~~~g~v~irG~~I~~I~~ 74 (80)
.|++.+.+++++ +|.|+++ +|+++.|+|.|||+|||++|+||+|+.. ++....+|.++|||++|.+|++
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 689999999999 6778887 8999999999999999999999999754 4456789999999999999974
No 22
>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=99.85 E-value=7.3e-22 Score=117.22 Aligned_cols=65 Identities=25% Similarity=0.403 Sum_probs=57.9
Q ss_pred HHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhcc----------EeeccccCeEEecCcEEEEEe
Q psy10835 10 FIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYING----------QLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 10 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~----------~~~~~~g~v~irG~~I~~I~~ 74 (80)
-|.++++++|.|.|+||+.+.|+|.|||+||||+|+||.|+... ...+.+|.++|||++|++|+.
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 48899999999999999999999999999999999999995321 235679999999999999975
No 23
>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=99.85 E-value=1.2e-21 Score=115.11 Aligned_cols=68 Identities=24% Similarity=0.322 Sum_probs=60.4
Q ss_pred HHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhc----cEeeccccCeEEecCcEEEEEeec
Q psy10835 9 QFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYIN----GQLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 9 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~----~~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
+.|+++++++|.|.|+||+.|.|+|.|||+|||++|++|.|+.. +.....+|.+++||++|.+|++.+
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 46999999999999999999999999999999999999998632 323567899999999999999865
No 24
>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=99.84 E-value=1.8e-21 Score=114.68 Aligned_cols=68 Identities=29% Similarity=0.372 Sum_probs=59.5
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhh-ccE--eeccccCeEEecCcEEEEEe
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYI-NGQ--LKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~-~~~--~~~~~g~v~irG~~I~~I~~ 74 (80)
+...|+++++|+|.|.|+||++|.|+|.|||+|||++|+||.|.. .++ ..+.+|.++|||++|.+|..
T Consensus 3 ~~~~L~~~l~k~v~V~l~~gr~~~G~L~~fD~~~NlvL~d~~E~~~~~~~~~~~~lG~~viRG~~V~~ig~ 73 (74)
T cd01728 3 GTASLVDDLDKKVVVLLRDGRKLIGILRSFDQFANLVLQDTVERIYVGDKYGDIPRGIFIIRGENVVLLGE 73 (74)
T ss_pred chHHHHHhcCCEEEEEEcCCeEEEEEEEEECCcccEEecceEEEEecCCccceeEeeEEEEECCEEEEEEc
Confidence 456799999999999999999999999999999999999998863 221 24678999999999999975
No 25
>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=99.83 E-value=1.8e-21 Score=109.95 Aligned_cols=63 Identities=37% Similarity=0.590 Sum_probs=57.1
Q ss_pred HHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEE
Q psy10835 11 IQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYIS 73 (80)
Q Consensus 11 L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~ 73 (80)
|++++|++|+|+|+||+.|.|+|.+||+|||++|+||.+...+.....++.++|||++|++|.
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 578899999999999999999999999999999999998754445678999999999999984
No 26
>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=99.83 E-value=5.1e-21 Score=113.02 Aligned_cols=66 Identities=26% Similarity=0.422 Sum_probs=59.6
Q ss_pred HHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhcc------EeeccccCeEEecCcEEEEEe
Q psy10835 9 QFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYING------QLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 9 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~------~~~~~~g~v~irG~~I~~I~~ 74 (80)
+.|+++++++|+|+|+||+.|.|+|.|||++|||+|+||.|+... ...+.+|.++|||++|..|+.
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 468999999999999999999999999999999999999997422 346789999999999999985
No 27
>PTZ00138 small nuclear ribonucleoprotein; Provisional
Probab=99.79 E-value=8.1e-20 Score=110.98 Aligned_cols=71 Identities=23% Similarity=0.383 Sum_probs=60.1
Q ss_pred ChHHHHHhhhCCc--eEEEecC--Ccccceeeeeecccchhhhhhhhhhhc-cEeeccccCeEEecCcEEEEEeec
Q psy10835 6 SLSQFIQQIHGRP--VVVKLVS--GVDYRGVLSCLDGYMNIALEQTEEYIN-GQLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 6 ~p~~~L~~~~~k~--V~V~L~~--g~~~~G~L~~~D~~mNivL~~~~~~~~-~~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
.|+..+.+++.++ |.|++.+ ++++.|+|.|||+|||++|+||+|+.. ++....+|.++|||++|.+|++.+
T Consensus 14 ~P~~~~~~~~~~~~~V~i~l~~~~~r~~~G~L~gfD~~mNlVL~d~~E~~~~~~~~~~lG~ilIRGnnV~~I~~~~ 89 (89)
T PTZ00138 14 QPINQIFRFFTEKTRVQIWLYDHPNLRIEGKILGFDEYMNMVLDDAEEVYTKKNTRKDLGRILLKGDNITLIMAAK 89 (89)
T ss_pred CCHHHHHHHhcCCcEEEEEEEeCCCcEEEEEEEEEcccceEEEccEEEEecCCceeeEcCeEEEcCCEEEEEEcCC
Confidence 6899999999766 6667767 488999999999999999999999743 344578999999999999998753
No 28
>KOG3460|consensus
Probab=99.73 E-value=1.4e-18 Score=103.60 Aligned_cols=76 Identities=29% Similarity=0.366 Sum_probs=66.1
Q ss_pred CCCChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhh---cc----------EeeccccCeEEecCcE
Q psy10835 3 RKESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYI---NG----------QLKNKYGDTFIRGNNV 69 (80)
Q Consensus 3 ~~~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~---~~----------~~~~~~g~v~irG~~I 69 (80)
+...|+++|+-+++.+|.|+++++++++|+|.+||+|+|++|.+++|.. ++ +..+.++.+|+||++|
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 4467999999999999999999999999999999999999999999852 22 1245678999999999
Q ss_pred EEEEeeccc
Q psy10835 70 LYISTQKRR 78 (80)
Q Consensus 70 ~~I~~~~~~ 78 (80)
.+|++|-+.
T Consensus 82 ilvspp~~~ 90 (91)
T KOG3460|consen 82 ILVSPPLRL 90 (91)
T ss_pred EEEcCcccC
Confidence 999998654
No 29
>KOG3293|consensus
Probab=99.73 E-value=2.6e-18 Score=108.92 Aligned_cols=72 Identities=22% Similarity=0.416 Sum_probs=67.1
Q ss_pred ChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhh-hccEeeccccCeEEecCcEEEEEeecc
Q psy10835 6 SLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEY-INGQLKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 6 ~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~-~~~~~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
.|+.+|....++++.|+||||.+|.|.|+.||.+|||.|+++++. .+|.+...+++++|||++|.|+.+++.
T Consensus 2 lPLsLL~~aq~~pmlvELKNget~nGhL~~cD~wMNl~L~~Vi~ts~Dgdkf~r~pEcYirGttIkylri~d~ 74 (134)
T KOG3293|consen 2 LPLSLLKTAQNHPMLVELKNGETYNGHLVNCDNWMNLHLREVICTSEDGDKFFRMPECYIRGTTIKYLRIPDE 74 (134)
T ss_pred cchhHHHhcCCCeEEEEecCCCEecceeecchhhhhcchheeEEeccCCCceeecceeEEecceeEEEeccHH
Confidence 599999999999999999999999999999999999999999986 466778889999999999999998863
No 30
>KOG1775|consensus
Probab=99.67 E-value=1.1e-16 Score=94.12 Aligned_cols=73 Identities=22% Similarity=0.404 Sum_probs=65.6
Q ss_pred CCCChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhh---hccEeeccccCeEEecCcEEEEEee
Q psy10835 3 RKESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEY---INGQLKNKYGDTFIRGNNVLYISTQ 75 (80)
Q Consensus 3 ~~~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~---~~~~~~~~~g~v~irG~~I~~I~~~ 75 (80)
-...|++++.+.+|++++|.+++.+++.|+|.|||+|.|++|+|++|+ .+|+...+.+++++.|++|..+.+.
T Consensus 4 ~~llPlEliDkcIgski~iimksdkE~~GtL~GFDd~VNmvLeDvtEye~~~egr~~tk~~~iLLnGNni~mLvPG 79 (84)
T KOG1775|consen 4 STLLPLELIDKCIGSKIWIIMKSDKEFVGTLVGFDDFVNMVLEDVTEYEITPEGRRMTKLDQILLNGNNITMLVPG 79 (84)
T ss_pred hhcccHHHHHHhcCceEEEEEccCceeeeEEechHHHHHHHHHhhhheeeCCCcceeeeeeeeeecCCcEEEEecC
Confidence 346799999999999999999999999999999999999999999997 3455677899999999999987653
No 31
>KOG1781|consensus
Probab=99.63 E-value=2.7e-16 Score=96.38 Aligned_cols=71 Identities=24% Similarity=0.393 Sum_probs=62.5
Q ss_pred HHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhh-c-------cEeeccccCeEEecCcEEEEEeeccc
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYI-N-------GQLKNKYGDTFIRGNNVLYISTQKRR 78 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~-~-------~~~~~~~g~v~irG~~I~~I~~~~~~ 78 (80)
.=.|.+|++|+|+|++..|++..|+|.|||+.||+||+++.|+. + +..++++|.+++||..++.|++.+-+
T Consensus 19 ilDLsky~Dk~Irvkf~GGr~~sGiLkGyDqLlNlVLDd~vEylrdpdd~~~~~~~tR~LGLvV~RGTalvlisp~dG~ 97 (108)
T KOG1781|consen 19 ILDLSKYLDKKIRVKFTGGREASGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDETRKLGLVVCRGTALVLISPADGS 97 (108)
T ss_pred HhhHHHhhccceEEEeecCceeeeehhhHHHHHHHHHHHHHHHhcCCCCccchhhhhheeeeEEEcccEEEEEcCCcch
Confidence 34799999999999999999999999999999999999999973 2 12458999999999999999987643
No 32
>KOG3448|consensus
Probab=99.61 E-value=4.2e-16 Score=93.97 Aligned_cols=71 Identities=27% Similarity=0.433 Sum_probs=61.9
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccE--eeccccCeEEecCcEEEEEeecc
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQ--LKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~--~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
..+|++.++|+.|.|+|||+-++.|+|.+.|+|+|+.|.|.......+ ...++..+||||+.|+||.++++
T Consensus 3 FysfFkslvg~~V~VeLKnd~~i~GtL~svDqyLNlkL~di~v~d~~kyPhm~Sv~ncfIRGSvvrYv~l~kd 75 (96)
T KOG3448|consen 3 FYSFFKSLVGKEVVVELKNDLSICGTLHSVDQYLNLKLTDISVTDPDKYPHMLSVKNCFIRGSVVRYVQLPKD 75 (96)
T ss_pred hHHHHHHhcCCeEEEEEcCCcEEEEEecccchhheeEEeeeEeeCcccCCCeeeeeeEEEeccEEEEEEeChh
Confidence 468999999999999999999999999999999999999998754322 23456789999999999999875
No 33
>KOG3172|consensus
Probab=99.52 E-value=3.7e-15 Score=92.70 Aligned_cols=73 Identities=21% Similarity=0.309 Sum_probs=65.9
Q ss_pred CCChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeec
Q psy10835 4 KESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 4 ~~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
...|+.+|++..|.=|++++..|..|+|.|...|++||++|+|.+....+.....++.+||||+.|+|+.+|+
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 3578999999999999999999999999999999999999999998644445678899999999999999886
No 34
>KOG3168|consensus
Probab=99.47 E-value=4.6e-14 Score=93.65 Aligned_cols=66 Identities=26% Similarity=0.463 Sum_probs=58.6
Q ss_pred HHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhh----------ccEeeccccCeEEecCcEEEEEeec
Q psy10835 11 IQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYI----------NGQLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 11 L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~----------~~~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
+-.+++.+.+|.+.||++|.|++.+||.|||++|.+|+|.. ++++.+-++++++||++|++.+..+
T Consensus 9 ml~~iNyr~rv~~qDgr~~ig~~~afDkhmNlvl~dceE~r~~k~k~~~~~~~eEkr~lgLvllRgenIvs~tVeg 84 (177)
T KOG3168|consen 9 MLQHINYRMRVRLQDGRTFIGQFKAFDKHMNLVLQDCEEFRKIKPKNRKMTDGEEKRVLGLVLLRGENIVSMTVEG 84 (177)
T ss_pred HHHhhcceEEEEeccCceeechhhhhHHHHHHHHHHHHHHhccccccccccccceeeEEEEEEecCCcEEEEeccC
Confidence 66789999999999999999999999999999999999963 2345678999999999999988654
No 35
>KOG1782|consensus
Probab=99.46 E-value=6.4e-14 Score=88.80 Aligned_cols=70 Identities=26% Similarity=0.355 Sum_probs=59.5
Q ss_pred HHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhh-ccEe--eccccCeEEecCcEEEEEeecc
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYI-NGQL--KNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~-~~~~--~~~~g~v~irG~~I~~I~~~~~ 77 (80)
..-|.++++|++.|.|+||+.+.|.|.+||+|-|++|++|.|.. -++. ....|.++|||+||+.+...+.
T Consensus 11 t~sl~~~~dkKllVlLRDGR~L~G~LRSfDQFaNlvL~~~iERi~v~~~Y~di~~glfiIRGENVvllGeid~ 83 (129)
T KOG1782|consen 11 TTSLVEYLDKKLLVLLRDGRKLIGVLRSFDQFANLVLQGVIERIFVGNKYCDIPRGLFIIRGENVVLLGEIDL 83 (129)
T ss_pred hhHHHHHhcceEEEEEecCcchhhhhhhHHHHHHHHHHhhhhheeecceecccCceEEEEecCcEEEEecCCc
Confidence 34588999999999999999999999999999999999999963 2322 2457899999999999987653
No 36
>KOG1774|consensus
Probab=99.44 E-value=1.7e-13 Score=81.62 Aligned_cols=70 Identities=23% Similarity=0.427 Sum_probs=56.7
Q ss_pred ChHHHHHhhhCC--ceEEEecC--CcccceeeeeecccchhhhhhhhhhhccEe-eccccCeEEecCcEEEEEee
Q psy10835 6 SLSQFIQQIHGR--PVVVKLVS--GVDYRGVLSCLDGYMNIALEQTEEYINGQL-KNKYGDTFIRGNNVLYISTQ 75 (80)
Q Consensus 6 ~p~~~L~~~~~k--~V~V~L~~--g~~~~G~L~~~D~~mNivL~~~~~~~~~~~-~~~~g~v~irG~~I~~I~~~ 75 (80)
.|..++-.++.. +|.|+|.+ +..+.|.+.|||+|||+||++|+|...... -..+|.++++|+||-.|...
T Consensus 12 ~Pin~Ifr~Lq~~t~VqIWl~eq~~~rieG~IvGFDEyMNvVlD~aeev~~k~~~rk~lGRilLKGDnItli~~~ 86 (88)
T KOG1774|consen 12 QPINLIFRFLQNRTRVQIWLFEQVGLRIEGRIVGFDEYMNLVLDDAEEVHSKTKSRKELGRILLKGDNITLIQSA 86 (88)
T ss_pred CcHHHHHHHHhcCCceEEEEEeccCcEEeEEEechHHhhhhhhcchhhccccccCCCccccEEEcCCcEEEEeec
Confidence 577778888744 57788887 789999999999999999999999632222 24799999999999998753
No 37
>KOG3428|consensus
Probab=99.41 E-value=2e-13 Score=85.00 Aligned_cols=70 Identities=24% Similarity=0.405 Sum_probs=63.7
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeecc
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
...+|+++.+.+|+|+|+||+...|++.+.|.+||..|.++.....| ...++..+++||++|+|+.+|++
T Consensus 3 lvr~L~kl~~e~vtIeLkngt~v~G~I~~Vd~~Mn~~l~~v~~t~~~-~pv~l~~lsirgnniRy~~lpD~ 72 (109)
T KOG3428|consen 3 LVRFLKKLLNERVTIELKNGTIVHGTIDSVDVQMNTHLKHVKMTVKG-EPVRLDTLSIRGNNIRYYILPDS 72 (109)
T ss_pred HHHHHHHhhCCeEEEEecCCcEEeeeEEEEEhhheeEEEEEEEecCC-CceeEEEEEeecceEEEEEccCC
Confidence 45789999999999999999999999999999999999999887666 45678899999999999999985
No 38
>KOG1784|consensus
Probab=99.41 E-value=1.9e-13 Score=82.84 Aligned_cols=67 Identities=25% Similarity=0.297 Sum_probs=60.0
Q ss_pred HHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhh----ccEeeccccCeEEecCcEEEEEeec
Q psy10835 10 FIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYI----NGQLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 10 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~----~~~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
-|+.|++|+|.|...||+.+.|.|.|||+..|++|+++-|+. .|..+..+|..+|||+|+..|.+.+
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 489999999999999999999999999999999999999852 3445567899999999999998765
No 39
>KOG3459|consensus
Probab=98.79 E-value=3.6e-09 Score=66.12 Aligned_cols=69 Identities=19% Similarity=0.326 Sum_probs=57.9
Q ss_pred CChHHHHHhhh--CCceEEEecCCcccceeeeeecccchhhhhhhhhh-h------ccEe------eccccCeEEecCcE
Q psy10835 5 ESLSQFIQQIH--GRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEY-I------NGQL------KNKYGDTFIRGNNV 69 (80)
Q Consensus 5 ~~p~~~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~-~------~~~~------~~~~g~v~irG~~I 69 (80)
..|++.+.... ..+|.|.++|.+.+.|.+.+||.|+|++|+|+.|. . +|.. -+.++.+||||++|
T Consensus 23 ~Gpls~~~~~~~~~~~vLi~cRnn~k~l~Rv~afdrhcnmvlenvkelwte~~ks~kgkk~~~~~~~r~isK~flRGdsv 102 (114)
T KOG3459|consen 23 TGPLSVLPASVKNNTQVLINCRNNVKLLGRVKAFDRHCNMVLENVKELWTEVPKSGKGKKAKPVNKDRFISKMFLRGDSV 102 (114)
T ss_pred cCchhhhHHHhhcCceeEEEecccHHHHhhhhhhhccccchhhcHHHHCCccccCCCcccCCccchhhhhheeeecCCeE
Confidence 36888888887 66799999999999999999999999999999983 1 2322 46789999999999
Q ss_pred EEEE
Q psy10835 70 LYIS 73 (80)
Q Consensus 70 ~~I~ 73 (80)
+.+.
T Consensus 103 I~v~ 106 (114)
T KOG3459|consen 103 ILVL 106 (114)
T ss_pred EEEE
Confidence 8875
No 40
>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=98.24 E-value=8e-07 Score=51.11 Aligned_cols=35 Identities=26% Similarity=0.262 Sum_probs=29.5
Q ss_pred CCceEEEecCC----cccceeeeeecccchhhhhhhhhh
Q psy10835 16 GRPVVVKLVSG----VDYRGVLSCLDGYMNIALEQTEEY 50 (80)
Q Consensus 16 ~k~V~V~L~~g----~~~~G~L~~~D~~mNivL~~~~~~ 50 (80)
+++|.|.++.- -.++|.|.+||+|+||+|.|+.|.
T Consensus 8 r~RVrV~iR~~~gvrG~~~G~lvAFDK~wNm~L~DV~E~ 46 (66)
T cd01739 8 RIRVRVHIRTFKGLRGVCSGFLVAFDKFWNMALVDVDET 46 (66)
T ss_pred CcEEEEEEecccCcccEEEEEEEeeeeehhheehhhhhh
Confidence 56788888853 467789999999999999999995
No 41
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=98.19 E-value=1.2e-06 Score=51.31 Aligned_cols=63 Identities=14% Similarity=0.268 Sum_probs=41.8
Q ss_pred HHHHHhhhCCceEEEecCCcccceeeeeecc---cchhhhhhhhhhhcc-----E--eeccccCeEEecCcEE
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDYRGVLSCLDG---YMNIALEQTEEYING-----Q--LKNKYGDTFIRGNNVL 70 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~---~mNivL~~~~~~~~~-----~--~~~~~g~v~irG~~I~ 70 (80)
.-++..++|++|.|+++||..|.|+|.+++. -+.++|+.+.....+ . .....+.++|+++.|+
T Consensus 4 ~~l~~~lvG~~V~V~~~~G~~yeGif~s~s~~~~~~~vvLk~a~~~~~~~~~~~~~~~~~~~~tlii~~~dvv 76 (77)
T PF14438_consen 4 VYLLTNLVGQTVEVTTKNGSVYEGIFHSASPESNEFDVVLKMARKVPKSDQSNSDPLSSEIVETLIIPAKDVV 76 (77)
T ss_dssp HHHHHTTTTSEEEEEETTS-EEEEEEEEE-T---T--EEEEEEEETTS------EEEEEEE-GGGEEE-----
T ss_pred HHHHHhCcCCEEEEEECCCCEEEEEEEeCCCcccceeEEEEeeeeccccccccCCccCCCCCceEEEeccccC
Confidence 4467889999999999999999999999998 889999888775332 1 1234567888887764
No 42
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A.
Probab=97.35 E-value=0.0002 Score=44.02 Aligned_cols=65 Identities=18% Similarity=0.362 Sum_probs=52.2
Q ss_pred hhhCCceEEEecCCcccceeeeeecc-cchhhhhhhhhh-hccE--------eeccccCeEEecCcEEEEEeecc
Q psy10835 13 QIHGRPVVVKLVSGVDYRGVLSCLDG-YMNIALEQTEEY-INGQ--------LKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 13 ~~~~k~V~V~L~~g~~~~G~L~~~D~-~mNivL~~~~~~-~~~~--------~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
.++|++|.+.-+++-.|.|+|..+|. .-.|.|+|+..+ .+|. ....++.+..||+.|.-+.+.+-
T Consensus 5 ~~IGs~ISlisk~~iRYeG~L~~Id~~~sTItL~nVr~~GtE~R~~~~~ipp~~~v~~~I~Fr~sDIkdL~v~e~ 79 (96)
T PF12701_consen 5 PYIGSKISLISKSDIRYEGILYSIDTEDSTITLKNVRSFGTEGRPTDREIPPSDEVYDYIVFRGSDIKDLKVIEP 79 (96)
T ss_dssp CCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEETTETTSS-SS---C-CSSSSEEEEETTTEEEEEECE-
T ss_pred cccCCEEEEEECCCcEEEEEEEEEcCCCCEEEeeeeeecCcCCCCcCcccCCCCceeeEEEEEccccceEEEEcC
Confidence 58999999999999999999999994 788999998764 2221 12357789999999999887653
No 43
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=97.06 E-value=0.0012 Score=39.28 Aligned_cols=43 Identities=23% Similarity=0.611 Sum_probs=32.9
Q ss_pred CCCCCChHH-HHHhhh--CCceEEEecCCcccceeeeeecccchhh
Q psy10835 1 MSRKESLSQ-FIQQIH--GRPVVVKLVSGVDYRGVLSCLDGYMNIA 43 (80)
Q Consensus 1 m~~~~~p~~-~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNiv 43 (80)
|.+..+..+ +|..+. +.+|+|-|.||..+.|.+.+||+|+=++
T Consensus 1 m~~~~nlQd~fLn~lr~~~~~VtifL~NG~~l~G~I~~fD~ftVll 46 (79)
T PRK00395 1 MAKGQNLQDPFLNALRKERVPVTIYLVNGIKLQGQIESFDNFVVLL 46 (79)
T ss_pred CccccchHHHHHHHHHHcCCCEEEEEeCCcEEEEEEEEEccEEEEE
Confidence 555555544 555554 6679999999999999999999999444
No 44
>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=96.93 E-value=0.0014 Score=37.28 Aligned_cols=34 Identities=26% Similarity=0.586 Sum_probs=27.9
Q ss_pred HHHhhh--CCceEEEecCCcccceeeeeecccchhh
Q psy10835 10 FIQQIH--GRPVVVKLVSGVDYRGVLSCLDGYMNIA 43 (80)
Q Consensus 10 ~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNiv 43 (80)
+|+.+- ..+|+|-|.||..+.|.+.+||+|+=++
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 455554 5679999999999999999999999443
No 45
>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=96.89 E-value=0.0016 Score=37.01 Aligned_cols=34 Identities=32% Similarity=0.663 Sum_probs=28.0
Q ss_pred HHHhhh--CCceEEEecCCcccceeeeeecccchhh
Q psy10835 10 FIQQIH--GRPVVVKLVSGVDYRGVLSCLDGYMNIA 43 (80)
Q Consensus 10 ~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNiv 43 (80)
+|+.+- +.+|+|-|.||..+.|.+.+||+|+=++
T Consensus 7 fln~~r~~~~~Vti~L~nG~~l~G~I~~fD~ftVll 42 (61)
T TIGR02383 7 FLNTLRKERIPVTVFLVNGVQLKGVIESFDNFTVLL 42 (61)
T ss_pred HHHHHHHcCCcEEEEEeCCcEEEEEEEEEeeeEEEE
Confidence 455554 5679999999999999999999999443
No 46
>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=96.87 E-value=0.0016 Score=34.87 Aligned_cols=46 Identities=20% Similarity=0.278 Sum_probs=35.1
Q ss_pred hCCceEEEecCCcccceeeeeecccchhhhhhhhhhhcc-EeeccccCeEEe
Q psy10835 15 HGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYING-QLKNKYGDTFIR 65 (80)
Q Consensus 15 ~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~-~~~~~~g~v~ir 65 (80)
+||+|++.. ++..++|+..++|+...|+++... | ......|.+++|
T Consensus 2 lG~~V~v~~-~~~~~~G~~~gId~~G~L~v~~~~----g~~~~i~sGdv~~r 48 (48)
T PF02237_consen 2 LGQEVRVET-GDGEIEGIAEGIDDDGALLVRTED----GSIRTISSGDVSLR 48 (48)
T ss_dssp TTSEEEEEE-TSCEEEEEEEEEETTSEEEEEETT----EEEEEESSSEEEEE
T ss_pred CCCEEEEEE-CCeEEEEEEEEECCCCEEEEEECC----CCEEEEEEEEEEeC
Confidence 699999999 567779999999999999997543 3 233445666654
No 47
>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=96.48 E-value=0.0058 Score=36.49 Aligned_cols=64 Identities=17% Similarity=0.256 Sum_probs=48.2
Q ss_pred hHHHHHhhhCCceEEEecCCcccceeeeeec-ccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEee
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVDYRGVLSCLD-GYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQ 75 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~ 75 (80)
.+.+|.++.||+|.+.|.++.+..|++.++| +..|+..+|-.- .=| ..++-++|.+.|+.++..
T Consensus 15 fLr~l~~~~gk~v~f~l~e~t~V~a~F~a~d~~~~~f~Vs~L~T-PlG----v~~eAlLR~~DVi~~~f~ 79 (80)
T PF11095_consen 15 FLRSLLAMVGKPVEFTLHENTTVSARFGACDIDVSNFQVSNLQT-PLG----VQPEALLRCSDVISISFD 79 (80)
T ss_dssp HHHHHHHCTTSEEEEEEGGG-EEEEEEEEE-TTS-EEEEEEEET-TTT----EEEEEEEEGGGEEEEEE-
T ss_pred HHHHHHHhcCCceEEEEeCCeEEEEEEEEecCchheEEhhhcCC-Ccc----cChhheeecCCEEEEEec
Confidence 4667888899999999999999999999999 566776665443 123 246889999999998865
No 48
>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=96.18 E-value=0.0076 Score=40.40 Aligned_cols=65 Identities=25% Similarity=0.290 Sum_probs=45.2
Q ss_pred CChHHHHHhhhCCceEEEecCCcccceeeeeec-ccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeecc
Q psy10835 5 ESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLD-GYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 5 ~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~~ 77 (80)
.+|+ .+..|++|.|.|.+.| +++.|.|..+| -.-|++|-+..+ +++. ..-+|-|-+|..|...+.
T Consensus 7 ~~p~-~~~~yv~K~VkV~~~d-~~~~G~v~TiDPVS~siVL~~~~e--~~~~----sv~~I~ghaVk~vevl~~ 72 (166)
T PF06372_consen 7 KSPL-EWQDYVGKEVKVTLSD-KEYKGWVYTIDPVSASIVLVNFQE--DGKR----SVKVIMGHAVKSVEVLSE 72 (166)
T ss_dssp S-HH-HHHCTTT-EEEEEETT-EEEEEEEEEE-TTT--EEEEEE-T--TS-E----EEEEE-GGGEEEEEEEE-
T ss_pred CCHH-HHHHhhCcEEEEEEec-cEEEEEEEEeCCCCCeEEEEEccc--CCce----eEEEEEccceEEEEEccC
Confidence 4565 5678999999999999 99999999999 577888886665 2321 247888999999887654
No 49
>COG1923 Hfq Uncharacterized host factor I protein [General function prediction only]
Probab=96.12 E-value=0.0097 Score=35.22 Aligned_cols=36 Identities=25% Similarity=0.619 Sum_probs=29.3
Q ss_pred HHHhhh--CCceEEEecCCcccceeeeeecccchhhhhh
Q psy10835 10 FIQQIH--GRPVVVKLVSGVDYRGVLSCLDGYMNIALEQ 46 (80)
Q Consensus 10 ~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~ 46 (80)
||..+- +.+|.|-|.||-.+.|.+++||+|. +.|++
T Consensus 11 fLn~~Rk~~i~VtIfLvNG~~L~G~V~sfD~f~-VlL~~ 48 (77)
T COG1923 11 FLNALRKEKIPVTIFLVNGFKLQGQVESFDNFV-VLLKN 48 (77)
T ss_pred HHHHHHhcCCeEEEEEEcCEEEEEEEEeeeeEE-EEEEc
Confidence 555554 6679999999999999999999998 55553
No 50
>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=95.66 E-value=0.0062 Score=35.88 Aligned_cols=60 Identities=20% Similarity=0.395 Sum_probs=45.1
Q ss_pred hhhCCceEEEecCCcccceeeeeec-ccchhhhhhhhhh-hccE---------eeccccCeEEecCcEEEE
Q psy10835 13 QIHGRPVVVKLVSGVDYRGVLSCLD-GYMNIALEQTEEY-INGQ---------LKNKYGDTFIRGNNVLYI 72 (80)
Q Consensus 13 ~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNivL~~~~~~-~~~~---------~~~~~g~v~irG~~I~~I 72 (80)
.++|+++.+.-+.+-.|.|+|.++| +.--+-|+|+..+ .+|. ....++.+..||+.|.-+
T Consensus 3 ~~IG~~isLISk~~iRYeGiL~~In~~~sTi~L~nVr~fGTEgR~~~~~~ipp~~~vyd~IvFrgsDIkDL 73 (74)
T cd01736 3 PYIGSKISLISKSDIRYEGILYTINTEDSTIALKNVRSFGTEGRPTDGPEIPPSDEVYDYIVFRGSDIKDL 73 (74)
T ss_pred cccCceEEEEecCCcEEEEEEEeeccccCEEEeeeeEeecccCCCCCCCccCCCCcceeEEEEcCCccccc
Confidence 5899999999999999999999999 4555778888753 1221 123456788999887643
No 51
>PRK14091 RNA-binding protein Hfq; Provisional
Probab=95.64 E-value=0.019 Score=38.42 Aligned_cols=34 Identities=26% Similarity=0.630 Sum_probs=28.1
Q ss_pred HHHhhh--CCceEEEecCCcccceeeeeecccchhh
Q psy10835 10 FIQQIH--GRPVVVKLVSGVDYRGVLSCLDGYMNIA 43 (80)
Q Consensus 10 ~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNiv 43 (80)
+|..+. ..+|+|-|.||-.++|.+.+||+|.=+.
T Consensus 16 fLn~~Rk~k~~VtvfL~nG~rl~G~I~~fD~ftVlL 51 (165)
T PRK14091 16 FLNSLRKTKTPVTMFLVKGVKLQGIITWFDNFSILL 51 (165)
T ss_pred HHHHHHhcCCcEEEEEecCcEEEEEEEEEcceEEEE
Confidence 666665 5568899999999999999999998444
No 52
>PRK14638 hypothetical protein; Provisional
Probab=95.04 E-value=0.046 Score=35.87 Aligned_cols=37 Identities=11% Similarity=0.185 Sum_probs=30.8
Q ss_pred HHHHHhhhCCceEEEecCCcccceeeeeecccchhhhh
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~ 45 (80)
..-+.+++|++|.|++++++.++|+|.++|+- ++.|.
T Consensus 92 ~~~f~r~~G~~v~V~~~~~k~~~G~L~~~~~~-~i~l~ 128 (150)
T PRK14638 92 PKDYVRFTGKLAKIVTKDGKTFIGRIESFVDG-TITIS 128 (150)
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEEeCC-EEEEE
Confidence 34678899999999999999999999999964 35443
No 53
>PRK14639 hypothetical protein; Provisional
Probab=94.92 E-value=0.051 Score=35.24 Aligned_cols=37 Identities=22% Similarity=0.309 Sum_probs=31.1
Q ss_pred HHHHHhhhCCceEEEecCCcccceeeeeecccchhhhh
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~ 45 (80)
..-++.++|++|.|++.+++.+.|+|.++|+. ++.|.
T Consensus 80 ~~~f~r~~G~~v~v~l~~~~~~~G~L~~~~~~-~i~l~ 116 (140)
T PRK14639 80 IEHFAKSIGELVKITTNEKEKFEGKIVSVDDE-NITLE 116 (140)
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEEeCC-EEEEE
Confidence 45678999999999999999999999999973 45443
No 54
>PF10842 DUF2642: Protein of unknown function (DUF2642); InterPro: IPR020139 This entry contains proteins with no known function.
Probab=94.87 E-value=0.091 Score=30.24 Aligned_cols=54 Identities=31% Similarity=0.477 Sum_probs=40.2
Q ss_pred HHHHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEe
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~ 74 (80)
.+.|++++|++|.|+...|+. +|+|.+.-.- .++|+.. + ..+|||=..|++|.+
T Consensus 13 yq~lq~liG~~vvV~T~~g~v-~G~L~~V~pD-hIvl~~~-----~------~~~~IR~~~IV~v~p 66 (66)
T PF10842_consen 13 YQTLQSLIGQRVVVQTTRGSV-RGILVDVKPD-HIVLEEN-----G------TPFFIRIAQIVWVMP 66 (66)
T ss_pred HHHHHHhcCCEEEEEEcCCcE-EEEEEeecCC-EEEEEeC-----C------cEEEEEeeeEEEEcC
Confidence 568999999999999987655 9999998732 2354422 2 267899888888753
No 55
>PRK02001 hypothetical protein; Validated
Probab=94.45 E-value=0.078 Score=34.96 Aligned_cols=36 Identities=28% Similarity=0.333 Sum_probs=30.4
Q ss_pred HHHHhhhCCceEEEecCCcccceeeeeecccchhhhh
Q psy10835 9 QFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 9 ~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~ 45 (80)
.-+..++|+.|.|++.+++.+.|+|.++|+. ++.|.
T Consensus 83 ~~f~r~~G~~v~V~l~~~~~~~G~L~~~~~~-~i~l~ 118 (152)
T PRK02001 83 RQYKKNIGRELEVLTKNGKKIEGELKSADEN-DITLE 118 (152)
T ss_pred HHHHHhCCCEEEEEECCCCEEEEEEEEEeCC-EEEEE
Confidence 4677899999999999999999999999964 34443
No 56
>PRK14091 RNA-binding protein Hfq; Provisional
Probab=94.24 E-value=0.07 Score=35.78 Aligned_cols=34 Identities=29% Similarity=0.604 Sum_probs=28.1
Q ss_pred HHHhhh--CCceEEEecCCcccceeeeeecccchhh
Q psy10835 10 FIQQIH--GRPVVVKLVSGVDYRGVLSCLDGYMNIA 43 (80)
Q Consensus 10 ~L~~~~--~k~V~V~L~~g~~~~G~L~~~D~~mNiv 43 (80)
+|..+. ..+|+|-|.||-.+.|.+.+||.|.=+.
T Consensus 96 fLn~~rk~k~~VtvfL~NG~~l~G~I~~fD~ftvlL 131 (165)
T PRK14091 96 FLSAVRDSGEPVTMFLVNGVMLQGEIAAFDLFCMLL 131 (165)
T ss_pred HHHHHHhcCCcEEEEEecCcEEEEEEEEEcceEEEE
Confidence 566665 5668999999999999999999999444
No 57
>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=93.72 E-value=0.058 Score=30.59 Aligned_cols=36 Identities=11% Similarity=0.088 Sum_probs=30.2
Q ss_pred hhCCceEEEecCCcccceeeeeecccchhhhhhhhh
Q psy10835 14 IHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEE 49 (80)
Q Consensus 14 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~ 49 (80)
.+|..|.++...|.+++|.+.+||...+++.-.|..
T Consensus 4 ~iGs~V~~kTc~g~~ieGEV~afD~~tk~lIlk~~s 39 (61)
T cd01735 4 SVGSQVSCRTCFEQRLQGEVVAFDYPSKMLILKCPS 39 (61)
T ss_pred ccccEEEEEecCCceEEEEEEEecCCCcEEEEECcc
Confidence 478999999999999999999999877776555443
No 58
>PRK14644 hypothetical protein; Provisional
Probab=92.55 E-value=0.26 Score=31.87 Aligned_cols=36 Identities=19% Similarity=0.072 Sum_probs=30.2
Q ss_pred HHHHhhhCCceEEEecCC----cccceeeeeecccchhhhh
Q psy10835 9 QFIQQIHGRPVVVKLVSG----VDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 9 ~~L~~~~~k~V~V~L~~g----~~~~G~L~~~D~~mNivL~ 45 (80)
+-+.+++|+.|.|+|++. +.+.|.|.++|+. ++.|.
T Consensus 78 ~~f~r~~G~~v~V~l~~~~~~~~~~~G~L~~v~~~-~i~l~ 117 (136)
T PRK14644 78 DELENHIGEIIDVSLNKEVNKTDFITGELLENNPE-TITLK 117 (136)
T ss_pred HHHHHhCCCeEEEEEccCcCCeEEEEEEEEEEeCC-EEEEE
Confidence 358899999999999886 9999999999973 45554
No 59
>PRK14642 hypothetical protein; Provisional
Probab=92.39 E-value=0.25 Score=34.01 Aligned_cols=36 Identities=17% Similarity=0.278 Sum_probs=29.9
Q ss_pred HHHHHhhhCCceEEEec-------------CCcccceeeeeecccchhhh
Q psy10835 8 SQFIQQIHGRPVVVKLV-------------SGVDYRGVLSCLDGYMNIAL 44 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~-------------~g~~~~G~L~~~D~~mNivL 44 (80)
..-+.+++|+.|.|+|+ +.+.++|+|.++|+. ++.|
T Consensus 92 ~~df~rfiG~~V~V~l~~pi~~~~~~~~~~~rk~f~G~L~~~~~~-~i~l 140 (197)
T PRK14642 92 EQDFERFAGEVIDITLKAPIGAAAGGQVSANRKKFRGTLERAESG-GWQI 140 (197)
T ss_pred HHHHHHhCCCeEEEEEeccccccccccccCCceEEEEEEEEEcCC-EEEE
Confidence 45678889999999998 679999999999974 4544
No 60
>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=91.76 E-value=0.4 Score=28.14 Aligned_cols=32 Identities=28% Similarity=0.396 Sum_probs=26.9
Q ss_pred HHHHHhhhCCceEEEec---CC-cccceeeeeeccc
Q psy10835 8 SQFIQQIHGRPVVVKLV---SG-VDYRGVLSCLDGY 39 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~---~g-~~~~G~L~~~D~~ 39 (80)
..-+..++|+.|.|+++ +| +.+.|.|.++|+.
T Consensus 17 ~~~~~r~~G~~v~v~~~~~~~~~~~~~G~L~~~~~~ 52 (83)
T cd01734 17 EADFERAVGKYVHVKLYQPIDGQKEFEGTLLGVDDD 52 (83)
T ss_pred HHHHHHhCCCEEEEEEEcccCCeEEEEEEEEeEeCC
Confidence 34677889999999997 55 6899999999974
No 61
>PRK14640 hypothetical protein; Provisional
Probab=91.52 E-value=0.38 Score=31.53 Aligned_cols=37 Identities=22% Similarity=0.390 Sum_probs=29.7
Q ss_pred HHHHHhhhCCceEEEe----cCCcccceeeeeecccchhhhh
Q psy10835 8 SQFIQQIHGRPVVVKL----VSGVDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L----~~g~~~~G~L~~~D~~mNivL~ 45 (80)
..-+.+++|++|.|++ .+.+.++|+|.++|+. ++.|.
T Consensus 89 ~~~f~r~~G~~v~V~l~~~~~~~k~~~G~L~~v~~~-~v~l~ 129 (152)
T PRK14640 89 VAQFEKYVGQEAAVTLRMATNNRRKFKGVIKAVQGD-MITLT 129 (152)
T ss_pred HHHHHHhCCCeEEEEEecccCCceEEEEEEEEEeCC-EEEEE
Confidence 3467889999999999 4679999999999974 35553
No 62
>PRK14633 hypothetical protein; Provisional
Probab=91.41 E-value=0.4 Score=31.40 Aligned_cols=36 Identities=28% Similarity=0.377 Sum_probs=29.1
Q ss_pred HHHHHhhhCCceEEEec----CCcccceeeeeecccchhhh
Q psy10835 8 SQFIQQIHGRPVVVKLV----SGVDYRGVLSCLDGYMNIAL 44 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~----~g~~~~G~L~~~D~~mNivL 44 (80)
..-+.+++|++|.|+++ +++.++|+|.++|+. ++.|
T Consensus 86 ~~~f~r~~G~~v~V~~~~~~~~~~~~~G~L~~v~~~-~i~l 125 (150)
T PRK14633 86 IIQAQALVGFNVKAVTLAPVGSQTKFKGVLERVEGN-NVIL 125 (150)
T ss_pred HHHHHHhCCCeEEEEEecccCCcEEEEEEEEEEeCC-EEEE
Confidence 34678899999999984 679999999999974 3444
No 63
>KOG1073|consensus
Probab=91.41 E-value=0.22 Score=37.08 Aligned_cols=66 Identities=15% Similarity=0.337 Sum_probs=51.5
Q ss_pred HhhhCCceEEEecCCcccceeeeeec-ccchhhhhhhhhh-hcc-----Ee----eccccCeEEecCcEEEEEeecc
Q psy10835 12 QQIHGRPVVVKLVSGVDYRGVLSCLD-GYMNIALEQTEEY-ING-----QL----KNKYGDTFIRGNNVLYISTQKR 77 (80)
Q Consensus 12 ~~~~~k~V~V~L~~g~~~~G~L~~~D-~~mNivL~~~~~~-~~~-----~~----~~~~g~v~irG~~I~~I~~~~~ 77 (80)
..++|++|.+.=+..-.|+|+|.-+| +-.=|=|++|..+ .++ .. ...++-++.||+.|.-+.+.+.
T Consensus 5 t~yIGS~ISLISk~DIRYEGILy~in~qdSTlgLqnVRsfGTEgRk~~~pq~p~~~kVy~YIlFRGSDIKDL~V~~~ 81 (361)
T KOG1073|consen 5 TSYIGSFISLISKNDIRYEGILYTINLQDSTLGLQNVRSFGTEGRKTDGPQVPPDDKVYDYILFRGSDIKDLIVQET 81 (361)
T ss_pred cccccceeEEeecccceeeeEEEeccccccceehhheeecccccCCCCCCcCCCCccceeeEEecCcccceeeeccC
Confidence 46899999999999999999999999 6677888887432 222 11 1256789999999998887663
No 64
>PRK14645 hypothetical protein; Provisional
Probab=91.12 E-value=0.4 Score=31.64 Aligned_cols=35 Identities=14% Similarity=0.399 Sum_probs=28.5
Q ss_pred HHHHHhhhCCceEEEecCCcccceeeeeecccchhhh
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIAL 44 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL 44 (80)
..-+.+++|++|.|++ +++.+.|+|.++|+.. +.|
T Consensus 94 ~~df~r~~G~~v~v~~-~~k~~~G~L~~~~d~~-i~l 128 (154)
T PRK14645 94 ARHFERFAGLKAKVRG-PGENFTGRIKAVSGDQ-VTF 128 (154)
T ss_pred HHHHHHhCCCEEEEEc-CCeEEEEEEEEEeCCE-EEE
Confidence 3467788999999986 7899999999999743 444
No 65
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=90.80 E-value=0.49 Score=31.31 Aligned_cols=36 Identities=25% Similarity=0.455 Sum_probs=30.8
Q ss_pred HHHHHhhhCCceEEEe----cCCcccceeeeeecccchhhh
Q psy10835 8 SQFIQQIHGRPVVVKL----VSGVDYRGVLSCLDGYMNIAL 44 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L----~~g~~~~G~L~~~D~~mNivL 44 (80)
.+-+..++|+.|.|+| .+++.+.|+|.++|+-. +.+
T Consensus 91 ~~~f~r~~G~~Vkv~l~~~~~~~k~~~G~i~~~d~~~-v~~ 130 (153)
T COG0779 91 AEHFARFIGEKVKVKLRLPIEGRKKFEGKIVAVDGET-VTL 130 (153)
T ss_pred HHHHHHhcCcEEEEEEecccCCceEEEEEEEEEcCCe-EEE
Confidence 4578889999999999 68899999999999776 443
No 66
>PRK14643 hypothetical protein; Provisional
Probab=90.75 E-value=0.47 Score=31.59 Aligned_cols=32 Identities=13% Similarity=0.123 Sum_probs=27.5
Q ss_pred HHHHHhhhCCceEEEecC----Ccccceeeeeeccc
Q psy10835 8 SQFIQQIHGRPVVVKLVS----GVDYRGVLSCLDGY 39 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~----g~~~~G~L~~~D~~ 39 (80)
..-+..++|++|.|+|++ .+.+.|+|.++|+-
T Consensus 96 ~~df~r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~ 131 (164)
T PRK14643 96 QEELVKALNQWVYVQLNNEIKKVKEFEGYVTKYNVN 131 (164)
T ss_pred HHHHHHhcCCeEEEEEecccCCceEEEEEEEEEeCC
Confidence 446788999999999975 69999999999954
No 67
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=90.49 E-value=0.54 Score=30.67 Aligned_cols=32 Identities=31% Similarity=0.505 Sum_probs=27.4
Q ss_pred HHHHHhhhCCceEEEe----cCCcccceeeeeeccc
Q psy10835 8 SQFIQQIHGRPVVVKL----VSGVDYRGVLSCLDGY 39 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L----~~g~~~~G~L~~~D~~ 39 (80)
..-+..++|+.|.|++ .+++.+.|.|.++|+.
T Consensus 90 ~~~f~r~~G~~v~V~~~~~~~~~~~~~G~L~~~~~~ 125 (154)
T PRK00092 90 ARDFRRFIGREVKVKLYEPIDGRKKFQGILLAVDGE 125 (154)
T ss_pred HHHHHHhCCCeEEEEEEcccCCceEEEEEEEEeeCC
Confidence 4567899999999997 5678999999999973
No 68
>PRK14636 hypothetical protein; Provisional
Probab=90.30 E-value=0.51 Score=31.75 Aligned_cols=36 Identities=22% Similarity=0.447 Sum_probs=28.6
Q ss_pred HHHHHhhhCCceEEEec---CC-cccceeeeeecccchhhh
Q psy10835 8 SQFIQQIHGRPVVVKLV---SG-VDYRGVLSCLDGYMNIAL 44 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~---~g-~~~~G~L~~~D~~mNivL 44 (80)
..-+..++|++|.|+|+ +| +.++|+|.++|+. ++.|
T Consensus 90 ~~df~r~~G~~V~V~l~~~~~g~k~~~G~L~~v~~~-~v~l 129 (176)
T PRK14636 90 PKDFADWAGHEARIALSEPLDGRKQFRGELKGIDGD-TVTI 129 (176)
T ss_pred HHHHHHhCCCeEEEEEecccCCeEEEEEEEEEEeCC-EEEE
Confidence 34678899999999997 45 7999999999863 3444
No 69
>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=90.04 E-value=0.44 Score=30.48 Aligned_cols=35 Identities=31% Similarity=0.413 Sum_probs=26.0
Q ss_pred HHHHhhhCCceEEEec----CCcccceeeeeecccchhhh
Q psy10835 9 QFIQQIHGRPVVVKLV----SGVDYRGVLSCLDGYMNIAL 44 (80)
Q Consensus 9 ~~L~~~~~k~V~V~L~----~g~~~~G~L~~~D~~mNivL 44 (80)
..+..++|++|.|+++ +.+.+.|+|.++|+ -.+.|
T Consensus 80 ~~~~~~iG~~v~v~~~~~~~~~~~~~G~L~~~~~-~~i~l 118 (141)
T PF02576_consen 80 RDFERFIGRKVKVKLKQPVNGRKEFEGKLLEVDE-DEITL 118 (141)
T ss_dssp HHHHHH-SEEEEEE-SS-SSS-SEEEEEEEEEET-TEEEE
T ss_pred HHHHHhcCCeEEEEEeccCCCcEEEEEEEEEEeC-CEEEE
Confidence 5788999999999994 45789999999997 33444
No 70
>PRK14632 hypothetical protein; Provisional
Probab=90.02 E-value=0.59 Score=31.31 Aligned_cols=37 Identities=22% Similarity=0.475 Sum_probs=29.7
Q ss_pred HHHHHhhhCCceEEEecC-------Ccccceeeeeecccchhhhh
Q psy10835 8 SQFIQQIHGRPVVVKLVS-------GVDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~-------g~~~~G~L~~~D~~mNivL~ 45 (80)
..-+.+++|+.|.|++.+ .+.+.|+|.++|+. ++.|+
T Consensus 90 ~~~f~r~iG~~V~V~l~~~~~~~~g~k~~~G~L~~v~~~-~i~l~ 133 (172)
T PRK14632 90 AEQMSPYVGRQIELTLIDPTPEWPGRRKFRGELLAVEGD-TVVLR 133 (172)
T ss_pred HHHHHHhCCCEEEEEEeccccccCCceEEEEEEEEEeCC-EEEEE
Confidence 346788999999999986 57999999999963 35554
No 71
>PRK14634 hypothetical protein; Provisional
Probab=89.79 E-value=0.64 Score=30.61 Aligned_cols=36 Identities=19% Similarity=0.219 Sum_probs=28.6
Q ss_pred HHHHHhhhCCceEEEecC----Ccccceeeeeecccchhhh
Q psy10835 8 SQFIQQIHGRPVVVKLVS----GVDYRGVLSCLDGYMNIAL 44 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~----g~~~~G~L~~~D~~mNivL 44 (80)
..-+.+++|++|.|++.+ .+.+.|+|.++|+- ++.|
T Consensus 92 ~~~f~r~~G~~V~V~l~~~~~~~k~~~G~L~~~~~~-~v~l 131 (155)
T PRK14634 92 DRDFQTFRGFPVEVSHRDDDGSEQRLEGLLLERNED-HLQI 131 (155)
T ss_pred HHHHHHhCCCeEEEEEecCCCCeEEEEEEEEEEeCC-EEEE
Confidence 346788999999999974 37999999999964 3545
No 72
>PRK14646 hypothetical protein; Provisional
Probab=89.37 E-value=0.71 Score=30.39 Aligned_cols=37 Identities=22% Similarity=0.205 Sum_probs=29.3
Q ss_pred HHHHHhhhCCceEEEecCC----cccceeeeeecccchhhhh
Q psy10835 8 SQFIQQIHGRPVVVKLVSG----VDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g----~~~~G~L~~~D~~mNivL~ 45 (80)
..-+..++|++|.|+|++. +.+.|+|.++|+- ++.|.
T Consensus 92 ~~df~r~~G~~v~V~l~~~~~~~~~~~G~L~~~~~~-~v~l~ 132 (155)
T PRK14646 92 ERDFKTFKGFPVNVELNQKNSKIKFLNGLLYEKSKD-YLAIN 132 (155)
T ss_pred HHHHHHhCCCEEEEEEecCcCCeEEEEEEEEEEeCC-EEEEE
Confidence 4578889999999999753 7889999999974 45553
No 73
>PRK14647 hypothetical protein; Provisional
Probab=88.71 E-value=0.84 Score=30.06 Aligned_cols=31 Identities=23% Similarity=0.250 Sum_probs=26.5
Q ss_pred HHHHHhhhCCceEEEec---------CCcccceeeeeecc
Q psy10835 8 SQFIQQIHGRPVVVKLV---------SGVDYRGVLSCLDG 38 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~---------~g~~~~G~L~~~D~ 38 (80)
..-+..++|++|.|+++ +.+.+.|+|.++|+
T Consensus 91 ~~~f~r~~G~~v~V~l~~~~~~~~~~~~~~~~G~L~~~~~ 130 (159)
T PRK14647 91 EADYERYAGRLVKVRTFELLADEAGNKRKTFLGELEGLAD 130 (159)
T ss_pred HHHHHHhCCcEEEEEEeccccccccCCceEEEEEEEeecC
Confidence 44678899999999995 35899999999996
No 74
>PRK14637 hypothetical protein; Provisional
Probab=87.95 E-value=1.2 Score=29.25 Aligned_cols=37 Identities=16% Similarity=0.147 Sum_probs=28.0
Q ss_pred HHHHHhhhCCceEEEecCCccc-ceeeeeecccchhhhh
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDY-RGVLSCLDGYMNIALE 45 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~-~G~L~~~D~~mNivL~ 45 (80)
..-+..++|++|.|++.+...+ +|+|.++|+. ++.|.
T Consensus 90 ~~~f~r~~G~~V~V~l~~~~~~~~G~L~~~~d~-~v~l~ 127 (151)
T PRK14637 90 AAEFSIFVGETVKVWFECTGQWQVGTIAEADET-CLVLT 127 (151)
T ss_pred HHHHHHhCCCEEEEEECCCCcEEEEEEEEEeCC-EEEEE
Confidence 4567889999999999544556 7999999974 34443
No 75
>PRK06955 biotin--protein ligase; Provisional
Probab=87.87 E-value=0.65 Score=33.30 Aligned_cols=50 Identities=26% Similarity=0.268 Sum_probs=35.6
Q ss_pred hhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecC
Q psy10835 14 IHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGN 67 (80)
Q Consensus 14 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~ 67 (80)
++|++|+|...++..+.|+..++|+...|+++.. +|......|++.+|..
T Consensus 247 ~~g~~V~v~~~~~~~~~G~~~gId~~G~L~v~~~----~g~~~~~sGeV~~~~~ 296 (300)
T PRK06955 247 YAGREVVLLEDGAELARGVAHGIDETGQLLLDTP----AGRQAIAAGDVSLREA 296 (300)
T ss_pred cCCCeEEEEECCCcEEEEEEeeECCCceEEEEeC----CCeEEEEEEEEEEecc
Confidence 4699999976667789999999999999988532 2322334566666543
No 76
>PRK14631 hypothetical protein; Provisional
Probab=87.18 E-value=1.2 Score=30.00 Aligned_cols=30 Identities=20% Similarity=0.382 Sum_probs=26.4
Q ss_pred HHHHHhhhCCceEEEec----CCcccceeeeeec
Q psy10835 8 SQFIQQIHGRPVVVKLV----SGVDYRGVLSCLD 37 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~----~g~~~~G~L~~~D 37 (80)
..-+..++|+.|.|+|. +.+.++|+|.++|
T Consensus 109 ~~df~r~~G~~V~V~l~~~~~~~k~~~G~L~~v~ 142 (174)
T PRK14631 109 LEQLQGYIGQQVALRLIAAVENRRKFQAKLLAVD 142 (174)
T ss_pred HHHHHHhCCCeEEEEEecccCCceEEEEEEEEee
Confidence 45788899999999996 4599999999998
No 77
>PRK14641 hypothetical protein; Provisional
Probab=86.04 E-value=1.3 Score=29.82 Aligned_cols=30 Identities=17% Similarity=0.140 Sum_probs=25.5
Q ss_pred HHHHHhhhCCceEEEecC----Ccccceeeeeec
Q psy10835 8 SQFIQQIHGRPVVVKLVS----GVDYRGVLSCLD 37 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~----g~~~~G~L~~~D 37 (80)
..-+.+++|+.|.|++.+ .+.++|+|.++|
T Consensus 96 ~~~f~r~~G~~V~V~l~~~~~~~~~~~G~L~~~~ 129 (173)
T PRK14641 96 PRQYGRHVGRLLRVTYRDEEGSEHEVTGHLQEVS 129 (173)
T ss_pred HHHHHHhCCCEEEEEEecccCCeEEEEEEEEeee
Confidence 346788899999999976 568999999995
No 78
>PRK13325 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed
Probab=86.03 E-value=0.91 Score=35.69 Aligned_cols=50 Identities=22% Similarity=0.361 Sum_probs=36.5
Q ss_pred hhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecC
Q psy10835 14 IHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGN 67 (80)
Q Consensus 14 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~ 67 (80)
++|++|.+...++..+.|+..++|+...|+|+.. +|......|++.+|..
T Consensus 276 ~~gk~V~v~~~~~~~~~Gi~~GId~~G~L~l~~~----~g~~~~~sGEVslr~~ 325 (592)
T PRK13325 276 DHGKAVLLLRDGETVFEGTVKGVDGQGVLHLETA----EGKQTVVSGEISLRSD 325 (592)
T ss_pred cCCCeEEEEeCCCcEEEEEEEEECCCCEEEEEEC----CCeEEEEEEeEEEeec
Confidence 5699999876666779999999999999999632 2333334566766654
No 79
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=83.63 E-value=1.4 Score=31.45 Aligned_cols=48 Identities=19% Similarity=0.202 Sum_probs=34.7
Q ss_pred hhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEec
Q psy10835 14 IHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRG 66 (80)
Q Consensus 14 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG 66 (80)
++|++|.+...+ ..+.|++.++|+...|+++. ..+.+....|++.++.
T Consensus 270 ~~g~~v~~~~~~-~~~~G~~~gi~~~G~L~i~~----~g~~~~~~~gev~~~~ 317 (319)
T PRK11886 270 FLGREVKLIIGD-KEISGIARGIDEQGALLLED----DGVEKPFNGGEISLRS 317 (319)
T ss_pred ccCCeEEEEeCC-cEEEEEEEEECCCceEEEEe----CCcEEEEEEeEEEEec
Confidence 469999998754 67999999999999999961 1222334456676654
No 80
>PRK14630 hypothetical protein; Provisional
Probab=81.51 E-value=3.5 Score=26.78 Aligned_cols=35 Identities=9% Similarity=0.073 Sum_probs=27.1
Q ss_pred HHHHHhhhCCceEEEecCCcccceeeeeecccchhhh
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIAL 44 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL 44 (80)
..-+++++|++|.|++.+ ....|+|.++|+. ++.|
T Consensus 89 ~~df~r~~G~~v~V~l~~-~~~~G~L~~~~d~-~i~l 123 (143)
T PRK14630 89 DREFKIFEGKKIKLMLDN-DFEEGFILEAKAD-SFIF 123 (143)
T ss_pred HHHHHHhCCCEEEEEEcC-cceEEEEEEEeCC-EEEE
Confidence 456788999999999965 4459999999973 3444
No 81
>PRK09618 flgD flagellar basal body rod modification protein; Provisional
Probab=77.77 E-value=2.9 Score=27.40 Aligned_cols=26 Identities=15% Similarity=0.226 Sum_probs=23.9
Q ss_pred HhhhCCceEEEecCCcccceeeeeec
Q psy10835 12 QQIHGRPVVVKLVSGVDYRGVLSCLD 37 (80)
Q Consensus 12 ~~~~~k~V~V~L~~g~~~~G~L~~~D 37 (80)
..++||.|.+...+|..+.|++.++.
T Consensus 88 ~slVGk~V~~~~~~g~~~tG~V~~V~ 113 (142)
T PRK09618 88 SELIGKEVEWEGEDGEIVSGTVTSVK 113 (142)
T ss_pred HHHhCCEEEEEeCCCCEEEEEEEEEE
Confidence 57899999999999999999999986
No 82
>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=76.69 E-value=2 Score=28.67 Aligned_cols=24 Identities=17% Similarity=0.425 Sum_probs=22.1
Q ss_pred hCCceEEEecCCcccceeeeeecc
Q psy10835 15 HGRPVVVKLVSGVDYRGVLSCLDG 38 (80)
Q Consensus 15 ~~k~V~V~L~~g~~~~G~L~~~D~ 38 (80)
.|+.|+|-+.||++++|.-.|.|.
T Consensus 119 qg~sIrVyM~DgR~ieG~stGvna 142 (165)
T PF03614_consen 119 QGKSIRVYMADGREIEGKSTGVNA 142 (165)
T ss_pred CCCeEEEEEcCCcEEEeeecccce
Confidence 388999999999999999999984
No 83
>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=75.75 E-value=3 Score=28.62 Aligned_cols=31 Identities=23% Similarity=0.232 Sum_probs=26.7
Q ss_pred hhCCceEEEecCCcccceeeeeecccchhhhh
Q psy10835 14 IHGRPVVVKLVSGVDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 14 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~ 45 (80)
.+||+|.+...+ ..+.|+..++|+...|+++
T Consensus 191 ~~g~~V~v~~~~-~~~~G~~~gI~~~G~L~v~ 221 (237)
T TIGR00121 191 HIGREVSLTTGN-GEIEGIARGIDKDGALLLE 221 (237)
T ss_pred ccCCeEEEEeCC-cEEEEEEEeECCCceEEEE
Confidence 459999998755 5689999999999999996
No 84
>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=75.69 E-value=2.8 Score=24.85 Aligned_cols=57 Identities=26% Similarity=0.283 Sum_probs=26.8
Q ss_pred HHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEE
Q psy10835 10 FIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYIS 73 (80)
Q Consensus 10 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~ 73 (80)
.+..+-+-+|.++|+||..+.|+ +.|-..|- +-.|+.-= ...-+...||=++|..++
T Consensus 11 EiAC~~~~~v~L~l~dG~~~~g~--A~dt~~~~---~k~E~L~l--~~~~~~~~i~Ld~I~~~~ 67 (80)
T PF07073_consen 11 EIACMYRYPVKLTLKDGEQIEGK--ALDTRTNA---KKEECLVL--EQDGGEQEIRLDQIASMS 67 (80)
T ss_dssp HHHHTTTT-EEEE-TTT--EEES--S-EEE------SSS-EEEE--EETTEEEEESTT--SEEE
T ss_pred HHHHhcCCeEEEEEeCCCEEEEE--EEEEEEec---CceEEEEE--ecCCcEEEEEhhheeeee
Confidence 35667789999999999999998 55544442 12221000 001234556666666666
No 85
>PRK08330 biotin--protein ligase; Provisional
Probab=73.91 E-value=4.1 Score=27.99 Aligned_cols=33 Identities=21% Similarity=0.293 Sum_probs=26.7
Q ss_pred hhCCceEEEecCCccc-ceeeeeecccchhhhhhh
Q psy10835 14 IHGRPVVVKLVSGVDY-RGVLSCLDGYMNIALEQT 47 (80)
Q Consensus 14 ~~~k~V~V~L~~g~~~-~G~L~~~D~~mNivL~~~ 47 (80)
++|++|.+.. ++..+ .|+..++|+...|+++..
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 5699999975 55554 699999999999988743
No 86
>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=72.31 E-value=3.3 Score=25.57 Aligned_cols=19 Identities=26% Similarity=0.380 Sum_probs=15.2
Q ss_pred CCceEEEecCCcccceeee
Q psy10835 16 GRPVVVKLVSGVDYRGVLS 34 (80)
Q Consensus 16 ~k~V~V~L~~g~~~~G~L~ 34 (80)
..+|.++|+||+.+.|++.
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 4579999999999999985
No 87
>PRK14635 hypothetical protein; Provisional
Probab=72.03 E-value=8.3 Score=25.43 Aligned_cols=35 Identities=20% Similarity=0.331 Sum_probs=26.7
Q ss_pred HHHHhhhCCceEEEec--CCcccce---eeeeecccchhhh
Q psy10835 9 QFIQQIHGRPVVVKLV--SGVDYRG---VLSCLDGYMNIAL 44 (80)
Q Consensus 9 ~~L~~~~~k~V~V~L~--~g~~~~G---~L~~~D~~mNivL 44 (80)
.-+..+.|++|.|++. ++..+.| .|.++|+. ++.|
T Consensus 92 ~~~~r~~G~~v~v~~~~~~~~~~~g~~g~L~~~~~~-~v~l 131 (162)
T PRK14635 92 EDLDRFRGIPVRLVFRSEESEKWQEGIFRLVNRDGD-QVEL 131 (162)
T ss_pred HHHHHhCCCEEEEEEecCCCcEEEecceEEEEEcCC-EEEE
Confidence 4677899999999886 4577777 99999964 3444
No 88
>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=66.02 E-value=4.2 Score=27.15 Aligned_cols=33 Identities=21% Similarity=0.076 Sum_probs=29.7
Q ss_pred CCceEEEecCCcccceeeeeecccchhhhhhhh
Q psy10835 16 GRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTE 48 (80)
Q Consensus 16 ~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~ 48 (80)
+-+|+|.+.||..+.|.+.+|+.--|.+|..+.
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 668999999999999999999999999987554
No 89
>KOG3382|consensus
Probab=65.08 E-value=3.1 Score=27.23 Aligned_cols=27 Identities=19% Similarity=0.144 Sum_probs=20.7
Q ss_pred ecCCcccceeeeeecccchhhhhhhhh
Q psy10835 23 LVSGVDYRGVLSCLDGYMNIALEQTEE 49 (80)
Q Consensus 23 L~~g~~~~G~L~~~D~~mNivL~~~~~ 49 (80)
++..-.=.|+|+|.|.|.|=--+|-..
T Consensus 39 yrtd~~kiGTLVG~DkfGNkYyen~~~ 65 (151)
T KOG3382|consen 39 YRTDDHKIGTLVGVDKFGNKYYENNDY 65 (151)
T ss_pred Hhcccccceeeeeecccccchhcccce
Confidence 344555679999999999988877643
No 90
>PRK10898 serine endoprotease; Provisional
Probab=62.31 E-value=7.7 Score=28.41 Aligned_cols=32 Identities=19% Similarity=0.339 Sum_probs=26.8
Q ss_pred CCceEEEecCCcccceeeeeecccchhhhhhh
Q psy10835 16 GRPVVVKLVSGVDYRGVLSCLDGYMNIALEQT 47 (80)
Q Consensus 16 ~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~ 47 (80)
..++.|.+.||+.|.+++.++|...+|-+=.+
T Consensus 101 a~~i~V~~~dg~~~~a~vv~~d~~~DlAvl~v 132 (353)
T PRK10898 101 ADQIIVALQDGRVFEALLVGSDSLTDLAVLKI 132 (353)
T ss_pred CCEEEEEeCCCCEEEEEEEEEcCCCCEEEEEE
Confidence 35789999999999999999999888755443
No 91
>PTZ00275 biotin-acetyl-CoA-carboxylase ligase; Provisional
Probab=61.08 E-value=6.5 Score=28.05 Aligned_cols=31 Identities=16% Similarity=0.083 Sum_probs=26.7
Q ss_pred hCCceEEEecCCcccceeeeeecccchhhhhh
Q psy10835 15 HGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQ 46 (80)
Q Consensus 15 ~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~ 46 (80)
+|++|.|.. ++..+.|++.++|+...|+++.
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 699999875 5678999999999999998863
No 92
>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=60.45 E-value=4.1 Score=25.05 Aligned_cols=17 Identities=29% Similarity=0.309 Sum_probs=15.3
Q ss_pred eeeeeecccchhhhhhh
Q psy10835 31 GVLSCLDGYMNIALEQT 47 (80)
Q Consensus 31 G~L~~~D~~mNivL~~~ 47 (80)
|+|+|.|.+.|.--++-
T Consensus 1 G~lVG~D~~GN~YyE~~ 17 (105)
T PF05071_consen 1 GTLVGTDEFGNKYYENP 17 (105)
T ss_pred CCEeeEeCCCCEEEeec
Confidence 89999999999988766
No 93
>PRK11911 flgD flagellar basal body rod modification protein; Provisional
Probab=60.25 E-value=11 Score=24.58 Aligned_cols=27 Identities=11% Similarity=0.165 Sum_probs=23.1
Q ss_pred HhhhCCceEEEecCCcccceeeeeecc
Q psy10835 12 QQIHGRPVVVKLVSGVDYRGVLSCLDG 38 (80)
Q Consensus 12 ~~~~~k~V~V~L~~g~~~~G~L~~~D~ 38 (80)
..++||.|.....+|..+.|++.++..
T Consensus 89 ~~lIGk~V~~~~~~g~~~tG~V~sV~~ 115 (140)
T PRK11911 89 VNFIGKDIKGVSLNGEVISGKVESVQQ 115 (140)
T ss_pred HHhhCceeEEEecCCCEEEEEEEEEEE
Confidence 368999999888899999999997763
No 94
>PRK10139 serine endoprotease; Provisional
Probab=59.91 E-value=8.9 Score=29.16 Aligned_cols=32 Identities=25% Similarity=0.345 Sum_probs=27.3
Q ss_pred CCceEEEecCCcccceeeeeecccchhhhhhh
Q psy10835 16 GRPVVVKLVSGVDYRGVLSCLDGYMNIALEQT 47 (80)
Q Consensus 16 ~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~ 47 (80)
..++.|++.||++|.+++.++|....|-+=.+
T Consensus 114 a~~i~V~~~dg~~~~a~vvg~D~~~DlAvlkv 145 (455)
T PRK10139 114 AQKISIQLNDGREFDAKLIGSDDQSDIALLQI 145 (455)
T ss_pred CCEEEEEECCCCEEEEEEEEEcCCCCEEEEEe
Confidence 45799999999999999999999888766444
No 95
>COG0340 BirA Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]
Probab=59.35 E-value=7.8 Score=27.11 Aligned_cols=34 Identities=26% Similarity=0.351 Sum_probs=30.6
Q ss_pred hhCCceEEEecCCcccceeeeeecccchhhhhhh
Q psy10835 14 IHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQT 47 (80)
Q Consensus 14 ~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~ 47 (80)
.+|++|+++..++....|+..++|....++++..
T Consensus 188 ~~g~~V~~~~~~~~~~gg~a~~id~~G~L~l~~~ 221 (238)
T COG0340 188 SLGKEVRLTLGGGVIFGGIAKGIDEDGALLLETD 221 (238)
T ss_pred cCCCEEEEEeCCCcEeeeEEEEECCCceEEEEeC
Confidence 4799999999998999999999999999998754
No 96
>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=58.99 E-value=7.8 Score=28.28 Aligned_cols=31 Identities=23% Similarity=0.323 Sum_probs=26.6
Q ss_pred CceEEEecCCcccceeeeeecccchhhhhhh
Q psy10835 17 RPVVVKLVSGVDYRGVLSCLDGYMNIALEQT 47 (80)
Q Consensus 17 k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~ 47 (80)
.++.|.+.||+.+.+++.++|...++-+=.+
T Consensus 102 ~~i~V~~~dg~~~~a~vv~~d~~~DlAvlkv 132 (351)
T TIGR02038 102 DQIVVALQDGRKFEAELVGSDPLTDLAVLKI 132 (351)
T ss_pred CEEEEEECCCCEEEEEEEEecCCCCEEEEEe
Confidence 4688999999999999999999888876444
No 97
>PF10894 DUF2689: Protein of unknown function (DUF2689); InterPro: IPR024396 Members of this protein family are annotated as conjugal transfer protein TrbD; however, currently no function is known.
Probab=56.16 E-value=3.3 Score=23.19 Aligned_cols=15 Identities=20% Similarity=0.335 Sum_probs=13.0
Q ss_pred ecccchhhhhhhhhh
Q psy10835 36 LDGYMNIALEQTEEY 50 (80)
Q Consensus 36 ~D~~mNivL~~~~~~ 50 (80)
-|+||+-+|+||+..
T Consensus 20 sDDFmhaVlSNCtTr 34 (61)
T PF10894_consen 20 SDDFMHAVLSNCTTR 34 (61)
T ss_pred cHHHHHHHHhcCcee
Confidence 488999999999874
No 98
>PRK10942 serine endoprotease; Provisional
Probab=52.62 E-value=14 Score=28.31 Aligned_cols=31 Identities=26% Similarity=0.296 Sum_probs=26.5
Q ss_pred CCceEEEecCCcccceeeeeecccchhhhhh
Q psy10835 16 GRPVVVKLVSGVDYRGVLSCLDGYMNIALEQ 46 (80)
Q Consensus 16 ~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~ 46 (80)
...+.|.+.||++|.+++.+.|...+|-|=.
T Consensus 135 a~~i~V~~~dg~~~~a~vv~~D~~~DlAvlk 165 (473)
T PRK10942 135 ATKIKVQLSDGRKFDAKVVGKDPRSDIALIQ 165 (473)
T ss_pred CCEEEEEECCCCEEEEEEEEecCCCCEEEEE
Confidence 3568999999999999999999988876543
No 99
>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=51.18 E-value=23 Score=18.42 Aligned_cols=25 Identities=28% Similarity=0.361 Sum_probs=21.1
Q ss_pred hCCceEEEecCCcccceeeeeeccc
Q psy10835 15 HGRPVVVKLVSGVDYRGVLSCLDGY 39 (80)
Q Consensus 15 ~~k~V~V~L~~g~~~~G~L~~~D~~ 39 (80)
.|+.+.+...||.-|+|++.+++..
T Consensus 5 ~G~~~~a~~~d~~wyra~I~~~~~~ 29 (57)
T smart00333 5 VGDKVAARWEDGEWYRARIIKVDGE 29 (57)
T ss_pred CCCEEEEEeCCCCEEEEEEEEECCC
Confidence 4777788877899999999999963
No 100
>PF14563 DUF4444: Domain of unknown function (DUF4444); PDB: 3BFM_A.
Probab=50.78 E-value=6.4 Score=20.69 Aligned_cols=21 Identities=14% Similarity=0.294 Sum_probs=14.2
Q ss_pred cceeeeeecccchhhhhhhhh
Q psy10835 29 YRGVLSCLDGYMNIALEQTEE 49 (80)
Q Consensus 29 ~~G~L~~~D~~mNivL~~~~~ 49 (80)
..|+..|.|+...+.|++...
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 679999999999999987653
No 101
>PF14485 DUF4431: Domain of unknown function (DUF4431)
Probab=50.44 E-value=18 Score=19.29 Aligned_cols=15 Identities=20% Similarity=0.514 Sum_probs=12.7
Q ss_pred HHHHHhhhCCceEEE
Q psy10835 8 SQFIQQIHGRPVVVK 22 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~ 22 (80)
.+.+++++||+|+|.
T Consensus 11 ~~~~~~~~Gk~V~V~ 25 (48)
T PF14485_consen 11 YSYLKSLLGKRVSVT 25 (48)
T ss_pred hHHHHHhcCCeEEEE
Confidence 456888999999987
No 102
>PRK11625 Rho-binding antiterminator; Provisional
Probab=49.86 E-value=21 Score=21.33 Aligned_cols=59 Identities=14% Similarity=0.058 Sum_probs=34.6
Q ss_pred HHHhhhCCceEEEecCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEeec
Q psy10835 10 FIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 10 ~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~~~ 76 (80)
.+..+-+-++.++|+||..+.|+- .|-+.+ +-+|+.-=+ ..=+...||=++|..++-|+
T Consensus 17 ElAC~~~~~l~l~l~dGe~~~g~A--~D~~~~----~k~EyL~l~--~~g~~~~iRLD~I~s~~~~~ 75 (84)
T PRK11625 17 ELACQHHLMLTLELKDGEVLQAKA--SDLVSR----KNVEYLVVE--AAGETRELRLDKIASFSHPE 75 (84)
T ss_pred HHHHhcCCeEEEEECCCCEEEEEE--EeeecC----CceEEEEEE--cCCCEEEEEeeeEeeccCcc
Confidence 344556888999999999998875 454422 222321000 01124566777777776554
No 103
>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=46.83 E-value=21 Score=22.43 Aligned_cols=21 Identities=19% Similarity=0.230 Sum_probs=18.3
Q ss_pred CceEEEecCCcccceeeeeec
Q psy10835 17 RPVVVKLVSGVDYRGVLSCLD 37 (80)
Q Consensus 17 k~V~V~L~~g~~~~G~L~~~D 37 (80)
....|.++||+.+.|.+.+=|
T Consensus 58 ~~~~v~~~dG~~~~G~~~~e~ 78 (133)
T TIGR02603 58 EAYRVTLKDGRILSGIVASET 78 (133)
T ss_pred ccEEEEECCCCEEEEEEEecC
Confidence 348899999999999999855
No 104
>PF05037 DUF669: Protein of unknown function (DUF669); InterPro: IPR007731 This entry is represented by Streptococcus phage Sfi11, Gp151. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=46.52 E-value=23 Score=22.51 Aligned_cols=27 Identities=37% Similarity=0.653 Sum_probs=21.7
Q ss_pred ChHHHHHhhhCCceEEEecCC-ccccee
Q psy10835 6 SLSQFIQQIHGRPVVVKLVSG-VDYRGV 32 (80)
Q Consensus 6 ~p~~~L~~~~~k~V~V~L~~g-~~~~G~ 32 (80)
..-.++..++||++.|.++.. .++.|.
T Consensus 93 sl~~~~~~l~gk~l~V~v~~~~~e~nGk 120 (141)
T PF05037_consen 93 SLEQFLNQLLGKPLRVTVKWEENEYNGK 120 (141)
T ss_pred cHHHHHHHHcCCeeEEEecccccCCCCc
Confidence 345678888899999999987 778774
No 105
>PRK06630 hypothetical protein; Provisional
Probab=46.37 E-value=11 Score=23.37 Aligned_cols=19 Identities=16% Similarity=0.107 Sum_probs=16.8
Q ss_pred cceeeeeecccchhhhhhh
Q psy10835 29 YRGVLSCLDGYMNIALEQT 47 (80)
Q Consensus 29 ~~G~L~~~D~~mNivL~~~ 47 (80)
..|+|+|-|+|.|---++.
T Consensus 11 r~G~lVG~D~~GNkYYE~~ 29 (99)
T PRK06630 11 FFHKKVGEDEFLNQYYESR 29 (99)
T ss_pred ccCeEeEEeCCCChhcccC
Confidence 4799999999999988875
No 106
>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=46.16 E-value=15 Score=22.41 Aligned_cols=24 Identities=25% Similarity=0.329 Sum_probs=19.7
Q ss_pred hhhCCceEEE-ecCCcccceeeeee
Q psy10835 13 QIHGRPVVVK-LVSGVDYRGVLSCL 36 (80)
Q Consensus 13 ~~~~k~V~V~-L~~g~~~~G~L~~~ 36 (80)
..+|+.|+|+ +..|+.+.|+..+-
T Consensus 93 g~~G~~I~V~N~~s~k~i~~~V~~~ 117 (122)
T TIGR03170 93 GAVGDQIRVRNLSSGKIISGIVTGP 117 (122)
T ss_pred cCCCCEEEEEECCCCCEEEEEEeCC
Confidence 4578899999 88899999988753
No 107
>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=45.43 E-value=17 Score=27.04 Aligned_cols=31 Identities=23% Similarity=0.338 Sum_probs=26.7
Q ss_pred CceEEEecCCcccceeeeeecccchhhhhhh
Q psy10835 17 RPVVVKLVSGVDYRGVLSCLDGYMNIALEQT 47 (80)
Q Consensus 17 k~V~V~L~~g~~~~G~L~~~D~~mNivL~~~ 47 (80)
.++.|.+.||+.|.+++.++|...++-|=..
T Consensus 82 ~~i~V~~~~~~~~~a~vv~~d~~~DlAllkv 112 (428)
T TIGR02037 82 DEITVTLSDGREFKAKLVGKDPRTDIAVLKI 112 (428)
T ss_pred CeEEEEeCCCCEEEEEEEEecCCCCEEEEEe
Confidence 5688999999999999999999888766544
No 108
>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=45.18 E-value=22 Score=22.26 Aligned_cols=29 Identities=24% Similarity=0.195 Sum_probs=24.9
Q ss_pred CCChHHHHHhhhCCceEEEecCCccccee
Q psy10835 4 KESLSQFIQQIHGRPVVVKLVSGVDYRGV 32 (80)
Q Consensus 4 ~~~p~~~L~~~~~k~V~V~L~~g~~~~G~ 32 (80)
+..|...|....+-.|..++.+|..|.+.
T Consensus 62 ~~~~~~~i~~~~~~tvt~e~~nG~~y~l~ 90 (119)
T PF10618_consen 62 KDTDVDDINDITDATVTFELDNGKVYVLS 90 (119)
T ss_pred CCCCHHHHhCCcccEEEEEecCCcEEEec
Confidence 45678889999999999999999998754
No 109
>PF06257 DUF1021: Protein of unknown function (DUF1021); InterPro: IPR009366 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 3FB9_A.
Probab=43.31 E-value=29 Score=20.34 Aligned_cols=29 Identities=24% Similarity=0.298 Sum_probs=21.0
Q ss_pred HHHHHhhhCCceEEEecCCc----ccceeeeee
Q psy10835 8 SQFIQQIHGRPVVVKLVSGV----DYRGVLSCL 36 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~----~~~G~L~~~ 36 (80)
...|.+.+|++|.++...|| +-.|+|...
T Consensus 9 k~~l~~~vG~~V~l~a~~GRkK~~~r~GvL~~t 41 (76)
T PF06257_consen 9 KKELESHVGKRVKLKANKGRKKIIEREGVLEET 41 (76)
T ss_dssp HHHHHHTTTSEEEEEE--SSS--S-EEEEEEEE
T ss_pred HHHHHHcCCCEEEEEEcCCceEEEEEEEEEEee
Confidence 35688999999999999985 467887764
No 110
>cd04479 RPA3 RPA3: A subfamily of OB folds similar to human RPA3 (also called RPA14). RPA3 is the smallest subunit of Replication protein A (RPA). RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA3 is believed to have a structural role in assembly of the RPA heterotrimer.
Probab=43.21 E-value=32 Score=20.72 Aligned_cols=40 Identities=20% Similarity=0.248 Sum_probs=26.5
Q ss_pred CChHHHHHhhhCCceEEEec----CCcccceeeeeecc-cchhhhhh
Q psy10835 5 ESLSQFIQQIHGRPVVVKLV----SGVDYRGVLSCLDG-YMNIALEQ 46 (80)
Q Consensus 5 ~~p~~~L~~~~~k~V~V~L~----~g~~~~G~L~~~D~-~mNivL~~ 46 (80)
+.-.+.|+++.||+|++.-+ +|. .-++.+.|. ..++.|..
T Consensus 4 rVn~~~L~~f~gk~V~ivGkV~~~~~~--~~~~~~~Dg~~v~v~l~~ 48 (101)
T cd04479 4 RINGAMLSQFVGKTVRIVGKVEKVDGD--SLTLISSDGVNVTVELNR 48 (101)
T ss_pred eeCHHHHHhhCCCEEEEEEEEEEecCC--eEEEEcCCCCEEEEEeCC
Confidence 33456899999999997644 333 456777775 55555553
No 111
>PRK08477 biotin--protein ligase; Provisional
Probab=42.79 E-value=23 Score=24.30 Aligned_cols=34 Identities=9% Similarity=-0.090 Sum_probs=27.8
Q ss_pred HhhhCCceEEEecCCcccceeeeeecccchhhhhh
Q psy10835 12 QQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALEQ 46 (80)
Q Consensus 12 ~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~~ 46 (80)
.-.+++.|.|.. +++.++|+..++|+..-|+++.
T Consensus 171 ~~~~~~~v~v~~-~~~~~~g~a~~I~~~G~L~v~~ 204 (211)
T PRK08477 171 EFEKSKSFSFHI-DGKLVSLKDAELLEDGSILING 204 (211)
T ss_pred HHHcCCEEEEEE-CCEEEEEEEeeECCCCeEEECC
Confidence 335699999874 6799999999999988887754
No 112
>PRK06792 flgD flagellar basal body rod modification protein; Validated
Probab=42.09 E-value=30 Score=23.79 Aligned_cols=26 Identities=15% Similarity=0.143 Sum_probs=22.5
Q ss_pred HhhhCCceEEEecCCcccceeeeeec
Q psy10835 12 QQIHGRPVVVKLVSGVDYRGVLSCLD 37 (80)
Q Consensus 12 ~~~~~k~V~V~L~~g~~~~G~L~~~D 37 (80)
..++||.|.+.-.+|..+.|++.+..
T Consensus 114 ~slIGK~V~~~~~dG~~vtG~V~sV~ 139 (190)
T PRK06792 114 MKFLGKYVRGVSNDGKQVTGQVETVR 139 (190)
T ss_pred HHhcCcEEEEEcCCCCEEEEEEEEEE
Confidence 46799999988889999999998775
No 113
>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=39.27 E-value=37 Score=18.80 Aligned_cols=25 Identities=24% Similarity=0.383 Sum_probs=17.4
Q ss_pred hhCCceEEEecCC-cccceeeeeecc
Q psy10835 14 IHGRPVVVKLVSG-VDYRGVLSCLDG 38 (80)
Q Consensus 14 ~~~k~V~V~L~~g-~~~~G~L~~~D~ 38 (80)
..|+.|.++--+. ..|.|.+.+||.
T Consensus 7 ~~Ge~V~~rWP~s~lYYe~kV~~~d~ 32 (55)
T PF09465_consen 7 AIGEVVMVRWPGSSLYYEGKVLSYDS 32 (55)
T ss_dssp -SS-EEEEE-TTTS-EEEEEEEEEET
T ss_pred cCCCEEEEECCCCCcEEEEEEEEecc
Confidence 3588899987765 455999999995
No 114
>PRK07018 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=39.23 E-value=20 Score=24.78 Aligned_cols=24 Identities=21% Similarity=0.339 Sum_probs=20.4
Q ss_pred hhhCCceEEE-ecCCcccceeeeee
Q psy10835 13 QIHGRPVVVK-LVSGVDYRGVLSCL 36 (80)
Q Consensus 13 ~~~~k~V~V~-L~~g~~~~G~L~~~ 36 (80)
..+|..|+|+ +..|+.+.|+..+-
T Consensus 204 G~~Gd~IrVrN~~Sgk~i~g~V~~~ 228 (235)
T PRK07018 204 GAVGQQIRVRNMASGQVVSGIVTGD 228 (235)
T ss_pred CCCCCeEEEEECCCCCEEEEEEeCC
Confidence 4579999999 99999999998763
No 115
>KOG3493|consensus
Probab=38.36 E-value=29 Score=20.10 Aligned_cols=19 Identities=21% Similarity=0.211 Sum_probs=15.0
Q ss_pred HHHhhhCCceEEEecCCcc
Q psy10835 10 FIQQIHGRPVVVKLVSGVD 28 (80)
Q Consensus 10 ~L~~~~~k~V~V~L~~g~~ 28 (80)
.+...+||+|+|+....-+
T Consensus 5 ~~nDrLGKKVRvKCn~dDt 23 (73)
T KOG3493|consen 5 VLNDRLGKKVRVKCNTDDT 23 (73)
T ss_pred hhhhhcCceEEEEeCCccc
Confidence 4778899999999876433
No 116
>PLN02732 Probable NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit
Probab=36.78 E-value=21 Score=23.81 Aligned_cols=19 Identities=16% Similarity=0.144 Sum_probs=16.6
Q ss_pred ceeeeeecccchhhhhhhh
Q psy10835 30 RGVLSCLDGYMNIALEQTE 48 (80)
Q Consensus 30 ~G~L~~~D~~mNivL~~~~ 48 (80)
.|+|+|-|+|.|---++..
T Consensus 48 ~G~lVG~D~~GNkYYE~~~ 66 (159)
T PLN02732 48 GATLVGVDKFGNKYYQKLG 66 (159)
T ss_pred CcEEEEecCCCCeeeecCC
Confidence 4999999999999888764
No 117
>COG5316 Uncharacterized conserved protein [Function unknown]
Probab=36.73 E-value=39 Score=25.87 Aligned_cols=39 Identities=15% Similarity=0.088 Sum_probs=31.4
Q ss_pred ChHHHHHhhhCCceEEEecCCcccceeeeeecccchhhhh
Q psy10835 6 SLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 6 ~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNivL~ 45 (80)
.|-.++++++||.|+- =+||++.+++|.+-|.-.=+.+.
T Consensus 72 s~~~l~~~~~GK~v~~-~kdG~~~t~tl~a~d~gv~~~~~ 110 (421)
T COG5316 72 SPGKLVEKSLGKVVRT-RKDGRQTTATLLAGDYGVVLRTG 110 (421)
T ss_pred CchhHHhhhhCcEEEe-cCCCceeEEEEEecCceEEEecC
Confidence 5777899999998888 88999999999999854433333
No 118
>PLN03095 NADH:ubiquinone oxidoreductase 18 kDa subunit; Provisional
Probab=36.38 E-value=19 Score=22.80 Aligned_cols=20 Identities=25% Similarity=0.154 Sum_probs=16.9
Q ss_pred ceeeeeecccchhhhhhhhh
Q psy10835 30 RGVLSCLDGYMNIALEQTEE 49 (80)
Q Consensus 30 ~G~L~~~D~~mNivL~~~~~ 49 (80)
.|.|+|.|.+.|---++..+
T Consensus 9 ~g~lVG~D~~GNkYYE~~~~ 28 (115)
T PLN03095 9 AGRLVGEDEFGNKYYENPSY 28 (115)
T ss_pred cceEeEEcCCCCeeeEcCCC
Confidence 69999999999998886543
No 119
>PF05186 Dpy-30: Dpy-30 motif; InterPro: IPR007858 This motif is about 40 residues long and is probably formed of two alpha-helices. It is found in the Dpy-30 proteins, hence the motifs name. Dpy-30 from Caenorhabditis elegans is an essential component of dosage compensation machinery and loss of dpy-30 activity results in XX-specific lethality; in XO animals, Dpy-30 is required for developmental processes other than dosage compensation []. In yeast, the homologue of DPY-30, Saf19p, functions as part of the Set1 complex that is necessary for the methylation of histone H3 at lysine residue 4; Set1 is a key part of epigenetic developmental control []. There is also a human homologue of Dpy-30 []. This Dpy-30 region may be a dimerisation motif analogous that found in the cAMP-dependent protein kinase regulator, type II PKA, R subunit IPR003117 from INTERPRO.; PDB: 3G36_D.
Probab=36.09 E-value=28 Score=17.96 Aligned_cols=13 Identities=23% Similarity=0.373 Sum_probs=9.8
Q ss_pred CCCChHHHHHhhh
Q psy10835 3 RKESLSQFIQQIH 15 (80)
Q Consensus 3 ~~~~p~~~L~~~~ 15 (80)
+|.+|.++|..++
T Consensus 25 rP~DPi~~La~~L 37 (42)
T PF05186_consen 25 RPEDPIEFLAEYL 37 (42)
T ss_dssp --SSHHHHHHHHH
T ss_pred CCCChHHHHHHHH
Confidence 6789999999886
No 120
>COG4466 Veg Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.89 E-value=44 Score=19.89 Aligned_cols=27 Identities=26% Similarity=0.324 Sum_probs=20.6
Q ss_pred HHHHHhhhCCceEEEecCCcc----cceeee
Q psy10835 8 SQFIQQIHGRPVVVKLVSGVD----YRGVLS 34 (80)
Q Consensus 8 ~~~L~~~~~k~V~V~L~~g~~----~~G~L~ 34 (80)
..-+++.+|++|.+++.+||. =.|.|.
T Consensus 11 K~~i~ah~G~~v~lk~ngGRKk~~~r~G~L~ 41 (80)
T COG4466 11 KESIDAHLGERVTLKANGGRKKTIERSGILI 41 (80)
T ss_pred HHHHHhccCcEEEEEecCCceeeehhceEEe
Confidence 456888999999999999964 345554
No 121
>PF13437 HlyD_3: HlyD family secretion protein
Probab=32.77 E-value=55 Score=18.97 Aligned_cols=32 Identities=28% Similarity=0.386 Sum_probs=25.7
Q ss_pred hHHHHHhh--hCCceEEEecCC--cccceeeeeecc
Q psy10835 7 LSQFIQQI--HGRPVVVKLVSG--VDYRGVLSCLDG 38 (80)
Q Consensus 7 p~~~L~~~--~~k~V~V~L~~g--~~~~G~L~~~D~ 38 (80)
|.+.+..+ .|.+|.+.+.++ ..+.|++..++.
T Consensus 43 ~~~~~~~i~~~g~~v~v~~~~~~~~~~~g~V~~I~~ 78 (105)
T PF13437_consen 43 PEKDIARIKDPGQKVTVRLDPGPEKTIEGKVSSISP 78 (105)
T ss_pred ChHhhcceEeCCCEEEEEECCCCCcEEEEEEEEEeC
Confidence 45566665 699999999854 689999999997
No 122
>PF14153 Spore_coat_CotO: Spore coat protein CotO
Probab=31.13 E-value=27 Score=23.77 Aligned_cols=47 Identities=17% Similarity=0.289 Sum_probs=27.6
Q ss_pred ceEEEe-cCCcccceeeeeecccchhhhhhhhhhhccEeeccccCeEEecCcEEEEEe
Q psy10835 18 PVVVKL-VSGVDYRGVLSCLDGYMNIALEQTEEYINGQLKNKYGDTFIRGNNVLYIST 74 (80)
Q Consensus 18 ~V~V~L-~~g~~~~G~L~~~D~~mNivL~~~~~~~~~~~~~~~g~v~irG~~I~~I~~ 74 (80)
++.|.+ .++..|+|++.+||+-- +.+... .....+-|.=+.|..|++
T Consensus 135 ~i~C~i~t~~~~Y~G~I~~~~~~~-v~i~~~---------~~~~~~~i~~~~I~sI~~ 182 (185)
T PF14153_consen 135 PIKCEIETKDKSYRGIILSYDEGE-VSIMPF---------NQGEEIEIPIDDITSIKM 182 (185)
T ss_pred CCceEEEeCCceEEEEEEeccCCE-EEEecc---------CCCcceEeehhheeeeee
Confidence 344444 46899999999999542 222221 112355566666666655
No 123
>PRK08183 NADH dehydrogenase; Validated
Probab=29.97 E-value=27 Score=22.61 Aligned_cols=20 Identities=15% Similarity=0.127 Sum_probs=16.6
Q ss_pred cceeeeeecccchhhhhhhh
Q psy10835 29 YRGVLSCLDGYMNIALEQTE 48 (80)
Q Consensus 29 ~~G~L~~~D~~mNivL~~~~ 48 (80)
-.|+|+|-|.+.|---++..
T Consensus 24 r~g~lVG~D~~GNkYYE~~~ 43 (133)
T PRK08183 24 RKGERVGEDEFGNVYYRTKG 43 (133)
T ss_pred ccCeEeEecCCCCeeeecCC
Confidence 36999999999998887654
No 124
>PF02604 PhdYeFM_antitox: Antitoxin Phd_YefM, type II toxin-antitoxin system; InterPro: IPR006442 This entry is represented by Bacteriophage P1, prevent-host-death protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family of proteins is characterised by a region of about 55 amino acids toward the N-terminal end of bacterial proteins which are themselves only 85 amino acids, or thereabouts, in length. The best-characterised member is prevent-host-death (phd) of bacteriophage P1, the antidote partner of death-on-curing (doc) (IPR006440 from INTERPRO) in an addiction module. Addiction modules prevent plasmid curing by killing the host cell as the longer-lived killing protein persists while the gene for the shorter-lived antidote is lost. Note, however, that relatively few members of this family appear to be plasmid or phage-encoded. Also, there is little overlap, except for phage P1 itself, of species with this family and with the doc family. ; PDB: 3DBO_A 2ODK_B 3G5O_D 2A6Q_B 3D55_C 3OEI_E 3CTO_C 3K33_D 3KH2_F 3HS2_C ....
Probab=29.89 E-value=51 Score=18.04 Aligned_cols=38 Identities=16% Similarity=0.338 Sum_probs=27.1
Q ss_pred CChHHHHHhhhCCce-EEEecCCcccceeeeeecccchhh
Q psy10835 5 ESLSQFIQQIHGRPV-VVKLVSGVDYRGVLSCLDGYMNIA 43 (80)
Q Consensus 5 ~~p~~~L~~~~~k~V-~V~L~~g~~~~G~L~~~D~~mNiv 43 (80)
.++.++++......- .+.+++|+. .+.|.++++|-++.
T Consensus 11 ~~~~~~l~~v~~~~~pv~It~~g~~-~~vli~~~~ye~l~ 49 (75)
T PF02604_consen 11 NNFSELLDEVEEGEEPVIITKNGKP-VAVLISVEDYERLQ 49 (75)
T ss_dssp HTHHHHHHHHHHCT-EEEEEETTEE-EEEEEEHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCeEEEEECCCC-CeecccHHHHHHHH
Confidence 356677777775443 466777777 88999999887765
No 125
>PF02245 Pur_DNA_glyco: Methylpurine-DNA glycosylase (MPG); InterPro: IPR003180 Methylpurine-DNA glycosylase is a base excision-repair protein. It is responsible for the hydrolysis of the deoxyribose N-glycosidic bond, excising 3-methyladenine and 3-methylguanine from damaged DNA []. Its action is induced by alkylating chemotherapeutics, as well as deaminated and lipid peroxidation-induced purine adducts []. MPG without an N-terminal extension excises hypoxanthine with one-third of the efficiency of full-length MPG under similar conditions, suggesting that is function may largely be attributable to the N-terminal extension [].; GO: 0003677 DNA binding, 0003905 alkylbase DNA N-glycosylase activity, 0006284 base-excision repair; PDB: 1BNK_A 1F6O_A 3QI5_A 3UBY_B 1F4R_A 1EWN_A.
Probab=29.08 E-value=82 Score=21.35 Aligned_cols=36 Identities=14% Similarity=0.358 Sum_probs=26.5
Q ss_pred CChHHHHHhhhCCceEEEecCCcccceeeeeecccch
Q psy10835 5 ESLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMN 41 (80)
Q Consensus 5 ~~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mN 41 (80)
..+..+=++++|+.+..++.++. +.|.++....|.-
T Consensus 7 r~~~~vA~~LLG~~Lv~~~~~~~-~~grIvEtEAY~g 42 (184)
T PF02245_consen 7 RDTVEVARDLLGKVLVRRIPGGE-LSGRIVETEAYLG 42 (184)
T ss_dssp SBHHHHHHHCTT-EEEEE-TTS--EEEEEEEEEEE-S
T ss_pred cCHHHHHHHhCCCEEEEEeCCCe-EEEEEEEEeeccC
Confidence 34667778899999999999877 9999998887765
No 126
>TIGR00567 3mg DNA-3-methyladenine glycosylase (3mg). This families are based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). All proteins in this family for which the function is known are involved in the base excision repair of alkylation damage to DNA. The exact specificty of the type of alkylation damage repaired by each of these varies somewhat between species. Substrates include 3-methyl adenine, 7-methyl-guanaine, and 3-methyl-guanine.
Probab=28.91 E-value=1.1e+02 Score=20.97 Aligned_cols=36 Identities=22% Similarity=0.421 Sum_probs=29.9
Q ss_pred ChHHHHHhhhCCceEEEecCCcccceeeeeecccch
Q psy10835 6 SLSQFIQQIHGRPVVVKLVSGVDYRGVLSCLDGYMN 41 (80)
Q Consensus 6 ~p~~~L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mN 41 (80)
.+..+=++++||.+.-++.+|....|.++....|+-
T Consensus 9 ~~~~vA~~LLGk~Lv~~~~~g~~~~grIvEtEAY~G 44 (192)
T TIGR00567 9 DAVTLAPRLLGQLLVRRLDKGTEVRGRIVETEAYMG 44 (192)
T ss_pred CHHHHHHHhCCCEEEEECCCCcEEEEEEEEEecccC
Confidence 566778899999999888888777899999888853
No 127
>PF11743 DUF3301: Protein of unknown function (DUF3301); InterPro: IPR021732 This family is conserved in Proteobacteria, but the function is not known.
Probab=27.74 E-value=41 Score=20.28 Aligned_cols=21 Identities=10% Similarity=0.264 Sum_probs=18.6
Q ss_pred eccccCeEEecCcEEEEEeec
Q psy10835 56 KNKYGDTFIRGNNVLYISTQK 76 (80)
Q Consensus 56 ~~~~g~v~irG~~I~~I~~~~ 76 (80)
.+.-|.+...|..+..+.+|+
T Consensus 76 ~ry~G~l~m~G~~l~~v~lpp 96 (97)
T PF11743_consen 76 DRYQGELVMLGRRLISVELPP 96 (97)
T ss_pred hcceEEEEEECCeeeEEEcCC
Confidence 467799999999999999986
No 128
>PRK10708 hypothetical protein; Provisional
Probab=27.62 E-value=78 Score=17.77 Aligned_cols=25 Identities=24% Similarity=0.324 Sum_probs=21.6
Q ss_pred hCCceEEEecCCcccceeeeeeccc
Q psy10835 15 HGRPVVVKLVSGVDYRGVLSCLDGY 39 (80)
Q Consensus 15 ~~k~V~V~L~~g~~~~G~L~~~D~~ 39 (80)
++-+|+|+...|..=.|++.++..|
T Consensus 3 vnD~VtVKTDG~~rR~G~iLavE~F 27 (62)
T PRK10708 3 VNDRVTVKTDGGPRRPGVVLAVEEF 27 (62)
T ss_pred cccEEEEecCCCccccceEEEEeec
Confidence 4678999999999999999988865
No 129
>PRK06005 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=26.81 E-value=46 Score=21.86 Aligned_cols=23 Identities=26% Similarity=0.312 Sum_probs=18.2
Q ss_pred hhhCCceEEE-ecCCcccceeeee
Q psy10835 13 QIHGRPVVVK-LVSGVDYRGVLSC 35 (80)
Q Consensus 13 ~~~~k~V~V~-L~~g~~~~G~L~~ 35 (80)
...|+.|+|+ +..|+.+.|+..+
T Consensus 128 G~~Gd~IrVrN~~Sgkiv~g~V~~ 151 (160)
T PRK06005 128 GAAGDLIRVRNVDSGVIVSGTVLA 151 (160)
T ss_pred CCCCCEEEEEECCCCCEEEEEEec
Confidence 3568888888 8888888888764
No 130
>COG4568 Rof Transcriptional antiterminator [Transcription]
Probab=26.38 E-value=81 Score=18.80 Aligned_cols=23 Identities=17% Similarity=0.274 Sum_probs=19.6
Q ss_pred HHHhhhCCceEEEecCCccccee
Q psy10835 10 FIQQIHGRPVVVKLVSGVDYRGV 32 (80)
Q Consensus 10 ~L~~~~~k~V~V~L~~g~~~~G~ 32 (80)
.|..+..-+++.+|+||..+.|.
T Consensus 17 ElACl~hl~l~L~lkdGev~~a~ 39 (84)
T COG4568 17 ELACLHHLPLTLELKDGEVLQAK 39 (84)
T ss_pred HHHHhhhceEEEEEcCCeEEEEE
Confidence 46677788899999999999985
No 131
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=26.37 E-value=62 Score=23.23 Aligned_cols=30 Identities=20% Similarity=0.246 Sum_probs=24.6
Q ss_pred CCceEEEecCCcccceeeeeecccchhhhh
Q psy10835 16 GRPVVVKLVSGVDYRGVLSCLDGYMNIALE 45 (80)
Q Consensus 16 ~k~V~V~L~~g~~~~G~L~~~D~~mNivL~ 45 (80)
..++.|.+.||+++.+.+.++|...-+-+-
T Consensus 95 a~~i~v~l~dg~~~~a~~vg~d~~~dlavl 124 (347)
T COG0265 95 AEEITVTLADGREVPAKLVGKDPISDLAVL 124 (347)
T ss_pred cceEEEEeCCCCEEEEEEEecCCccCEEEE
Confidence 567889999999999999999976655443
No 132
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=25.68 E-value=50 Score=18.69 Aligned_cols=22 Identities=14% Similarity=0.154 Sum_probs=18.2
Q ss_pred CceEEEecCCcccceeeeeecc
Q psy10835 17 RPVVVKLVSGVDYRGVLSCLDG 38 (80)
Q Consensus 17 k~V~V~L~~g~~~~G~L~~~D~ 38 (80)
-+|.|+|-||..+.+++..-|.
T Consensus 5 ~~I~iRlPdG~ri~~~F~~~~t 26 (80)
T smart00166 5 CRLQIRLPDGSRLVRRFPSSDT 26 (80)
T ss_pred EEEEEEcCCCCEEEEEeCCCCc
Confidence 3688999999999999887653
No 133
>PF05954 Phage_GPD: Phage late control gene D protein (GPD); PDB: 2P5Z_X 3D37_A 1WRU_A 3CDD_E.
Probab=24.89 E-value=50 Score=22.44 Aligned_cols=27 Identities=22% Similarity=0.578 Sum_probs=22.6
Q ss_pred HHhhhCCceEEEecCCcccceeeeeec
Q psy10835 11 IQQIHGRPVVVKLVSGVDYRGVLSCLD 37 (80)
Q Consensus 11 L~~~~~k~V~V~L~~g~~~~G~L~~~D 37 (80)
+..++|++|.|.+...+.+.|.+..++
T Consensus 23 ~~~~~G~~v~v~i~~~~~~~G~v~~~~ 49 (292)
T PF05954_consen 23 LKDLLGKPVTVRIGSERVFSGYVTSVE 49 (292)
T ss_dssp CGGTTT-EEEEEETTEEEEEEEEEEEE
T ss_pred hhHhCCCEEEEEEeeeeEeccEEEEEE
Confidence 455899999999998899999998885
No 134
>PRK12617 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=24.22 E-value=63 Score=22.33 Aligned_cols=23 Identities=17% Similarity=0.124 Sum_probs=19.2
Q ss_pred hhhCCceEEE-ecCCcccceeeee
Q psy10835 13 QIHGRPVVVK-LVSGVDYRGVLSC 35 (80)
Q Consensus 13 ~~~~k~V~V~-L~~g~~~~G~L~~ 35 (80)
...|+.|+|+ +..|+.+.|+..+
T Consensus 183 G~~Ge~IrVrN~~SgrvV~g~V~~ 206 (214)
T PRK12617 183 AGENERVSVENSSSRRVVQGIVEA 206 (214)
T ss_pred CCCCCEEEEEECCCCCEEEEEEeC
Confidence 3568999999 7999999998765
No 135
>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=23.97 E-value=97 Score=17.40 Aligned_cols=25 Identities=24% Similarity=0.344 Sum_probs=21.4
Q ss_pred hCCceEEEecCCcccceeeeeeccc
Q psy10835 15 HGRPVVVKLVSGVDYRGVLSCLDGY 39 (80)
Q Consensus 15 ~~k~V~V~L~~g~~~~G~L~~~D~~ 39 (80)
++-+|+|+...|..=.|++.+...|
T Consensus 3 vnD~VtVKTDG~~rR~G~ilavE~F 27 (62)
T PF10781_consen 3 VNDRVTVKTDGGPRREGVILAVEPF 27 (62)
T ss_pred cccEEEEecCCcccccceEEEEeec
Confidence 4678999999999999999888765
No 136
>PF14685 Tricorn_PDZ: Tricorn protease PDZ domain; PDB: 1N6F_D 1N6D_C 1N6E_C 1K32_A.
Probab=23.39 E-value=1.1e+02 Score=18.25 Aligned_cols=25 Identities=8% Similarity=0.181 Sum_probs=19.7
Q ss_pred CCCChHHHHHhhhCCceEEEecCCc
Q psy10835 3 RKESLSQFIQQIHGRPVVVKLVSGV 27 (80)
Q Consensus 3 ~~~~p~~~L~~~~~k~V~V~L~~g~ 27 (80)
+..+|.++|..--||+|.+++.++.
T Consensus 56 ~~~~~~~lL~~~agk~V~Ltv~~~~ 80 (88)
T PF14685_consen 56 ADANPYRLLEGKAGKQVLLTVNRKP 80 (88)
T ss_dssp TTB-HHHHHHTTTTSEEEEEEE-ST
T ss_pred CCCCHHHHhcccCCCEEEEEEecCC
Confidence 4568899999999999999998754
No 137
>PRK06789 flagellar motor switch protein; Validated
Probab=23.31 E-value=73 Score=18.54 Aligned_cols=33 Identities=15% Similarity=0.125 Sum_probs=24.0
Q ss_pred HHhhhCCceEEEecCCcccceeeeeecccchhh
Q psy10835 11 IQQIHGRPVVVKLVSGVDYRGVLSCLDGYMNIA 43 (80)
Q Consensus 11 L~~~~~k~V~V~L~~g~~~~G~L~~~D~~mNiv 43 (80)
|.+..+.+|.+.+++-..-+|.+..+|+.+=+.
T Consensus 36 Ldk~~~epvdI~vNg~lia~GEvVvv~~~fGVR 68 (74)
T PRK06789 36 LENSTKNTVRLMLENEEIGTGKILTKNGKMYVE 68 (74)
T ss_pred eCCcCCCCEEEEECCEEEeEEeEEEECCEEEEE
Confidence 456677788888887778888888888655443
No 138
>COG1588 POP4 RNase P/RNase MRP subunit p29 [Translation, ribosomal structure and biogenesis]
Probab=23.28 E-value=99 Score=18.97 Aligned_cols=33 Identities=21% Similarity=0.256 Sum_probs=24.7
Q ss_pred HHHhhhCCceEEEecCCcccceeee-eecccchh
Q psy10835 10 FIQQIHGRPVVVKLVSGVDYRGVLS-CLDGYMNI 42 (80)
Q Consensus 10 ~L~~~~~k~V~V~L~~g~~~~G~L~-~~D~~mNi 42 (80)
+.++++|.+|.|.=..+..+.|+=- -.|+-.|.
T Consensus 11 ~~hEliGl~vrVv~s~~~s~vGI~G~VVdETkNt 44 (95)
T COG1588 11 IRHELIGLEVRVVRSTNPSYVGIEGRVVDETKNT 44 (95)
T ss_pred ChHHhcCcEEEEEecCCCCccceeEEEEeeeccE
Confidence 4789999999999998988887532 24555554
No 139
>PRK08515 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=23.15 E-value=64 Score=22.20 Aligned_cols=24 Identities=13% Similarity=-0.074 Sum_probs=19.7
Q ss_pred hhhCCceEEEecCCcccceeeeee
Q psy10835 13 QIHGRPVVVKLVSGVDYRGVLSCL 36 (80)
Q Consensus 13 ~~~~k~V~V~L~~g~~~~G~L~~~ 36 (80)
..+|..|+|+-.+|+.+.|+..+-
T Consensus 193 G~~Gd~IrVrN~Sgkii~g~V~~~ 216 (222)
T PRK08515 193 GNLGDIIQAKNKSNKILKAKVLSK 216 (222)
T ss_pred CCCCCEEEEEeCCCCEEEEEEecC
Confidence 457889999998899999988763
No 140
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=23.11 E-value=63 Score=18.07 Aligned_cols=20 Identities=10% Similarity=0.228 Sum_probs=17.0
Q ss_pred ceEEEecCCcccceeeeeec
Q psy10835 18 PVVVKLVSGVDYRGVLSCLD 37 (80)
Q Consensus 18 ~V~V~L~~g~~~~G~L~~~D 37 (80)
+|.|+|-||..+.+++..-|
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~ 23 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTH 23 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCC
Confidence 68899999999999987655
No 141
>COG3466 ISA1214 Putative transposon-encoded protein [Function unknown]
Probab=22.82 E-value=77 Score=17.31 Aligned_cols=15 Identities=20% Similarity=0.317 Sum_probs=11.6
Q ss_pred HHhhhCCceEEEecC
Q psy10835 11 IQQIHGRPVVVKLVS 25 (80)
Q Consensus 11 L~~~~~k~V~V~L~~ 25 (80)
-++++|++|.|...+
T Consensus 37 PK~yiG~rv~viI~k 51 (52)
T COG3466 37 PKRYIGKRVYVIILK 51 (52)
T ss_pred chHHcCcEEEEEEeC
Confidence 368899999987653
No 142
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=21.92 E-value=78 Score=17.70 Aligned_cols=21 Identities=19% Similarity=0.230 Sum_probs=18.0
Q ss_pred ceEEEecCCcccceeeeeecc
Q psy10835 18 PVVVKLVSGVDYRGVLSCLDG 38 (80)
Q Consensus 18 ~V~V~L~~g~~~~G~L~~~D~ 38 (80)
+|.|+|-||..+...+..-|.
T Consensus 8 ~I~vRlpdG~~l~~~F~~~~t 28 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFPKSDT 28 (82)
T ss_dssp EEEEEETTSTEEEEEEETTSB
T ss_pred EEEEECCCCCEEEEEECCcch
Confidence 578999999999999987664
No 143
>PRK06804 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=21.28 E-value=65 Score=22.96 Aligned_cols=24 Identities=25% Similarity=0.199 Sum_probs=19.9
Q ss_pred hhhCCceEEE-ecCCcccceeeeee
Q psy10835 13 QIHGRPVVVK-LVSGVDYRGVLSCL 36 (80)
Q Consensus 13 ~~~~k~V~V~-L~~g~~~~G~L~~~ 36 (80)
...|..|+|+ +..|+.+.|+..+-
T Consensus 230 G~~Gd~IrVrN~~SgkvV~a~V~~~ 254 (261)
T PRK06804 230 GRKGELIKVKNLSSGRVVTATVDGS 254 (261)
T ss_pred CCCCCEEEEEECCCCCEEEEEEecC
Confidence 4578999999 88899999988764
No 144
>PRK12618 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=21.24 E-value=69 Score=20.60 Aligned_cols=23 Identities=22% Similarity=0.195 Sum_probs=17.9
Q ss_pred hhhCCceEEE-ecCCcccceeeee
Q psy10835 13 QIHGRPVVVK-LVSGVDYRGVLSC 35 (80)
Q Consensus 13 ~~~~k~V~V~-L~~g~~~~G~L~~ 35 (80)
...|..|+|+ +..|+.+.|+..+
T Consensus 109 G~~Gd~IrV~N~~S~riV~g~V~~ 132 (141)
T PRK12618 109 GGVGDEIRVMNLSSRTTVSGRIAA 132 (141)
T ss_pred CCCCCEEEEEECCCCCEEEEEEec
Confidence 3568888885 7888888888765
No 145
>TIGR03361 VI_Rhs_Vgr type VI secretion system Vgr family protein. Members of this protein family belong to the Rhs element Vgr protein family (see TIGR01646), but furthermore all are found in genomes with type VI secretion loci. However, members of this protein family, although recognizably correlated to type VI secretion according the partial phylogenetic profiling algorithm, are often found far the type VI secretion locus.
Probab=20.84 E-value=1.1e+02 Score=23.27 Aligned_cols=27 Identities=19% Similarity=0.594 Sum_probs=22.3
Q ss_pred HHhhhCCceEEEec--CC--cccceeeeeec
Q psy10835 11 IQQIHGRPVVVKLV--SG--VDYRGVLSCLD 37 (80)
Q Consensus 11 L~~~~~k~V~V~L~--~g--~~~~G~L~~~D 37 (80)
+.+++|+++.|.+. +| +.+.|.+.++.
T Consensus 42 ~~~llG~~v~l~i~~~~~~~r~f~GiVt~~~ 72 (513)
T TIGR03361 42 LEDLLGQPATLTLGRDGGGPRYFHGIVTRFE 72 (513)
T ss_pred HHHHcCCeEEEEEEeCCCceEEEEEEEEEEE
Confidence 77899999999996 33 66889998885
No 146
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=20.80 E-value=80 Score=23.59 Aligned_cols=23 Identities=30% Similarity=0.540 Sum_probs=20.6
Q ss_pred HhhhCCceEEEecCCcccceeee
Q psy10835 12 QQIHGRPVVVKLVSGVDYRGVLS 34 (80)
Q Consensus 12 ~~~~~k~V~V~L~~g~~~~G~L~ 34 (80)
+-+.+++|+|...+|..|.|++-
T Consensus 93 ~~~~gq~v~i~t~~g~~i~GvIg 115 (355)
T COG1363 93 QVLEGQRVTIHTDKGKKIRGVIG 115 (355)
T ss_pred hhccCcEEEEEeCCCcEEeeeEc
Confidence 45679999999999999999987
No 147
>PF09642 YonK: YonK protein; InterPro: IPR018600 YonK protein is expressed by the bacterial prophage SPbetaC []. It is a 63 residue protein that associates into a homo-octamer in the form of a beta-stranded barrel with four outer helical features at points of the compass. Its function is unknown. ; PDB: 2H4O_C.
Probab=20.72 E-value=81 Score=17.74 Aligned_cols=22 Identities=14% Similarity=0.448 Sum_probs=17.6
Q ss_pred hHHHHHhhhCCceEEEecCCcc
Q psy10835 7 LSQFIQQIHGRPVVVKLVSGVD 28 (80)
Q Consensus 7 p~~~L~~~~~k~V~V~L~~g~~ 28 (80)
..+.|+++-||.|.+.++...+
T Consensus 34 l~eil~~F~gk~VsitIkEe~E 55 (62)
T PF09642_consen 34 LNEILSEFNGKNVSITIKEENE 55 (62)
T ss_dssp HHHHHHTTTTSEEEEEEEEEEE
T ss_pred HHHHHHHhCCceEEEEEeeccc
Confidence 3567999999999999886544
No 148
>PF02014 Reeler: Reeler domain Schematic picture including Reeler domain; InterPro: IPR002861 Extracellular matrix (ECM) proteins play an important role in early cortical development, specifically in the formation of neural connections and in controlling the cyto-architecture of the central nervous system. The product of the reeler gene in mouse is reelin,a large extracellular protein secreted by pioneer neurons that coordinates cell positioning during neurodevelopment []. F-spondin and mindin are a family of matrix-attached adhesion molecules that share structural similarities and overlapping domains of expression. Both F-spondin and mindin promote adhesion and outgrowth of hippocampal embryonic neurons and bind to a putative receptor(s) expressed on both hippocampal and sensory neurons []. This domain of unknown function is found at the N terminus of reelin and F-spondin.; PDB: 2ZOT_B 2ZOU_B 3COO_A.
Probab=20.18 E-value=1.1e+02 Score=18.94 Aligned_cols=22 Identities=27% Similarity=0.419 Sum_probs=16.1
Q ss_pred hCCceEEEe--cCCcccceeeeee
Q psy10835 15 HGRPVVVKL--VSGVDYRGVLSCL 36 (80)
Q Consensus 15 ~~k~V~V~L--~~g~~~~G~L~~~ 36 (80)
-|+++.|.| ..+..++|.|...
T Consensus 32 pg~~~~Vtl~~~~~~~F~GFllqA 55 (132)
T PF02014_consen 32 PGQTYTVTLSSSGSSSFRGFLLQA 55 (132)
T ss_dssp TTBEEEEEEEETTTEEBSEEEEEE
T ss_pred CCCEEEEEEECCCCCceeEEEEEE
Confidence 378888888 6677787776543
Done!