Query psy11512
Match_columns 62
No_of_seqs 123 out of 1061
Neff 6.4
Searched_HMMs 46136
Date Fri Aug 16 20:19:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11512.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11512hhsearch_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 2.2E-21 4.8E-26 109.4 7.6 61 1-61 1-61 (72)
2 cd01719 Sm_G The eukaryotic Sm 99.9 4E-21 8.6E-26 108.6 8.0 57 5-61 1-57 (72)
3 cd01729 LSm7 The eukaryotic Sm 99.8 1.6E-20 3.5E-25 108.1 8.0 58 4-61 2-67 (81)
4 cd01731 archaeal_Sm1 The archa 99.8 9.7E-20 2.1E-24 101.4 7.5 55 7-61 3-57 (68)
5 cd01726 LSm6 The eukaryotic Sm 99.8 1.1E-19 2.3E-24 101.2 7.4 55 7-61 3-57 (67)
6 cd01732 LSm5 The eukaryotic Sm 99.8 1.5E-19 3.3E-24 103.2 8.0 56 6-61 4-63 (76)
7 cd01722 Sm_F The eukaryotic Sm 99.8 1.8E-19 3.8E-24 100.6 6.7 57 5-61 2-58 (68)
8 KOG1780|consensus 99.8 9.5E-20 2.1E-24 103.7 5.0 61 1-61 1-61 (77)
9 cd06168 LSm9 The eukaryotic Sm 99.8 1.2E-18 2.7E-23 99.3 8.2 55 7-61 3-63 (75)
10 cd01730 LSm3 The eukaryotic Sm 99.8 1.1E-18 2.3E-23 100.5 7.6 56 6-61 2-71 (82)
11 cd01717 Sm_B The eukaryotic Sm 99.8 1.7E-18 3.7E-23 98.9 7.9 55 7-61 3-67 (79)
12 cd01727 LSm8 The eukaryotic Sm 99.8 1.9E-18 4.1E-23 97.7 7.6 55 7-61 2-60 (74)
13 cd01728 LSm1 The eukaryotic Sm 99.8 3.5E-18 7.6E-23 97.2 8.4 56 6-61 4-62 (74)
14 smart00651 Sm snRNP Sm protein 99.8 7.6E-18 1.6E-22 92.5 7.5 55 7-61 1-56 (67)
15 PF01423 LSM: LSM domain ; In 99.8 1E-17 2.2E-22 92.1 7.9 54 8-61 2-56 (67)
16 COG1958 LSM1 Small nuclear rib 99.7 1.5E-17 3.3E-22 94.8 7.8 43 7-49 10-52 (79)
17 cd00600 Sm_like The eukaryotic 99.7 4.9E-17 1.1E-21 88.1 7.6 53 9-61 1-53 (63)
18 cd01718 Sm_E The eukaryotic Sm 99.7 3.5E-17 7.6E-22 94.3 7.1 57 5-61 6-68 (79)
19 cd01720 Sm_D2 The eukaryotic S 99.7 3.9E-17 8.4E-22 95.4 7.2 46 6-51 3-51 (87)
20 cd01721 Sm_D3 The eukaryotic S 99.7 8.2E-17 1.8E-21 90.3 7.4 54 8-61 4-57 (70)
21 KOG3482|consensus 99.7 3.1E-17 6.7E-22 93.3 4.8 56 6-61 10-65 (79)
22 cd01723 LSm4 The eukaryotic Sm 99.7 2.4E-16 5.1E-21 89.6 7.3 55 6-60 2-58 (76)
23 cd01724 Sm_D1 The eukaryotic S 99.7 5.9E-16 1.3E-20 90.7 7.5 55 7-61 4-58 (90)
24 cd01733 LSm10 The eukaryotic S 99.7 5.6E-16 1.2E-20 88.8 6.7 55 7-61 12-66 (78)
25 PTZ00138 small nuclear ribonuc 99.6 1.2E-14 2.6E-19 85.3 6.9 56 6-61 15-76 (89)
26 KOG1781|consensus 99.6 1.3E-16 2.8E-21 95.1 -1.9 55 7-61 20-82 (108)
27 cd01725 LSm2 The eukaryotic Sm 99.6 1.9E-14 4.2E-19 82.7 7.0 45 7-51 4-48 (81)
28 KOG1783|consensus 99.5 1.9E-15 4.2E-20 85.9 -0.9 60 1-60 1-62 (77)
29 KOG1775|consensus 99.4 2.4E-14 5.2E-19 82.2 1.4 50 4-53 6-56 (84)
30 KOG1774|consensus 99.3 3.7E-13 8.1E-18 78.0 1.3 58 4-61 11-74 (88)
31 KOG3460|consensus 99.2 1.7E-12 3.7E-17 75.6 -0.3 47 4-50 4-51 (91)
32 KOG3168|consensus 99.2 2.2E-12 4.7E-17 83.0 -1.3 61 1-61 1-71 (177)
33 KOG1784|consensus 99.0 3E-10 6.4E-15 67.0 2.7 44 7-50 3-46 (96)
34 KOG3448|consensus 98.9 2.4E-09 5.2E-14 63.0 5.0 44 7-50 5-48 (96)
35 KOG1782|consensus 98.8 1.1E-10 2.4E-15 71.9 -3.0 43 8-50 13-55 (129)
36 KOG3293|consensus 98.8 5.1E-09 1.1E-13 64.8 4.0 48 6-53 3-51 (134)
37 KOG3172|consensus 98.5 5.8E-07 1.3E-11 54.6 6.3 58 1-58 1-59 (119)
38 cd01739 LSm11_C The eukaryotic 98.4 3.7E-07 7.9E-12 51.1 2.8 37 15-51 9-49 (66)
39 KOG3428|consensus 98.1 1.1E-05 2.4E-10 48.9 5.9 44 7-50 5-48 (109)
40 PF14438 SM-ATX: Ataxin 2 SM d 97.9 5.8E-05 1.3E-09 42.3 6.0 42 9-50 7-51 (77)
41 PF06372 Gemin6: Gemin6 protei 97.2 0.00077 1.7E-08 43.5 4.2 43 4-47 7-50 (166)
42 PF12701 LSM14: Scd6-like Sm d 96.8 0.004 8.7E-08 36.9 4.9 40 10-49 4-44 (96)
43 cd01716 Hfq Hfq, an abundant, 96.8 0.0033 7.1E-08 34.7 4.1 33 13-45 10-42 (61)
44 TIGR02383 Hfq RNA chaperone Hf 96.7 0.0039 8.5E-08 34.4 4.1 32 13-44 14-45 (61)
45 PRK14638 hypothetical protein; 96.7 0.0042 9.1E-08 39.2 4.8 37 6-43 92-128 (150)
46 PF02237 BPL_C: Biotin protein 96.7 0.0078 1.7E-07 31.0 4.9 34 12-46 1-34 (48)
47 PRK14639 hypothetical protein; 96.4 0.0086 1.9E-07 37.4 4.8 36 6-42 80-115 (140)
48 PRK02001 hypothetical protein; 96.4 0.0091 2E-07 37.9 4.8 36 6-42 82-117 (152)
49 PRK00395 hfq RNA-binding prote 96.4 0.0079 1.7E-07 34.7 4.1 34 12-45 17-50 (79)
50 KOG3459|consensus 96.4 0.00029 6.3E-09 42.9 -2.1 37 14-50 36-72 (114)
51 cd01735 LSm12_N LSm12 belongs 96.3 0.02 4.3E-07 31.5 5.2 36 12-47 4-39 (61)
52 cd01736 LSm14_N LSm14 (also kn 96.0 0.036 7.8E-07 31.6 5.5 41 10-50 2-43 (74)
53 COG1923 Hfq Uncharacterized ho 95.9 0.02 4.4E-07 32.9 4.2 37 5-41 8-46 (77)
54 PRK14640 hypothetical protein; 95.8 0.09 1.9E-06 33.1 7.2 32 6-37 89-124 (152)
55 cd01734 YlxS_C YxlS is a Bacil 95.7 0.036 7.7E-07 31.4 4.6 36 6-42 17-56 (83)
56 PRK14633 hypothetical protein; 95.5 0.043 9.3E-07 34.6 4.9 36 6-42 86-125 (150)
57 PRK14642 hypothetical protein; 95.2 0.052 1.1E-06 35.9 4.7 36 6-42 92-140 (197)
58 PRK14645 hypothetical protein; 95.1 0.058 1.3E-06 34.2 4.5 31 6-37 94-124 (154)
59 PRK00092 ribosome maturation p 95.0 0.079 1.7E-06 33.2 4.9 31 6-36 90-124 (154)
60 PRK14632 hypothetical protein; 95.0 0.07 1.5E-06 34.3 4.7 37 6-43 90-133 (172)
61 PRK14636 hypothetical protein; 94.9 0.072 1.6E-06 34.5 4.6 36 6-42 90-129 (176)
62 PRK14644 hypothetical protein; 94.7 0.092 2E-06 32.7 4.7 35 8-43 79-117 (136)
63 PRK14634 hypothetical protein; 94.7 0.22 4.8E-06 31.5 6.5 31 6-36 92-126 (155)
64 PRK14643 hypothetical protein; 94.6 0.093 2E-06 33.6 4.6 37 6-42 96-137 (164)
65 PRK14646 hypothetical protein; 94.6 0.1 2.2E-06 33.1 4.6 36 6-42 92-131 (155)
66 PF02576 DUF150: Uncharacteris 94.5 0.07 1.5E-06 32.8 3.7 36 6-42 79-118 (141)
67 PRK14647 hypothetical protein; 94.4 0.12 2.6E-06 32.8 4.7 31 6-36 91-130 (159)
68 COG0779 Uncharacterized protei 94.1 0.16 3.5E-06 32.4 4.9 32 7-38 92-127 (153)
69 PRK14091 RNA-binding protein H 93.9 0.13 2.8E-06 33.3 4.1 33 13-45 103-135 (165)
70 PRK14631 hypothetical protein; 93.9 0.18 4E-06 32.5 4.8 30 6-35 109-142 (174)
71 PRK14637 hypothetical protein; 93.8 0.17 3.7E-06 32.0 4.5 36 6-42 90-126 (151)
72 PF11095 Gemin7: Gem-associate 93.6 0.28 6.1E-06 28.3 4.8 37 8-44 18-55 (80)
73 PRK14091 RNA-binding protein H 93.6 0.16 3.4E-06 33.0 4.1 37 9-45 17-55 (165)
74 PRK14641 hypothetical protein; 93.3 0.21 4.5E-06 32.3 4.3 38 6-43 96-143 (173)
75 PRK14630 hypothetical protein; 91.1 0.59 1.3E-05 29.2 4.4 30 6-36 89-118 (143)
76 PRK14635 hypothetical protein; 90.2 0.82 1.8E-05 29.0 4.5 31 6-36 91-126 (162)
77 PF10842 DUF2642: Protein of u 89.5 2.4 5.1E-05 23.6 5.6 29 9-38 16-45 (66)
78 PRK06955 biotin--protein ligas 86.9 2 4.3E-05 29.4 5.0 33 11-43 246-278 (300)
79 PF03614 Flag1_repress: Repres 85.9 1 2.2E-05 29.1 2.9 24 13-36 119-142 (165)
80 PRK10898 serine endoprotease; 83.0 3.6 7.7E-05 28.8 4.9 31 15-45 102-132 (353)
81 TIGR02038 protease_degS peripl 82.5 3.8 8.2E-05 28.6 4.8 31 15-45 102-132 (351)
82 PF11607 DUF3247: Protein of u 81.6 2.8 6.1E-05 25.1 3.4 18 14-31 28-45 (101)
83 PRK11886 bifunctional biotin-- 81.6 4.6 0.0001 27.6 4.9 32 11-43 269-300 (319)
84 PF14563 DUF4444: Domain of un 81.6 2 4.4E-05 22.0 2.4 22 27-48 10-31 (42)
85 PRK13325 bifunctional biotin-- 80.0 5.1 0.00011 30.2 5.0 34 11-44 275-308 (592)
86 COG0340 BirA Biotin-(acetyl-Co 79.7 11 0.00023 25.4 6.1 37 9-45 185-221 (238)
87 PRK08330 biotin--protein ligas 79.7 6.3 0.00014 25.9 4.9 33 11-44 185-218 (236)
88 PRK10942 serine endoprotease; 78.4 5.7 0.00012 29.0 4.8 31 15-45 136-166 (473)
89 PRK10139 serine endoprotease; 78.4 6.4 0.00014 28.6 5.0 31 15-45 115-145 (455)
90 PRK09618 flgD flagellar basal 77.9 11 0.00024 23.8 5.4 27 9-35 87-113 (142)
91 PTZ00275 biotin-acetyl-CoA-car 77.8 7.3 0.00016 26.6 4.9 32 12-44 235-266 (285)
92 TIGR00121 birA_ligase birA, bi 77.2 8.1 0.00018 25.3 4.9 33 10-43 189-221 (237)
93 KOG1073|consensus 76.6 5.2 0.00011 28.8 4.1 39 10-48 5-44 (361)
94 PF03614 Flag1_repress: Repres 76.4 5.4 0.00012 25.8 3.7 36 11-46 26-61 (165)
95 TIGR02037 degP_htrA_DO peripla 75.1 8.2 0.00018 27.4 4.8 32 15-46 82-113 (428)
96 KOG3382|consensus 71.7 2.3 5E-05 27.0 1.2 24 23-46 41-64 (151)
97 PF07073 ROF: Modulator of Rho 69.6 5.7 0.00012 22.7 2.4 23 8-30 11-33 (80)
98 KOG3493|consensus 68.8 4.4 9.4E-05 22.9 1.8 18 9-26 6-23 (73)
99 PF05071 NDUFA12: NADH ubiquin 67.8 2.5 5.4E-05 25.0 0.7 17 29-45 1-17 (105)
100 PRK08477 biotin--protein ligas 63.6 36 0.00079 22.4 5.7 38 10-48 171-208 (211)
101 TIGR03170 flgA_cterm flagella 63.1 12 0.00025 21.9 3.0 24 10-33 92-116 (122)
102 PF06257 DUF1021: Protein of u 62.3 27 0.00058 19.8 4.3 27 8-34 11-41 (76)
103 PRK11911 flgD flagellar basal 59.9 41 0.00089 21.2 5.8 27 10-36 89-115 (140)
104 TIGR02603 CxxCH_TIGR02603 puta 59.8 28 0.00061 20.9 4.3 27 16-42 59-86 (133)
105 cd04479 RPA3 RPA3: A subfamily 58.1 35 0.00075 19.8 5.0 36 7-44 8-48 (101)
106 PRK06630 hypothetical protein; 57.4 5.9 0.00013 23.7 1.0 19 27-45 11-29 (99)
107 COG5316 Uncharacterized conser 57.2 46 0.00099 24.6 5.6 44 8-52 76-119 (421)
108 KOG4401|consensus 55.6 10 0.00023 25.0 2.0 38 9-46 6-43 (184)
109 PF14485 DUF4431: Domain of un 55.4 11 0.00023 19.5 1.7 14 7-20 12-25 (48)
110 PRK07018 flgA flagellar basal 55.2 16 0.00035 24.1 2.9 24 10-33 203-227 (235)
111 PF10894 DUF2689: Protein of u 54.5 1.5 3.2E-05 24.0 -1.8 16 34-49 20-35 (61)
112 smart00333 TUDOR Tudor domain. 49.8 33 0.00072 17.1 4.3 25 13-37 5-29 (57)
113 PF05954 Phage_GPD: Phage late 49.3 45 0.00097 21.6 4.3 28 8-35 22-49 (292)
114 PLN03095 NADH:ubiquinone oxido 47.8 12 0.00025 23.0 1.2 18 28-45 9-26 (115)
115 COG0265 DegQ Trypsin-like seri 46.2 56 0.0012 22.4 4.5 30 14-43 95-124 (347)
116 PRK11625 Rho-binding antitermi 45.5 59 0.0013 18.7 4.1 23 9-31 18-40 (84)
117 PF09465 LBR_tudor: Lamin-B re 44.9 50 0.0011 17.7 3.6 25 12-36 7-32 (55)
118 TIGR03361 VI_Rhs_Vgr type VI s 43.6 53 0.0011 23.8 4.3 29 7-35 40-72 (513)
119 PRK06792 flgD flagellar basal 43.6 48 0.001 22.0 3.7 26 10-35 114-139 (190)
120 PLN02732 Probable NADH dehydro 42.8 22 0.00048 22.9 2.0 18 28-45 48-65 (159)
121 COG1886 FliN Flagellar motor s 42.7 67 0.0015 19.7 4.1 38 6-43 97-134 (136)
122 PF14153 Spore_coat_CotO: Spor 42.2 38 0.00082 22.2 3.1 17 21-37 141-157 (185)
123 KOG1749|consensus 42.2 27 0.00059 21.9 2.3 38 10-48 63-101 (143)
124 PRK06005 flgA flagellar basal 42.0 39 0.00085 21.3 3.1 24 10-33 127-151 (160)
125 PRK08515 flgA flagellar basal 41.9 47 0.001 22.0 3.5 24 10-33 192-215 (222)
126 PF07024 ImpE: ImpE protein; 41.1 35 0.00076 21.0 2.6 28 5-32 42-69 (123)
127 cd06920 NEAT NEAr Transport do 39.4 43 0.00093 19.3 2.8 38 6-43 18-56 (117)
128 COG4466 Veg Uncharacterized pr 38.7 41 0.00089 19.4 2.5 25 8-32 13-41 (80)
129 smart00166 UBX Domain present 38.4 37 0.00081 18.5 2.3 21 15-35 5-25 (80)
130 PRK08183 NADH dehydrogenase; V 38.4 18 0.00039 22.6 1.0 18 28-45 25-42 (133)
131 PRK12617 flgA flagellar basal 38.4 49 0.0011 21.9 3.2 24 10-33 182-206 (214)
132 PF05031 NEAT: Iron Transport- 36.4 48 0.001 19.5 2.7 25 5-29 23-47 (124)
133 PRK10708 hypothetical protein; 35.9 53 0.0011 18.0 2.5 25 13-37 3-27 (62)
134 smart00725 NEAT NEAr Transport 35.6 55 0.0012 19.6 2.9 38 6-43 19-57 (123)
135 cd01772 SAKS1_UBX SAKS1-like U 34.4 47 0.001 18.2 2.3 24 12-35 2-25 (79)
136 PF00789 UBX: UBX domain; Int 34.3 58 0.0013 17.5 2.6 21 15-35 7-27 (82)
137 cd01767 UBX UBX (ubiquitin reg 33.9 52 0.0011 17.7 2.4 21 15-35 3-23 (77)
138 PRK12618 flgA flagellar basal 33.5 72 0.0016 19.7 3.2 24 10-33 108-132 (141)
139 PF08661 Rep_fac-A_3: Replicat 33.5 39 0.00085 19.6 2.0 15 7-21 11-25 (109)
140 PF02245 Pur_DNA_glyco: Methyl 33.0 93 0.002 20.3 3.8 33 5-38 8-41 (184)
141 PRK06789 flagellar motor switc 32.7 97 0.0021 17.4 3.5 36 7-42 34-69 (74)
142 TIGR00567 3mg DNA-3-methyladen 32.6 1.4E+02 0.0031 19.6 4.6 33 6-38 10-43 (192)
143 PRK06804 flgA flagellar basal 32.1 70 0.0015 21.9 3.2 24 10-33 229-253 (261)
144 PF13144 SAF_2: SAF-like 31.9 84 0.0018 19.7 3.4 24 10-33 166-190 (196)
145 PF02707 MOSP_N: Major Outer S 31.5 39 0.00085 22.7 1.9 17 25-41 30-46 (204)
146 PF10246 MRP-S35: Mitochondria 31.1 35 0.00077 20.6 1.5 34 13-47 63-96 (104)
147 PF10781 DSRB: Dextransucrase 31.0 64 0.0014 17.7 2.3 25 13-37 3-27 (62)
148 COG2451 Ribosomal protein L35A 30.6 1.3E+02 0.0027 18.1 4.0 29 6-34 38-67 (100)
149 TIGR00008 infA translation ini 30.3 1E+02 0.0022 17.0 3.2 24 11-34 14-37 (68)
150 PF07076 DUF1344: Protein of u 29.7 80 0.0017 17.3 2.6 24 26-49 4-28 (61)
151 PRK04211 rps12P 30S ribosomal 29.2 52 0.0011 21.0 2.0 29 9-38 63-92 (145)
152 PF05989 Chordopox_A35R: Chord 28.9 45 0.00097 21.9 1.8 21 26-46 92-112 (176)
153 PRK12442 translation initiatio 28.9 1.2E+02 0.0025 17.8 3.3 37 10-46 15-53 (87)
154 PF01887 SAM_adeno_trans: S-ad 28.9 90 0.0019 21.2 3.3 19 26-44 169-187 (258)
155 PRK12786 flgA flagellar basal 27.2 95 0.0021 22.0 3.3 25 10-34 285-310 (338)
156 PF11256 DUF3055: Protein of u 26.3 67 0.0014 18.5 2.0 17 10-26 30-46 (81)
157 COG0048 RpsL Ribosomal protein 26.2 75 0.0016 19.9 2.3 24 10-33 52-75 (129)
158 PRK06009 flgD flagellar basal 25.9 1.8E+02 0.0038 18.3 4.8 25 9-36 92-116 (140)
159 PRK05163 rpsL 30S ribosomal pr 25.7 77 0.0017 19.7 2.3 27 9-35 45-71 (124)
160 COG1261 FlgA Flagellar basal b 25.7 88 0.0019 21.0 2.8 24 10-33 188-212 (220)
161 PF02014 Reeler: Reeler domain 25.1 81 0.0017 18.7 2.3 21 12-32 31-53 (132)
162 TIGR00999 8a0102 Membrane Fusi 25.1 1.9E+02 0.0042 18.5 4.3 27 13-39 141-167 (265)
163 PF10618 Tail_tube: Phage tail 25.1 1.6E+02 0.0035 17.7 3.6 23 8-30 68-90 (119)
164 PRK04337 50S ribosomal protein 25.0 1.5E+02 0.0033 17.2 3.7 28 8-35 34-61 (87)
165 COG1363 FrvX Cellulase M and r 24.7 1E+02 0.0023 22.1 3.2 24 9-32 92-115 (355)
166 COG4568 Rof Transcriptional an 24.1 1.3E+02 0.0028 17.5 2.9 23 9-31 18-40 (84)
167 COG1588 POP4 RNase P/RNase MRP 23.7 96 0.0021 18.4 2.4 34 7-41 10-45 (95)
168 PF05037 DUF669: Protein of un 23.7 55 0.0012 19.9 1.4 24 8-31 97-121 (141)
169 TIGR00981 rpsL_bact ribosomal 23.6 92 0.002 19.4 2.4 27 9-35 45-71 (124)
170 PF05589 DUF768: Protein of un 23.5 18 0.00039 19.9 -0.7 21 1-21 1-21 (64)
171 cd00319 Ribosomal_S12_like Rib 23.4 92 0.002 18.5 2.3 27 9-35 30-56 (95)
172 KOG3535|consensus 23.2 52 0.0011 24.8 1.4 15 22-36 46-60 (557)
173 PF01176 eIF-1a: Translation i 22.9 1.3E+02 0.0029 15.8 3.0 23 12-34 13-35 (65)
174 cd08544 Reeler Reeler, the N-t 22.8 1.3E+02 0.0028 17.8 2.9 23 12-34 31-55 (135)
175 PF01052 SpoA: Surface present 22.4 1.4E+02 0.003 15.9 4.0 36 9-44 37-72 (77)
176 PF05585 DUF1758: Putative pep 22.3 58 0.0013 19.9 1.3 38 24-61 112-152 (164)
177 PRK09961 exoaminopeptidase; Pr 21.9 1.3E+02 0.0029 20.9 3.2 23 10-32 90-112 (344)
178 CHL00051 rps12 ribosomal prote 21.1 1E+02 0.0022 19.1 2.2 36 9-46 45-80 (123)
179 cd01770 p47_UBX p47-like ubiqu 20.4 1.2E+02 0.0027 16.7 2.3 21 15-35 5-25 (79)
180 COG0361 InfA Translation initi 20.1 1.8E+02 0.004 16.4 3.4 34 10-43 15-48 (75)
181 TIGR02330 prpD 2-methylcitrate 20.0 1.3E+02 0.0028 22.1 2.9 16 14-29 389-404 (468)
No 1
>PRK00737 small nuclear ribonucleoprotein; Provisional
Probab=99.86 E-value=2.2e-21 Score=109.40 Aligned_cols=61 Identities=31% Similarity=0.511 Sum_probs=54.1
Q ss_pred CCCCCchhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 1 MSKSHPPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 1 m~~~~~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
|+..+...|.++++++|.|+++||++|.|+|.|||+|||++|+||.|...++..+.+|.++
T Consensus 1 ~~~~P~~~L~~~~~k~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~~~~~~~~lg~v~ 61 (72)
T PRK00737 1 MAQRPLDVLNNALNSPVLVRLKGGREFRGELQGYDIHMNLVLDNAEEIQDGEVVRKLGKVV 61 (72)
T ss_pred CCcchHHHHHHhCCCEEEEEECCCCEEEEEEEEEcccceeEEeeEEEEcCCCeEeEcCcEE
Confidence 7755555689999999999999999999999999999999999999987766677888764
No 2
>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=99.85 E-value=4e-21 Score=108.63 Aligned_cols=57 Identities=70% Similarity=1.137 Sum_probs=52.8
Q ss_pred CchhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 5 HPPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 5 ~~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
++++|+++++|+|.|++++|+++.|+|.|||+||||+|++|+|+..+...+.+|.++
T Consensus 1 ~~~~L~~~i~k~V~V~L~~g~~~~G~L~~~D~~mNlvL~~~~E~~~~~~~~~lg~v~ 57 (72)
T cd01719 1 HPPELKKYMDKKLSLKLNGNRKVSGILRGFDPFMNLVLDDAVEVNSGGEKNNIGMVV 57 (72)
T ss_pred CchhhHHhCCCeEEEEECCCeEEEEEEEEEcccccEEeccEEEEccCCceeEeceEE
Confidence 478999999999999999999999999999999999999999998777788888874
No 3
>cd01729 LSm7 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. LSm7 is one of at least seven subunits that assemble onto U6 snRNA to form a seven-membered ring structure. Sm-like proteins exist in archaea as well as prokaryotes that form heptameric and hexameric ring structures similar to those found in eukaryotes.
Probab=99.84 E-value=1.6e-20 Score=108.14 Aligned_cols=58 Identities=43% Similarity=0.804 Sum_probs=51.7
Q ss_pred CCchhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCC--------ceeeeeEee
Q psy11512 4 SHPPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN--------TVHNIGMVE 61 (62)
Q Consensus 4 ~~~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~--------~~~~lG~v~ 61 (62)
-.+++|.++++++|+|+++|||++.|+|.|||+||||+|++|+|+..++ ..+.+|.++
T Consensus 2 ~~~~~L~~~i~k~V~V~l~~gr~~~G~L~~~D~~mNlvL~~~~E~~~~~~~~~~~~~~~~~lG~v~ 67 (81)
T cd01729 2 ESILDLSKYVDKKIRVKFQGGREVTGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDKTRQLGLVV 67 (81)
T ss_pred cchhhHHHhcCCeEEEEECCCcEEEEEEEEEcCcccEEecCEEEEEccCCcccccccceeEccEEE
Confidence 3567899999999999999999999999999999999999999997642 467789875
No 4
>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=99.82 E-value=9.7e-20 Score=101.38 Aligned_cols=55 Identities=35% Similarity=0.537 Sum_probs=50.6
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
.+|+++++++|.|++++|++|.|+|.|||+|||++|+||+|+..++..+.+|.++
T Consensus 3 ~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lg~~~ 57 (68)
T cd01731 3 DVLKDSLNKPVLVKLKGGKEVRGRLKSYDQHMNLVLEDAEEIDDGEPVRKYGRVV 57 (68)
T ss_pred HHHHHhcCCEEEEEECCCCEEEEEEEEECCcceEEEeeEEEEecCCeEeEcCcEE
Confidence 3589999999999999999999999999999999999999998877788888764
No 5
>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=99.81 E-value=1.1e-19 Score=101.16 Aligned_cols=55 Identities=29% Similarity=0.440 Sum_probs=50.0
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
.+|+++++++|+|+|++|++|+|+|.|||+|||++|+||+|...++....+|.|+
T Consensus 3 ~~L~~~~~~~V~V~Lk~g~~~~G~L~~~D~~mNlvL~~~~~~~~~~~~~~~~~v~ 57 (67)
T cd01726 3 EFLKAIIGRPVVVKLNSGVDYRGILACLDGYMNIALEQTEEYVNGQLKNKYGDAF 57 (67)
T ss_pred HHHHhhCCCeEEEEECCCCEEEEEEEEEccceeeEEeeEEEEeCCceeeEeCCEE
Confidence 4589999999999999999999999999999999999999987776777888764
No 6
>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=99.81 E-value=1.5e-19 Score=103.20 Aligned_cols=56 Identities=23% Similarity=0.589 Sum_probs=49.4
Q ss_pred chh-HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEe---cCCceeeeeEee
Q psy11512 6 PPE-LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYR---KDNTVHNIGMVE 61 (62)
Q Consensus 6 ~~~-L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~---~~~~~~~lG~v~ 61 (62)
|.+ |+++++++|.|++++|++++|+|.|||+|||++|+||+|+. .++..+.+|.++
T Consensus 4 P~~~L~~~~~~~V~V~l~~gr~~~G~L~g~D~~mNlvL~da~E~~~~~~~~~~~~lg~v~ 63 (76)
T cd01732 4 PLELIDKCIGSRIWIVMKSDKEFVGTLLGFDDYVNMVLEDVTEYEITPEGRKITKLDQIL 63 (76)
T ss_pred hHHHHHHhCCCEEEEEECCCeEEEEEEEEeccceEEEEccEEEEEEcCCCceeeEcCeEE
Confidence 444 79999999999999999999999999999999999999997 344567888864
No 7
>cd01722 Sm_F The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet. Sm subunit F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Probab=99.80 E-value=1.8e-19 Score=100.58 Aligned_cols=57 Identities=32% Similarity=0.423 Sum_probs=50.8
Q ss_pred CchhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 5 HPPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 5 ~~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
+.++|+++++++|+|+|++|++|+|+|.|||+|||++|+||+|+..++....+|.++
T Consensus 2 p~~~L~~~~g~~V~V~Lk~g~~~~G~L~~~D~~mNi~L~~~~e~~~~~~~~~lg~~~ 58 (68)
T cd01722 2 PKPFLNDLTGKPVIVKLKWGMEYKGTLVSVDSYMNLQLANTEEYIDGKSTGNLGEVL 58 (68)
T ss_pred HHHHHHHcCCCEEEEEECCCcEEEEEEEEECCCEEEEEeeEEEEeCCccccCcCcEE
Confidence 345689999999999999999999999999999999999999997766677788764
No 8
>KOG1780|consensus
Probab=99.80 E-value=9.5e-20 Score=103.66 Aligned_cols=61 Identities=69% Similarity=1.013 Sum_probs=56.3
Q ss_pred CCCCCchhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 1 MSKSHPPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 1 m~~~~~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
||++..|+|++|++|++.+++..||.+.|+|.|||.|||+||+++.|...++....+|.++
T Consensus 1 Msksg~PeLkkymdKki~lklnG~r~v~GiLrGyD~FmNiVlde~vE~~~~~~~~~ig~~v 61 (77)
T KOG1780|consen 1 MSKSGHPELKKYMDKKIVLKLNGGRKVTGILRGYDPFMNIVLDETVEPNGDGDKNNIGMVV 61 (77)
T ss_pred CCcccCchHHHhhhheEEEEeCCCcEEEEEEeccchHHhhhhhhceeecCcCCcceeeeEE
Confidence 8999555999999999999999999999999999999999999999998888888888764
No 9
>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=99.79 E-value=1.2e-18 Score=99.28 Aligned_cols=55 Identities=20% Similarity=0.442 Sum_probs=50.3
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecC------CceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKD------NTVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~------~~~~~lG~v~ 61 (62)
+.|.++++++|+|+++|||.|.|+|.|||+||||+|++|.|+... .+.+.+|.|+
T Consensus 3 ~~L~~~l~~~v~V~l~dgR~~~G~l~~~D~~~NivL~~~~E~~~~~~~~~~~~~r~lGlv~ 63 (75)
T cd06168 3 QKLRSLLGRTMRIHMTDGRTLVGVFLCTDRDCNIILGSAQEYRPPPDSFSPTEPRVLGLVM 63 (75)
T ss_pred hHHHHhcCCeEEEEEcCCeEEEEEEEEEcCCCcEEecCcEEEEcccCccCCccEEEeeeEE
Confidence 458999999999999999999999999999999999999999854 4688999885
No 10
>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=99.78 E-value=1.1e-18 Score=100.51 Aligned_cols=56 Identities=29% Similarity=0.481 Sum_probs=48.4
Q ss_pred chh-HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCC-------------ceeeeeEee
Q psy11512 6 PPE-LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN-------------TVHNIGMVE 61 (62)
Q Consensus 6 ~~~-L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-------------~~~~lG~v~ 61 (62)
|++ |+.+++++|.|++++||++.|+|.|||+||||+|+||+|++... ..+.+|.++
T Consensus 2 pl~~l~~~~~k~V~V~l~~gr~~~G~L~~fD~~mNlvL~d~~E~~~~~~~~~~~~~~~~~~~~r~lg~~~ 71 (82)
T cd01730 2 PLDLIRLSLDERVYVKLRGDRELRGRLHAYDQHLNMILGDVEETITTVEIDEETYEEIVKTTKRNIPMLF 71 (82)
T ss_pred chHHHHHhCCCEEEEEECCCCEEEEEEEEEccceEEeccceEEEeecccccccccccccceeEEEcCeEE
Confidence 555 68999999999999999999999999999999999999997542 356777764
No 11
>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=99.78 E-value=1.7e-18 Score=98.87 Aligned_cols=55 Identities=27% Similarity=0.524 Sum_probs=48.8
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecC----------CceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKD----------NTVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~----------~~~~~lG~v~ 61 (62)
+.|.+|++++|+|+++|||.+.|+|.|||+||||+|+||+|+... .+.+.+|.++
T Consensus 3 ~~l~~~l~~~V~V~l~dgR~~~G~L~~~D~~~NlVL~~~~E~~~~~~~~~~~~~~~~~r~lG~v~ 67 (79)
T cd01717 3 SKMLQLINYRLRVTLQDGRQFVGQFLAFDKHMNLVLSDCEEFRKVKKKKSKNSEREEKRTLGLVL 67 (79)
T ss_pred chhHHHcCCEEEEEECCCcEEEEEEEEEcCccCEEcCCEEEEEeccccccccccCcceeEeeeEE
Confidence 468999999999999999999999999999999999999998643 2457888875
No 12
>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=99.77 E-value=1.9e-18 Score=97.73 Aligned_cols=55 Identities=27% Similarity=0.446 Sum_probs=48.6
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecC----CceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKD----NTVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~----~~~~~lG~v~ 61 (62)
|.|.++++++|+|++++||.+.|+|.|||+|||++|++|.|+... ...+.+|.++
T Consensus 2 ~~L~~~l~~~V~V~l~dgr~~~G~L~~~D~~~NlvL~~~~E~~~~~~~~~~~~~lG~~~ 60 (74)
T cd01727 2 STLEDYLNKTVSVITVDGRVIVGTLKGFDQATNLILDDSHERVYSSDEGVEQVVLGLYI 60 (74)
T ss_pred hhHHHhcCCEEEEEECCCcEEEEEEEEEccccCEEccceEEEEecCCCCceeeEeceEE
Confidence 679999999999999999999999999999999999999998642 2466788764
No 13
>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=99.77 E-value=3.5e-18 Score=97.19 Aligned_cols=56 Identities=38% Similarity=0.462 Sum_probs=49.0
Q ss_pred chhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCC---ceeeeeEee
Q psy11512 6 PPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN---TVHNIGMVE 61 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~---~~~~lG~v~ 61 (62)
.++|.++++++|.|++++||++.|+|.|||+|||++|+||.|+...+ ..+.+|.++
T Consensus 4 ~~~L~~~l~k~v~V~l~~gr~~~G~L~~fD~~~NlvL~d~~E~~~~~~~~~~~~lG~~v 62 (74)
T cd01728 4 TASLVDDLDKKVVVLLRDGRKLIGILRSFDQFANLVLQDTVERIYVGDKYGDIPRGIFI 62 (74)
T ss_pred hHHHHHhcCCEEEEEEcCCeEEEEEEEEECCcccEEecceEEEEecCCccceeEeeEEE
Confidence 45699999999999999999999999999999999999999986432 356778765
No 14
>smart00651 Sm snRNP Sm proteins. small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing
Probab=99.75 E-value=7.6e-18 Score=92.48 Aligned_cols=55 Identities=42% Similarity=0.656 Sum_probs=49.6
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecC-CceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKD-NTVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~-~~~~~lG~v~ 61 (62)
++|.++++++|+|+++||+.+.|+|.+||+|||++|++|+|+..+ ...+.+|.++
T Consensus 1 ~~L~~~~~~~V~V~l~~g~~~~G~L~~~D~~~NlvL~~~~e~~~~~~~~~~~~~~~ 56 (67)
T smart00651 1 KFLKKLIGKRVLVELKNGREYRGTLKGFDQFMNLVLEDVEETVKDGEKKRKLGLVF 56 (67)
T ss_pred ChhHHhCCcEEEEEECCCcEEEEEEEEECccccEEEccEEEEecCCcEEeEeCCEE
Confidence 368999999999999999999999999999999999999999876 5677777663
No 15
>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=99.75 E-value=1e-17 Score=92.07 Aligned_cols=54 Identities=37% Similarity=0.575 Sum_probs=50.4
Q ss_pred hHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCC-ceeeeeEee
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN-TVHNIGMVE 61 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~-~~~~lG~v~ 61 (62)
+|+++++++|+|+++||++++|+|.+||+|||++|++|.|....+ +.+.+|.++
T Consensus 2 ~L~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Nl~L~~~~~~~~~~~~~~~~~~~~ 56 (67)
T PF01423_consen 2 FLQKLIGKRVRVELKNGRTYRGTLVSFDQFMNLVLSDVTETIKNGPEKRSLGLVF 56 (67)
T ss_dssp HHHHTTTSEEEEEETTSEEEEEEEEEEETTEEEEEEEEEEEETTESEEEEEEEEE
T ss_pred hhHHhCCcEEEEEEeCCEEEEEEEEEeechheEEeeeEEEEECCCCcEeECcEEE
Confidence 589999999999999999999999999999999999999998776 788888764
No 16
>COG1958 LSM1 Small nuclear ribonucleoprotein (snRNP) homolog [Transcription]
Probab=99.74 E-value=1.5e-17 Score=94.78 Aligned_cols=43 Identities=47% Similarity=0.694 Sum_probs=41.3
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEe
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYR 49 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~ 49 (62)
..|+++++++|.|+|++|++|.|+|.|||+|||++|+||.|+.
T Consensus 10 ~~l~~~~~~~V~V~lk~g~~~~G~L~~~D~~mNlvL~d~~e~~ 52 (79)
T COG1958 10 SFLKKLLNKRVLVKLKNGREYRGTLVGFDQYMNLVLDDVEEII 52 (79)
T ss_pred HHHHHhhCCEEEEEECCCCEEEEEEEEEccceeEEEeceEEEe
Confidence 3489999999999999999999999999999999999999997
No 17
>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=99.72 E-value=4.9e-17 Score=88.07 Aligned_cols=53 Identities=38% Similarity=0.600 Sum_probs=48.4
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
|+++++++|+|+++||+.|.|+|.+||+|||++|++|.+...+...+.+|.++
T Consensus 1 l~~~~g~~V~V~l~~g~~~~G~L~~~D~~~Ni~L~~~~~~~~~~~~~~~~~~~ 53 (63)
T cd00600 1 LKDLVGKTVRVELKDGRVLEGVLVAFDKYMNLVLDDVEETIKEGKKRVLGLVL 53 (63)
T ss_pred ChHHCCCEEEEEECCCcEEEEEEEEECCCCCEEECCEEEEecCCcEEECCeEE
Confidence 57899999999999999999999999999999999999998777777777764
No 18
>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=99.72 E-value=3.5e-17 Score=94.27 Aligned_cols=57 Identities=32% Similarity=0.591 Sum_probs=47.2
Q ss_pred Cchh-HHhcCCCE--EEEEEC--CCeEEEEEEEEecCccceEecceEEEec-CCceeeeeEee
Q psy11512 5 HPPE-LKKFMDKK--VTLKLN--ANRNVTGILRGFDPFMNLVLDEGVEYRK-DNTVHNIGMVE 61 (62)
Q Consensus 5 ~~~~-L~~~l~k~--V~V~l~--~g~~~~G~L~~~D~~mNlvL~~~~e~~~-~~~~~~lG~v~ 61 (62)
+|.. +.+|++++ |.|.++ +|+++.|+|.|||+|||++|+||+|+.. +...+.+|.++
T Consensus 6 ~P~~~l~~~l~~~~~V~V~l~~~~g~~~~G~L~gfD~~mNlvL~d~~E~~~~~~~~~~lG~il 68 (79)
T cd01718 6 QPINLIFRFLQSKQRVQIWLYEQTDLRIEGVIIGFDEYMNLVLDDAEEVHLKTKTRKPLGRIL 68 (79)
T ss_pred CCHHHHHHHHccCcEEEEEEEeCCCcEEEEEEEEEccceeEEEcCEEEEecCCceEeEcCcEE
Confidence 3555 79999994 555555 8999999999999999999999999975 45677888864
No 19
>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=99.71 E-value=3.9e-17 Score=95.44 Aligned_cols=46 Identities=24% Similarity=0.453 Sum_probs=41.5
Q ss_pred chh-HHhcC--CCEEEEEECCCeEEEEEEEEecCccceEecceEEEecC
Q psy11512 6 PPE-LKKFM--DKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKD 51 (62)
Q Consensus 6 ~~~-L~~~l--~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~ 51 (62)
|.+ |.+++ +++|.|++++|+++.|+|.|||+||||+|+||+|...+
T Consensus 3 Pl~~L~~~~~~~~~V~V~lr~~r~~~G~L~~fD~hmNlvL~d~~E~~~~ 51 (87)
T cd01720 3 PLSLLTQAVKNNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTE 51 (87)
T ss_pred hHHHHHHHHcCCCEEEEEEcCCCEEEEEEEEecCccEEEEcceEEEeec
Confidence 445 68886 89999999999999999999999999999999998754
No 20
>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=99.71 E-value=8.2e-17 Score=90.34 Aligned_cols=54 Identities=22% Similarity=0.179 Sum_probs=48.5
Q ss_pred hHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
.|.++.|++|.|+||||.+|+|+|.++|+|||++|+||++...+++..++|.++
T Consensus 4 ~L~~~~g~~V~VeLk~g~~~~G~L~~~D~~MNl~L~~~~~~~~~g~~~~~~~v~ 57 (70)
T cd01721 4 LLHEAEGHIVTVELKTGEVYRGKLIEAEDNMNCQLKDVTVTARDGRVSQLEQVY 57 (70)
T ss_pred HHhhCCCCEEEEEECCCcEEEEEEEEEcCCceeEEEEEEEECCCCcEeEcCcEE
Confidence 479999999999999999999999999999999999999877776667777663
No 21
>KOG3482|consensus
Probab=99.70 E-value=3.1e-17 Score=93.29 Aligned_cols=56 Identities=30% Similarity=0.425 Sum_probs=53.1
Q ss_pred chhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 6 PPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
.|||+.+.+|+|.|+||+|.+|+|+|++.|.|||+.|.+|+|++.+.....+|+|+
T Consensus 10 KpFL~~l~gk~V~vkLKwg~eYkG~LvsvD~YmNlqL~~~eE~idG~~~g~lGEil 65 (79)
T KOG3482|consen 10 KPFLNGLTGKPVLVKLKWGQEYKGTLVSVDNYMNLQLANAEEYIDGVSTGNLGEIL 65 (79)
T ss_pred hHHHhhccCCeEEEEEecCcEEEEEEEEecchhheehhhhhhhhcccccccceeEE
Confidence 47899999999999999999999999999999999999999999988899999875
No 22
>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=99.68 E-value=2.4e-16 Score=89.59 Aligned_cols=55 Identities=24% Similarity=0.305 Sum_probs=46.4
Q ss_pred chh-HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCce-eeeeEe
Q psy11512 6 PPE-LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTV-HNIGMV 60 (62)
Q Consensus 6 ~~~-L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~-~~lG~v 60 (62)
|.. |+++.|++|.|+|++|++++|+|.+||+|||++|+||++...+++. ..+|.+
T Consensus 2 Pl~~L~~~~g~~V~VeLkng~~~~G~L~~~D~~mNi~L~~~~~~~~~g~~~~~~~~v 58 (76)
T cd01723 2 PLSLLKTAQNHPMLVELKNGETYNGHLVNCDNWMNIHLREVICTSKDGDKFWKMPEC 58 (76)
T ss_pred chHHHHhcCCCEEEEEECCCCEEEEEEEEEcCCCceEEEeEEEECCCCcEeeeCCcE
Confidence 444 7999999999999999999999999999999999999998655543 344544
No 23
>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=99.66 E-value=5.9e-16 Score=90.74 Aligned_cols=55 Identities=25% Similarity=0.290 Sum_probs=50.5
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
.+|+++.|++|.|+|++|.+|+|+|.++|.|||++|+||++...++....+|.|+
T Consensus 4 ~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~a~~~~~~~~~~~~~~v~ 58 (90)
T cd01724 4 RFLMKLTNETVTIELKNGTIVHGTITGVDPSMNTHLKNVKLTLKGRNPVPLDTLS 58 (90)
T ss_pred HHHHhCCCCEEEEEECCCCEEEEEEEEEcCceeEEEEEEEEEcCCCceeEcceEE
Confidence 4689999999999999999999999999999999999999998877778888764
No 24
>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=99.65 E-value=5.6e-16 Score=88.77 Aligned_cols=55 Identities=24% Similarity=0.312 Sum_probs=49.2
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v~ 61 (62)
.+|++..|++|.|+||||.+|+|+|.++|+|||++|+||++...++...++|.++
T Consensus 12 ~~L~~l~g~~V~VeLKng~~~~G~L~~vD~~MNl~L~~~~~~~~~~~~~~~~~v~ 66 (78)
T cd01733 12 ILLQGLQGKVVTVELRNETTVTGRIASVDAFMNIRLAKVTIIDRNGKQVQVEEIM 66 (78)
T ss_pred HHHHHCCCCEEEEEECCCCEEEEEEEEEcCCceeEEEEEEEEcCCCceeECCcEE
Confidence 4579999999999999999999999999999999999999887777666777763
No 25
>PTZ00138 small nuclear ribonucleoprotein; Provisional
Probab=99.57 E-value=1.2e-14 Score=85.34 Aligned_cols=56 Identities=30% Similarity=0.589 Sum_probs=45.2
Q ss_pred chh-HHhcCCCEEEEEE--CC--CeEEEEEEEEecCccceEecceEEEecC-CceeeeeEee
Q psy11512 6 PPE-LKKFMDKKVTLKL--NA--NRNVTGILRGFDPFMNLVLDEGVEYRKD-NTVHNIGMVE 61 (62)
Q Consensus 6 ~~~-L~~~l~k~V~V~l--~~--g~~~~G~L~~~D~~mNlvL~~~~e~~~~-~~~~~lG~v~ 61 (62)
|.. +.+|+.++.+|.+ .+ +++++|+|.|||+|||++|+||+|+..+ ...+.+|.++
T Consensus 15 P~~~~~~~~~~~~~V~i~l~~~~~r~~~G~L~gfD~~mNlVL~d~~E~~~~~~~~~~lG~il 76 (89)
T PTZ00138 15 PINQIFRFFTEKTRVQIWLYDHPNLRIEGKILGFDEYMNMVLDDAEEVYTKKNTRKDLGRIL 76 (89)
T ss_pred CHHHHHHHhcCCcEEEEEEEeCCCcEEEEEEEEEcccceEEEccEEEEecCCceeeEcCeEE
Confidence 444 7889888766665 35 6999999999999999999999999753 4567888875
No 26
>KOG1781|consensus
Probab=99.56 E-value=1.3e-16 Score=95.11 Aligned_cols=55 Identities=42% Similarity=0.843 Sum_probs=50.1
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCC--------ceeeeeEee
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN--------TVHNIGMVE 61 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~--------~~~~lG~v~ 61 (62)
.+|.+|++++|+|++..||+..|+|.|||+.|||||++++|+..+. +.|++|+||
T Consensus 20 lDLsky~Dk~Irvkf~GGr~~sGiLkGyDqLlNlVLDd~vEylrdpdd~~~~~~~tR~LGLvV 82 (108)
T KOG1781|consen 20 LDLSKYLDKKIRVKFTGGREASGILKGYDQLLNLVLDDTVEYLRDPDDPYKLTDETRKLGLVV 82 (108)
T ss_pred hhHHHhhccceEEEeecCceeeeehhhHHHHHHHHHHHHHHHhcCCCCccchhhhhheeeeEE
Confidence 5799999999999999999999999999999999999999997542 458999986
No 27
>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=99.56 E-value=1.9e-14 Score=82.73 Aligned_cols=45 Identities=22% Similarity=0.393 Sum_probs=41.3
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecC
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKD 51 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~ 51 (62)
.+|+++.|++|.|+||+|.+|+|+|.++|+|||++|+||++...+
T Consensus 4 ~fL~~l~g~~V~VeLKng~~~~G~L~~vD~~MNi~L~n~~~~~~~ 48 (81)
T cd01725 4 SFFKTLVGKEVTVELKNDLSIRGTLHSVDQYLNIKLTNISVTDPE 48 (81)
T ss_pred HHHHhCCCCEEEEEECCCcEEEEEEEEECCCcccEEEEEEEEcCC
Confidence 358999999999999999999999999999999999999877543
No 28
>KOG1783|consensus
Probab=99.49 E-value=1.9e-15 Score=85.87 Aligned_cols=60 Identities=30% Similarity=0.473 Sum_probs=53.0
Q ss_pred CCCCC-c-hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeeeEe
Q psy11512 1 MSKSH-P-PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIGMV 60 (62)
Q Consensus 1 m~~~~-~-~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG~v 60 (62)
||+.. | .+|++++||+|.|+|.+|-.|+|+|.|+|.|||+.|+.++|+.+++.++.+|.+
T Consensus 1 ~s~~~~~~~fl~~iiGr~V~VKl~sgvdyrG~l~~lDgymNiaLe~tee~~ngql~n~ygda 62 (77)
T KOG1783|consen 1 MSEGSMPGEFLKAIIGRTVVVKLNSGVDYRGTLVCLDGYMNIALESTEEYVNGQLKNKYGDA 62 (77)
T ss_pred CCcccCcHHHHHHHhCCeEEEEecCCccccceehhhhhHHHHHHHHHHHHhcCcccccccce
Confidence 56333 3 458999999999999999999999999999999999999999988888888865
No 29
>KOG1775|consensus
Probab=99.45 E-value=2.4e-14 Score=82.16 Aligned_cols=50 Identities=32% Similarity=0.585 Sum_probs=44.9
Q ss_pred CCchhH-HhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCc
Q psy11512 4 SHPPEL-KKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNT 53 (62)
Q Consensus 4 ~~~~~L-~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~ 53 (62)
-.|++| .++++.++.|.+|+.+++.|+|.|||.|.|++|+|++|+..+.+
T Consensus 6 llPlEliDkcIgski~iimksdkE~~GtL~GFDd~VNmvLeDvtEye~~~e 56 (84)
T KOG1775|consen 6 LLPLELIDKCIGSKIWIIMKSDKEFVGTLVGFDDFVNMVLEDVTEYEITPE 56 (84)
T ss_pred cccHHHHHHhcCceEEEEEccCceeeeEEechHHHHHHHHHhhhheeeCCC
Confidence 357774 99999999999999999999999999999999999999965443
No 30
>KOG1774|consensus
Probab=99.33 E-value=3.7e-13 Score=77.99 Aligned_cols=58 Identities=24% Similarity=0.559 Sum_probs=47.0
Q ss_pred CCchh-HHhcCCCEEEEEE----CCCeEEEEEEEEecCccceEecceEEEec-CCceeeeeEee
Q psy11512 4 SHPPE-LKKFMDKKVTLKL----NANRNVTGILRGFDPFMNLVLDEGVEYRK-DNTVHNIGMVE 61 (62)
Q Consensus 4 ~~~~~-L~~~l~k~V~V~l----~~g~~~~G~L~~~D~~mNlvL~~~~e~~~-~~~~~~lG~v~ 61 (62)
.+|.+ +.+|+..+.+|.+ +-|..++|.++|||+|||+||++|+|... +...+.+|+++
T Consensus 11 v~Pin~Ifr~Lq~~t~VqIWl~eq~~~rieG~IvGFDEyMNvVlD~aeev~~k~~~rk~lGRil 74 (88)
T KOG1774|consen 11 VQPINLIFRFLQNRTRVQIWLFEQVGLRIEGRIVGFDEYMNLVLDDAEEVHSKTKSRKELGRIL 74 (88)
T ss_pred cCcHHHHHHHHhcCCceEEEEEeccCcEEeEEEechHHhhhhhhcchhhccccccCCCccccEE
Confidence 35666 5888888877775 46899999999999999999999999863 44555888875
No 31
>KOG3460|consensus
Probab=99.21 E-value=1.7e-12 Score=75.57 Aligned_cols=47 Identities=32% Similarity=0.562 Sum_probs=42.7
Q ss_pred CCchh-HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEec
Q psy11512 4 SHPPE-LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRK 50 (62)
Q Consensus 4 ~~~~~-L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~ 50 (62)
..|.+ |+-+++.+|.|+++++|++.|+|.+||+|+|++|.+++|.+.
T Consensus 4 ~ePldllrlsLdErVyVKlr~drel~G~L~afD~HlNmvL~d~eetit 51 (91)
T KOG3460|consen 4 EEPLDLLRLSLDERVYVKLRSDRELRGTLHAFDEHLNMVLGDVEETIT 51 (91)
T ss_pred cccHHHHhhcccceEEEEecCChhhhcchhhhHHhhhhhhhhhhheEE
Confidence 34666 588999999999999999999999999999999999998863
No 32
>KOG3168|consensus
Probab=99.17 E-value=2.2e-12 Score=82.99 Aligned_cols=61 Identities=26% Similarity=0.535 Sum_probs=53.3
Q ss_pred CCCCCchhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEec----------CCceeeeeEee
Q psy11512 1 MSKSHPPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRK----------DNTVHNIGMVE 61 (62)
Q Consensus 1 m~~~~~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~----------~~~~~~lG~v~ 61 (62)
|+-+.+.-|-++++.+++|.++|||.+.|++.+||.|||++|.+|+|+.. ..+++-+|+|+
T Consensus 1 M~~a~sskml~~iNyr~rv~~qDgr~~ig~~~afDkhmNlvl~dceE~r~~k~k~~~~~~~eEkr~lgLvl 71 (177)
T KOG3168|consen 1 MTVAKSSKMLQHINYRMRVRLQDGRTFIGQFKAFDKHMNLVLQDCEEFRKIKPKNRKMTDGEEKRVLGLVL 71 (177)
T ss_pred CCccchhHHHHhhcceEEEEeccCceeechhhhhHHHHHHHHHHHHHHhccccccccccccceeeEEEEEE
Confidence 66677788999999999999999999999999999999999999999852 12577788875
No 33
>KOG1784|consensus
Probab=98.99 E-value=3e-10 Score=67.04 Aligned_cols=44 Identities=34% Similarity=0.591 Sum_probs=41.6
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEec
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRK 50 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~ 50 (62)
..|.+|++++|.|...|||.+.|.|.|||+-.||+|+++.|+..
T Consensus 3 s~L~~y~n~~V~vIt~DGr~ivgsLkGFDq~tNlii~~~heRi~ 46 (96)
T KOG1784|consen 3 STLEDYMNQRVSVITNDGRVIVGSLKGFDQTTNLIIDESHERIF 46 (96)
T ss_pred hhHHHHhhceEEEEecCCeEEEEEeccccccceeeehhhHhhhh
Confidence 36899999999999999999999999999999999999999864
No 34
>KOG3448|consensus
Probab=98.93 E-value=2.4e-09 Score=63.00 Aligned_cols=44 Identities=23% Similarity=0.383 Sum_probs=40.4
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEec
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRK 50 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~ 50 (62)
.+.+.++|++|.|+||++-.+.|+|.++|+|+|+.|+|......
T Consensus 5 sfFkslvg~~V~VeLKnd~~i~GtL~svDqyLNlkL~di~v~d~ 48 (96)
T KOG3448|consen 5 SFFKSLVGKEVVVELKNDLSICGTLHSVDQYLNLKLTDISVTDP 48 (96)
T ss_pred HHHHHhcCCeEEEEEcCCcEEEEEecccchhheeEEeeeEeeCc
Confidence 46799999999999999999999999999999999999876644
No 35
>KOG1782|consensus
Probab=98.84 E-value=1.1e-10 Score=71.92 Aligned_cols=43 Identities=40% Similarity=0.634 Sum_probs=41.0
Q ss_pred hHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEec
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRK 50 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~ 50 (62)
.|.+++++++.|.|+|||.+.|.|.+||+|.|++|++|.|++.
T Consensus 13 sl~~~~dkKllVlLRDGR~L~G~LRSfDQFaNlvL~~~iERi~ 55 (129)
T KOG1782|consen 13 SLVEYLDKKLLVLLRDGRKLIGVLRSFDQFANLVLQGVIERIF 55 (129)
T ss_pred HHHHHhcceEEEEEecCcchhhhhhhHHHHHHHHHHhhhhhee
Confidence 4899999999999999999999999999999999999999874
No 36
>KOG3293|consensus
Probab=98.82 E-value=5.1e-09 Score=64.76 Aligned_cols=48 Identities=27% Similarity=0.362 Sum_probs=43.7
Q ss_pred chh-HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCc
Q psy11512 6 PPE-LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNT 53 (62)
Q Consensus 6 ~~~-L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~ 53 (62)
|+. |...-++++.|+||+|.+|.|.|+.+|.+|||.|.++.++..+++
T Consensus 3 PLsLL~~aq~~pmlvELKNget~nGhL~~cD~wMNl~L~~Vi~ts~Dgd 51 (134)
T KOG3293|consen 3 PLSLLKTAQNHPMLVELKNGETYNGHLVNCDNWMNLHLREVICTSEDGD 51 (134)
T ss_pred chhHHHhcCCCeEEEEecCCCEecceeecchhhhhcchheeEEeccCCC
Confidence 444 689999999999999999999999999999999999999987654
No 37
>KOG3172|consensus
Probab=98.50 E-value=5.8e-07 Score=54.62 Aligned_cols=58 Identities=22% Similarity=0.202 Sum_probs=50.0
Q ss_pred CCCCCchh-HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCCceeeee
Q psy11512 1 MSKSHPPE-LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDNTVHNIG 58 (62)
Q Consensus 1 m~~~~~~~-L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~~~~~lG 58 (62)
||--.|.. |+..-++-|.+++++|..|+|+|.-.|++||++|+|.+-...++...++-
T Consensus 1 ~s~gvpiKlLhEaqGhIVt~Et~tGe~YRGkliEaeDnmNcql~di~vT~~dg~vs~le 59 (119)
T KOG3172|consen 1 MSVGVPIKLLHEAQGHIVTVETKTGEVYRGKLIEAEDNMNCQLRDITVTARDGRVSQLE 59 (119)
T ss_pred CccccceeeeecccCcEEEEEecCCceeeeeeEEeccccccEEEEEEEEccCCcceeee
Confidence 56666776 69999999999999999999999999999999999999887776555544
No 38
>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=98.36 E-value=3.7e-07 Score=51.05 Aligned_cols=37 Identities=24% Similarity=0.390 Sum_probs=29.9
Q ss_pred CEEEEEECC--C--eEEEEEEEEecCccceEecceEEEecC
Q psy11512 15 KKVTLKLNA--N--RNVTGILRGFDPFMNLVLDEGVEYRKD 51 (62)
Q Consensus 15 k~V~V~l~~--g--~~~~G~L~~~D~~mNlvL~~~~e~~~~ 51 (62)
++|+|.++. | -.++|.|++||.|+||+|.|+.|....
T Consensus 9 ~RVrV~iR~~~gvrG~~~G~lvAFDK~wNm~L~DV~E~y~~ 49 (66)
T cd01739 9 IRVRVHIRTFKGLRGVCSGFLVAFDKFWNMALVDVDETYRK 49 (66)
T ss_pred cEEEEEEecccCcccEEEEEEEeeeeehhheehhhhhhhcc
Confidence 566666633 2 378999999999999999999998654
No 39
>KOG3428|consensus
Probab=98.13 E-value=1.1e-05 Score=48.92 Aligned_cols=44 Identities=30% Similarity=0.325 Sum_probs=40.4
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEec
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRK 50 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~ 50 (62)
.+|.++.+.++.|+|++|....|++.++|.+||..|.++.-..+
T Consensus 5 r~L~kl~~e~vtIeLkngt~v~G~I~~Vd~~Mn~~l~~v~~t~~ 48 (109)
T KOG3428|consen 5 RFLKKLLNERVTIELKNGTIVHGTIDSVDVQMNTHLKHVKMTVK 48 (109)
T ss_pred HHHHHhhCCeEEEEecCCcEEeeeEEEEEhhheeEEEEEEEecC
Confidence 46899999999999999999999999999999999998876654
No 40
>PF14438 SM-ATX: Ataxin 2 SM domain; PDB: 1M5Q_1.
Probab=97.93 E-value=5.8e-05 Score=42.33 Aligned_cols=42 Identities=19% Similarity=0.313 Sum_probs=34.1
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEecC---ccceEecceEEEec
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFDP---FMNLVLDEGVEYRK 50 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D~---~mNlvL~~~~e~~~ 50 (62)
+..++|++|.|.++||..|+|.|.+++. -+.++|.-|.....
T Consensus 7 ~~~lvG~~V~V~~~~G~~yeGif~s~s~~~~~~~vvLk~a~~~~~ 51 (77)
T PF14438_consen 7 LTNLVGQTVEVTTKNGSVYEGIFHSASPESNEFDVVLKMARKVPK 51 (77)
T ss_dssp HHTTTTSEEEEEETTS-EEEEEEEEE-T---T--EEEEEEEETTS
T ss_pred HHhCcCCEEEEEECCCCEEEEEEEeCCCcccceeEEEEeeeeccc
Confidence 5889999999999999999999999998 89999988876643
No 41
>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=97.16 E-value=0.00077 Score=43.49 Aligned_cols=43 Identities=23% Similarity=0.342 Sum_probs=33.1
Q ss_pred CCchhHHhcCCCEEEEEECCCeEEEEEEEEec-CccceEecceEE
Q psy11512 4 SHPPELKKFMDKKVTLKLNANRNVTGILRGFD-PFMNLVLDEGVE 47 (62)
Q Consensus 4 ~~~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~~~e 47 (62)
..|.++..|++|.|+|.+.| +++.|.|.++| ..-|+||-+-.|
T Consensus 7 ~~p~~~~~yv~K~VkV~~~d-~~~~G~v~TiDPVS~siVL~~~~e 50 (166)
T PF06372_consen 7 KSPLEWQDYVGKEVKVTLSD-KEYKGWVYTIDPVSASIVLVNFQE 50 (166)
T ss_dssp S-HHHHHCTTT-EEEEEETT-EEEEEEEEEE-TTT--EEEEEE-T
T ss_pred CCHHHHHHhhCcEEEEEEec-cEEEEEEEEeCCCCCeEEEEEccc
Confidence 45888999999999999999 99999999999 678999886443
No 42
>PF12701 LSM14: Scd6-like Sm domain; PDB: 2RM4_A 2FB7_A 2VC8_A 2VXF_A 2VXE_A.
Probab=96.83 E-value=0.004 Score=36.91 Aligned_cols=40 Identities=18% Similarity=0.309 Sum_probs=36.1
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEecC-ccceEecceEEEe
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFDP-FMNLVLDEGVEYR 49 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D~-~mNlvL~~~~e~~ 49 (62)
.+|+|++|.+..+++..|+|+|..+|. --.|.|.++..+-
T Consensus 4 ~~~IGs~ISlisk~~iRYeG~L~~Id~~~sTItL~nVr~~G 44 (96)
T PF12701_consen 4 DPYIGSKISLISKSDIRYEGILYSIDTEDSTITLKNVRSFG 44 (96)
T ss_dssp CCCTTCEEEEEETTTEEEEEEEEEEETTTTEEEEEEEEETT
T ss_pred ccccCCEEEEEECCCcEEEEEEEEEcCCCCEEEeeeeeecC
Confidence 479999999999999999999999994 7899999988663
No 43
>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=96.80 E-value=0.0033 Score=34.66 Aligned_cols=33 Identities=27% Similarity=0.415 Sum_probs=27.5
Q ss_pred CCCEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
-..+|.|-|.||-.+.|.+.|||+|.=+.-.+.
T Consensus 10 ~~~~Vtv~L~NG~~l~G~I~~fD~ftVll~~~g 42 (61)
T cd01716 10 EKIPVTIYLVNGVQLKGQIESFDNFTVLLESDG 42 (61)
T ss_pred cCCcEEEEEeCCcEEEEEEEEEcceEEEEEECC
Confidence 456788999999999999999999987665543
No 44
>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=96.74 E-value=0.0039 Score=34.38 Aligned_cols=32 Identities=25% Similarity=0.370 Sum_probs=27.1
Q ss_pred CCCEEEEEECCCeEEEEEEEEecCccceEecc
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDPFMNLVLDE 44 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~ 44 (62)
-..+|.|-|.+|-.+.|.+.|||+|.=+.-.+
T Consensus 14 ~~~~Vti~L~nG~~l~G~I~~fD~ftVll~~~ 45 (61)
T TIGR02383 14 ERIPVTVFLVNGVQLKGVIESFDNFTVLLESQ 45 (61)
T ss_pred cCCcEEEEEeCCcEEEEEEEEEeeeEEEEEEC
Confidence 45678888999999999999999998766544
No 45
>PRK14638 hypothetical protein; Provisional
Probab=96.73 E-value=0.0042 Score=39.17 Aligned_cols=37 Identities=14% Similarity=0.312 Sum_probs=31.3
Q ss_pred chhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEec
Q psy11512 6 PPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 43 (62)
|.++.+++|++|+|++++++.++|+|.++|+- ++.|.
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 45689999999999999999999999999963 44443
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=96.68 E-value=0.0078 Score=31.03 Aligned_cols=34 Identities=18% Similarity=0.301 Sum_probs=29.1
Q ss_pred cCCCEEEEEECCCeEEEEEEEEecCccceEecceE
Q psy11512 12 FMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGV 46 (62)
Q Consensus 12 ~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 46 (62)
.+|++|++.. ++..++|+..++|+.-.|+++...
T Consensus 1 ~lG~~V~v~~-~~~~~~G~~~gId~~G~L~v~~~~ 34 (48)
T PF02237_consen 1 TLGQEVRVET-GDGEIEGIAEGIDDDGALLVRTED 34 (48)
T ss_dssp STTSEEEEEE-TSCEEEEEEEEEETTSEEEEEETT
T ss_pred CCCCEEEEEE-CCeEEEEEEEEECCCCEEEEEECC
Confidence 4799999999 567779999999999999987643
No 47
>PRK14639 hypothetical protein; Provisional
Probab=96.44 E-value=0.0086 Score=37.37 Aligned_cols=36 Identities=19% Similarity=0.282 Sum_probs=31.2
Q ss_pred chhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL 42 (62)
|.++.+++|+.|.|++.+++.+.|+|.++|+ -++.|
T Consensus 80 ~~~f~r~~G~~v~v~l~~~~~~~G~L~~~~~-~~i~l 115 (140)
T PRK14639 80 IEHFAKSIGELVKITTNEKEKFEGKIVSVDD-ENITL 115 (140)
T ss_pred HHHHHHhCCCEEEEEECCCcEEEEEEEEEeC-CEEEE
Confidence 4568999999999999999999999999997 35554
No 48
>PRK02001 hypothetical protein; Validated
Probab=96.41 E-value=0.0091 Score=37.89 Aligned_cols=36 Identities=19% Similarity=0.413 Sum_probs=30.9
Q ss_pred chhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL 42 (62)
|..+.+++|+.|+|++.+++.+.|+|.++|+- +++|
T Consensus 82 ~~~f~r~~G~~v~V~l~~~~~~~G~L~~~~~~-~i~l 117 (152)
T PRK02001 82 PRQYKKNIGRELEVLTKNGKKIEGELKSADEN-DITL 117 (152)
T ss_pred HHHHHHhCCCEEEEEECCCCEEEEEEEEEeCC-EEEE
Confidence 45689999999999999999999999999964 3444
No 49
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=96.41 E-value=0.0079 Score=34.72 Aligned_cols=34 Identities=26% Similarity=0.380 Sum_probs=28.2
Q ss_pred cCCCEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 12 FMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 12 ~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
--..+|.|-|.+|-.+.|.+.|||+|.=|.-.+.
T Consensus 17 ~~~~~VtifL~NG~~l~G~I~~fD~ftVll~~~g 50 (79)
T PRK00395 17 KERVPVTIYLVNGIKLQGQIESFDNFVVLLRNTG 50 (79)
T ss_pred HcCCCEEEEEeCCcEEEEEEEEEccEEEEEEECC
Confidence 3456788899999999999999999987766554
No 50
>KOG3459|consensus
Probab=96.37 E-value=0.00029 Score=42.93 Aligned_cols=37 Identities=24% Similarity=0.405 Sum_probs=33.6
Q ss_pred CCEEEEEECCCeEEEEEEEEecCccceEecceEEEec
Q psy11512 14 DKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRK 50 (62)
Q Consensus 14 ~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~ 50 (62)
..+|.|-++|++.+.|...|||.|.|++|+++.|.+.
T Consensus 36 ~~~vLi~cRnn~k~l~Rv~afdrhcnmvlenvkelwt 72 (114)
T KOG3459|consen 36 NTQVLINCRNNVKLLGRVKAFDRHCNMVLENVKELWT 72 (114)
T ss_pred CceeEEEecccHHHHhhhhhhhccccchhhcHHHHCC
Confidence 4568889999999999999999999999999998763
No 51
>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=96.31 E-value=0.02 Score=31.49 Aligned_cols=36 Identities=11% Similarity=0.142 Sum_probs=30.2
Q ss_pred cCCCEEEEEECCCeEEEEEEEEecCccceEecceEE
Q psy11512 12 FMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVE 47 (62)
Q Consensus 12 ~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e 47 (62)
++|..|++++-.|.+++|.+.+||.--++++-.+.+
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 579999999999999999999999877776544433
No 52
>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=96.03 E-value=0.036 Score=31.64 Aligned_cols=41 Identities=15% Similarity=0.263 Sum_probs=35.0
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEec-CccceEecceEEEec
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFD-PFMNLVLDEGVEYRK 50 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~~~e~~~ 50 (62)
.+|+|+++.+.-+.+..|+|+|..+| +---+.|.|+..+-.
T Consensus 2 ~~~IG~~isLISk~~iRYeGiL~~In~~~sTi~L~nVr~fGT 43 (74)
T cd01736 2 TPYIGSKISLISKSDIRYEGILYTINTEDSTIALKNVRSFGT 43 (74)
T ss_pred ccccCceEEEEecCCcEEEEEEEeeccccCEEEeeeeEeecc
Confidence 36899999999999999999999999 456677888877643
No 53
>COG1923 Hfq Uncharacterized host factor I protein [General function prediction only]
Probab=95.94 E-value=0.02 Score=32.88 Aligned_cols=37 Identities=27% Similarity=0.392 Sum_probs=28.8
Q ss_pred CchhHHhc--CCCEEEEEECCCeEEEEEEEEecCccceE
Q psy11512 5 HPPELKKF--MDKKVTLKLNANRNVTGILRGFDPFMNLV 41 (62)
Q Consensus 5 ~~~~L~~~--l~k~V~V~l~~g~~~~G~L~~~D~~mNlv 41 (62)
++++|+.+ -+.+|.|-|.||-.+.|.+.|||+|.=+.
T Consensus 8 QD~fLn~~Rk~~i~VtIfLvNG~~L~G~V~sfD~f~VlL 46 (77)
T COG1923 8 QDPFLNALRKEKIPVTIFLVNGFKLQGQVESFDNFVVLL 46 (77)
T ss_pred chHHHHHHHhcCCeEEEEEEcCEEEEEEEEeeeeEEEEE
Confidence 35566444 45678888999999999999999996444
No 54
>PRK14640 hypothetical protein; Provisional
Probab=95.80 E-value=0.09 Score=33.12 Aligned_cols=32 Identities=16% Similarity=0.447 Sum_probs=28.1
Q ss_pred chhHHhcCCCEEEEEE----CCCeEEEEEEEEecCc
Q psy11512 6 PPELKKFMDKKVTLKL----NANRNVTGILRGFDPF 37 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l----~~g~~~~G~L~~~D~~ 37 (62)
|.++.+++|+.|.|++ .+.+.++|+|.++|+-
T Consensus 89 ~~~f~r~~G~~v~V~l~~~~~~~k~~~G~L~~v~~~ 124 (152)
T PRK14640 89 VAQFEKYVGQEAAVTLRMATNNRRKFKGVIKAVQGD 124 (152)
T ss_pred HHHHHHhCCCeEEEEEecccCCceEEEEEEEEEeCC
Confidence 4568999999999999 5679999999999973
No 55
>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=95.69 E-value=0.036 Score=31.45 Aligned_cols=36 Identities=25% Similarity=0.405 Sum_probs=29.2
Q ss_pred chhHHhcCCCEEEEEEC---CC-eEEEEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKLN---AN-RNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~---~g-~~~~G~L~~~D~~mNlvL 42 (62)
|.++.+++|+.|.|+++ +| +.+.|.|.++|+- +++|
T Consensus 17 ~~~~~r~~G~~v~v~~~~~~~~~~~~~G~L~~~~~~-~v~l 56 (83)
T cd01734 17 EADFERAVGKYVHVKLYQPIDGQKEFEGTLLGVDDD-TVTL 56 (83)
T ss_pred HHHHHHhCCCEEEEEEEcccCCeEEEEEEEEeEeCC-EEEE
Confidence 45689999999999996 55 6999999999973 3444
No 56
>PRK14633 hypothetical protein; Provisional
Probab=95.51 E-value=0.043 Score=34.56 Aligned_cols=36 Identities=14% Similarity=0.222 Sum_probs=29.6
Q ss_pred chhHHhcCCCEEEEEE----CCCeEEEEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKL----NANRNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l----~~g~~~~G~L~~~D~~mNlvL 42 (62)
|.++.+++|++|.|++ .+++.++|+|.++++- ++.|
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 4568999999999998 4679999999999974 4444
No 57
>PRK14642 hypothetical protein; Provisional
Probab=95.22 E-value=0.052 Score=35.91 Aligned_cols=36 Identities=11% Similarity=0.316 Sum_probs=30.2
Q ss_pred chhHHhcCCCEEEEEEC-------------CCeEEEEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKLN-------------ANRNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~-------------~g~~~~G~L~~~D~~mNlvL 42 (62)
+.++.+++|+.|.|+++ +.+.++|+|.++|+- ++.|
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 45689999999999997 679999999999974 4444
No 58
>PRK14645 hypothetical protein; Provisional
Probab=95.09 E-value=0.058 Score=34.22 Aligned_cols=31 Identities=16% Similarity=0.278 Sum_probs=27.1
Q ss_pred chhHHhcCCCEEEEEECCCeEEEEEEEEecCc
Q psy11512 6 PPELKKFMDKKVTLKLNANRNVTGILRGFDPF 37 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~ 37 (62)
+.++.+++|++|.|++ +++.+.|+|.++|+-
T Consensus 94 ~~df~r~~G~~v~v~~-~~k~~~G~L~~~~d~ 124 (154)
T PRK14645 94 ARHFERFAGLKAKVRG-PGENFTGRIKAVSGD 124 (154)
T ss_pred HHHHHHhCCCEEEEEc-CCeEEEEEEEEEeCC
Confidence 4568999999999986 789999999999963
No 59
>PRK00092 ribosome maturation protein RimP; Reviewed
Probab=94.97 E-value=0.079 Score=33.19 Aligned_cols=31 Identities=26% Similarity=0.626 Sum_probs=27.7
Q ss_pred chhHHhcCCCEEEEEE----CCCeEEEEEEEEecC
Q psy11512 6 PPELKKFMDKKVTLKL----NANRNVTGILRGFDP 36 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l----~~g~~~~G~L~~~D~ 36 (62)
|.++.+++|+.|.|++ .+++.+.|+|..+|+
T Consensus 90 ~~~f~r~~G~~v~V~~~~~~~~~~~~~G~L~~~~~ 124 (154)
T PRK00092 90 ARDFRRFIGREVKVKLYEPIDGRKKFQGILLAVDG 124 (154)
T ss_pred HHHHHHhCCCeEEEEEEcccCCceEEEEEEEEeeC
Confidence 4569999999999997 577999999999996
No 60
>PRK14632 hypothetical protein; Provisional
Probab=94.95 E-value=0.07 Score=34.34 Aligned_cols=37 Identities=19% Similarity=0.369 Sum_probs=29.8
Q ss_pred chhHHhcCCCEEEEEECC-------CeEEEEEEEEecCccceEec
Q psy11512 6 PPELKKFMDKKVTLKLNA-------NRNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~-------g~~~~G~L~~~D~~mNlvL~ 43 (62)
+.++.+++|+.|.|++++ .+.+.|+|.++|+- ++.|+
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 456899999999999965 58999999999963 44443
No 61
>PRK14636 hypothetical protein; Provisional
Probab=94.86 E-value=0.072 Score=34.45 Aligned_cols=36 Identities=17% Similarity=0.456 Sum_probs=29.2
Q ss_pred chhHHhcCCCEEEEEEC---CC-eEEEEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKLN---AN-RNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~---~g-~~~~G~L~~~D~~mNlvL 42 (62)
|.++.+++|++|.|+++ +| +.+.|+|.++|+- ++.|
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 45689999999999996 55 7999999999862 3444
No 62
>PRK14644 hypothetical protein; Provisional
Probab=94.74 E-value=0.092 Score=32.70 Aligned_cols=35 Identities=26% Similarity=0.403 Sum_probs=29.7
Q ss_pred hHHhcCCCEEEEEECCC----eEEEEEEEEecCccceEec
Q psy11512 8 ELKKFMDKKVTLKLNAN----RNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g----~~~~G~L~~~D~~mNlvL~ 43 (62)
++.+++|+.|.|++++. +.+.|.|.++|+- ++.|.
T Consensus 79 ~f~r~~G~~v~V~l~~~~~~~~~~~G~L~~v~~~-~i~l~ 117 (136)
T PRK14644 79 ELENHIGEIIDVSLNKEVNKTDFITGELLENNPE-TITLK 117 (136)
T ss_pred HHHHhCCCeEEEEEccCcCCeEEEEEEEEEEeCC-EEEEE
Confidence 58999999999999876 9999999999973 45553
No 63
>PRK14634 hypothetical protein; Provisional
Probab=94.73 E-value=0.22 Score=31.52 Aligned_cols=31 Identities=13% Similarity=0.247 Sum_probs=26.8
Q ss_pred chhHHhcCCCEEEEEECC----CeEEEEEEEEecC
Q psy11512 6 PPELKKFMDKKVTLKLNA----NRNVTGILRGFDP 36 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~----g~~~~G~L~~~D~ 36 (62)
|.++.+++|++|.|++.+ .+.+.|+|.++|+
T Consensus 92 ~~~f~r~~G~~V~V~l~~~~~~~k~~~G~L~~~~~ 126 (155)
T PRK14634 92 DRDFQTFRGFPVEVSHRDDDGSEQRLEGLLLERNE 126 (155)
T ss_pred HHHHHHhCCCeEEEEEecCCCCeEEEEEEEEEEeC
Confidence 456899999999999853 3899999999996
No 64
>PRK14643 hypothetical protein; Provisional
Probab=94.61 E-value=0.093 Score=33.60 Aligned_cols=37 Identities=19% Similarity=0.297 Sum_probs=29.6
Q ss_pred chhHHhcCCCEEEEEECC----CeEEEEEEEEecC-ccceEe
Q psy11512 6 PPELKKFMDKKVTLKLNA----NRNVTGILRGFDP-FMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~----g~~~~G~L~~~D~-~mNlvL 42 (62)
+.++.+++|++|.|+++. .+.++|+|.++|+ ...+.+
T Consensus 96 ~~df~r~~G~~V~V~l~~~~~g~k~~~G~L~~~~~~~~~l~l 137 (164)
T PRK14643 96 QEELVKALNQWVYVQLNNEIKKVKEFEGYVTKYNVNTNTFRF 137 (164)
T ss_pred HHHHHHhcCCeEEEEEecccCCceEEEEEEEEEeCCcEEEEE
Confidence 456899999999999854 6999999999995 444443
No 65
>PRK14646 hypothetical protein; Provisional
Probab=94.59 E-value=0.1 Score=33.09 Aligned_cols=36 Identities=22% Similarity=0.283 Sum_probs=28.7
Q ss_pred chhHHhcCCCEEEEEECC----CeEEEEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKLNA----NRNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~----g~~~~G~L~~~D~~mNlvL 42 (62)
+.++.+++|++|.|++++ -+.+.|+|.++|+- ++.|
T Consensus 92 ~~df~r~~G~~v~V~l~~~~~~~~~~~G~L~~~~~~-~v~l 131 (155)
T PRK14646 92 ERDFKTFKGFPVNVELNQKNSKIKFLNGLLYEKSKD-YLAI 131 (155)
T ss_pred HHHHHHhCCCEEEEEEecCcCCeEEEEEEEEEEeCC-EEEE
Confidence 456999999999999853 37889999999963 4444
No 66
>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=94.48 E-value=0.07 Score=32.81 Aligned_cols=36 Identities=28% Similarity=0.584 Sum_probs=26.5
Q ss_pred chhHHhcCCCEEEEEEC----CCeEEEEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKLN----ANRNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~----~g~~~~G~L~~~D~~mNlvL 42 (62)
+.++.+++|+.|.|+++ +.+.+.|+|.++|+ -.++|
T Consensus 79 ~~~~~~~iG~~v~v~~~~~~~~~~~~~G~L~~~~~-~~i~l 118 (141)
T PF02576_consen 79 PRDFERFIGRKVKVKLKQPVNGRKEFEGKLLEVDE-DEITL 118 (141)
T ss_dssp HHHHHHH-SEEEEEE-SS-SSS-SEEEEEEEEEET-TEEEE
T ss_pred HHHHHHhcCCeEEEEEeccCCCcEEEEEEEEEEeC-CEEEE
Confidence 35689999999999994 45799999999997 33444
No 67
>PRK14647 hypothetical protein; Provisional
Probab=94.39 E-value=0.12 Score=32.77 Aligned_cols=31 Identities=13% Similarity=0.355 Sum_probs=27.0
Q ss_pred chhHHhcCCCEEEEEEC---------CCeEEEEEEEEecC
Q psy11512 6 PPELKKFMDKKVTLKLN---------ANRNVTGILRGFDP 36 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~---------~g~~~~G~L~~~D~ 36 (62)
|.++.+++|+.|.|+++ +.+.+.|+|.++|+
T Consensus 91 ~~~f~r~~G~~v~V~l~~~~~~~~~~~~~~~~G~L~~~~~ 130 (159)
T PRK14647 91 EADYERYAGRLVKVRTFELLADEAGNKRKTFLGELEGLAD 130 (159)
T ss_pred HHHHHHhCCcEEEEEEeccccccccCCceEEEEEEEeecC
Confidence 45699999999999994 35999999999996
No 68
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=94.13 E-value=0.16 Score=32.37 Aligned_cols=32 Identities=22% Similarity=0.422 Sum_probs=29.0
Q ss_pred hhHHhcCCCEEEEEE----CCCeEEEEEEEEecCcc
Q psy11512 7 PELKKFMDKKVTLKL----NANRNVTGILRGFDPFM 38 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l----~~g~~~~G~L~~~D~~m 38 (62)
.++..|+|+.|.|++ .+.+.+.|+|.++|+-.
T Consensus 92 ~~f~r~~G~~Vkv~l~~~~~~~k~~~G~i~~~d~~~ 127 (153)
T COG0779 92 EHFARFIGEKVKVKLRLPIEGRKKFEGKIVAVDGET 127 (153)
T ss_pred HHHHHhcCcEEEEEEecccCCceEEEEEEEEEcCCe
Confidence 458999999999999 78899999999999764
No 69
>PRK14091 RNA-binding protein Hfq; Provisional
Probab=93.91 E-value=0.13 Score=33.35 Aligned_cols=33 Identities=27% Similarity=0.366 Sum_probs=27.2
Q ss_pred CCCEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
-..+|.|-|.+|-.+.|.+.+||.|.=|.-.+.
T Consensus 103 ~k~~VtvfL~NG~~l~G~I~~fD~ftvlL~~~g 135 (165)
T PRK14091 103 SGEPVTMFLVNGVMLQGEIAAFDLFCMLLERDG 135 (165)
T ss_pred cCCcEEEEEecCcEEEEEEEEEcceEEEEEeCC
Confidence 345688889999999999999999976665554
No 70
>PRK14631 hypothetical protein; Provisional
Probab=93.85 E-value=0.18 Score=32.55 Aligned_cols=30 Identities=23% Similarity=0.412 Sum_probs=26.6
Q ss_pred chhHHhcCCCEEEEEEC----CCeEEEEEEEEec
Q psy11512 6 PPELKKFMDKKVTLKLN----ANRNVTGILRGFD 35 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~----~g~~~~G~L~~~D 35 (62)
+.++.+|+|+.|.|++. +.+.+.|+|.++|
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 45689999999999995 5599999999998
No 71
>PRK14637 hypothetical protein; Provisional
Probab=93.79 E-value=0.17 Score=31.97 Aligned_cols=36 Identities=22% Similarity=0.314 Sum_probs=27.7
Q ss_pred chhHHhcCCCEEEEEECCCeEE-EEEEEEecCccceEe
Q psy11512 6 PPELKKFMDKKVTLKLNANRNV-TGILRGFDPFMNLVL 42 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~-~G~L~~~D~~mNlvL 42 (62)
|.++.+++|+.|.|++.+...+ +|+|.++|+- ++.|
T Consensus 90 ~~~f~r~~G~~V~V~l~~~~~~~~G~L~~~~d~-~v~l 126 (151)
T PRK14637 90 AAEFSIFVGETVKVWFECTGQWQVGTIAEADET-CLVL 126 (151)
T ss_pred HHHHHHhCCCEEEEEECCCCcEEEEEEEEEeCC-EEEE
Confidence 4569999999999999544455 7999999964 4444
No 72
>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=93.63 E-value=0.28 Score=28.31 Aligned_cols=37 Identities=22% Similarity=0.328 Sum_probs=29.6
Q ss_pred hHHhcCCCEEEEEECCCeEEEEEEEEec-CccceEecc
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGILRGFD-PFMNLVLDE 44 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~ 44 (62)
.|.+..|++|.+.|.++.+..|++.|+| +-.|+..++
T Consensus 18 ~l~~~~gk~v~f~l~e~t~V~a~F~a~d~~~~~f~Vs~ 55 (80)
T PF11095_consen 18 SLLAMVGKPVEFTLHENTTVSARFGACDIDVSNFQVSN 55 (80)
T ss_dssp HHHHCTTSEEEEEEGGG-EEEEEEEEE-TTS-EEEEEE
T ss_pred HHHHhcCCceEEEEeCCeEEEEEEEEecCchheEEhhh
Confidence 3678899999999999999999999999 557777665
No 73
>PRK14091 RNA-binding protein Hfq; Provisional
Probab=93.61 E-value=0.16 Score=32.95 Aligned_cols=37 Identities=30% Similarity=0.437 Sum_probs=28.6
Q ss_pred HHhcC--CCEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 9 LKKFM--DKKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 9 L~~~l--~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
|+.+. ..+|.|-|.+|-.++|.+.+||+|.=|.-.+.
T Consensus 17 Ln~~Rk~k~~VtvfL~nG~rl~G~I~~fD~ftVlL~~~g 55 (165)
T PRK14091 17 LNSLRKTKTPVTMFLVKGVKLQGIITWFDNFSILLRRDG 55 (165)
T ss_pred HHHHHhcCCcEEEEEecCcEEEEEEEEEcceEEEEEeCC
Confidence 54444 44577889999999999999999976665554
No 74
>PRK14641 hypothetical protein; Provisional
Probab=93.27 E-value=0.21 Score=32.34 Aligned_cols=38 Identities=16% Similarity=0.302 Sum_probs=29.9
Q ss_pred chhHHhcCCCEEEEEECC----CeEEEEEEEEec------CccceEec
Q psy11512 6 PPELKKFMDKKVTLKLNA----NRNVTGILRGFD------PFMNLVLD 43 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~----g~~~~G~L~~~D------~~mNlvL~ 43 (62)
+..+.+++|+.|.|++++ .+.+.|+|.++| ....++..
T Consensus 96 ~~~f~r~~G~~V~V~l~~~~~~~~~~~G~L~~~~~~~~~~~~v~~~~~ 143 (173)
T PRK14641 96 PRQYGRHVGRLLRVTYRDEEGSEHEVTGHLQEVSLTEGEGASIVLKPE 143 (173)
T ss_pred HHHHHHhCCCEEEEEEecccCCeEEEEEEEEeeecccCCCCcEEEEec
Confidence 456899999999999965 578999999995 55555444
No 75
>PRK14630 hypothetical protein; Provisional
Probab=91.14 E-value=0.59 Score=29.24 Aligned_cols=30 Identities=27% Similarity=0.349 Sum_probs=25.3
Q ss_pred chhHHhcCCCEEEEEECCCeEEEEEEEEecC
Q psy11512 6 PPELKKFMDKKVTLKLNANRNVTGILRGFDP 36 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~ 36 (62)
+.++.+++|++|.|++... ...|+|.++|+
T Consensus 89 ~~df~r~~G~~v~V~l~~~-~~~G~L~~~~d 118 (143)
T PRK14630 89 DREFKIFEGKKIKLMLDND-FEEGFILEAKA 118 (143)
T ss_pred HHHHHHhCCCEEEEEEcCc-ceEEEEEEEeC
Confidence 4568999999999999664 45999999996
No 76
>PRK14635 hypothetical protein; Provisional
Probab=90.18 E-value=0.82 Score=29.03 Aligned_cols=31 Identities=23% Similarity=0.282 Sum_probs=26.3
Q ss_pred chhHHhcCCCEEEEEEC--CCeEEEE---EEEEecC
Q psy11512 6 PPELKKFMDKKVTLKLN--ANRNVTG---ILRGFDP 36 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~--~g~~~~G---~L~~~D~ 36 (62)
|.++.++.|+.|.|++. ++..+.| .|.++|+
T Consensus 91 ~~~~~r~~G~~v~v~~~~~~~~~~~g~~g~L~~~~~ 126 (162)
T PRK14635 91 PEDLDRFRGIPVRLVFRSEESEKWQEGIFRLVNRDG 126 (162)
T ss_pred HHHHHHhCCCEEEEEEecCCCcEEEecceEEEEEcC
Confidence 55699999999999985 4678888 9999996
No 77
>PF10842 DUF2642: Protein of unknown function (DUF2642); InterPro: IPR020139 This entry contains proteins with no known function.
Probab=89.53 E-value=2.4 Score=23.59 Aligned_cols=29 Identities=17% Similarity=0.375 Sum_probs=25.4
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEec-Ccc
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFD-PFM 38 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D-~~m 38 (62)
|++++|++|.|.+..|.. +|+|.+.- +|.
T Consensus 16 lq~liG~~vvV~T~~g~v-~G~L~~V~pDhI 45 (66)
T PF10842_consen 16 LQSLIGQRVVVQTTRGSV-RGILVDVKPDHI 45 (66)
T ss_pred HHHhcCCEEEEEEcCCcE-EEEEEeecCCEE
Confidence 899999999999977665 99999987 665
No 78
>PRK06955 biotin--protein ligase; Provisional
Probab=86.87 E-value=2 Score=29.44 Aligned_cols=33 Identities=24% Similarity=0.411 Sum_probs=28.9
Q ss_pred hcCCCEEEEEECCCeEEEEEEEEecCccceEec
Q psy11512 11 KFMDKKVTLKLNANRNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 11 ~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 43 (62)
-+++++|+|...+++.+.|++.|+|+.-.|+++
T Consensus 246 ~~~g~~V~v~~~~~~~~~G~~~gId~~G~L~v~ 278 (300)
T PRK06955 246 AYAGREVVLLEDGAELARGVAHGIDETGQLLLD 278 (300)
T ss_pred hcCCCeEEEEECCCcEEEEEEeeECCCceEEEE
Confidence 478999999766778899999999999999885
No 79
>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=85.88 E-value=1 Score=29.11 Aligned_cols=24 Identities=17% Similarity=0.385 Sum_probs=21.6
Q ss_pred CCCEEEEEECCCeEEEEEEEEecC
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDP 36 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~ 36 (62)
-|+-|+|-+.|||+++|+-.|.|.
T Consensus 119 qg~sIrVyM~DgR~ieG~stGvna 142 (165)
T PF03614_consen 119 QGKSIRVYMADGREIEGKSTGVNA 142 (165)
T ss_pred CCCeEEEEEcCCcEEEeeecccce
Confidence 467799999999999999999984
No 80
>PRK10898 serine endoprotease; Provisional
Probab=83.02 E-value=3.6 Score=28.84 Aligned_cols=31 Identities=19% Similarity=0.320 Sum_probs=26.9
Q ss_pred CEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 15 KKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
..+.|.+.||+.+.++++++|....|-+=..
T Consensus 102 ~~i~V~~~dg~~~~a~vv~~d~~~DlAvl~v 132 (353)
T PRK10898 102 DQIIVALQDGRVFEALLVGSDSLTDLAVLKI 132 (353)
T ss_pred CEEEEEeCCCCEEEEEEEEEcCCCCEEEEEE
Confidence 5789999999999999999999988865544
No 81
>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=82.45 E-value=3.8 Score=28.61 Aligned_cols=31 Identities=23% Similarity=0.377 Sum_probs=27.0
Q ss_pred CEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 15 KKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
..+.|.+.||+.+.++++++|...+|.+=..
T Consensus 102 ~~i~V~~~dg~~~~a~vv~~d~~~DlAvlkv 132 (351)
T TIGR02038 102 DQIVVALQDGRKFEAELVGSDPLTDLAVLKI 132 (351)
T ss_pred CEEEEEECCCCEEEEEEEEecCCCCEEEEEe
Confidence 4688999999999999999999998877544
No 82
>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=81.64 E-value=2.8 Score=25.09 Aligned_cols=18 Identities=22% Similarity=0.527 Sum_probs=14.1
Q ss_pred CCEEEEEECCCeEEEEEE
Q psy11512 14 DKKVTLKLNANRNVTGIL 31 (62)
Q Consensus 14 ~k~V~V~l~~g~~~~G~L 31 (62)
+.+|.+.|+||+.+.|++
T Consensus 28 e~~V~l~L~DGs~l~Gtv 45 (101)
T PF11607_consen 28 EERVELELDDGSMLRGTV 45 (101)
T ss_dssp T-EEEEEETTS-EEEEEE
T ss_pred cceEEEEEcCCCeeeeee
Confidence 356888899999999996
No 83
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=81.62 E-value=4.6 Score=27.55 Aligned_cols=32 Identities=31% Similarity=0.627 Sum_probs=27.5
Q ss_pred hcCCCEEEEEECCCeEEEEEEEEecCccceEec
Q psy11512 11 KFMDKKVTLKLNANRNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 11 ~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 43 (62)
-++|++|.+...+ ..++|++.|+|+.-.|++.
T Consensus 269 ~~~g~~v~~~~~~-~~~~G~~~gi~~~G~L~i~ 300 (319)
T PRK11886 269 LFLGREVKLIIGD-KEISGIARGIDEQGALLLE 300 (319)
T ss_pred cccCCeEEEEeCC-cEEEEEEEEECCCceEEEE
Confidence 4689999998744 6799999999999999985
No 84
>PF14563 DUF4444: Domain of unknown function (DUF4444); PDB: 3BFM_A.
Probab=81.58 E-value=2 Score=21.99 Aligned_cols=22 Identities=23% Similarity=0.376 Sum_probs=14.6
Q ss_pred EEEEEEEecCccceEecceEEE
Q psy11512 27 VTGILRGFDPFMNLVLDEGVEY 48 (62)
Q Consensus 27 ~~G~L~~~D~~mNlvL~~~~e~ 48 (62)
..|++.|+|+.+.+.|.+....
T Consensus 10 ~tGtFlGvDE~FGmLLr~~~~T 31 (42)
T PF14563_consen 10 LTGTFLGVDEDFGMLLRDDDTT 31 (42)
T ss_dssp EEEEEEEE-TT--EEEE-SS-E
T ss_pred cceeEEeeccccceEEEeCCcc
Confidence 6899999999999999876543
No 85
>PRK13325 bifunctional biotin--[acetyl-CoA-carboxylase] ligase/pantothenate kinase; Reviewed
Probab=80.04 E-value=5.1 Score=30.21 Aligned_cols=34 Identities=24% Similarity=0.231 Sum_probs=29.3
Q ss_pred hcCCCEEEEEECCCeEEEEEEEEecCccceEecc
Q psy11512 11 KFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDE 44 (62)
Q Consensus 11 ~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~ 44 (62)
-++|++|.+...++..+.|+..|+|+.-.|+|+.
T Consensus 275 ~~~gk~V~v~~~~~~~~~Gi~~GId~~G~L~l~~ 308 (592)
T PRK13325 275 RDHGKAVLLLRDGETVFEGTVKGVDGQGVLHLET 308 (592)
T ss_pred ccCCCeEEEEeCCCcEEEEEEEEECCCCEEEEEE
Confidence 4789999987667778999999999999999863
No 86
>COG0340 BirA Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]
Probab=79.72 E-value=11 Score=25.38 Aligned_cols=37 Identities=27% Similarity=0.319 Sum_probs=33.0
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
....++++|++...++....|+..++|..-.|+++..
T Consensus 185 ~~~~~g~~V~~~~~~~~~~gg~a~~id~~G~L~l~~~ 221 (238)
T COG0340 185 RSLSLGKEVRLTLGGGVIFGGIAKGIDEDGALLLETD 221 (238)
T ss_pred HhccCCCEEEEEeCCCcEeeeEEEEECCCceEEEEeC
Confidence 3556999999999999999999999999999998876
No 87
>PRK08330 biotin--protein ligase; Provisional
Probab=79.67 E-value=6.3 Score=25.89 Aligned_cols=33 Identities=24% Similarity=0.344 Sum_probs=27.0
Q ss_pred hcCCCEEEEEECCCeEE-EEEEEEecCccceEecc
Q psy11512 11 KFMDKKVTLKLNANRNV-TGILRGFDPFMNLVLDE 44 (62)
Q Consensus 11 ~~l~k~V~V~l~~g~~~-~G~L~~~D~~mNlvL~~ 44 (62)
.+++++|.+.. ++..+ .|+..|+|+.-.|++..
T Consensus 185 ~~~g~~v~~~~-~~~~~~~G~~~gI~~~G~L~v~~ 218 (236)
T PRK08330 185 MILGKRVKIIG-DGEILVEGIAEDIDEFGALILRL 218 (236)
T ss_pred HhcCCeEEEEE-CCcEEEEEEEEEECCCCEEEEEE
Confidence 47899999976 55554 79999999999998864
No 88
>PRK10942 serine endoprotease; Provisional
Probab=78.42 E-value=5.7 Score=28.99 Aligned_cols=31 Identities=23% Similarity=0.348 Sum_probs=26.8
Q ss_pred CEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 15 KKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
..+.|.+.||+++.++++++|...+|-|=..
T Consensus 136 ~~i~V~~~dg~~~~a~vv~~D~~~DlAvlki 166 (473)
T PRK10942 136 TKIKVQLSDGRKFDAKVVGKDPRSDIALIQL 166 (473)
T ss_pred CEEEEEECCCCEEEEEEEEecCCCCEEEEEe
Confidence 4689999999999999999999988876543
No 89
>PRK10139 serine endoprotease; Provisional
Probab=78.41 E-value=6.4 Score=28.61 Aligned_cols=31 Identities=26% Similarity=0.359 Sum_probs=27.0
Q ss_pred CEEEEEECCCeEEEEEEEEecCccceEecce
Q psy11512 15 KKVTLKLNANRNVTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~ 45 (62)
.++.|.+.||+++.++++|+|....|-+=..
T Consensus 115 ~~i~V~~~dg~~~~a~vvg~D~~~DlAvlkv 145 (455)
T PRK10139 115 QKISIQLNDGREFDAKLIGSDDQSDIALLQI 145 (455)
T ss_pred CEEEEEECCCCEEEEEEEEEcCCCCEEEEEe
Confidence 5789999999999999999999888876544
No 90
>PRK09618 flgD flagellar basal body rod modification protein; Provisional
Probab=77.94 E-value=11 Score=23.78 Aligned_cols=27 Identities=15% Similarity=0.271 Sum_probs=24.6
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEec
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D 35 (62)
...++||.|.+...+|..+.|+..++-
T Consensus 87 a~slVGk~V~~~~~~g~~~tG~V~~V~ 113 (142)
T PRK09618 87 YSELIGKEVEWEGEDGEIVSGTVTSVK 113 (142)
T ss_pred HHHHhCCEEEEEeCCCCEEEEEEEEEE
Confidence 468999999999999999999999986
No 91
>PTZ00275 biotin-acetyl-CoA-carboxylase ligase; Provisional
Probab=77.76 E-value=7.3 Score=26.60 Aligned_cols=32 Identities=31% Similarity=0.382 Sum_probs=27.2
Q ss_pred cCCCEEEEEECCCeEEEEEEEEecCccceEecc
Q psy11512 12 FMDKKVTLKLNANRNVTGILRGFDPFMNLVLDE 44 (62)
Q Consensus 12 ~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~ 44 (62)
++|++|.|.. ++..+.|++.|+|+.-.|++..
T Consensus 235 ~~g~~V~v~~-~~~~~~G~~~gId~~G~L~i~~ 266 (285)
T PTZ00275 235 YKDKKVLIDQ-DNELIVGYLQGLLHDGSLLLLR 266 (285)
T ss_pred cCCCEEEEEe-CCCEEEEEEEEECCCCeEEEEe
Confidence 4799999875 5688999999999999998863
No 92
>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=77.16 E-value=8.1 Score=25.33 Aligned_cols=33 Identities=27% Similarity=0.474 Sum_probs=27.8
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEecCccceEec
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 43 (62)
.-.++++|.+...+ ..+.|+..|+|+.-.|+++
T Consensus 189 ~~~~g~~V~v~~~~-~~~~G~~~gI~~~G~L~v~ 221 (237)
T TIGR00121 189 SAHIGREVSLTTGN-GEIEGIARGIDKDGALLLE 221 (237)
T ss_pred hhccCCeEEEEeCC-cEEEEEEEeECCCceEEEE
Confidence 34679999998755 5689999999999999986
No 93
>KOG1073|consensus
Probab=76.58 E-value=5.2 Score=28.83 Aligned_cols=39 Identities=15% Similarity=0.210 Sum_probs=32.9
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEec-CccceEecceEEE
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFD-PFMNLVLDEGVEY 48 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D-~~mNlvL~~~~e~ 48 (62)
..|||+.|.+.=|....|+|+|.-+| +--=|-|.++..+
T Consensus 5 t~yIGS~ISLISk~DIRYEGILy~in~qdSTlgLqnVRsf 44 (361)
T KOG1073|consen 5 TSYIGSFISLISKNDIRYEGILYTINLQDSTLGLQNVRSF 44 (361)
T ss_pred cccccceeEEeecccceeeeEEEeccccccceehhheeec
Confidence 56999999999999999999999888 5566777776544
No 94
>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=76.44 E-value=5.4 Score=25.81 Aligned_cols=36 Identities=19% Similarity=0.187 Sum_probs=31.8
Q ss_pred hcCCCEEEEEECCCeEEEEEEEEecCccceEecceE
Q psy11512 11 KFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGV 46 (62)
Q Consensus 11 ~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 46 (62)
.+-+-+|+|.+.||..+.|.+.||+.--|.+|..+.
T Consensus 26 r~~~~pVrvv~~ng~~f~myV~gf~~~~n~iL~p~~ 61 (165)
T PF03614_consen 26 RFNDIPVRVVSENGQVFCMYVSGFMSKENKILAPDP 61 (165)
T ss_pred HhcCCceEEEecCCcEEEEEEeccCcccCEEeccCC
Confidence 455678999999999999999999999999987765
No 95
>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=75.09 E-value=8.2 Score=27.39 Aligned_cols=32 Identities=22% Similarity=0.303 Sum_probs=27.3
Q ss_pred CEEEEEECCCeEEEEEEEEecCccceEecceE
Q psy11512 15 KKVTLKLNANRNVTGILRGFDPFMNLVLDEGV 46 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 46 (62)
..+.|.+.||+.+.+++.++|...+|.|=...
T Consensus 82 ~~i~V~~~~~~~~~a~vv~~d~~~DlAllkv~ 113 (428)
T TIGR02037 82 DEITVTLSDGREFKAKLVGKDPRTDIAVLKID 113 (428)
T ss_pred CeEEEEeCCCCEEEEEEEEecCCCCEEEEEec
Confidence 46889999999999999999999998765543
No 96
>KOG3382|consensus
Probab=71.66 E-value=2.3 Score=27.00 Aligned_cols=24 Identities=25% Similarity=0.354 Sum_probs=18.0
Q ss_pred CCeEEEEEEEEecCccceEecceE
Q psy11512 23 ANRNVTGILRGFDPFMNLVLDEGV 46 (62)
Q Consensus 23 ~g~~~~G~L~~~D~~mNlvL~~~~ 46 (62)
....=.|+|+|.|.|-|=--+|-.
T Consensus 41 td~~kiGTLVG~DkfGNkYyen~~ 64 (151)
T KOG3382|consen 41 TDDHKIGTLVGVDKFGNKYYENND 64 (151)
T ss_pred cccccceeeeeecccccchhcccc
Confidence 344457999999999997766653
No 97
>PF07073 ROF: Modulator of Rho-dependent transcription termination (ROF); InterPro: IPR009778 This family consists of several bacterial modulator of Rho-dependent transcription termination (ROF) proteins. ROF binds transcription termination factor Rho and inhibits Rho-dependent termination in vivo [].; PDB: 1SG5_A.
Probab=69.64 E-value=5.7 Score=22.68 Aligned_cols=23 Identities=22% Similarity=0.330 Sum_probs=15.4
Q ss_pred hHHhcCCCEEEEEECCCeEEEEE
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGI 30 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~ 30 (62)
++.=.-+-+|+++++||..++|+
T Consensus 11 EiAC~~~~~v~L~l~dG~~~~g~ 33 (80)
T PF07073_consen 11 EIACMYRYPVKLTLKDGEQIEGK 33 (80)
T ss_dssp HHHHTTTT-EEEE-TTT--EEES
T ss_pred HHHHhcCCeEEEEEeCCCEEEEE
Confidence 34555678999999999999998
No 98
>KOG3493|consensus
Probab=68.80 E-value=4.4 Score=22.88 Aligned_cols=18 Identities=33% Similarity=0.462 Sum_probs=14.7
Q ss_pred HHhcCCCEEEEEECCCeE
Q psy11512 9 LKKFMDKKVTLKLNANRN 26 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~ 26 (62)
+++.+||+|||+.....+
T Consensus 6 ~nDrLGKKVRvKCn~dDt 23 (73)
T KOG3493|consen 6 LNDRLGKKVRVKCNTDDT 23 (73)
T ss_pred hhhhcCceEEEEeCCccc
Confidence 689999999999866543
No 99
>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=67.85 E-value=2.5 Score=25.04 Aligned_cols=17 Identities=35% Similarity=0.446 Sum_probs=14.4
Q ss_pred EEEEEecCccceEecce
Q psy11512 29 GILRGFDPFMNLVLDEG 45 (62)
Q Consensus 29 G~L~~~D~~mNlvL~~~ 45 (62)
|+|+|.|.|-|.=-++-
T Consensus 1 G~lVG~D~~GN~YyE~~ 17 (105)
T PF05071_consen 1 GTLVGTDEFGNKYYENP 17 (105)
T ss_pred CCEeeEeCCCCEEEeec
Confidence 78999999999876654
No 100
>PRK08477 biotin--protein ligase; Provisional
Probab=63.56 E-value=36 Score=22.39 Aligned_cols=38 Identities=8% Similarity=-0.060 Sum_probs=31.0
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEE
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEY 48 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~ 48 (62)
.-.+++.|.|. .+++.++|+..++|+.--|++..-.-+
T Consensus 171 ~~~~~~~v~v~-~~~~~~~g~a~~I~~~G~L~v~~~~~~ 208 (211)
T PRK08477 171 EFEKSKSFSFH-IDGKLVSLKDAELLEDGSILINGKKVY 208 (211)
T ss_pred HHHcCCEEEEE-ECCEEEEEEEeeECCCCeEEECCEEee
Confidence 34688999987 467999999999999999988765443
No 101
>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=63.14 E-value=12 Score=21.93 Aligned_cols=24 Identities=17% Similarity=0.527 Sum_probs=20.7
Q ss_pred HhcCCCEEEEE-ECCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLK-LNANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~-l~~g~~~~G~L~~ 33 (62)
...+|..|+|+ +..|+.+.|+..+
T Consensus 92 ~g~~G~~I~V~N~~s~k~i~~~V~~ 116 (122)
T TIGR03170 92 DGAVGDQIRVRNLSSGKIISGIVTG 116 (122)
T ss_pred ccCCCCEEEEEECCCCCEEEEEEeC
Confidence 46789999999 7999999999865
No 102
>PF06257 DUF1021: Protein of unknown function (DUF1021); InterPro: IPR009366 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 3FB9_A.
Probab=62.26 E-value=27 Score=19.82 Aligned_cols=27 Identities=37% Similarity=0.548 Sum_probs=20.8
Q ss_pred hHHhcCCCEEEEEECCCe----EEEEEEEEe
Q psy11512 8 ELKKFMDKKVTLKLNANR----NVTGILRGF 34 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~----~~~G~L~~~ 34 (62)
.|.+++|++|.++.+.|| +-+|+|...
T Consensus 11 ~l~~~vG~~V~l~a~~GRkK~~~r~GvL~~t 41 (76)
T PF06257_consen 11 ELESHVGKRVKLKANKGRKKIIEREGVLEET 41 (76)
T ss_dssp HHHHTTTSEEEEEE--SSS--S-EEEEEEEE
T ss_pred HHHHcCCCEEEEEEcCCceEEEEEEEEEEee
Confidence 488999999999999886 678998765
No 103
>PRK11911 flgD flagellar basal body rod modification protein; Provisional
Probab=59.91 E-value=41 Score=21.18 Aligned_cols=27 Identities=11% Similarity=0.190 Sum_probs=23.3
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEecC
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFDP 36 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D~ 36 (62)
..++||.|.....+|..+.|++.++..
T Consensus 89 ~~lIGk~V~~~~~~g~~~tG~V~sV~~ 115 (140)
T PRK11911 89 VNFIGKDIKGVSLNGEVISGKVESVQQ 115 (140)
T ss_pred HHhhCceeEEEecCCCEEEEEEEEEEE
Confidence 479999999888899999999987763
No 104
>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=59.78 E-value=28 Score=20.91 Aligned_cols=27 Identities=15% Similarity=0.220 Sum_probs=20.4
Q ss_pred EEEEEECCCeEEEEEEEEec-CccceEe
Q psy11512 16 KVTLKLNANRNVTGILRGFD-PFMNLVL 42 (62)
Q Consensus 16 ~V~V~l~~g~~~~G~L~~~D-~~mNlvL 42 (62)
...|.++||+.+.|.+..=| ....+..
T Consensus 59 ~~~v~~~dG~~~~G~~~~e~~~~~~l~~ 86 (133)
T TIGR02603 59 AYRVTLKDGRILSGIVASETADGVTVKM 86 (133)
T ss_pred cEEEEECCCCEEEEEEEecCCCeEEEEc
Confidence 37899999999999998855 3344443
No 105
>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=58.14 E-value=35 Score=19.76 Aligned_cols=36 Identities=19% Similarity=0.194 Sum_probs=23.3
Q ss_pred hhHHhcCCCEEEEEEC----CCeEEEEEEEEecC-ccceEecc
Q psy11512 7 PELKKFMDKKVTLKLN----ANRNVTGILRGFDP-FMNLVLDE 44 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~----~g~~~~G~L~~~D~-~mNlvL~~ 44 (62)
.-|.+|.|++|++.-+ +|. .-++.+-|. -.++.|..
T Consensus 8 ~~L~~f~gk~V~ivGkV~~~~~~--~~~~~~~Dg~~v~v~l~~ 48 (101)
T cd04479 8 AMLSQFVGKTVRIVGKVEKVDGD--SLTLISSDGVNVTVELNR 48 (101)
T ss_pred HHHHhhCCCEEEEEEEEEEecCC--eEEEEcCCCCEEEEEeCC
Confidence 4589999999998752 333 345666664 55555554
No 106
>PRK06630 hypothetical protein; Provisional
Probab=57.38 E-value=5.9 Score=23.74 Aligned_cols=19 Identities=21% Similarity=0.177 Sum_probs=16.1
Q ss_pred EEEEEEEecCccceEecce
Q psy11512 27 VTGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 27 ~~G~L~~~D~~mNlvL~~~ 45 (62)
..|+|+|-|+|-|-=-++.
T Consensus 11 r~G~lVG~D~~GNkYYE~~ 29 (99)
T PRK06630 11 FFHKKVGEDEFLNQYYESR 29 (99)
T ss_pred ccCeEeEEeCCCChhcccC
Confidence 4799999999999877763
No 107
>COG5316 Uncharacterized conserved protein [Function unknown]
Probab=57.23 E-value=46 Score=24.62 Aligned_cols=44 Identities=25% Similarity=0.138 Sum_probs=36.4
Q ss_pred hHHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceEEEecCC
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVEYRKDN 52 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e~~~~~ 52 (62)
.+.+++||.|+- =++|++.+++|.+=|.-.=+-+.+-.|.....
T Consensus 76 l~~~~~GK~v~~-~kdG~~~t~tl~a~d~gv~~~~~~~~~v~~~d 119 (421)
T COG5316 76 LVEKSLGKVVRT-RKDGRQTTATLLAGDYGVVLRTGDGVEVLGCD 119 (421)
T ss_pred HHhhhhCcEEEe-cCCCceeEEEEEecCceEEEecCCcEEEEecc
Confidence 369999999998 89999999999999987777777777665444
No 108
>KOG4401|consensus
Probab=55.60 E-value=10 Score=24.99 Aligned_cols=38 Identities=11% Similarity=0.026 Sum_probs=30.8
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceE
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGV 46 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 46 (62)
..-.++..|.+..-++...+|.+.+||---+...-++.
T Consensus 6 ~~vavg~~v~~~t~~e~~~~G~Vyafd~~~k~l~~~~~ 43 (184)
T KOG4401|consen 6 ATVAVGSCVEIGTEDEKFAVGEVYAFDLTTKDLFLGTP 43 (184)
T ss_pred ceeEEEEEEEecccccceeeeEEEEEEcccCeeEeccc
Confidence 44567788999999999999999999977666666665
No 109
>PF14485 DUF4431: Domain of unknown function (DUF4431)
Probab=55.37 E-value=11 Score=19.52 Aligned_cols=14 Identities=29% Similarity=0.539 Sum_probs=11.8
Q ss_pred hhHHhcCCCEEEEE
Q psy11512 7 PELKKFMDKKVTLK 20 (62)
Q Consensus 7 ~~L~~~l~k~V~V~ 20 (62)
..+++++||+|+|.
T Consensus 12 ~~~~~~~Gk~V~V~ 25 (48)
T PF14485_consen 12 SYLKSLLGKRVSVT 25 (48)
T ss_pred HHHHHhcCCeEEEE
Confidence 34788999999997
No 110
>PRK07018 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=55.23 E-value=16 Score=24.14 Aligned_cols=24 Identities=17% Similarity=0.504 Sum_probs=21.1
Q ss_pred HhcCCCEEEEE-ECCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLK-LNANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~-l~~g~~~~G~L~~ 33 (62)
...+|..|+|+ +..|+.+.|+..+
T Consensus 203 ~G~~Gd~IrVrN~~Sgk~i~g~V~~ 227 (235)
T PRK07018 203 DGAVGQQIRVRNMASGQVVSGIVTG 227 (235)
T ss_pred CCCCCCeEEEEECCCCCEEEEEEeC
Confidence 46789999999 9999999999865
No 111
>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=54.48 E-value=1.5 Score=23.99 Aligned_cols=16 Identities=31% Similarity=0.314 Sum_probs=13.7
Q ss_pred ecCccceEecceEEEe
Q psy11512 34 FDPFMNLVLDEGVEYR 49 (62)
Q Consensus 34 ~D~~mNlvL~~~~e~~ 49 (62)
-|+||+-||+||.-++
T Consensus 20 sDDFmhaVlSNCtTrI 35 (61)
T PF10894_consen 20 SDDFMHAVLSNCTTRI 35 (61)
T ss_pred cHHHHHHHHhcCceeE
Confidence 4889999999998775
No 112
>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=49.80 E-value=33 Score=17.06 Aligned_cols=25 Identities=12% Similarity=0.048 Sum_probs=20.8
Q ss_pred CCCEEEEEECCCeEEEEEEEEecCc
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDPF 37 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~~ 37 (62)
.|..+.+...+|..++|++.+++.-
T Consensus 5 ~G~~~~a~~~d~~wyra~I~~~~~~ 29 (57)
T smart00333 5 VGDKVAARWEDGEWYRARIIKVDGE 29 (57)
T ss_pred CCCEEEEEeCCCCEEEEEEEEECCC
Confidence 4667777777899999999999963
No 113
>PF05954 Phage_GPD: Phage late control gene D protein (GPD); PDB: 2P5Z_X 3D37_A 1WRU_A 3CDD_E.
Probab=49.31 E-value=45 Score=21.58 Aligned_cols=28 Identities=25% Similarity=0.576 Sum_probs=23.3
Q ss_pred hHHhcCCCEEEEEECCCeEEEEEEEEec
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~L~~~D 35 (62)
.+...+|++|.|.+...+.+.|.+..++
T Consensus 22 ~~~~~~G~~v~v~i~~~~~~~G~v~~~~ 49 (292)
T PF05954_consen 22 DLKDLLGKPVTVRIGSERVFSGYVTSVE 49 (292)
T ss_dssp -CGGTTT-EEEEEETTEEEEEEEEEEEE
T ss_pred ChhHhCCCEEEEEEeeeeEeccEEEEEE
Confidence 3567999999999998899999998884
No 114
>PLN03095 NADH:ubiquinone oxidoreductase 18 kDa subunit; Provisional
Probab=47.76 E-value=12 Score=22.97 Aligned_cols=18 Identities=33% Similarity=0.368 Sum_probs=15.5
Q ss_pred EEEEEEecCccceEecce
Q psy11512 28 TGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 28 ~G~L~~~D~~mNlvL~~~ 45 (62)
.|+|+|.|+|-|-=-++.
T Consensus 9 ~g~lVG~D~~GNkYYE~~ 26 (115)
T PLN03095 9 AGRLVGEDEFGNKYYENP 26 (115)
T ss_pred cceEeEEcCCCCeeeEcC
Confidence 699999999999877764
No 115
>COG0265 DegQ Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]
Probab=46.18 E-value=56 Score=22.40 Aligned_cols=30 Identities=30% Similarity=0.470 Sum_probs=24.5
Q ss_pred CCEEEEEECCCeEEEEEEEEecCccceEec
Q psy11512 14 DKKVTLKLNANRNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 14 ~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 43 (62)
..++.+.+.||+++.+.+.|+|...-+.+-
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 467888889999999999999977655543
No 116
>PRK11625 Rho-binding antiterminator; Provisional
Probab=45.50 E-value=59 Score=18.71 Aligned_cols=23 Identities=17% Similarity=0.080 Sum_probs=19.0
Q ss_pred HHhcCCCEEEEEECCCeEEEEEE
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGIL 31 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L 31 (62)
+.-.-+-++.++++||..+.|+.
T Consensus 18 lAC~~~~~l~l~l~dGe~~~g~A 40 (84)
T PRK11625 18 LACQHHLMLTLELKDGEVLQAKA 40 (84)
T ss_pred HHHhcCCeEEEEECCCCEEEEEE
Confidence 44446778999999999999986
No 117
>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=44.89 E-value=50 Score=17.72 Aligned_cols=25 Identities=12% Similarity=0.226 Sum_probs=17.4
Q ss_pred cCCCEEEEEECCC-eEEEEEEEEecC
Q psy11512 12 FMDKKVTLKLNAN-RNVTGILRGFDP 36 (62)
Q Consensus 12 ~l~k~V~V~l~~g-~~~~G~L~~~D~ 36 (62)
..|..|.+.--++ ..|+|++.+||.
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 4688888888664 666999999995
No 118
>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=43.59 E-value=53 Score=23.83 Aligned_cols=29 Identities=28% Similarity=0.548 Sum_probs=24.1
Q ss_pred hhHHhcCCCEEEEEEC--CC--eEEEEEEEEec
Q psy11512 7 PELKKFMDKKVTLKLN--AN--RNVTGILRGFD 35 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~--~g--~~~~G~L~~~D 35 (62)
.++.+++|+++.|.+. +| +.+.|.+..+.
T Consensus 40 l~~~~llG~~v~l~i~~~~~~~r~f~GiVt~~~ 72 (513)
T TIGR03361 40 IDLEDLLGQPATLTLGRDGGGPRYFHGIVTRFE 72 (513)
T ss_pred CCHHHHcCCeEEEEEEeCCCceEEEEEEEEEEE
Confidence 4589999999999994 33 78999998885
No 119
>PRK06792 flgD flagellar basal body rod modification protein; Validated
Probab=43.58 E-value=48 Score=21.98 Aligned_cols=26 Identities=31% Similarity=0.342 Sum_probs=22.7
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEec
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D 35 (62)
..++||.|.+.-.+|..+.|++.++.
T Consensus 114 ~slIGK~V~~~~~dG~~vtG~V~sV~ 139 (190)
T PRK06792 114 MKFLGKYVRGVSNDGKQVTGQVETVR 139 (190)
T ss_pred HHhcCcEEEEEcCCCCEEEEEEEEEE
Confidence 57899999988889999999988765
No 120
>PLN02732 Probable NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit
Probab=42.81 E-value=22 Score=22.90 Aligned_cols=18 Identities=28% Similarity=0.250 Sum_probs=15.4
Q ss_pred EEEEEEecCccceEecce
Q psy11512 28 TGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 28 ~G~L~~~D~~mNlvL~~~ 45 (62)
.|+|+|-|+|-|-=-++.
T Consensus 48 ~G~lVG~D~~GNkYYE~~ 65 (159)
T PLN02732 48 GATLVGVDKFGNKYYQKL 65 (159)
T ss_pred CcEEEEecCCCCeeeecC
Confidence 499999999999877765
No 121
>COG1886 FliN Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=42.69 E-value=67 Score=19.70 Aligned_cols=38 Identities=18% Similarity=0.149 Sum_probs=30.5
Q ss_pred chhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEec
Q psy11512 6 PPELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 43 (62)
-.+|.+..+..|.|.+++-..=+|.++-+|+.+=+.+.
T Consensus 97 vi~Ld~~~~~~VdI~vNg~~Ig~GEvVvvd~~~GVrIt 134 (136)
T COG1886 97 VIELDKLAGEPVDILVNGRLIGRGEVVVVDDKFGVRIT 134 (136)
T ss_pred EEEcCCcCCCceEEEECCEEEEEEeEEEECCeEEEEEE
Confidence 34577888999999999888899999999987655443
No 122
>PF14153 Spore_coat_CotO: Spore coat protein CotO
Probab=42.23 E-value=38 Score=22.16 Aligned_cols=17 Identities=18% Similarity=0.344 Sum_probs=13.8
Q ss_pred ECCCeEEEEEEEEecCc
Q psy11512 21 LNANRNVTGILRGFDPF 37 (62)
Q Consensus 21 l~~g~~~~G~L~~~D~~ 37 (62)
..++..|+|++.++|+-
T Consensus 141 ~t~~~~Y~G~I~~~~~~ 157 (185)
T PF14153_consen 141 ETKDKSYRGIILSYDEG 157 (185)
T ss_pred EeCCceEEEEEEeccCC
Confidence 35679999999999943
No 123
>KOG1749|consensus
Probab=42.17 E-value=27 Score=21.91 Aligned_cols=38 Identities=16% Similarity=0.244 Sum_probs=29.5
Q ss_pred HhcCCCEEEEEE-CCCeEEEEEEEEecCccceEecceEEE
Q psy11512 10 KKFMDKKVTLKL-NANRNVTGILRGFDPFMNLVLDEGVEY 48 (62)
Q Consensus 10 ~~~l~k~V~V~l-~~g~~~~G~L~~~D~~mNlvL~~~~e~ 48 (62)
++.+.|.++|.| ++|+.+... +-.|..+|.+=+|-+-.
T Consensus 63 NSAiRKcvRvQLIkngKKITaf-Vp~dgcln~ieendevl 101 (143)
T KOG1749|consen 63 NSAIRKCVRVQLIKNGKKITAF-VPNDGCLNFIEENDEVL 101 (143)
T ss_pred cHHHhhheeeeeeeCCceEEEE-ecCCCceeeeccCCeee
Confidence 456778899997 899998876 67899999987765544
No 124
>PRK06005 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=42.04 E-value=39 Score=21.31 Aligned_cols=24 Identities=8% Similarity=0.191 Sum_probs=20.2
Q ss_pred HhcCCCEEEEE-ECCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLK-LNANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~-l~~g~~~~G~L~~ 33 (62)
....|..|+|+ +..|+.+.|+..+
T Consensus 127 ~G~~Gd~IrVrN~~Sgkiv~g~V~~ 151 (160)
T PRK06005 127 SGAAGDLIRVRNVDSGVIVSGTVLA 151 (160)
T ss_pred cCCCCCEEEEEECCCCCEEEEEEec
Confidence 45688999999 8999999999754
No 125
>PRK08515 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=41.90 E-value=47 Score=21.95 Aligned_cols=24 Identities=8% Similarity=0.080 Sum_probs=21.0
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~ 33 (62)
...+|..|+|+-.+|+.+.|+..|
T Consensus 192 ~G~~Gd~IrVrN~Sgkii~g~V~~ 215 (222)
T PRK08515 192 DGNLGDIIQAKNKSNKILKAKVLS 215 (222)
T ss_pred cCCCCCEEEEEeCCCCEEEEEEec
Confidence 467899999999889999999875
No 126
>PF07024 ImpE: ImpE protein; InterPro: IPR009211 This entry contains proteins of unknown function that occur in bacteria that interact with and manipulate eukaryotic cells []. Salmonella enterica protein SciE is encoded in the centisome 7 genomic island (SCI) []. Deletion of the entire island affects the ability of bacteria to enter eukaryotic cells []. Therefore, SciE and other SCI proteins may be involved in virulence. Interestingly, another member of this family, Rhizobium leguminosarum protein ImpE, has been reported to be encoded by an avirulence locus involved in temperature-dependent protein secretion []. It is believed that the imp locus is involved in the secretion to the environment of proteins, including periplasmic RbsB protein, that cause blocking of R. leguminosarum infection in plants [].; PDB: 1ZBP_A.
Probab=41.09 E-value=35 Score=20.97 Aligned_cols=28 Identities=14% Similarity=0.335 Sum_probs=22.6
Q ss_pred CchhHHhcCCCEEEEEECCCeEEEEEEE
Q psy11512 5 HPPELKKFMDKKVTLKLNANRNVTGILR 32 (62)
Q Consensus 5 ~~~~L~~~l~k~V~V~l~~g~~~~G~L~ 32 (62)
+|..|.+++=+++.|.++||.+..|.+=
T Consensus 42 ~p~~l~DlvWrpa~i~l~dG~~~~~~iP 69 (123)
T PF07024_consen 42 PPASLRDLVWRPAEITLRDGGEGEGFIP 69 (123)
T ss_dssp ---SSGGGTEEEEEEEETTTEEEEEEEE
T ss_pred CCCCHHHhcccceEEEEeCCCeEEEEEe
Confidence 4666899999999999999999999873
No 127
>cd06920 NEAT NEAr Transport domain, a component of cell surface proteins. NEAr Transporter (NEAT) domain; used by pathogenic bacteria to to scavenge heme-iron from host hemoproteins. The NEAT domain is a component of cell surface proteins (iron regulated surface determinants, or Isd, such as IsdA and IsdC) in various gram-positive bacteria, and may be arranged in tandem repeats.
Probab=39.40 E-value=43 Score=19.32 Aligned_cols=38 Identities=21% Similarity=0.345 Sum_probs=28.4
Q ss_pred chhHHhcCCCEEEEEECCC-eEEEEEEEEecCccceEec
Q psy11512 6 PPELKKFMDKKVTLKLNAN-RNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g-~~~~G~L~~~D~~mNlvL~ 43 (62)
++-..+|++++..+..+|| ..+.=+|...|-.-|+.+.
T Consensus 18 ~Sma~~y~~~~a~l~vknGk~~~~lt~~~~~~~k~~~i~ 56 (117)
T cd06920 18 PSMANGYLNKPAKLTVKNGKKYVTLTLKNSDWMKNFKVE 56 (117)
T ss_pred cchhHhhhcCceEEEEECCEEEEEEEEccceeeEEEEEE
Confidence 5558999999999999997 4555566666655666666
No 128
>COG4466 Veg Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.71 E-value=41 Score=19.40 Aligned_cols=25 Identities=36% Similarity=0.586 Sum_probs=19.8
Q ss_pred hHHhcCCCEEEEEECCCeEE----EEEEE
Q psy11512 8 ELKKFMDKKVTLKLNANRNV----TGILR 32 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~----~G~L~ 32 (62)
.+...+|++|.++.++||.= .|.|.
T Consensus 13 ~i~ah~G~~v~lk~ngGRKk~~~r~G~L~ 41 (80)
T COG4466 13 SIDAHLGERVTLKANGGRKKTIERSGILI 41 (80)
T ss_pred HHHhccCcEEEEEecCCceeeehhceEEe
Confidence 47889999999999999743 46654
No 129
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=38.42 E-value=37 Score=18.46 Aligned_cols=21 Identities=10% Similarity=0.197 Sum_probs=17.5
Q ss_pred CEEEEEECCCeEEEEEEEEec
Q psy11512 15 KKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D 35 (62)
.+|.|++-||..+.+++..-|
T Consensus 5 ~~I~iRlPdG~ri~~~F~~~~ 25 (80)
T smart00166 5 CRLQIRLPDGSRLVRRFPSSD 25 (80)
T ss_pred EEEEEEcCCCCEEEEEeCCCC
Confidence 478899999999999986544
No 130
>PRK08183 NADH dehydrogenase; Validated
Probab=38.40 E-value=18 Score=22.62 Aligned_cols=18 Identities=28% Similarity=0.246 Sum_probs=15.1
Q ss_pred EEEEEEecCccceEecce
Q psy11512 28 TGILRGFDPFMNLVLDEG 45 (62)
Q Consensus 28 ~G~L~~~D~~mNlvL~~~ 45 (62)
.|+|+|-|.+-|-=-++.
T Consensus 25 ~g~lVG~D~~GNkYYE~~ 42 (133)
T PRK08183 25 KGERVGEDEFGNVYYRTK 42 (133)
T ss_pred cCeEeEecCCCCeeeecC
Confidence 699999999999876553
No 131
>PRK12617 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=38.39 E-value=49 Score=21.94 Aligned_cols=24 Identities=21% Similarity=0.367 Sum_probs=20.2
Q ss_pred HhcCCCEEEEE-ECCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLK-LNANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~-l~~g~~~~G~L~~ 33 (62)
....|..|+|+ +..|+.+.|+..+
T Consensus 182 ~G~~Ge~IrVrN~~SgrvV~g~V~~ 206 (214)
T PRK12617 182 DAGENERVSVENSSSRRVVQGIVEA 206 (214)
T ss_pred CCCCCCEEEEEECCCCCEEEEEEeC
Confidence 45678999999 7999999999764
No 132
>PF05031 NEAT: Iron Transport-associated domain ; InterPro: IPR006635 This domain identifies a small family of protein with no known function which are found exclusively in bacteria.; PDB: 2O1A_A 2E7D_B 3QUG_A 3QUH_B 2Z6F_A 3OVU_B 2H3K_A 3S48_B 3RTL_C 3RUR_A ....
Probab=36.43 E-value=48 Score=19.51 Aligned_cols=25 Identities=12% Similarity=0.294 Sum_probs=19.4
Q ss_pred CchhHHhcCCCEEEEEECCCeEEEE
Q psy11512 5 HPPELKKFMDKKVTLKLNANRNVTG 29 (62)
Q Consensus 5 ~~~~L~~~l~k~V~V~l~~g~~~~G 29 (62)
.++-...|+.++..|..+||+.+.-
T Consensus 23 ~~Sma~~y~~~~a~l~vk~gk~~v~ 47 (124)
T PF05031_consen 23 EPSMANGYLNKPAKLVVKNGKYYVT 47 (124)
T ss_dssp SBHGGGGGB-SSEEEEEETTEEEEE
T ss_pred ccchHHhhccCCEEEEEECCEEEEE
Confidence 4555799999999999999977654
No 133
>PRK10708 hypothetical protein; Provisional
Probab=35.92 E-value=53 Score=17.97 Aligned_cols=25 Identities=20% Similarity=0.485 Sum_probs=21.3
Q ss_pred CCCEEEEEECCCeEEEEEEEEecCc
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDPF 37 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~~ 37 (62)
++-+|.|++..|-.=.|++.++..|
T Consensus 3 vnD~VtVKTDG~~rR~G~iLavE~F 27 (62)
T PRK10708 3 VNDRVTVKTDGGPRRPGVVLAVEEF 27 (62)
T ss_pred cccEEEEecCCCccccceEEEEeec
Confidence 4678999999998889999888876
No 134
>smart00725 NEAT NEAr Transporter domain.
Probab=35.56 E-value=55 Score=19.63 Aligned_cols=38 Identities=11% Similarity=0.233 Sum_probs=25.1
Q ss_pred chhHHhcCCCEEEEEECCCeEE-EEEEEEecCccceEec
Q psy11512 6 PPELKKFMDKKVTLKLNANRNV-TGILRGFDPFMNLVLD 43 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~g~~~-~G~L~~~D~~mNlvL~ 43 (62)
++-...|++++..+..+||..+ .=+|..-|-.-++.+.
T Consensus 19 ~Sma~~Y~~~pa~l~v~nGk~~v~ltl~~s~~~~~f~i~ 57 (123)
T smart00725 19 ESMMDDYLNKPAKLIVKNGKTYVTLTLNNSSFWKDFEVE 57 (123)
T ss_pred hhhHHHhhcCceEEEEECCEEEEEEEEcCCccEEEEEEE
Confidence 4447999999999999998654 4445554433344443
No 135
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=34.41 E-value=47 Score=18.24 Aligned_cols=24 Identities=4% Similarity=0.349 Sum_probs=18.7
Q ss_pred cCCCEEEEEECCCeEEEEEEEEec
Q psy11512 12 FMDKKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 12 ~l~k~V~V~l~~g~~~~G~L~~~D 35 (62)
|-..+|.|++-||..+.+++..-|
T Consensus 2 ~~~~~i~iRlp~G~~~~~~F~~~~ 25 (79)
T cd01772 2 YTETRIQIRLLDGTTLKQTFKARE 25 (79)
T ss_pred CcEEEEEEECCCCCEEEEEeCCCC
Confidence 345679999999999999985433
No 136
>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=34.32 E-value=58 Score=17.51 Aligned_cols=21 Identities=10% Similarity=0.196 Sum_probs=16.8
Q ss_pred CEEEEEECCCeEEEEEEEEec
Q psy11512 15 KKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D 35 (62)
-+|.|++-||..+..++..-|
T Consensus 7 ~~I~vRlpdG~~l~~~F~~~~ 27 (82)
T PF00789_consen 7 VRIQVRLPDGSRLQRRFPKSD 27 (82)
T ss_dssp EEEEEEETTSTEEEEEEETTS
T ss_pred EEEEEECCCCCEEEEEECCcc
Confidence 368899999999999886444
No 137
>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=33.91 E-value=52 Score=17.68 Aligned_cols=21 Identities=10% Similarity=0.276 Sum_probs=17.0
Q ss_pred CEEEEEECCCeEEEEEEEEec
Q psy11512 15 KKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D 35 (62)
.+|.|++-||..+.+++..-|
T Consensus 3 t~i~iRlpdG~~~~~~F~~~~ 23 (77)
T cd01767 3 TKIQIRLPDGKRLEQRFNSTH 23 (77)
T ss_pred EEEEEEcCCCCEEEEEeCCCC
Confidence 468999999999999985444
No 138
>PRK12618 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=33.51 E-value=72 Score=19.72 Aligned_cols=24 Identities=13% Similarity=0.300 Sum_probs=19.8
Q ss_pred HhcCCCEEEEE-ECCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLK-LNANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~-l~~g~~~~G~L~~ 33 (62)
....|..|+|+ +..|+.+.|+..+
T Consensus 108 ~G~~Gd~IrV~N~~S~riV~g~V~~ 132 (141)
T PRK12618 108 RGGVGDEIRVMNLSSRTTVSGRIAA 132 (141)
T ss_pred cCCCCCEEEEEECCCCCEEEEEEec
Confidence 45678899996 7899999999765
No 139
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=33.50 E-value=39 Score=19.61 Aligned_cols=15 Identities=27% Similarity=0.355 Sum_probs=12.5
Q ss_pred hhHHhcCCCEEEEEE
Q psy11512 7 PELKKFMDKKVTLKL 21 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l 21 (62)
..|.+|.|++|++.-
T Consensus 11 ~~L~~~~gk~VrivG 25 (109)
T PF08661_consen 11 SMLSQFVGKTVRIVG 25 (109)
T ss_dssp GGGGGGTTSEEEEEE
T ss_pred HHHHhhCCCeEEEEE
Confidence 458999999999874
No 140
>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=33.01 E-value=93 Score=20.26 Aligned_cols=33 Identities=9% Similarity=0.359 Sum_probs=22.1
Q ss_pred CchhH-HhcCCCEEEEEECCCeEEEEEEEEecCcc
Q psy11512 5 HPPEL-KKFMDKKVTLKLNANRNVTGILRGFDPFM 38 (62)
Q Consensus 5 ~~~~L-~~~l~k~V~V~l~~g~~~~G~L~~~D~~m 38 (62)
.+.++ .+++|+.+..++.++. +.|.++-...|+
T Consensus 8 ~~~~vA~~LLG~~Lv~~~~~~~-~~grIvEtEAY~ 41 (184)
T PF02245_consen 8 DTVEVARDLLGKVLVRRIPGGE-LSGRIVETEAYL 41 (184)
T ss_dssp BHHHHHHHCTT-EEEEE-TTS--EEEEEEEEEEE-
T ss_pred CHHHHHHHhCCCEEEEEeCCCe-EEEEEEEEeecc
Confidence 34455 8899999999998877 999887655443
No 141
>PRK06789 flagellar motor switch protein; Validated
Probab=32.66 E-value=97 Score=17.42 Aligned_cols=36 Identities=19% Similarity=0.122 Sum_probs=29.8
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEEecCccceEe
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVL 42 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL 42 (62)
.+|.+..+.+|.|.+++-..-+|.++-.|+.+=+-+
T Consensus 34 i~Ldk~~~epvdI~vNg~lia~GEvVvv~~~fGVRI 69 (74)
T PRK06789 34 YRLENSTKNTVRLMLENEEIGTGKILTKNGKMYVEI 69 (74)
T ss_pred EEeCCcCCCCEEEEECCEEEeEEeEEEECCEEEEEE
Confidence 347889999999999998899999999998655444
No 142
>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=32.60 E-value=1.4e+02 Score=19.62 Aligned_cols=33 Identities=15% Similarity=0.361 Sum_probs=27.1
Q ss_pred chhH-HhcCCCEEEEEECCCeEEEEEEEEecCcc
Q psy11512 6 PPEL-KKFMDKKVTLKLNANRNVTGILRGFDPFM 38 (62)
Q Consensus 6 ~~~L-~~~l~k~V~V~l~~g~~~~G~L~~~D~~m 38 (62)
+..+ .+++|+.+..++.+|....|.++-...|+
T Consensus 10 ~~~vA~~LLGk~Lv~~~~~g~~~~grIvEtEAY~ 43 (192)
T TIGR00567 10 AVTLAPRLLGQLLVRRLDKGTEVRGRIVETEAYM 43 (192)
T ss_pred HHHHHHHhCCCEEEEECCCCcEEEEEEEEEeccc
Confidence 3455 88999999988888877789999888775
No 143
>PRK06804 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=32.11 E-value=70 Score=21.88 Aligned_cols=24 Identities=25% Similarity=0.353 Sum_probs=20.6
Q ss_pred HhcCCCEEEEE-ECCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLK-LNANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~-l~~g~~~~G~L~~ 33 (62)
....|..|+|+ +..|+.+.|+..+
T Consensus 229 ~G~~Gd~IrVrN~~SgkvV~a~V~~ 253 (261)
T PRK06804 229 NGRKGELIKVKNLSSGRVVTATVDG 253 (261)
T ss_pred CCCCCCEEEEEECCCCCEEEEEEec
Confidence 45688999999 8999999999865
No 144
>PF13144 SAF_2: SAF-like
Probab=31.87 E-value=84 Score=19.72 Aligned_cols=24 Identities=17% Similarity=0.299 Sum_probs=20.0
Q ss_pred HhcCCCEEEEEE-CCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLKL-NANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~l-~~g~~~~G~L~~ 33 (62)
...+|..|+|+- ..|+.+.|++.+
T Consensus 166 ~G~~G~~I~V~N~~S~k~v~g~V~~ 190 (196)
T PF13144_consen 166 DGALGDTIRVKNLSSGKIVQGRVIG 190 (196)
T ss_pred CCCCCCEEEEEECCCCCEEEEEEec
Confidence 467899999998 459999999865
No 145
>PF02707 MOSP_N: Major Outer Sheath Protein N-terminal region; InterPro: IPR003857 This is a family of spirochete major outer sheath protein N-terminal regions. These proteins are present on the bacterial cell surface. In Treponema denticola the major outer sheath protein (Msp) binds immobilized laminin and fibronectin supporting the hypothesis that Msp mediates the extracellular matrix binding activity of T. denticola [].
Probab=31.53 E-value=39 Score=22.67 Aligned_cols=17 Identities=6% Similarity=0.327 Sum_probs=14.9
Q ss_pred eEEEEEEEEecCccceE
Q psy11512 25 RNVTGILRGFDPFMNLV 41 (62)
Q Consensus 25 ~~~~G~L~~~D~~mNlv 41 (62)
..++.+|.+|+.||++=
T Consensus 30 ~s~eAtLh~ygaYltig 46 (204)
T PF02707_consen 30 FSIEATLHCYGAYLTIG 46 (204)
T ss_pred eeEEEEEEEEeeEEEec
Confidence 56999999999999873
No 146
>PF10246 MRP-S35: Mitochondrial ribosomal protein MRP-S35; InterPro: IPR019375 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of short mitochondrial ribosomal proteins, less than 200 amino acids long. MRP-S35 was proposed as a more appropriate name to this group of proteins [].
Probab=31.07 E-value=35 Score=20.59 Aligned_cols=34 Identities=15% Similarity=0.182 Sum_probs=28.5
Q ss_pred CCCEEEEEECCCeEEEEEEEEecCccceEecceEE
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGVE 47 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~e 47 (62)
.|.+|++.++| -++...+.|-+..+-|.-.+|+-
T Consensus 63 ~G~rV~lrLkd-lELs~~FLG~~~d~TllEAd~~L 96 (104)
T PF10246_consen 63 RGSRVRLRLKD-LELSAHFLGASKDTTLLEADATL 96 (104)
T ss_pred cCCEEEEEECC-HhhhhhhccCCCCcEEEEeeeEE
Confidence 48899999998 88899999999988887776653
No 147
>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=30.97 E-value=64 Score=17.65 Aligned_cols=25 Identities=24% Similarity=0.603 Sum_probs=21.0
Q ss_pred CCCEEEEEECCCeEEEEEEEEecCc
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDPF 37 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~~ 37 (62)
++-+|.|+...|-.=.|++.++..|
T Consensus 3 vnD~VtVKTDG~~rR~G~ilavE~F 27 (62)
T PF10781_consen 3 VNDRVTVKTDGGPRREGVILAVEPF 27 (62)
T ss_pred cccEEEEecCCcccccceEEEEeec
Confidence 4668999998888889999888876
No 148
>COG2451 Ribosomal protein L35AE/L33A [Translation, ribosomal structure and biogenesis]
Probab=30.62 E-value=1.3e+02 Score=18.09 Aligned_cols=29 Identities=24% Similarity=0.418 Sum_probs=23.3
Q ss_pred chhHHhcCCCEEEEEECC-CeEEEEEEEEe
Q psy11512 6 PPELKKFMDKKVTLKLNA-NRNVTGILRGF 34 (62)
Q Consensus 6 ~~~L~~~l~k~V~V~l~~-g~~~~G~L~~~ 34 (62)
|.+-..|+++.|.-+-+. |+.+.|++.-.
T Consensus 38 ~~eA~~y~gk~v~yk~~~~G~Vi~G~V~R~ 67 (100)
T COG2451 38 PEEAQFYLGKRVCYKYRSSGRVIKGKVVRT 67 (100)
T ss_pred HHHHHhhhccEEEEEeCCCCcEEEEEEEEe
Confidence 455788999988888777 99999998543
No 149
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=30.27 E-value=1e+02 Score=17.02 Aligned_cols=24 Identities=13% Similarity=0.221 Sum_probs=19.1
Q ss_pred hcCCCEEEEEECCCeEEEEEEEEe
Q psy11512 11 KFMDKKVTLKLNANRNVTGILRGF 34 (62)
Q Consensus 11 ~~l~k~V~V~l~~g~~~~G~L~~~ 34 (62)
.+-+...+|++-||.++.+.+.|=
T Consensus 14 ~L~~~~f~V~l~ng~~vla~i~GK 37 (68)
T TIGR00008 14 SLPNAMFRVELENGHEVLAHISGK 37 (68)
T ss_pred ECCCCEEEEEECCCCEEEEEecCc
Confidence 345778899999999988888773
No 150
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=29.67 E-value=80 Score=17.27 Aligned_cols=24 Identities=33% Similarity=0.764 Sum_probs=19.6
Q ss_pred EEEEEEEEec-CccceEecceEEEe
Q psy11512 26 NVTGILRGFD-PFMNLVLDEGVEYR 49 (62)
Q Consensus 26 ~~~G~L~~~D-~~mNlvL~~~~e~~ 49 (62)
..+|++.++| .-+-|+|+|-.-+.
T Consensus 4 ~veG~I~~id~~~~titLdDGksy~ 28 (61)
T PF07076_consen 4 DVEGTIKSIDPETMTITLDDGKSYK 28 (61)
T ss_pred cceEEEEEEcCCceEEEecCCCEEE
Confidence 4689999999 55899999987764
No 151
>PRK04211 rps12P 30S ribosomal protein S12P; Reviewed
Probab=29.20 E-value=52 Score=20.99 Aligned_cols=29 Identities=24% Similarity=0.330 Sum_probs=21.4
Q ss_pred HHhcCCCEEEEEE-CCCeEEEEEEEEecCcc
Q psy11512 9 LKKFMDKKVTLKL-NANRNVTGILRGFDPFM 38 (62)
Q Consensus 9 L~~~l~k~V~V~l-~~g~~~~G~L~~~D~~m 38 (62)
=++.+-|.++|.| ++|+.+...+=| |.|+
T Consensus 63 PNSA~RK~arV~L~~Ngk~vtAyIPg-~G~~ 92 (145)
T PRK04211 63 PNSAIRKCVRVQLIKNGKQVTAFCPG-DGAI 92 (145)
T ss_pred CchhhceeEEEEEccCCeEEEEEeCC-Cccc
Confidence 3567788999999 799999766544 4454
No 152
>PF05989 Chordopox_A35R: Chordopoxvirus A35R protein; InterPro: IPR009247 This family consists of several Chordopoxvirus sequences homologous to the Vaccinia virus A35R protein. The function of this family is unknown.
Probab=28.94 E-value=45 Score=21.89 Aligned_cols=21 Identities=14% Similarity=0.115 Sum_probs=17.2
Q ss_pred EEEEEEEEecCccceEecceE
Q psy11512 26 NVTGILRGFDPFMNLVLDEGV 46 (62)
Q Consensus 26 ~~~G~L~~~D~~mNlvL~~~~ 46 (62)
.-.|.+.+||.+.++.+++-.
T Consensus 92 s~n~~iiccD~~~~l~i~~k~ 112 (176)
T PF05989_consen 92 SKNSFIICCDKDPKLSIDNKF 112 (176)
T ss_pred cCCcEEEEecCcceEEECCCc
Confidence 345778999999999998754
No 153
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=28.87 E-value=1.2e+02 Score=17.77 Aligned_cols=37 Identities=14% Similarity=0.187 Sum_probs=25.1
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEec--CccceEecceE
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFD--PFMNLVLDEGV 46 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D--~~mNlvL~~~~ 46 (62)
..+-+...+|+|.||.++.+.+.|== .+.-+..-|.+
T Consensus 15 e~Lp~~~frV~LenG~~vla~isGKmR~~rIrIl~GD~V 53 (87)
T PRK12442 15 EVLPDSRFRVTLENGVEVGAYASGRMRKHRIRILAGDRV 53 (87)
T ss_pred EECCCCEEEEEeCCCCEEEEEeccceeeeeEEecCCCEE
Confidence 34557789999999998888877643 23445555544
No 154
>PF01887 SAM_adeno_trans: S-adenosyl-l-methionine hydroxide adenosyltransferase; InterPro: IPR002747 The S-adenosyl-L-methionine (SAM) hydroxide adenosyltransferase family groups several fluorinase and chlorinase enzymes whose common feature is that they mediate nucleophilic reactions of their respective halide ions to the C-5' carbon of SAM []. These enzymes utilise a rigorously conserved amino acid side chain triad (Asp-Arg-His) which may have a role in activating water to hydroxide ion. Structural studies indicate that the protein is a homotrimer, with each monomer being composed of N- and C-terminal domains [, ]. The N-terminal domain has a central seven-stranded beta-sheet, which combines parallel and antiparallel strands sandwiched between alpha helices. The C-terminal domain forms a beta-barrel with a greek-key topology. SAM is bound at the interface between the C-terminal domain of one monomer and the N-terminal domain of the neighbouring monomer, with a total of three molecules bound by the trimer.; PDB: 2CW5_C 1WU8_C 2WR8_A 2Q6O_B 2Q6L_A 2Q6K_A 2Q6I_A 2V7T_B 2C4U_F 1RQP_C ....
Probab=28.87 E-value=90 Score=21.20 Aligned_cols=19 Identities=26% Similarity=0.349 Sum_probs=17.2
Q ss_pred EEEEEEEEecCccceEecc
Q psy11512 26 NVTGILRGFDPFMNLVLDE 44 (62)
Q Consensus 26 ~~~G~L~~~D~~mNlvL~~ 44 (62)
.+.|.+.-+|.|-|+++.=
T Consensus 169 ~i~g~Vi~iD~FGNlitnI 187 (258)
T PF01887_consen 169 GIRGEVIYIDHFGNLITNI 187 (258)
T ss_dssp EEEEEEEEEETTSEEEEEE
T ss_pred eEEEEEEEECccCCeeeCC
Confidence 8999999999999998753
No 155
>PRK12786 flgA flagellar basal body P-ring biosynthesis protein FlgA; Reviewed
Probab=27.21 E-value=95 Score=21.96 Aligned_cols=25 Identities=28% Similarity=0.343 Sum_probs=20.9
Q ss_pred HhcCCCEEEEE-ECCCeEEEEEEEEe
Q psy11512 10 KKFMDKKVTLK-LNANRNVTGILRGF 34 (62)
Q Consensus 10 ~~~l~k~V~V~-l~~g~~~~G~L~~~ 34 (62)
...+|..|+|+ +.+|+.+.|+..+=
T Consensus 285 ~G~~Gd~IrV~N~~S~kiv~g~V~g~ 310 (338)
T PRK12786 285 DGAEGDVVRVLNLQSKRTVTGTVTGR 310 (338)
T ss_pred ccCCCCEEEEEECCCCCEEEEEEecC
Confidence 45688999997 89999999998763
No 156
>PF11256 DUF3055: Protein of unknown function (DUF3055); InterPro: IPR021415 This family of proteins with unknown function appear to be restricted to Firmicutes.
Probab=26.25 E-value=67 Score=18.55 Aligned_cols=17 Identities=24% Similarity=0.434 Sum_probs=15.3
Q ss_pred HhcCCCEEEEEECCCeE
Q psy11512 10 KKFMDKKVTLKLNANRN 26 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~ 26 (62)
..+.||++.+.+++||.
T Consensus 30 ~rF~GK~LV~~mQtgr~ 46 (81)
T PF11256_consen 30 NRFYGKPLVLCMQTGRF 46 (81)
T ss_pred ccccCceEEEEecCCce
Confidence 67899999999999986
No 157
>COG0048 RpsL Ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=26.17 E-value=75 Score=19.88 Aligned_cols=24 Identities=21% Similarity=0.364 Sum_probs=19.6
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEE
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~ 33 (62)
++.+-|.++|.|.||+++...+-|
T Consensus 52 NSAlRK~~RVrL~NG~~VtAyiPg 75 (129)
T COG0048 52 NSALRKVARVRLINGKEVTAYIPG 75 (129)
T ss_pred ChhhheeEEEEeeCCcEEEEEcCC
Confidence 567788999999999999877533
No 158
>PRK06009 flgD flagellar basal body rod modification protein; Reviewed
Probab=25.91 E-value=1.8e+02 Score=18.31 Aligned_cols=25 Identities=16% Similarity=0.392 Sum_probs=19.4
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEecC
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFDP 36 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D~ 36 (62)
-..++||.|.+ .+| .+.|+..++.-
T Consensus 92 a~slIGk~V~~--~~~-~~~G~V~sV~~ 116 (140)
T PRK06009 92 AEGLIGRTVTS--ADG-SITGVVKSVTV 116 (140)
T ss_pred HHHhcCCEEEe--cCC-cEEEEEEEEEE
Confidence 35789999975 555 68999999863
No 159
>PRK05163 rpsL 30S ribosomal protein S12; Validated
Probab=25.74 E-value=77 Score=19.69 Aligned_cols=27 Identities=19% Similarity=0.217 Sum_probs=22.2
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEec
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D 35 (62)
-++.+-|.++|.|++|+++...+=|..
T Consensus 45 PNSA~RKvarVrL~ngk~v~AyIPGeG 71 (124)
T PRK05163 45 PNSALRKVARVRLTNGFEVTAYIPGEG 71 (124)
T ss_pred CCchhheEEEEEeCCCCEEEEEcCCCC
Confidence 356778889999999999988876665
No 160
>COG1261 FlgA Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=25.66 E-value=88 Score=21.01 Aligned_cols=24 Identities=13% Similarity=0.296 Sum_probs=20.6
Q ss_pred HhcCCCEEEEEECC-CeEEEEEEEE
Q psy11512 10 KKFMDKKVTLKLNA-NRNVTGILRG 33 (62)
Q Consensus 10 ~~~l~k~V~V~l~~-g~~~~G~L~~ 33 (62)
+.+.|..|+|+-.+ |+.+.|+..+
T Consensus 188 nga~Ge~IrVrn~~SgkIvsg~V~~ 212 (220)
T COG1261 188 NGAVGEVIRVRNVSSGKIVSGTVDG 212 (220)
T ss_pred CccccceEEEecCCCCceEEEEEcc
Confidence 56789999999888 9999999754
No 161
>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=25.08 E-value=81 Score=18.66 Aligned_cols=21 Identities=19% Similarity=0.240 Sum_probs=16.1
Q ss_pred cCCCEEEEEE--CCCeEEEEEEE
Q psy11512 12 FMDKKVTLKL--NANRNVTGILR 32 (62)
Q Consensus 12 ~l~k~V~V~l--~~g~~~~G~L~ 32 (62)
.-|+.++|.| ..+..++|.|.
T Consensus 31 ~pg~~~~Vtl~~~~~~~F~GFll 53 (132)
T PF02014_consen 31 EPGQTYTVTLSSSGSSSFRGFLL 53 (132)
T ss_dssp -TTBEEEEEEEETTTEEBSEEEE
T ss_pred cCCCEEEEEEECCCCCceeEEEE
Confidence 3577888888 77888888875
No 162
>TIGR00999 8a0102 Membrane Fusion Protein cluster 2 (function with RND porters).
Probab=25.07 E-value=1.9e+02 Score=18.45 Aligned_cols=27 Identities=19% Similarity=0.228 Sum_probs=22.2
Q ss_pred CCCEEEEEECCCeEEEEEEEEecCccc
Q psy11512 13 MDKKVTLKLNANRNVTGILRGFDPFMN 39 (62)
Q Consensus 13 l~k~V~V~l~~g~~~~G~L~~~D~~mN 39 (62)
.|.++.|.+.+|..+.|++..++...+
T Consensus 141 ~g~~v~i~~~~~~~~~g~v~~I~~~~~ 167 (265)
T TIGR00999 141 KGSKATVLLENGRPLPARVDYVGPEVD 167 (265)
T ss_pred CCCEEEEEECCCCEEEEEEEEEccccC
Confidence 567889998888999999998886543
No 163
>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=25.06 E-value=1.6e+02 Score=17.65 Aligned_cols=23 Identities=17% Similarity=0.294 Sum_probs=20.7
Q ss_pred hHHhcCCCEEEEEECCCeEEEEE
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGI 30 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~ 30 (62)
+|...-+-.|..++.+|+.|.+.
T Consensus 68 ~i~~~~~~tvt~e~~nG~~y~l~ 90 (119)
T PF10618_consen 68 DINDITDATVTFELDNGKVYVLS 90 (119)
T ss_pred HHhCCcccEEEEEecCCcEEEec
Confidence 48889999999999999999876
No 164
>PRK04337 50S ribosomal protein L35Ae; Validated
Probab=25.01 E-value=1.5e+02 Score=17.24 Aligned_cols=28 Identities=21% Similarity=0.262 Sum_probs=23.4
Q ss_pred hHHhcCCCEEEEEECCCeEEEEEEEEec
Q psy11512 8 ELKKFMDKKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g~~~~G~L~~~D 35 (62)
+-..|+||+|--.-+.|+.+-|++.---
T Consensus 34 ~a~fylGKrv~yvyk~grviwGKItR~H 61 (87)
T PRK04337 34 EAAKLIGRKVIWKDPTGNKYVGKIVRVH 61 (87)
T ss_pred HHHhhcCceEEEEeCCCCEEEEEEEeee
Confidence 4578999999999999999999986543
No 165
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=24.68 E-value=1e+02 Score=22.07 Aligned_cols=24 Identities=13% Similarity=0.416 Sum_probs=21.2
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEE
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILR 32 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~ 32 (62)
-.-+.+++|+|...+|+.+.|++-
T Consensus 92 ~~~~~gq~v~i~t~~g~~i~GvIg 115 (355)
T COG1363 92 PQVLEGQRVTIHTDKGKKIRGVIG 115 (355)
T ss_pred hhhccCcEEEEEeCCCcEEeeeEc
Confidence 356789999999999999999986
No 166
>COG4568 Rof Transcriptional antiterminator [Transcription]
Probab=24.07 E-value=1.3e+02 Score=17.46 Aligned_cols=23 Identities=17% Similarity=0.158 Sum_probs=17.4
Q ss_pred HHhcCCCEEEEEECCCeEEEEEE
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGIL 31 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L 31 (62)
|.=.-.-++..+++||..+.|+-
T Consensus 18 lACl~hl~l~L~lkdGev~~a~A 40 (84)
T COG4568 18 LACLHHLPLTLELKDGEVLQAKA 40 (84)
T ss_pred HHHhhhceEEEEEcCCeEEEEEe
Confidence 33344557889999999999973
No 167
>COG1588 POP4 RNase P/RNase MRP subunit p29 [Translation, ribosomal structure and biogenesis]
Probab=23.70 E-value=96 Score=18.42 Aligned_cols=34 Identities=21% Similarity=0.256 Sum_probs=25.4
Q ss_pred hhHHhcCCCEEEEEECCCeEEEEEEEE--ecCccceE
Q psy11512 7 PELKKFMDKKVTLKLNANRNVTGILRG--FDPFMNLV 41 (62)
Q Consensus 7 ~~L~~~l~k~V~V~l~~g~~~~G~L~~--~D~~mNlv 41 (62)
+....++|..|+|.=..++.+.|. .| .|+-.|..
T Consensus 10 i~~hEliGl~vrVv~s~~~s~vGI-~G~VVdETkNtL 45 (95)
T COG1588 10 IIRHELIGLEVRVVRSTNPSYVGI-EGRVVDETKNTL 45 (95)
T ss_pred cChHHhcCcEEEEEecCCCCccce-eEEEEeeeccEE
Confidence 346999999999999888888775 33 45666643
No 168
>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=23.68 E-value=55 Score=19.92 Aligned_cols=24 Identities=13% Similarity=0.239 Sum_probs=19.2
Q ss_pred hHHhcCCCEEEEEECCC-eEEEEEE
Q psy11512 8 ELKKFMDKKVTLKLNAN-RNVTGIL 31 (62)
Q Consensus 8 ~L~~~l~k~V~V~l~~g-~~~~G~L 31 (62)
.+..+++|+++|.++.. .++.|.-
T Consensus 97 ~~~~l~gk~l~V~v~~~~~e~nGk~ 121 (141)
T PF05037_consen 97 FLNQLLGKPLRVTVKWEENEYNGKT 121 (141)
T ss_pred HHHHHcCCeeEEEecccccCCCCcE
Confidence 36889999999999876 6777754
No 169
>TIGR00981 rpsL_bact ribosomal protein S12, bacterial/organelle. This model recognizes ribosomal protein S12 of Bacteria, mitochondria, and chloroplasts. The homologous ribosomal proteins of Archaea and Eukarya, termed S23 in Eukarya and S12 or S23 in Archaea, score below the trusted cutoff.
Probab=23.63 E-value=92 Score=19.37 Aligned_cols=27 Identities=19% Similarity=0.217 Sum_probs=21.9
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEec
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D 35 (62)
-++.+-|.++|.|++|+.+...+=|.-
T Consensus 45 PNSA~RKvarVrL~ngk~v~AyIPG~G 71 (124)
T TIGR00981 45 PNSALRKVARVRLTNGFEVTAYIPGEG 71 (124)
T ss_pred CCchhheeEEEEeCCCCEEEEEcCCCC
Confidence 356778889999999999988776655
No 170
>PF05589 DUF768: Protein of unknown function (DUF768); InterPro: IPR008486 This family consists of several uncharacterised hypothetical proteins from Rhizobium loti (Mesorhizobium loti).
Probab=23.54 E-value=18 Score=19.92 Aligned_cols=21 Identities=19% Similarity=0.124 Sum_probs=16.5
Q ss_pred CCCCCchhHHhcCCCEEEEEE
Q psy11512 1 MSKSHPPELKKFMDKKVTLKL 21 (62)
Q Consensus 1 m~~~~~~~L~~~l~k~V~V~l 21 (62)
||++...||.+++...|.=..
T Consensus 1 MS~r~~~Fl~~WI~e~V~~~~ 21 (64)
T PF05589_consen 1 MSTRGIEFLDSWIAENVPDTP 21 (64)
T ss_pred CcchHHHHHHHHHHhcCCCcc
Confidence 889888899999888774433
No 171
>cd00319 Ribosomal_S12_like Ribosomal protein S12-like family; composed of prokaryotic 30S ribosomal protein S12, eukaryotic 40S ribosomal protein S23 and similar proteins. S12 and S23 are located at the interface of the large and small ribosomal subunits, adjacent to the decoding center. They play an important role in translocation during the peptide elongation step of protein synthesis. They are also involved in important RNA and protein interactions. Ribosomal protein S12 is essential for maintenance of a pretranslocation state and, together with S13, functions as a control element for the rRNA- and tRNA-driven movements of translocation. S23 interacts with domain III of the eukaryotic elongation factor 2 (eEF2), which catalyzes translocation. Mutations in S12 and S23 have been found to affect translational accuracy. Antibiotics such as streptomycin may also bind S12/S23 and cause the ribosome to misread the genetic code.
Probab=23.37 E-value=92 Score=18.48 Aligned_cols=27 Identities=19% Similarity=0.255 Sum_probs=21.1
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEec
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D 35 (62)
=++.+-|.++|.|.+|+++...+=|..
T Consensus 30 PNSA~RK~arV~L~ngk~v~ayIPg~G 56 (95)
T cd00319 30 PNSALRKVAKVRLTSGYEVTAYIPGEG 56 (95)
T ss_pred CChhhceEEEEEccCCCEEEEECCCCC
Confidence 356778889999999999977665544
No 172
>KOG3535|consensus
Probab=23.22 E-value=52 Score=24.84 Aligned_cols=15 Identities=20% Similarity=0.224 Sum_probs=13.2
Q ss_pred CCCeEEEEEEEEecC
Q psy11512 22 NANRNVTGILRGFDP 36 (62)
Q Consensus 22 ~~g~~~~G~L~~~D~ 36 (62)
.+|..|+++|+|+|+
T Consensus 46 g~GV~YKaKLIGidd 60 (557)
T KOG3535|consen 46 GNGVSYKAKLIGIDD 60 (557)
T ss_pred CCCeeeeeeeccccc
Confidence 368999999999995
No 173
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=22.86 E-value=1.3e+02 Score=15.85 Aligned_cols=23 Identities=4% Similarity=0.049 Sum_probs=17.9
Q ss_pred cCCCEEEEEECCCeEEEEEEEEe
Q psy11512 12 FMDKKVTLKLNANRNVTGILRGF 34 (62)
Q Consensus 12 ~l~k~V~V~l~~g~~~~G~L~~~ 34 (62)
.=+....|++.||.++.+.|.|=
T Consensus 13 lG~~~~~V~~~dg~~~l~~i~gK 35 (65)
T PF01176_consen 13 LGNNLFEVECEDGEERLARIPGK 35 (65)
T ss_dssp ESSSEEEEEETTSEEEEEEE-HH
T ss_pred CCCCEEEEEeCCCCEEEEEeccc
Confidence 34567889999999999998775
No 174
>cd08544 Reeler Reeler, the N-terminal domain of reelin, F-spondin, and a variety of other proteins. This domain is found at the N-terminus of F-spondin, a protein attached to the extracellular matrix, which plays roles in neuronal development and vascular remodelling. The F-spondin reeler domain has been reported to bind heparin. The reeler domain is also found at the N-terminus of reelin, an extracellular glycoprotein involved in the development of the brain cortex, and in a variety of other eukaryotic proteins with different domain architectures, including the animal ferric-chelate reductase 1 or stromal cell-derived receptor 2, a member of the cytochrome B561 family, which reduces ferric iron before its transport from the endosome to the cytoplasm. Also included is the insect putative defense protein 1, which is expressed upon bacterial infection and appears to contain a single reeler domain.
Probab=22.81 E-value=1.3e+02 Score=17.77 Aligned_cols=23 Identities=17% Similarity=0.199 Sum_probs=16.6
Q ss_pred cCCCEEEEEECCCe--EEEEEEEEe
Q psy11512 12 FMDKKVTLKLNANR--NVTGILRGF 34 (62)
Q Consensus 12 ~l~k~V~V~l~~g~--~~~G~L~~~ 34 (62)
.-|..+.|.|+... .++|.|.-.
T Consensus 31 ~pG~~~~Vtl~~~~~~~F~GF~lqA 55 (135)
T cd08544 31 VPGETYTVTLSGSSPSPFRGFLLQA 55 (135)
T ss_pred CCCCEEEEEEECCCCCceeEEEEEE
Confidence 35778888887775 888877543
No 175
>PF01052 SpoA: Surface presentation of antigens (SPOA); InterPro: IPR001543 Proteins in this group are involved in a secretory pathway responsible for the surface presentation of invasion plasmid antigen needed for the entry of Salmonella and other species into mammalian cells [, ].They could play a role in preserving the translocation competence of the IPA antigens and are required for secretion of the three IPA proteins []. The C-terminal region of flagellar motor switch proteins FliN and FliM is also included in this entry. ; PDB: 3UEP_A 1O9Y_B 1YAB_A.
Probab=22.42 E-value=1.4e+02 Score=15.85 Aligned_cols=36 Identities=25% Similarity=0.313 Sum_probs=29.0
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecc
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDE 44 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~ 44 (62)
|....+..+.+.+.+-..+.|.+.-++..+=+.+.+
T Consensus 37 l~~~~~~~v~l~v~g~~~~~g~lg~~~~~~av~I~~ 72 (77)
T PF01052_consen 37 LDKPADEPVELRVNGQPIFRGELGRVNGRLAVRITE 72 (77)
T ss_dssp ECCESSTEEEEEETTEEEEEEEEEEETTEEEEEEEE
T ss_pred eCCCCCCCEEEEECCEEEEEEEEEEECCEEEEEEEE
Confidence 455677899999988899999999999877666554
No 176
>PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function []. However, it seems likely that these proteins act as aspartic peptidases.
Probab=22.30 E-value=58 Score=19.92 Aligned_cols=38 Identities=18% Similarity=0.231 Sum_probs=24.4
Q ss_pred CeEEEEEEEEecCccceEecceEEEecCC---ceeeeeEee
Q psy11512 24 NRNVTGILRGFDPFMNLVLDEGVEYRKDN---TVHNIGMVE 61 (62)
Q Consensus 24 g~~~~G~L~~~D~~mNlvL~~~~e~~~~~---~~~~lG~v~ 61 (62)
...=...|.|.|-|..++.........++ ....+|+|+
T Consensus 112 ~~~~iDiLIG~D~~~~ll~~~~i~~~~~~~~a~~T~~GWii 152 (164)
T PF05585_consen 112 ESSPIDILIGADYFWQLLTGGQIKRLPGGPTAQETKFGWII 152 (164)
T ss_pred CCCCCeEEEccchHHHHhCCceEecCCCCCEEEeCCeEeEE
Confidence 34446789999988877755544333333 356788886
No 177
>PRK09961 exoaminopeptidase; Provisional
Probab=21.88 E-value=1.3e+02 Score=20.94 Aligned_cols=23 Identities=13% Similarity=0.196 Sum_probs=19.8
Q ss_pred HhcCCCEEEEEECCCeEEEEEEE
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILR 32 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~ 32 (62)
+.+.+++|+|..++|..+.|++.
T Consensus 90 ~~~~~~~v~i~~~~g~~i~Gvi~ 112 (344)
T PRK09961 90 AARQLQPVRITTREECKIPGLLN 112 (344)
T ss_pred cccCCCEEEEEeCCCCEeeEEEC
Confidence 56788999999999988999984
No 178
>CHL00051 rps12 ribosomal protein S12
Probab=21.15 E-value=1e+02 Score=19.14 Aligned_cols=36 Identities=19% Similarity=0.256 Sum_probs=26.9
Q ss_pred HHhcCCCEEEEEECCCeEEEEEEEEecCccceEecceE
Q psy11512 9 LKKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLDEGV 46 (62)
Q Consensus 9 L~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~~~~ 46 (62)
-++.+-|.++|.|++|+++...+=|.- | ||.=.+.+
T Consensus 45 PNSA~RKvarVrLsngk~v~AyIPGeG-h-nlqehs~V 80 (123)
T CHL00051 45 PNSALRKVARVRLTSGFEITAYIPGIG-H-NLQEHSVV 80 (123)
T ss_pred CChhheeEEEEEccCCCEEEEEcCCCC-c-cccccCEE
Confidence 356778889999999999998876655 4 66554544
No 179
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=20.37 E-value=1.2e+02 Score=16.69 Aligned_cols=21 Identities=5% Similarity=0.233 Sum_probs=16.9
Q ss_pred CEEEEEECCCeEEEEEEEEec
Q psy11512 15 KKVTLKLNANRNVTGILRGFD 35 (62)
Q Consensus 15 k~V~V~l~~g~~~~G~L~~~D 35 (62)
.+|.|.+-||..+..++-.-|
T Consensus 5 t~iqiRlpdG~r~~~rF~~~~ 25 (79)
T cd01770 5 TSIQIRLADGKRLVQKFNSSH 25 (79)
T ss_pred eEEEEECCCCCEEEEEeCCCC
Confidence 578899999999998875444
No 180
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=20.11 E-value=1.8e+02 Score=16.38 Aligned_cols=34 Identities=6% Similarity=0.042 Sum_probs=26.4
Q ss_pred HhcCCCEEEEEECCCeEEEEEEEEecCccceEec
Q psy11512 10 KKFMDKKVTLKLNANRNVTGILRGFDPFMNLVLD 43 (62)
Q Consensus 10 ~~~l~k~V~V~l~~g~~~~G~L~~~D~~mNlvL~ 43 (62)
.-+-+..++|.+.||....+.+.|=-.-.++.+.
T Consensus 15 e~L~~~~f~v~~edg~~~~ahI~GKmr~~~i~I~ 48 (75)
T COG0361 15 EMLPNGRFRVELENGHERLAHISGKMRKNRIRIL 48 (75)
T ss_pred EecCCCEEEEEecCCcEEEEEccCcchheeEEeC
Confidence 3455778999999999999999998865555543
No 181
>TIGR02330 prpD 2-methylcitrate dehydratase. Members of this family are bacterial proteins known or predicted to act as 2-methylcitrate dehydratase, an enzyme involved in the methylcitrate cycle of propionate catabolism. A related clade of archaeal proteins that may or may not be functionally equivalent is reserved for a future model and is excluded from this family. The PrpD enzyme of E. coli is responsible for the minor aconitase activity (AcnC) not accounted for by AcnA and AcnB.
Probab=20.02 E-value=1.3e+02 Score=22.08 Aligned_cols=16 Identities=6% Similarity=0.088 Sum_probs=13.6
Q ss_pred CCEEEEEECCCeEEEE
Q psy11512 14 DKKVTLKLNANRNVTG 29 (62)
Q Consensus 14 ~k~V~V~l~~g~~~~G 29 (62)
..+|.|+++||+.++.
T Consensus 389 ~~~V~I~lkDG~~~~~ 404 (468)
T TIGR02330 389 ANAVQVFFKDGTRTEE 404 (468)
T ss_pred CceEEEEEcCCCEEEE
Confidence 3489999999999983
Done!