Query 038287
Match_columns 91
No_of_seqs 111 out of 1242
Neff 10.8
Searched_HMMs 46136
Date Fri Mar 29 09:28:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038287.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038287hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03218 maturation of RBCL 1; 99.9 2E-21 4.3E-26 130.4 9.6 89 2-91 464-552 (1060)
2 PLN03218 maturation of RBCL 1; 99.9 4.2E-21 9.1E-26 128.9 9.6 89 2-91 676-764 (1060)
3 PLN03081 pentatricopeptide (PP 99.8 5.7E-21 1.2E-25 124.5 6.1 82 8-90 389-471 (697)
4 PLN03077 Protein ECB2; Provisi 99.8 1.3E-19 2.8E-24 120.2 8.5 87 4-91 548-635 (857)
5 PLN03081 pentatricopeptide (PP 99.8 1.1E-19 2.4E-24 118.5 7.7 83 8-91 288-370 (697)
6 PF13041 PPR_2: PPR repeat fam 99.8 3.7E-19 8.1E-24 81.0 6.4 50 8-58 1-50 (50)
7 PLN03077 Protein ECB2; Provisi 99.8 4E-19 8.7E-24 117.9 8.5 87 4-91 246-333 (857)
8 PF13041 PPR_2: PPR repeat fam 99.8 4.3E-19 9.3E-24 80.8 5.3 48 44-91 1-48 (50)
9 PF12854 PPR_1: PPR repeat 99.5 4.6E-14 9.9E-19 59.2 4.0 32 5-36 2-33 (34)
10 PF12854 PPR_1: PPR repeat 99.4 3.8E-13 8.3E-18 56.3 4.0 33 41-73 2-34 (34)
11 TIGR00756 PPR pentatricopeptid 99.2 5.6E-11 1.2E-15 49.6 4.0 33 48-80 2-34 (35)
12 PF13812 PPR_3: Pentatricopept 99.1 1.3E-10 2.8E-15 48.3 4.1 33 47-79 2-34 (34)
13 TIGR00756 PPR pentatricopeptid 99.1 1.6E-10 3.5E-15 48.1 3.6 35 11-46 1-35 (35)
14 KOG4422 Uncharacterized conser 99.1 1E-09 2.2E-14 68.6 7.2 87 3-89 200-320 (625)
15 PF13812 PPR_3: Pentatricopept 99.0 8E-10 1.7E-14 45.9 4.4 33 11-44 2-34 (34)
16 PF01535 PPR: PPR repeat; Int 99.0 8.8E-10 1.9E-14 44.8 3.5 29 48-76 2-30 (31)
17 PF08579 RPM2: Mitochondrial r 99.0 1.5E-08 3.2E-13 52.8 8.6 78 12-90 27-113 (120)
18 PF01535 PPR: PPR repeat; Int 98.9 2.8E-09 6E-14 43.2 3.0 29 11-39 1-29 (31)
19 PF06239 ECSIT: Evolutionarily 98.8 1.5E-07 3.2E-12 54.3 8.2 83 8-91 45-148 (228)
20 PF10037 MRP-S27: Mitochondria 98.5 7.5E-07 1.6E-11 56.2 7.4 79 11-90 104-182 (429)
21 PF12921 ATP13: Mitochondrial 98.3 4E-05 8.7E-10 41.1 9.8 81 9-89 1-96 (126)
22 KOG4422 Uncharacterized conser 98.3 3.7E-06 8E-11 53.2 5.6 72 1-73 264-340 (625)
23 PRK11788 tetratricopeptide rep 98.2 3.7E-05 8E-10 47.6 9.2 74 11-89 250-323 (389)
24 PRK11788 tetratricopeptide rep 98.0 4.1E-05 8.8E-10 47.4 6.8 72 7-81 279-353 (389)
25 PF03704 BTAD: Bacterial trans 97.9 0.00033 7.3E-09 38.0 8.5 71 12-85 64-140 (146)
26 PF08579 RPM2: Mitochondrial r 97.9 0.00021 4.5E-09 37.6 6.7 57 2-59 52-117 (120)
27 KOG3941 Intermediate in Toll s 97.9 0.00028 6.1E-09 42.9 8.1 83 8-91 65-168 (406)
28 PF14559 TPR_19: Tetratricopep 97.8 0.00021 4.6E-09 33.6 6.1 62 21-87 2-64 (68)
29 PF06239 ECSIT: Evolutionarily 97.8 0.00019 4.2E-09 41.8 6.4 58 4-62 81-154 (228)
30 PF10037 MRP-S27: Mitochondria 97.8 0.0002 4.3E-09 45.6 6.7 86 6-91 62-148 (429)
31 KOG4318 Bicoid mRNA stability 97.8 1.3E-05 2.9E-10 54.3 1.6 60 4-64 19-101 (1088)
32 PF12921 ATP13: Mitochondrial 97.5 0.0016 3.4E-08 35.0 6.8 57 5-61 47-103 (126)
33 PF13432 TPR_16: Tetratricopep 97.4 0.0024 5.2E-08 29.8 6.6 55 17-74 4-59 (65)
34 KOG4318 Bicoid mRNA stability 97.4 0.0011 2.5E-08 45.5 7.1 78 7-88 201-278 (1088)
35 TIGR02917 PEP_TPR_lipo putativ 97.2 0.005 1.1E-07 41.4 8.5 76 8-88 802-878 (899)
36 TIGR02917 PEP_TPR_lipo putativ 97.2 0.011 2.4E-07 39.8 9.6 59 13-73 570-628 (899)
37 PF13414 TPR_11: TPR repeat; P 97.1 0.0072 1.6E-07 28.4 7.4 63 9-74 2-66 (69)
38 COG3629 DnrI DNA-binding trans 96.9 0.035 7.6E-07 33.8 9.4 74 11-87 154-233 (280)
39 PF13424 TPR_12: Tetratricopep 96.9 0.013 2.7E-07 28.3 6.4 63 11-73 6-73 (78)
40 PF12895 Apc3: Anaphase-promot 96.8 0.008 1.7E-07 29.5 5.3 58 11-71 26-83 (84)
41 PF13762 MNE1: Mitochondrial s 96.8 0.028 6.2E-07 30.9 7.9 87 5-91 32-125 (145)
42 PF13371 TPR_9: Tetratricopept 96.8 0.015 3.2E-07 27.6 6.3 55 18-75 3-58 (73)
43 PRK15359 type III secretion sy 96.8 0.03 6.5E-07 30.5 8.8 62 10-74 58-120 (144)
44 PLN03098 LPA1 LOW PSII ACCUMUL 96.7 0.039 8.4E-07 35.7 8.7 64 9-75 74-141 (453)
45 PF13429 TPR_15: Tetratricopep 96.6 0.016 3.5E-07 34.7 6.5 68 8-75 108-175 (280)
46 PF13429 TPR_15: Tetratricopep 96.4 0.015 3.2E-07 34.9 5.3 64 8-74 144-208 (280)
47 PRK10747 putative protoheme IX 96.4 0.077 1.7E-06 33.7 8.6 60 10-72 328-387 (398)
48 TIGR02552 LcrH_SycD type III s 96.2 0.071 1.5E-06 28.2 8.1 59 13-74 20-79 (135)
49 cd00189 TPR Tetratricopeptide 96.2 0.046 1E-06 25.9 7.0 58 14-74 4-62 (100)
50 COG3071 HemY Uncharacterized e 96.2 0.096 2.1E-06 33.3 7.9 68 9-79 327-394 (400)
51 KOG4570 Uncharacterized conser 96.0 0.026 5.6E-07 35.2 5.0 49 26-75 116-164 (418)
52 KOG2003 TPR repeat-containing 96.0 0.15 3.2E-06 33.6 8.5 79 8-90 624-703 (840)
53 cd00189 TPR Tetratricopeptide 95.9 0.064 1.4E-06 25.4 7.2 64 9-74 33-96 (100)
54 TIGR02795 tol_pal_ybgF tol-pal 95.9 0.093 2E-06 26.8 8.2 64 12-75 41-105 (119)
55 TIGR02521 type_IV_pilW type IV 95.9 0.14 3.1E-06 28.9 9.4 18 18-35 73-90 (234)
56 PLN03088 SGT1, suppressor of 95.8 0.25 5.4E-06 31.1 9.3 64 9-75 35-99 (356)
57 PRK15359 type III secretion sy 95.7 0.14 3E-06 27.9 9.3 61 12-75 26-87 (144)
58 TIGR02521 type_IV_pilW type IV 95.7 0.16 3.6E-06 28.6 9.2 60 13-75 138-198 (234)
59 PRK11189 lipoprotein NlpI; Pro 95.6 0.26 5.7E-06 30.1 9.1 63 9-74 97-160 (296)
60 KOG3941 Intermediate in Toll s 95.6 0.037 8E-07 34.1 4.3 59 3-62 100-174 (406)
61 PRK12370 invasion protein regu 95.5 0.41 9E-06 31.8 9.9 61 11-74 339-400 (553)
62 PRK10153 DNA-binding transcrip 95.5 0.42 9E-06 31.7 10.0 69 9-80 419-488 (517)
63 PF05843 Suf: Suppressor of fo 95.5 0.14 2.9E-06 31.1 6.7 50 24-75 50-99 (280)
64 TIGR00540 hemY_coli hemY prote 95.5 0.28 6E-06 31.3 8.3 60 12-72 337-396 (409)
65 PF09295 ChAPs: ChAPs (Chs5p-A 95.4 0.25 5.4E-06 31.7 7.9 62 9-73 233-295 (395)
66 PF12895 Apc3: Anaphase-promot 95.4 0.068 1.5E-06 26.2 4.4 49 23-71 2-50 (84)
67 TIGR02795 tol_pal_ybgF tol-pal 95.4 0.15 3.3E-06 26.0 8.2 61 12-75 4-68 (119)
68 PRK15174 Vi polysaccharide exp 95.4 0.42 9.1E-06 32.5 9.2 63 9-74 283-346 (656)
69 PF14559 TPR_19: Tetratricopep 95.4 0.11 2.3E-06 24.1 5.0 42 9-53 24-65 (68)
70 PRK15174 Vi polysaccharide exp 95.3 0.49 1.1E-05 32.2 9.3 25 12-36 146-170 (656)
71 TIGR02552 LcrH_SycD type III s 95.3 0.19 4.2E-06 26.5 8.5 65 9-75 50-114 (135)
72 PF13176 TPR_7: Tetratricopept 95.2 0.069 1.5E-06 21.9 3.5 23 13-35 2-24 (36)
73 PF13428 TPR_14: Tetratricopep 95.2 0.098 2.1E-06 22.4 4.2 28 12-39 3-30 (44)
74 COG4783 Putative Zn-dependent 95.1 0.56 1.2E-05 30.8 9.0 78 9-90 339-417 (484)
75 PRK02603 photosystem I assembl 95.1 0.29 6.3E-06 27.3 8.6 65 10-75 35-101 (172)
76 PRK10747 putative protoheme IX 95.0 0.42 9.1E-06 30.4 8.1 59 17-78 160-219 (398)
77 PF03704 BTAD: Bacterial trans 95.0 0.087 1.9E-06 28.5 4.5 41 9-49 95-139 (146)
78 COG2956 Predicted N-acetylgluc 95.0 0.28 6.1E-06 30.8 6.9 62 18-80 222-283 (389)
79 PF13176 TPR_7: Tetratricopept 95.0 0.087 1.9E-06 21.6 3.5 26 48-73 1-26 (36)
80 PF04733 Coatomer_E: Coatomer 94.9 0.48 1E-05 29.1 8.1 49 23-73 180-228 (290)
81 TIGR00990 3a0801s09 mitochondr 94.6 0.88 1.9E-05 30.6 9.6 57 13-72 402-459 (615)
82 KOG3081 Vesicle coat complex C 94.5 0.6 1.3E-05 28.6 7.3 64 10-75 169-236 (299)
83 KOG1173 Anaphase-promoting com 94.4 0.62 1.3E-05 31.3 7.7 75 11-89 456-530 (611)
84 TIGR00540 hemY_coli hemY prote 94.4 0.65 1.4E-05 29.7 7.8 60 16-78 159-219 (409)
85 PRK14574 hmsH outer membrane p 94.3 0.6 1.3E-05 32.8 7.8 59 15-74 297-355 (822)
86 KOG1155 Anaphase-promoting com 94.3 0.74 1.6E-05 30.4 7.7 63 9-73 431-493 (559)
87 PRK09782 bacteriophage N4 rece 94.2 1 2.2E-05 32.3 9.0 63 8-73 607-670 (987)
88 PRK11447 cellulose synthase su 94.2 1.3 2.8E-05 32.3 9.5 64 9-75 636-700 (1157)
89 PRK12370 invasion protein regu 94.1 1.1 2.4E-05 29.9 9.4 60 11-73 373-433 (553)
90 KOG2003 TPR repeat-containing 94.1 0.86 1.9E-05 30.2 7.8 54 6-61 655-709 (840)
91 PF09205 DUF1955: Domain of un 94.0 0.56 1.2E-05 25.9 7.9 66 11-78 87-152 (161)
92 PRK10370 formate-dependent nit 93.9 0.67 1.4E-05 26.7 8.7 44 27-73 127-171 (198)
93 TIGR00990 3a0801s09 mitochondr 93.9 1.3 2.7E-05 29.9 9.4 64 9-75 432-496 (615)
94 TIGR03302 OM_YfiO outer membra 93.9 0.7 1.5E-05 26.9 8.8 64 9-75 32-99 (235)
95 KOG1129 TPR repeat-containing 93.9 1 2.2E-05 28.7 7.7 65 15-84 228-292 (478)
96 COG5010 TadD Flp pilus assembl 93.8 0.86 1.9E-05 27.6 9.0 66 8-75 98-163 (257)
97 PF02284 COX5A: Cytochrome c o 93.8 0.49 1.1E-05 24.7 5.9 76 11-89 9-87 (108)
98 PF13428 TPR_14: Tetratricopep 93.7 0.25 5.4E-06 21.1 3.9 28 48-75 3-30 (44)
99 PF13374 TPR_10: Tetratricopep 93.6 0.24 5.1E-06 20.4 4.3 26 12-37 4-29 (42)
100 PRK11447 cellulose synthase su 93.6 1.2 2.6E-05 32.4 8.5 64 8-74 601-665 (1157)
101 KOG1155 Anaphase-promoting com 93.5 1.4 3.1E-05 29.2 7.9 66 8-76 396-462 (559)
102 PRK10049 pgaA outer membrane p 93.4 1.7 3.7E-05 30.2 8.8 59 12-74 85-144 (765)
103 KOG2002 TPR-containing nuclear 93.4 0.15 3.2E-06 36.0 3.7 77 9-87 645-722 (1018)
104 cd05804 StaR_like StaR_like; a 93.3 1.2 2.5E-05 27.5 8.3 62 12-73 150-213 (355)
105 CHL00033 ycf3 photosystem I as 93.2 0.8 1.7E-05 25.4 8.6 64 11-75 36-101 (168)
106 PF12569 NARP1: NMDA receptor- 93.1 1.1 2.4E-05 29.9 7.3 64 18-85 12-75 (517)
107 PF13374 TPR_10: Tetratricopep 93.0 0.31 6.7E-06 20.0 4.2 29 46-74 2-30 (42)
108 COG2956 Predicted N-acetylgluc 93.0 0.62 1.4E-05 29.4 5.7 62 16-79 113-174 (389)
109 PF13281 DUF4071: Domain of un 93.0 1.6 3.4E-05 28.0 7.9 78 12-89 143-225 (374)
110 PF04733 Coatomer_E: Coatomer 92.9 1.3 2.9E-05 27.2 7.1 67 5-74 196-264 (290)
111 PF11848 DUF3368: Domain of un 92.8 0.42 9.2E-06 21.1 4.4 34 56-89 12-45 (48)
112 PRK10803 tol-pal system protei 92.8 1.4 2.9E-05 26.8 7.9 61 11-74 144-208 (263)
113 PLN03088 SGT1, suppressor of 92.7 1.6 3.5E-05 27.5 7.4 55 18-75 10-65 (356)
114 PRK09782 bacteriophage N4 rece 92.6 2.8 6E-05 30.3 9.0 51 22-75 588-638 (987)
115 PF11846 DUF3366: Domain of un 92.6 1.1 2.5E-05 25.5 7.2 53 22-74 120-172 (193)
116 PRK15179 Vi polysaccharide bio 92.6 2.3 5.1E-05 29.5 8.4 60 12-74 122-182 (694)
117 KOG1126 DNA-binding cell divis 92.6 0.34 7.3E-06 32.8 4.4 72 9-87 420-492 (638)
118 PF13929 mRNA_stabil: mRNA sta 92.4 1.5 3.2E-05 27.1 6.6 61 8-68 200-260 (292)
119 PRK14574 hmsH outer membrane p 92.3 2.9 6.2E-05 29.7 8.6 66 9-74 326-395 (822)
120 KOG2002 TPR-containing nuclear 92.3 0.92 2E-05 32.3 6.2 77 11-87 681-757 (1018)
121 COG5107 RNA14 Pre-mRNA 3'-end 92.3 0.56 1.2E-05 31.0 5.0 60 11-71 398-457 (660)
122 PRK10370 formate-dependent nit 92.0 1.4 3.1E-05 25.4 8.9 65 8-75 71-139 (198)
123 PRK10049 pgaA outer membrane p 92.0 3 6.6E-05 29.1 9.1 64 9-75 48-112 (765)
124 TIGR03302 OM_YfiO outer membra 91.9 1.5 3.3E-05 25.4 7.9 60 16-75 172-232 (235)
125 PF04840 Vps16_C: Vps16, C-ter 91.7 0.97 2.1E-05 28.2 5.5 57 8-71 206-262 (319)
126 PRK10564 maltose regulon perip 91.7 1.3 2.8E-05 27.6 5.9 36 13-49 260-295 (303)
127 PRK11189 lipoprotein NlpI; Pro 91.6 2 4.4E-05 26.3 8.7 62 11-75 65-127 (296)
128 PF12688 TPR_5: Tetratrico pep 91.6 1.2 2.7E-05 23.7 7.2 54 20-74 11-66 (120)
129 PF02284 COX5A: Cytochrome c o 91.5 1.2 2.6E-05 23.3 6.9 48 5-54 40-87 (108)
130 cd00923 Cyt_c_Oxidase_Va Cytoc 91.5 1.1 2.5E-05 23.1 5.7 75 12-89 7-84 (103)
131 KOG1915 Cell cycle control pro 91.2 3.3 7.1E-05 27.8 7.6 65 7-74 171-235 (677)
132 PF13512 TPR_18: Tetratricopep 90.9 1.7 3.7E-05 24.0 6.8 56 20-75 20-76 (142)
133 PF09976 TPR_21: Tetratricopep 90.8 1.6 3.5E-05 23.6 6.9 63 16-79 54-118 (145)
134 cd05804 StaR_like StaR_like; a 90.4 2.8 6.1E-05 25.8 8.7 61 12-75 116-177 (355)
135 KOG1914 mRNA cleavage and poly 90.3 2.2 4.8E-05 28.9 6.3 41 13-54 369-410 (656)
136 COG4783 Putative Zn-dependent 90.2 3.9 8.4E-05 27.1 7.9 63 8-72 371-434 (484)
137 PF09295 ChAPs: ChAPs (Chs5p-A 90.1 3.7 7.9E-05 26.6 8.3 58 11-73 170-227 (395)
138 PF05843 Suf: Suppressor of fo 90.0 2.9 6.4E-05 25.5 6.7 67 8-74 68-135 (280)
139 PF10602 RPN7: 26S proteasome 90.0 2.3 5E-05 24.2 7.3 63 11-74 37-101 (177)
140 PF13174 TPR_6: Tetratricopept 89.6 0.72 1.6E-05 17.8 2.7 23 17-39 7-29 (33)
141 KOG4567 GTPase-activating prot 89.6 1.3 2.9E-05 27.8 4.7 45 30-75 263-307 (370)
142 KOG2076 RNA polymerase III tra 89.3 4.9 0.00011 28.7 7.5 65 10-75 414-478 (895)
143 PF13762 MNE1: Mitochondrial s 89.2 2.4 5.1E-05 23.5 5.1 50 9-59 78-128 (145)
144 KOG2796 Uncharacterized conser 89.1 3.8 8.3E-05 25.5 7.1 74 13-87 180-253 (366)
145 COG4455 ImpE Protein of avirul 88.8 3.7 7.9E-05 24.8 7.2 73 14-89 5-80 (273)
146 KOG2047 mRNA splicing factor [ 88.7 1.9 4.1E-05 29.9 5.2 47 11-60 249-295 (835)
147 PRK10564 maltose regulon perip 88.7 1.8 3.9E-05 26.9 4.8 48 42-89 252-300 (303)
148 KOG1070 rRNA processing protei 88.4 7 0.00015 29.7 7.9 68 12-81 1602-1669(1710)
149 KOG0553 TPR repeat-containing 88.2 4.5 9.9E-05 25.2 8.2 75 9-88 114-189 (304)
150 COG3629 DnrI DNA-binding trans 88.1 4.5 9.7E-05 25.0 6.3 51 9-59 186-240 (280)
151 COG3898 Uncharacterized membra 88.1 5.6 0.00012 26.1 7.4 70 12-81 190-298 (531)
152 PF00515 TPR_1: Tetratricopept 88.0 1.1 2.3E-05 17.6 4.6 27 12-38 3-29 (34)
153 COG3063 PilF Tfp pilus assembl 87.8 4.3 9.3E-05 24.5 8.0 58 14-74 39-97 (250)
154 KOG3785 Uncharacterized conser 87.7 2.6 5.6E-05 27.3 5.1 55 16-71 399-453 (557)
155 PRK15179 Vi polysaccharide bio 87.4 7.9 0.00017 27.1 8.7 62 10-74 154-216 (694)
156 KOG1128 Uncharacterized conser 87.3 2.2 4.8E-05 29.7 4.9 61 10-73 424-484 (777)
157 KOG4626 O-linked N-acetylgluco 87.3 5 0.00011 28.0 6.5 62 10-74 116-178 (966)
158 TIGR03504 FimV_Cterm FimV C-te 87.2 1.6 3.5E-05 19.0 3.4 25 52-76 5-29 (44)
159 PF13431 TPR_17: Tetratricopep 86.9 1.2 2.6E-05 18.0 2.4 22 9-30 12-33 (34)
160 PRK10803 tol-pal system protei 86.9 5.1 0.00011 24.4 8.7 64 12-75 182-246 (263)
161 KOG3616 Selective LIM binding 86.9 2.3 5E-05 30.2 4.9 50 13-72 768-817 (1636)
162 KOG1129 TPR repeat-containing 86.9 6.3 0.00014 25.4 7.0 32 8-39 254-285 (478)
163 COG5010 TadD Flp pilus assembl 86.5 5.4 0.00012 24.3 9.3 76 7-85 131-207 (257)
164 KOG4570 Uncharacterized conser 86.5 1.9 4.1E-05 27.3 4.0 38 2-39 127-164 (418)
165 KOG3616 Selective LIM binding 86.2 2 4.3E-05 30.5 4.3 55 12-69 793-847 (1636)
166 KOG1840 Kinesin light chain [C 86.0 8.4 0.00018 25.9 7.0 65 10-74 199-269 (508)
167 KOG1840 Kinesin light chain [C 85.9 7.6 0.00016 26.1 6.7 62 13-74 328-395 (508)
168 KOG1126 DNA-binding cell divis 85.9 5.7 0.00012 27.3 6.2 65 7-74 483-551 (638)
169 KOG1914 mRNA cleavage and poly 85.8 9.1 0.0002 26.2 7.0 63 9-75 19-82 (656)
170 PF07721 TPR_4: Tetratricopept 85.8 1.3 2.9E-05 16.6 3.0 17 17-33 8-24 (26)
171 KOG1070 rRNA processing protei 85.6 8 0.00017 29.4 7.1 58 13-72 1533-1590(1710)
172 KOG4626 O-linked N-acetylgluco 85.5 7 0.00015 27.4 6.4 28 46-73 456-483 (966)
173 PRK15363 pathogenicity island 85.5 4.8 0.0001 22.7 7.6 53 20-75 45-98 (157)
174 KOG0547 Translocase of outer m 85.5 2.8 6E-05 28.1 4.5 50 18-70 123-173 (606)
175 PF04840 Vps16_C: Vps16, C-ter 85.3 5.6 0.00012 24.9 5.7 54 12-70 179-232 (319)
176 KOG4340 Uncharacterized conser 85.2 5.9 0.00013 25.2 5.6 57 20-78 154-210 (459)
177 PF13525 YfiO: Outer membrane 85.1 5.4 0.00012 23.0 7.3 57 18-74 13-70 (203)
178 cd00923 Cyt_c_Oxidase_Va Cytoc 85.0 3.9 8.4E-05 21.3 8.7 47 6-54 38-84 (103)
179 PF04184 ST7: ST7 protein; In 84.9 9.6 0.00021 25.7 7.1 56 18-73 267-322 (539)
180 KOG3785 Uncharacterized conser 84.7 7 0.00015 25.4 5.9 72 8-84 425-497 (557)
181 PF07719 TPR_2: Tetratricopept 84.1 1.8 3.9E-05 16.7 4.6 26 13-38 4-29 (34)
182 PF00637 Clathrin: Region in C 83.8 2.2 4.7E-05 22.9 3.2 58 8-73 40-97 (143)
183 PF12569 NARP1: NMDA receptor- 83.8 11 0.00024 25.4 8.7 65 8-75 190-257 (517)
184 PF14689 SPOB_a: Sensor_kinase 83.7 3.3 7.1E-05 19.3 5.1 46 25-73 5-50 (62)
185 KOG2053 Mitochondrial inherita 83.6 13 0.00027 26.9 7.1 62 12-75 43-106 (932)
186 PF11817 Foie-gras_1: Foie gra 83.5 7.4 0.00016 23.3 6.0 58 15-72 183-244 (247)
187 CHL00033 ycf3 photosystem I as 83.5 5.7 0.00012 22.0 8.5 58 11-71 73-138 (168)
188 PF09976 TPR_21: Tetratricopep 83.5 5.3 0.00011 21.6 9.3 65 11-76 13-78 (145)
189 KOG0548 Molecular co-chaperone 83.4 6.1 0.00013 26.6 5.4 49 18-69 366-415 (539)
190 PF13432 TPR_16: Tetratricopep 83.4 3.1 6.8E-05 18.9 4.8 31 9-39 30-60 (65)
191 KOG4555 TPR repeat-containing 83.1 6.1 0.00013 22.0 6.6 54 19-75 52-106 (175)
192 COG5107 RNA14 Pre-mRNA 3'-end 82.8 1.8 4E-05 28.8 2.9 46 44-89 395-441 (660)
193 PF13170 DUF4003: Protein of u 82.2 9.7 0.00021 23.7 7.6 79 10-89 60-149 (297)
194 COG5108 RPO41 Mitochondrial DN 81.9 16 0.00035 26.0 7.4 73 15-90 33-112 (1117)
195 KOG1127 TPR repeat-containing 81.3 4.5 9.8E-05 29.5 4.5 32 42-73 591-623 (1238)
196 PF10579 Rapsyn_N: Rapsyn N-te 81.0 5.3 0.00011 19.9 4.8 51 17-68 14-65 (80)
197 PRK10866 outer membrane biogen 80.8 9.7 0.00021 22.8 7.7 56 17-75 39-98 (243)
198 PF11846 DUF3366: Domain of un 80.7 5.9 0.00013 22.6 4.3 34 6-39 140-173 (193)
199 COG4105 ComL DNA uptake lipopr 80.4 11 0.00023 23.1 7.3 70 11-81 36-107 (254)
200 COG0320 LipA Lipoate synthase 80.2 2.6 5.7E-05 26.0 2.8 50 24-78 194-243 (306)
201 PRK15363 pathogenicity island 80.1 8.5 0.00018 21.7 7.7 61 12-75 71-132 (157)
202 PF13181 TPR_8: Tetratricopept 79.1 3.1 6.8E-05 16.1 4.0 27 12-38 3-29 (34)
203 KOG0985 Vesicle coat protein c 79.0 15 0.00033 27.4 6.4 55 10-67 1133-1187(1666)
204 PRK02603 photosystem I assembl 79.0 9 0.00019 21.3 8.7 61 11-74 73-148 (172)
205 COG5210 GTPase-activating prot 78.9 15 0.00033 24.4 6.2 56 28-84 360-415 (496)
206 KOG0553 TPR repeat-containing 78.8 8 0.00017 24.2 4.6 49 21-72 92-141 (304)
207 KOG2047 mRNA splicing factor [ 78.6 14 0.0003 26.0 5.9 68 8-75 208-277 (835)
208 COG3063 PilF Tfp pilus assembl 78.4 12 0.00027 22.7 8.1 63 10-75 69-132 (250)
209 KOG2076 RNA polymerase III tra 78.4 16 0.00036 26.3 6.3 62 9-73 448-510 (895)
210 PF10366 Vps39_1: Vacuolar sor 77.8 5.6 0.00012 20.8 3.3 27 12-38 41-67 (108)
211 COG3071 HemY Uncharacterized e 77.5 17 0.00037 23.7 7.3 67 12-80 231-297 (400)
212 KOG1125 TPR repeat-containing 77.3 20 0.00044 24.5 7.2 51 20-73 440-491 (579)
213 smart00164 TBC Domain in Tre-2 77.3 11 0.00024 21.4 5.8 45 32-76 153-197 (199)
214 PF11663 Toxin_YhaV: Toxin wit 77.1 2 4.4E-05 23.6 1.6 27 61-89 110-136 (140)
215 smart00804 TAP_C C-terminal do 77.1 3.7 8E-05 19.4 2.3 25 23-47 38-62 (63)
216 KOG3081 Vesicle coat complex C 76.8 15 0.00033 22.8 6.5 68 5-74 202-270 (299)
217 PF09613 HrpB1_HrpK: Bacterial 76.6 11 0.00025 21.3 6.3 61 12-75 9-73 (160)
218 KOG0547 Translocase of outer m 76.6 21 0.00046 24.3 6.2 63 11-75 429-491 (606)
219 COG3898 Uncharacterized membra 75.6 16 0.00035 24.2 5.4 60 22-81 132-224 (531)
220 PF13929 mRNA_stabil: mRNA sta 75.2 17 0.00038 22.7 8.4 81 9-89 163-246 (292)
221 KOG0985 Vesicle coat protein c 74.4 35 0.00076 25.8 7.4 67 10-83 1104-1170(1666)
222 KOG1127 TPR repeat-containing 74.2 23 0.0005 26.3 6.2 62 8-73 594-657 (1238)
223 PRK14720 transcript cleavage f 74.1 32 0.00069 25.2 7.9 59 12-74 118-177 (906)
224 KOG4340 Uncharacterized conser 73.7 21 0.00045 22.9 5.7 70 2-74 2-72 (459)
225 PF13512 TPR_18: Tetratricopep 73.0 14 0.0003 20.5 6.1 48 12-60 49-96 (142)
226 TIGR02561 HrpB1_HrpK type III 72.5 15 0.00032 20.7 6.9 53 22-76 22-74 (153)
227 COG1729 Uncharacterized protei 72.3 20 0.00043 22.1 7.2 60 13-73 145-205 (262)
228 KOG1128 Uncharacterized conser 72.1 33 0.00071 24.5 7.6 63 15-89 403-465 (777)
229 KOG1125 TPR repeat-containing 72.1 14 0.0003 25.3 4.7 63 7-73 460-525 (579)
230 COG3947 Response regulator con 70.6 25 0.00053 22.4 7.8 70 13-85 282-357 (361)
231 smart00028 TPR Tetratricopepti 70.4 4.9 0.00011 14.2 3.5 26 12-37 3-28 (34)
232 COG4003 Uncharacterized protei 69.5 13 0.00028 18.7 3.5 29 16-44 37-65 (98)
233 PF10300 DUF3808: Protein of u 69.4 30 0.00066 23.0 6.6 68 8-75 264-334 (468)
234 PF14938 SNAP: Soluble NSF att 68.6 24 0.00052 21.5 7.0 62 13-75 117-184 (282)
235 COG2405 Predicted nucleic acid 68.1 15 0.00031 20.6 3.5 47 41-89 106-152 (157)
236 PF14669 Asp_Glu_race_2: Putat 67.7 23 0.00051 21.0 5.3 60 12-71 134-206 (233)
237 KOG1538 Uncharacterized conser 67.5 15 0.00032 26.0 4.1 58 15-75 778-846 (1081)
238 PF09613 HrpB1_HrpK: Bacterial 66.3 22 0.00048 20.2 7.1 58 20-81 54-112 (160)
239 KOG1915 Cell cycle control pro 66.2 40 0.00086 23.1 7.5 63 8-73 435-498 (677)
240 KOG2053 Mitochondrial inherita 65.5 51 0.0011 24.1 6.8 70 12-84 438-511 (932)
241 smart00299 CLH Clathrin heavy 65.5 19 0.00041 19.2 6.4 17 8-24 39-55 (140)
242 KOG4077 Cytochrome c oxidase, 65.3 21 0.00046 19.7 6.6 59 28-88 67-125 (149)
243 PF12688 TPR_5: Tetratrico pep 65.2 19 0.00042 19.2 7.6 59 12-73 40-102 (120)
244 KOG4162 Predicted calmodulin-b 65.2 49 0.0011 23.8 6.7 65 8-74 321-385 (799)
245 PF07443 HARP: HepA-related pr 65.0 2.5 5.5E-05 19.4 0.3 28 25-53 7-34 (55)
246 PRK15180 Vi polysaccharide bio 64.9 43 0.00093 23.0 6.3 57 20-78 333-389 (831)
247 KOG1173 Anaphase-promoting com 64.6 44 0.00096 23.1 5.9 49 8-59 487-535 (611)
248 PF09868 DUF2095: Uncharacteri 64.2 18 0.00039 19.4 3.3 26 51-76 66-91 (128)
249 cd08819 CARD_MDA5_2 Caspase ac 63.9 18 0.00039 18.4 3.9 35 24-64 50-84 (88)
250 TIGR02508 type_III_yscG type I 62.7 21 0.00046 18.8 4.8 62 15-84 44-105 (115)
251 KOG4648 Uncharacterized conser 62.2 14 0.00029 24.1 3.1 43 20-65 107-150 (536)
252 PF01475 FUR: Ferric uptake re 60.5 23 0.0005 18.5 4.2 46 14-60 11-56 (120)
253 PF06580 His_kinase: Histidine 60.1 17 0.00038 17.8 2.8 31 5-37 8-40 (82)
254 cd00280 TRFH Telomeric Repeat 59.4 34 0.00075 20.1 6.1 49 26-75 85-140 (200)
255 PF12862 Apc5: Anaphase-promot 59.1 22 0.00047 17.8 6.0 53 21-74 9-69 (94)
256 PF13170 DUF4003: Protein of u 58.9 42 0.00091 21.0 5.8 58 27-85 160-221 (297)
257 PRK11906 transcriptional regul 58.6 53 0.0012 22.1 8.2 53 18-73 346-399 (458)
258 PF04124 Dor1: Dor1-like famil 57.9 46 0.00099 21.1 5.8 23 15-37 111-133 (338)
259 PF03943 TAP_C: TAP C-terminal 57.3 3.7 8E-05 18.4 0.1 25 22-46 25-49 (51)
260 PRK10866 outer membrane biogen 57.3 40 0.00087 20.2 6.9 53 20-72 185-238 (243)
261 cd07153 Fur_like Ferric uptake 57.2 26 0.00056 18.0 4.9 45 16-61 6-50 (116)
262 PF14840 DNA_pol3_delt_C: Proc 57.1 19 0.00041 19.4 2.8 28 23-51 10-37 (125)
263 PF07079 DUF1347: Protein of u 56.2 47 0.001 22.5 4.8 47 13-59 131-180 (549)
264 PF09797 NatB_MDM20: N-acetylt 56.1 50 0.0011 21.0 5.8 68 13-83 183-254 (365)
265 PF13963 Transpos_assoc: Trans 56.0 7.5 0.00016 18.9 1.1 25 60-84 48-72 (77)
266 KOG3617 WD40 and TPR repeat-co 55.1 27 0.00058 25.7 3.8 30 9-38 756-785 (1416)
267 PF09454 Vps23_core: Vps23 cor 54.8 23 0.00051 16.8 4.4 49 8-58 6-54 (65)
268 COG1729 Uncharacterized protei 54.2 50 0.0011 20.4 6.5 63 13-75 181-244 (262)
269 PF04097 Nic96: Nup93/Nic96; 54.0 72 0.0016 22.2 6.0 49 10-60 111-159 (613)
270 PF12816 Vps8: Golgi CORVET co 53.7 43 0.00094 19.5 5.4 47 8-60 20-66 (196)
271 PF15601 Imm42: Immunity prote 53.3 37 0.00081 18.7 5.1 65 22-86 11-81 (134)
272 TIGR02328 conserved hypothetic 53.2 17 0.00037 19.4 2.1 17 66-82 55-71 (120)
273 PF02847 MA3: MA3 domain; Int 53.0 31 0.00067 17.6 5.3 63 14-79 6-70 (113)
274 COG2040 MHT1 Homocysteine/sele 53.0 42 0.0009 21.1 4.0 68 2-73 22-89 (300)
275 KOG0495 HAT repeat protein [RN 52.7 85 0.0018 22.6 6.8 52 18-72 592-644 (913)
276 PF09477 Type_III_YscG: Bacter 52.1 36 0.00079 18.2 5.7 55 15-76 45-99 (116)
277 PF02607 B12-binding_2: B12 bi 51.9 27 0.00058 16.6 3.8 38 22-60 13-50 (79)
278 KOG2223 Uncharacterized conser 51.8 34 0.00073 23.0 3.6 45 30-75 459-503 (586)
279 COG4235 Cytochrome c biogenesi 51.0 60 0.0013 20.4 8.2 47 26-75 209-256 (287)
280 PF14162 YozD: YozD-like prote 49.4 27 0.00058 15.9 2.5 18 64-81 13-30 (57)
281 KOG0991 Replication factor C, 49.3 63 0.0014 20.1 7.1 61 22-83 204-275 (333)
282 KOG3617 WD40 and TPR repeat-co 49.2 30 0.00065 25.4 3.3 59 9-74 725-785 (1416)
283 COG0735 Fur Fe2+/Zn2+ uptake r 49.2 45 0.00097 18.4 4.9 26 14-39 24-49 (145)
284 PF00566 RabGAP-TBC: Rab-GTPas 49.2 37 0.00079 19.3 3.4 42 31-73 150-191 (214)
285 PRK15331 chaperone protein Sic 48.3 52 0.0011 18.8 5.5 51 21-74 48-99 (165)
286 KOG3154 Uncharacterized conser 48.2 61 0.0013 19.7 4.4 57 14-73 151-207 (263)
287 PRK11639 zinc uptake transcrip 47.7 51 0.0011 18.6 4.5 25 15-39 30-54 (169)
288 PF12926 MOZART2: Mitotic-spin 46.6 40 0.00088 17.1 5.8 44 30-74 28-71 (88)
289 TIGR01529 argR_whole arginine 46.5 47 0.001 18.4 3.3 35 16-51 6-40 (146)
290 PF14938 SNAP: Soluble NSF att 46.5 67 0.0014 19.6 8.9 79 12-90 157-244 (282)
291 PF11207 DUF2989: Protein of u 45.6 64 0.0014 19.2 6.0 65 22-89 119-186 (203)
292 KOG0548 Molecular co-chaperone 45.1 1E+02 0.0022 21.3 5.7 62 8-72 34-96 (539)
293 PF15297 CKAP2_C: Cytoskeleton 44.6 87 0.0019 20.3 8.2 53 26-81 119-175 (353)
294 COG4339 Uncharacterized protei 44.3 64 0.0014 18.7 5.0 21 40-60 16-36 (208)
295 KOG2280 Vacuolar assembly/sort 44.2 39 0.00085 24.2 3.2 30 8-37 713-742 (829)
296 TIGR02531 yecD_yerC TrpR-relat 43.9 45 0.00097 16.8 3.6 27 11-37 3-29 (88)
297 PF08967 DUF1884: Domain of un 43.6 37 0.0008 17.1 2.3 19 64-82 13-31 (85)
298 KOG2376 Signal recognition par 43.5 1.2E+02 0.0025 21.5 5.4 55 17-76 84-140 (652)
299 KOG2908 26S proteasome regulat 43.4 92 0.002 20.3 8.3 69 15-83 80-157 (380)
300 PF13723 Ketoacyl-synt_2: Beta 43.3 40 0.00087 20.1 2.9 27 22-48 60-86 (218)
301 KOG1156 N-terminal acetyltrans 42.8 1.2E+02 0.0026 21.6 8.1 65 7-74 366-433 (700)
302 PLN02789 farnesyltranstransfer 42.7 86 0.0019 19.8 8.4 46 27-75 125-171 (320)
303 PF10300 DUF3808: Protein of u 42.7 1E+02 0.0022 20.6 6.3 60 12-73 307-374 (468)
304 PF12000 Glyco_trans_4_3: Gkyc 42.5 25 0.00055 20.1 1.9 19 64-82 52-70 (171)
305 PF07035 Mic1: Colon cancer-as 42.5 66 0.0014 18.4 6.5 51 3-58 22-72 (167)
306 cd08320 Pyrin_NALPs Pyrin deat 42.4 24 0.00051 17.7 1.6 25 49-73 48-72 (86)
307 PF02758 PYRIN: PAAD/DAPIN/Pyr 42.0 12 0.00025 18.5 0.5 26 48-73 48-73 (83)
308 KOG2114 Vacuolar assembly/sort 41.5 1.4E+02 0.0031 22.0 7.1 69 15-88 710-782 (933)
309 PF07079 DUF1347: Protein of u 41.5 1.1E+02 0.0025 20.9 5.7 76 12-87 79-173 (549)
310 KOG0495 HAT repeat protein [RN 41.3 1.4E+02 0.003 21.7 6.9 68 15-84 411-482 (913)
311 cd08780 Death_TRADD Death Doma 41.2 52 0.0011 16.8 4.1 49 18-69 40-88 (90)
312 PF08542 Rep_fac_C: Replicatio 41.2 46 0.00099 16.2 4.2 45 12-59 7-51 (89)
313 smart00386 HAT HAT (Half-A-TPR 40.9 24 0.00052 12.9 3.7 15 25-39 2-16 (33)
314 TIGR02561 HrpB1_HrpK type III 40.9 69 0.0015 18.1 6.6 20 20-39 54-73 (153)
315 PRK14720 transcript cleavage f 40.2 1.5E+02 0.0033 22.0 8.9 30 47-76 117-146 (906)
316 PF02184 HAT: HAT (Half-A-TPR) 39.5 32 0.00069 13.9 2.6 12 26-37 3-14 (32)
317 KOG4334 Uncharacterized conser 39.4 23 0.00049 24.1 1.6 31 61-91 540-570 (650)
318 PF04053 Coatomer_WDAD: Coatom 39.3 1.2E+02 0.0025 20.3 7.6 29 9-37 346-374 (443)
319 COG3294 HD supefamily hydrolas 39.2 30 0.00066 21.0 1.9 20 64-83 68-87 (269)
320 PF03013 Pyr_excise: Pyrimidin 39.0 30 0.00066 18.9 1.8 20 66-85 66-85 (130)
321 PRK09857 putative transposase; 38.7 98 0.0021 19.3 6.3 66 14-81 210-275 (292)
322 cd08326 CARD_CASP9 Caspase act 38.3 55 0.0012 16.3 4.5 37 23-64 43-79 (84)
323 PF09373 PMBR: Pseudomurein-bi 38.1 33 0.00072 13.7 1.9 19 64-82 13-31 (33)
324 PF01371 Trp_repressor: Trp re 37.9 35 0.00077 17.2 1.9 26 12-37 2-27 (87)
325 KOG2536 MAM33, mitochondrial m 37.6 1E+02 0.0022 19.1 5.3 45 27-74 215-259 (263)
326 cd08305 Pyrin Pyrin: a protein 37.6 27 0.00058 16.9 1.4 25 49-73 40-64 (73)
327 PF07864 DUF1651: Protein of u 37.5 47 0.001 16.0 2.2 19 61-79 51-69 (75)
328 PF14744 WASH-7_mid: WASH comp 37.5 44 0.00095 21.6 2.5 25 61-85 281-305 (350)
329 TIGR01914 cas_Csa4 CRISPR-asso 37.5 1.2E+02 0.0025 19.8 6.2 65 19-89 285-349 (354)
330 PF08343 RNR_N: Ribonucleotide 37.2 25 0.00053 17.6 1.2 41 13-54 4-46 (82)
331 PF00356 LacI: Bacterial regul 36.7 43 0.00093 14.6 1.9 19 62-80 28-46 (46)
332 cd08321 Pyrin_ASC-like Pyrin D 36.2 37 0.00079 16.8 1.7 27 48-74 47-73 (82)
333 PF07575 Nucleopor_Nup85: Nup8 36.1 1.4E+02 0.0031 20.4 5.0 63 9-74 404-466 (566)
334 PF03745 DUF309: Domain of unk 36.0 52 0.0011 15.3 5.3 48 20-68 9-61 (62)
335 KOG1130 Predicted G-alpha GTPa 35.6 69 0.0015 21.7 3.2 51 19-70 26-79 (639)
336 cd08789 CARD_IPS-1_RIG-I Caspa 35.5 62 0.0014 16.1 6.1 45 16-66 38-82 (84)
337 KOG3807 Predicted membrane pro 35.2 1.3E+02 0.0029 19.8 4.6 31 9-39 272-304 (556)
338 PRK13808 adenylate kinase; Pro 34.9 1.3E+02 0.0027 19.4 4.8 46 38-83 54-111 (333)
339 smart00540 LEM in nuclear memb 34.8 38 0.00083 14.7 1.5 18 66-83 9-26 (44)
340 PF07304 SRA1: Steroid recepto 34.7 88 0.0019 17.6 4.7 42 33-75 78-119 (157)
341 cd08318 Death_NMPP84 Death dom 34.2 66 0.0014 16.0 4.0 40 26-68 46-85 (86)
342 PHA02265 hypothetical protein 34.0 69 0.0015 16.2 2.7 33 27-59 4-36 (103)
343 COG2987 HutU Urocanate hydrata 34.0 35 0.00075 23.0 1.8 47 23-83 216-262 (561)
344 PF14044 NETI: NETI protein 33.3 49 0.0011 15.4 1.7 16 65-80 10-25 (57)
345 TIGR03362 VI_chp_7 type VI sec 33.3 1.3E+02 0.0028 19.0 4.5 56 18-74 221-278 (301)
346 KOG1174 Anaphase-promoting com 33.1 1.6E+02 0.0035 20.1 6.1 48 19-69 343-391 (564)
347 KOG1174 Anaphase-promoting com 33.0 1.6E+02 0.0035 20.1 6.6 28 45-72 231-258 (564)
348 PF07875 Coat_F: Coat F domain 32.9 58 0.0013 15.0 2.5 18 62-79 44-61 (64)
349 PLN03098 LPA1 LOW PSII ACCUMUL 32.8 1.6E+02 0.0034 20.0 6.7 28 11-38 113-140 (453)
350 cd01786 STE50_RA Ubiquitin-lik 32.4 18 0.00038 18.6 0.3 53 27-80 35-92 (98)
351 COG5210 GTPase-activating prot 32.2 1.4E+02 0.003 20.2 4.3 48 3-51 370-417 (496)
352 TIGR01428 HAD_type_II 2-haloal 32.1 1E+02 0.0022 17.4 5.7 37 41-77 73-109 (198)
353 PF14853 Fis1_TPR_C: Fis1 C-te 31.4 60 0.0013 14.6 5.2 34 16-52 7-40 (53)
354 PRK05094 dsDNA-mimic protein; 31.2 89 0.0019 16.5 2.7 30 27-57 14-44 (107)
355 PF07064 RIC1: RIC1; InterPro 31.0 1.3E+02 0.0029 18.5 7.7 60 15-74 184-248 (258)
356 COG4700 Uncharacterized protei 30.9 1.3E+02 0.0027 18.2 7.5 66 8-74 87-152 (251)
357 PF12169 DNA_pol3_gamma3: DNA 30.5 86 0.0019 16.7 2.8 15 24-38 28-42 (143)
358 KOG2672 Lipoate synthase [Coen 29.9 1.4E+02 0.0031 19.0 3.8 46 25-75 238-283 (360)
359 KOG4567 GTPase-activating prot 29.0 1.7E+02 0.0036 19.0 4.7 50 4-59 272-321 (370)
360 COG2812 DnaX DNA polymerase II 28.5 2E+02 0.0044 19.8 6.7 62 19-83 207-282 (515)
361 KOG3036 Protein involved in ce 28.2 1.6E+02 0.0034 18.5 4.9 50 24-73 210-259 (293)
362 KOG4414 COP9 signalosome, subu 28.0 99 0.0021 17.5 2.7 35 4-38 32-67 (197)
363 smart00777 Mad3_BUB1_I Mad3/BU 28.0 1.1E+02 0.0024 16.6 4.6 17 65-81 82-98 (125)
364 PF14066 DUF4256: Protein of u 28.0 46 0.001 19.0 1.4 37 46-85 18-54 (173)
365 cd08315 Death_TRAILR_DR4_DR5 D 27.9 95 0.0021 15.9 5.4 48 26-76 47-94 (96)
366 PF14165 YtzH: YtzH-like prote 27.8 93 0.002 15.8 2.3 41 18-60 20-62 (87)
367 PF06552 TOM20_plant: Plant sp 27.7 1.4E+02 0.003 17.6 5.6 42 26-76 96-137 (186)
368 PF03790 KNOX1: KNOX1 domain ; 27.7 68 0.0015 14.1 3.0 27 12-38 12-41 (45)
369 PF04053 Coatomer_WDAD: Coatom 27.4 2E+02 0.0043 19.3 6.6 62 12-73 297-374 (443)
370 PF11695 DUF3291: Domain of un 27.4 71 0.0015 17.7 2.1 23 26-49 114-136 (140)
371 PRK02301 putative deoxyhypusin 27.4 1.7E+02 0.0038 18.7 4.4 28 11-38 23-54 (316)
372 PF06252 DUF1018: Protein of u 27.0 1.1E+02 0.0023 16.2 4.2 33 10-43 3-40 (119)
373 COG1899 DYS1 Deoxyhypusine syn 27.0 73 0.0016 20.3 2.2 29 11-39 20-53 (318)
374 KOG0780 Signal recognition par 26.8 38 0.00082 22.5 1.1 25 60-84 193-219 (483)
375 TIGR01503 MthylAspMut_E methyl 26.5 57 0.0012 22.0 1.8 47 24-74 68-114 (480)
376 cd04438 DEP_dishevelled DEP (D 26.4 97 0.0021 15.4 3.1 26 52-77 39-64 (84)
377 cd04449 DEP_DEPDC5-like DEP (D 26.0 96 0.0021 15.3 3.0 19 59-77 46-64 (83)
378 PRK02492 deoxyhypusine synthas 26.0 1.3E+02 0.0029 19.5 3.3 59 11-77 24-86 (347)
379 PF08771 Rapamycin_bind: Rapam 25.9 1.1E+02 0.0023 15.8 4.1 54 18-73 22-75 (100)
380 cd08332 CARD_CASP2 Caspase act 25.8 1E+02 0.0022 15.5 5.1 33 24-61 48-80 (90)
381 PRK14529 adenylate kinase; Pro 25.8 1.6E+02 0.0034 17.7 5.2 45 38-82 54-109 (223)
382 cd08812 CARD_RIG-I_like Caspas 25.7 1E+02 0.0022 15.4 5.9 37 23-64 47-84 (88)
383 PRK04841 transcriptional regul 25.6 2.6E+02 0.0057 20.1 7.7 62 13-74 494-559 (903)
384 PF11491 DUF3213: Protein of u 25.5 8.8 0.00019 19.2 -1.4 22 40-61 18-39 (88)
385 KOG1166 Mitotic checkpoint ser 24.7 3.1E+02 0.0068 20.7 5.2 58 22-80 90-148 (974)
386 PHA01754 hypothetical protein 24.6 93 0.002 14.6 2.1 16 64-79 48-63 (69)
387 TIGR01228 hutU urocanate hydra 24.5 67 0.0014 22.0 1.9 23 62-84 232-254 (545)
388 cd08340 DED_c-FLIP_repeat2 Dea 24.1 82 0.0018 15.6 1.8 21 61-81 37-58 (81)
389 PRK10153 DNA-binding transcrip 23.8 2.5E+02 0.0054 19.3 7.1 41 45-87 419-459 (517)
390 smart00544 MA3 Domain in DAP-5 23.7 1.2E+02 0.0026 15.5 7.5 61 13-76 5-67 (113)
391 TIGR03581 EF_0839 conserved hy 23.6 1.8E+02 0.004 17.7 4.4 63 10-73 163-235 (236)
392 PRK07452 DNA polymerase III su 23.6 1.9E+02 0.0042 17.9 4.0 34 47-82 202-235 (326)
393 PRK05414 urocanate hydratase; 23.4 73 0.0016 21.9 1.9 23 62-84 241-263 (556)
394 cd00215 PTS_IIA_lac PTS_IIA, P 23.2 1.2E+02 0.0027 15.6 2.6 19 21-39 26-44 (97)
395 TIGR01561 gde_arch glycogen de 22.9 2.6E+02 0.0057 19.6 4.4 37 45-81 295-334 (575)
396 PF07163 Pex26: Pex26 protein; 22.9 2.2E+02 0.0047 18.2 6.0 55 14-69 122-181 (309)
397 PRK01221 putative deoxyhypusin 22.8 1.3E+02 0.0029 19.2 2.8 26 12-37 21-51 (312)
398 PF02841 GBP_C: Guanylate-bind 22.7 2E+02 0.0044 17.9 4.6 64 4-71 23-87 (297)
399 cd02663 Peptidase_C19G A subfa 22.6 2E+02 0.0043 17.7 5.0 60 12-72 10-75 (300)
400 PF10963 DUF2765: Protein of u 22.6 1.2E+02 0.0026 15.2 3.4 32 6-37 12-43 (83)
401 COG2062 SixA Phosphohistidine 22.6 71 0.0015 18.2 1.5 22 27-49 32-53 (163)
402 PRK09591 celC cellobiose phosp 22.1 1.4E+02 0.003 15.6 2.6 20 20-39 30-49 (104)
403 PF10428 SOG2: RAM signalling 21.9 1.1E+02 0.0023 20.5 2.5 14 44-57 88-101 (445)
404 PF10474 DUF2451: Protein of u 21.8 2E+02 0.0043 17.4 5.0 47 11-57 132-189 (234)
405 cd02679 MIT_spastin MIT: domai 21.7 87 0.0019 15.5 1.6 46 22-74 20-67 (79)
406 TIGR00823 EIIA-LAC phosphotran 21.5 1.4E+02 0.003 15.5 2.6 19 21-39 28-46 (99)
407 COG3118 Thioredoxin domain-con 21.4 2.3E+02 0.0051 18.1 4.7 23 16-38 174-196 (304)
408 PRK10454 PTS system N,N'-diace 21.3 1.5E+02 0.0033 15.9 2.6 19 21-39 42-60 (115)
409 PF13838 Clathrin_H_link: Clat 21.2 1.2E+02 0.0025 14.5 6.4 57 11-69 7-63 (66)
410 PF04078 Rcd1: Cell differenti 21.1 1.1E+02 0.0024 19.0 2.2 49 24-72 181-229 (262)
411 PF10475 DUF2450: Protein of u 21.0 2.2E+02 0.0048 17.7 5.0 23 43-65 194-216 (291)
412 PF09090 MIF4G_like_2: MIF4G l 20.8 2.1E+02 0.0046 17.3 6.2 62 8-69 9-75 (253)
413 KOG1873 Ubiquitin-specific pro 20.5 3.6E+02 0.0079 19.9 5.1 67 4-74 206-279 (877)
414 PF05853 DUF849: Prokaryotic p 20.5 47 0.001 20.4 0.6 24 62-85 125-148 (272)
415 PRK03911 heat-inducible transc 20.4 2.3E+02 0.005 17.7 4.9 49 10-62 6-54 (260)
416 PF04090 RNA_pol_I_TF: RNA pol 20.4 2E+02 0.0044 17.0 6.8 62 11-73 42-103 (199)
417 PF01450 IlvC: Acetohydroxy ac 20.3 1.4E+02 0.0031 16.6 2.4 20 66-85 25-44 (145)
418 KOG0307 Vesicle coat complex C 20.2 4.1E+02 0.0088 20.4 5.5 43 31-74 983-1025(1049)
No 1
>PLN03218 maturation of RBCL 1; Provisional
Probab=99.86 E-value=2e-21 Score=130.39 Aligned_cols=89 Identities=20% Similarity=0.368 Sum_probs=59.0
Q ss_pred CCCCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCH
Q 038287 2 IFKQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDC 81 (91)
Q Consensus 2 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~ 81 (91)
+..|+.||..+||++|.+|+++|++++|.++|++|.+. |+.||..+|+.+|++|++.|++++|.++|++|.+.|+.||.
T Consensus 464 ~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~-Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~ 542 (1060)
T PLN03218 464 QEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNA-GVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR 542 (1060)
T ss_pred HHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCH
Confidence 34556666666666666666666666666666666654 66666666666666666666666666666666666666666
Q ss_pred HhHhhhhhcC
Q 038287 82 FVYNTIMKGY 91 (91)
Q Consensus 82 ~~~~~ll~~~ 91 (91)
.||++||++|
T Consensus 543 vTYnsLI~a~ 552 (1060)
T PLN03218 543 VVFNALISAC 552 (1060)
T ss_pred HHHHHHHHHH
Confidence 6666666654
No 2
>PLN03218 maturation of RBCL 1; Provisional
Probab=99.86 E-value=4.2e-21 Score=128.87 Aligned_cols=89 Identities=15% Similarity=0.376 Sum_probs=60.9
Q ss_pred CCCCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCH
Q 038287 2 IFKQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDC 81 (91)
Q Consensus 2 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~ 81 (91)
...|++||..+|+++|.+|+++|++++|.++|++|... |+.||..+|+.+|.+|++.|++++|.++|++|...|+.||.
T Consensus 676 ~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~-g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~ 754 (1060)
T PLN03218 676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSI-KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT 754 (1060)
T ss_pred HHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH
Confidence 34566666667777777777777777777777776654 66777777777777777777777777777777666777777
Q ss_pred HhHhhhhhcC
Q 038287 82 FVYNTIMKGY 91 (91)
Q Consensus 82 ~~~~~ll~~~ 91 (91)
.||++++.+|
T Consensus 755 ~Ty~sLL~a~ 764 (1060)
T PLN03218 755 ITYSILLVAS 764 (1060)
T ss_pred HHHHHHHHHH
Confidence 7777766654
No 3
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=99.84 E-value=5.7e-21 Score=124.50 Aligned_cols=82 Identities=17% Similarity=0.324 Sum_probs=49.7
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh-CCCCcCHHhHhh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD-SGFKPDCFVYNT 86 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~-~g~~p~~~~~~~ 86 (91)
||..+||+||.+|++.|+.++|.++|++|.+. |+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|++
T Consensus 389 ~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~-g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~ 467 (697)
T PLN03081 389 KNLISWNALIAGYGNHGRGTKAVEMFERMIAE-GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYAC 467 (697)
T ss_pred CCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHh
Confidence 55556666666666666666666666666554 5666666666666666666666666666666653 356666666666
Q ss_pred hhhc
Q 038287 87 IMKG 90 (91)
Q Consensus 87 ll~~ 90 (91)
++++
T Consensus 468 li~~ 471 (697)
T PLN03081 468 MIEL 471 (697)
T ss_pred HHHH
Confidence 6554
No 4
>PLN03077 Protein ECB2; Provisional
Probab=99.81 E-value=1.3e-19 Score=120.25 Aligned_cols=87 Identities=14% Similarity=0.286 Sum_probs=75.1
Q ss_pred CCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH-hCCCCcCHH
Q 038287 4 KQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS-DSGFKPDCF 82 (91)
Q Consensus 4 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~-~~g~~p~~~ 82 (91)
+.+.||.++||++|.+|++.|+.++|.++|++|.+. |+.||..||+.++.+|++.|.+++|.++|+.|. +.|+.|+..
T Consensus 548 ~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~-g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~ 626 (857)
T PLN03077 548 NSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVES-GVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLK 626 (857)
T ss_pred HhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchH
Confidence 344678888999999999999999999999999876 889999999999999999999999999999998 678899999
Q ss_pred hHhhhhhcC
Q 038287 83 VYNTIMKGY 91 (91)
Q Consensus 83 ~~~~ll~~~ 91 (91)
+|++++++|
T Consensus 627 ~y~~lv~~l 635 (857)
T PLN03077 627 HYACVVDLL 635 (857)
T ss_pred HHHHHHHHH
Confidence 998888764
No 5
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=99.81 E-value=1.1e-19 Score=118.49 Aligned_cols=83 Identities=18% Similarity=0.242 Sum_probs=61.3
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
+|.++||++|.+|++.|++++|.++|++|.+. |+.||..||+.++.+|++.|.+++|.++++.|.+.|+.||..+|++|
T Consensus 288 ~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~-g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~L 366 (697)
T PLN03081 288 KTTVAWNSMLAGYALHGYSEEALCLYYEMRDS-GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTAL 366 (697)
T ss_pred CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHH
Confidence 56777777777777777777777777777665 77777777777777777777777777777777777777777777777
Q ss_pred hhcC
Q 038287 88 MKGY 91 (91)
Q Consensus 88 l~~~ 91 (91)
+++|
T Consensus 367 i~~y 370 (697)
T PLN03081 367 VDLY 370 (697)
T ss_pred HHHH
Confidence 7654
No 6
>PF13041 PPR_2: PPR repeat family
Probab=99.80 E-value=3.7e-19 Score=81.02 Aligned_cols=50 Identities=38% Similarity=0.801 Sum_probs=37.4
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHc
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCN 58 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~ 58 (91)
||.++||++|++|++.|++++|.++|++|.++ |+.||..||+.++++|++
T Consensus 1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~-g~~P~~~Ty~~li~~~~k 50 (50)
T PF13041_consen 1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKR-GIKPDSYTYNILINGLCK 50 (50)
T ss_pred CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHcC
Confidence 67777777777777777777777777777765 777777777777777764
No 7
>PLN03077 Protein ECB2; Provisional
Probab=99.80 E-value=4e-19 Score=117.92 Aligned_cols=87 Identities=20% Similarity=0.303 Sum_probs=64.6
Q ss_pred CCCC-cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHH
Q 038287 4 KQLP-PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCF 82 (91)
Q Consensus 4 ~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~ 82 (91)
+.++ ||.++||++|.+|++.|++++|.++|++|... |+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..
T Consensus 246 ~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~-g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~ 324 (857)
T PLN03077 246 DRMPRRDCISWNAMISGYFENGECLEGLELFFTMREL-SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVS 324 (857)
T ss_pred hcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHc-CCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchH
Confidence 3444 67777777777777777777777777777765 777777777777777777777777777777777777777777
Q ss_pred hHhhhhhcC
Q 038287 83 VYNTIMKGY 91 (91)
Q Consensus 83 ~~~~ll~~~ 91 (91)
+|++|+++|
T Consensus 325 ~~n~Li~~y 333 (857)
T PLN03077 325 VCNSLIQMY 333 (857)
T ss_pred HHHHHHHHH
Confidence 777777654
No 8
>PF13041 PPR_2: PPR repeat family
Probab=99.79 E-value=4.3e-19 Score=80.82 Aligned_cols=48 Identities=35% Similarity=0.825 Sum_probs=46.8
Q ss_pred ccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhhcC
Q 038287 44 PNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMKGY 91 (91)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~ 91 (91)
||..+||++|++|++.|++++|.++|++|.+.|+.||..||+++|++|
T Consensus 1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~ 48 (50)
T PF13041_consen 1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGL 48 (50)
T ss_pred CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 899999999999999999999999999999999999999999999986
No 9
>PF12854 PPR_1: PPR repeat
Probab=99.50 E-value=4.6e-14 Score=59.16 Aligned_cols=32 Identities=31% Similarity=0.673 Sum_probs=18.7
Q ss_pred CCCcCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 038287 5 QLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQM 36 (91)
Q Consensus 5 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m 36 (91)
|++||.+|||+||++|++.|++++|.++|++|
T Consensus 2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M 33 (34)
T PF12854_consen 2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM 33 (34)
T ss_pred CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence 55555555555555555555555555555555
No 10
>PF12854 PPR_1: PPR repeat
Probab=99.42 E-value=3.8e-13 Score=56.34 Aligned_cols=33 Identities=36% Similarity=0.737 Sum_probs=31.8
Q ss_pred CCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 41 GIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
|+.||..||++++++|++.|++++|.++|++|+
T Consensus 2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~ 34 (34)
T PF12854_consen 2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK 34 (34)
T ss_pred CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence 889999999999999999999999999999984
No 11
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=99.19 E-value=5.6e-11 Score=49.56 Aligned_cols=33 Identities=36% Similarity=0.779 Sum_probs=20.7
Q ss_pred hHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcC
Q 038287 48 TYTILIDNVCNTKNLREAMRLVSALSDSGFKPD 80 (91)
Q Consensus 48 ~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~ 80 (91)
+|++++.+|++.|++++|.++|++|.+.|++||
T Consensus 2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~ 34 (35)
T TIGR00756 2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD 34 (35)
T ss_pred cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence 466666666666666666666666666666665
No 12
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=99.14 E-value=1.3e-10 Score=48.31 Aligned_cols=33 Identities=24% Similarity=0.498 Sum_probs=19.1
Q ss_pred HhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc
Q 038287 47 VTYTILIDNVCNTKNLREAMRLVSALSDSGFKP 79 (91)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p 79 (91)
.+|++++++|++.|+++.|.++|++|++.|++|
T Consensus 2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P 34 (34)
T PF13812_consen 2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP 34 (34)
T ss_pred cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence 355555666666555555656666655555554
No 13
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=99.11 E-value=1.6e-10 Score=48.14 Aligned_cols=35 Identities=31% Similarity=0.646 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNL 46 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~ 46 (91)
++||++|.+|++.|++++|.++|+.|.+. |+.||.
T Consensus 1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~-g~~p~~ 35 (35)
T TIGR00756 1 VTYNTLIDGLCKAGRVEEALELFKEMLER-GIEPDV 35 (35)
T ss_pred CcHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCCC
Confidence 37999999999999999999999999987 999873
No 14
>KOG4422 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.07 E-value=1e-09 Score=68.62 Aligned_cols=87 Identities=25% Similarity=0.487 Sum_probs=70.6
Q ss_pred CCCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhh------------------------------CCCCccHHhHHHH
Q 038287 3 FKQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRAS------------------------------LGIKPNLVTYTIL 52 (91)
Q Consensus 3 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------------------------------~~~~~~~~~~~~~ 52 (91)
|+-.+.+..|+.+||.++||-...+.|.+++++-... ..+.||..|||++
T Consensus 200 ~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNal 279 (625)
T KOG4422|consen 200 FETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNAL 279 (625)
T ss_pred HhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHH
Confidence 3345567789999999999998888888887765443 3588999999999
Q ss_pred HHHHHccCCHHH----HHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 53 IDNVCNTKNLRE----AMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 53 ~~~~~~~~~~~~----a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
+++..+.|.++. +.++..+|++-|++|...+|-.+|.
T Consensus 280 L~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik 320 (625)
T KOG4422|consen 280 LSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIK 320 (625)
T ss_pred HHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHH
Confidence 999999997655 4678899999999999999887775
No 15
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=99.04 E-value=8e-10 Score=45.86 Aligned_cols=33 Identities=30% Similarity=0.588 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP 44 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~ 44 (91)
++||++|.+|++.|+++.|.++|+.|++. |++|
T Consensus 2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~-gv~P 34 (34)
T PF13812_consen 2 HTYNALLRACAKAGDPDAALQLFDEMKEQ-GVKP 34 (34)
T ss_pred cHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCC
Confidence 68999999999999999999999999986 8887
No 16
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=99.00 E-value=8.8e-10 Score=44.77 Aligned_cols=29 Identities=28% Similarity=0.619 Sum_probs=17.1
Q ss_pred hHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 48 TYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 48 ~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
||+.++++|++.|++++|.++|++|.+.|
T Consensus 2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g 30 (31)
T PF01535_consen 2 TYNSLISGYCKMGQFEEALEVFDEMRERG 30 (31)
T ss_pred cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence 45566666666666666666666665554
No 17
>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends. Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].
Probab=98.99 E-value=1.5e-08 Score=52.84 Aligned_cols=78 Identities=13% Similarity=0.271 Sum_probs=66.1
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCC-CccHHhHHHHHHHHHccCC--------HHHHHHHHHHHHhCCCCcCHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGI-KPNLVTYTILIDNVCNTKN--------LREAMRLVSALSDSGFKPDCF 82 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~~~~~~~~~~~~--------~~~a~~~~~~m~~~g~~p~~~ 82 (91)
|-..-|..+...+++.....+|+.++.. |+ .|+..+|+.++++.++... +.+...++..|...+++|+..
T Consensus 27 t~i~~I~~~~~~~d~N~I~~lYqslkRN-~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~e 105 (120)
T PF08579_consen 27 TQIDNINSCFENEDYNIINPLYQSLKRN-GITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDE 105 (120)
T ss_pred HHHHHHHHHHhhcchHHHHHHHHHHHhc-CCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHH
Confidence 3345566666669999999999999986 99 9999999999999998753 455678999999999999999
Q ss_pred hHhhhhhc
Q 038287 83 VYNTIMKG 90 (91)
Q Consensus 83 ~~~~ll~~ 90 (91)
||+.++..
T Consensus 106 tYnivl~~ 113 (120)
T PF08579_consen 106 TYNIVLGS 113 (120)
T ss_pred HHHHHHHH
Confidence 99999864
No 18
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=98.89 E-value=2.8e-09 Score=43.24 Aligned_cols=29 Identities=31% Similarity=0.550 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
+|||++|++|++.|++++|.++|++|.+.
T Consensus 1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~ 29 (31)
T PF01535_consen 1 VTYNSLISGYCKMGQFEEALEVFDEMRER 29 (31)
T ss_pred CcHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence 48999999999999999999999999875
No 19
>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses. ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].
Probab=98.76 E-value=1.5e-07 Score=54.31 Aligned_cols=83 Identities=19% Similarity=0.307 Sum_probs=71.4
Q ss_pred cCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC----------------CHHHHH
Q 038287 8 PDIFTYNFLVKCLCKC-----RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK----------------NLREAM 66 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~a~ 66 (91)
.+..+|...++.+.+. |..+-....+..|.+ +|+..|..+|+.+++.+.+.. +.+-|+
T Consensus 45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~e-fgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i 123 (228)
T PF06239_consen 45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDE-FGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI 123 (228)
T ss_pred ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHH-cCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence 5778899999998744 678888888889977 599999999999999999752 355689
Q ss_pred HHHHHHHhCCCCcCHHhHhhhhhcC
Q 038287 67 RLVSALSDSGFKPDCFVYNTIMKGY 91 (91)
Q Consensus 67 ~~~~~m~~~g~~p~~~~~~~ll~~~ 91 (91)
+++++|...|+.||..|+..|++.|
T Consensus 124 ~lL~qME~~gV~Pd~Et~~~ll~iF 148 (228)
T PF06239_consen 124 DLLEQMENNGVMPDKETEQMLLNIF 148 (228)
T ss_pred HHHHHHHHcCCCCcHHHHHHHHHHh
Confidence 9999999999999999999999865
No 20
>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 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 entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].
Probab=98.53 E-value=7.5e-07 Score=56.20 Aligned_cols=79 Identities=13% Similarity=0.142 Sum_probs=67.7
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhhc
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMKG 90 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~ 90 (91)
.|.++++..|.+.+..+.++.+++.=.. +|+-||.+|||.+|+.+.+.|+.+.|.++...|..++.-.+..|+...+.+
T Consensus 104 ~t~ha~vR~~l~~~~~~~~l~~L~n~~~-yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~ 182 (429)
T PF10037_consen 104 STHHALVRQCLELGAEDELLELLKNRLQ-YGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYS 182 (429)
T ss_pred ccHHHHHHHHHhcCCHHHHHHHHhChhh-cccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHH
Confidence 4667999999999999999999987655 699999999999999999999999999999999877766666776555443
No 21
>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase. The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].
Probab=98.32 E-value=4e-05 Score=41.06 Aligned_cols=81 Identities=11% Similarity=0.167 Sum_probs=64.5
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHh--------------hCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRA--------------SLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
|..++.++|.++++.|+.+....+.+..-. .....|+.....+++.+|+.++++..|.++.+...+
T Consensus 1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~ 80 (126)
T PF12921_consen 1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR 80 (126)
T ss_pred ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence 456788999999999999998888875421 123568888999999999999999999999999875
Q ss_pred C-CCCcCHHhHhhhhh
Q 038287 75 S-GFKPDCFVYNTIMK 89 (91)
Q Consensus 75 ~-g~~p~~~~~~~ll~ 89 (91)
. ++.-+..+|..|++
T Consensus 81 ~Y~I~i~~~~W~~Ll~ 96 (126)
T PF12921_consen 81 KYPIPIPKEFWRRLLE 96 (126)
T ss_pred HcCCCCCHHHHHHHHH
Confidence 4 77777888877764
No 22
>KOG4422 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.26 E-value=3.7e-06 Score=53.20 Aligned_cols=72 Identities=22% Similarity=0.564 Sum_probs=58.0
Q ss_pred CCCCCCCcCHHHHHHHHHHHHhcCChHHH----HHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHH-HHHHHHHHH
Q 038287 1 LIFKQLPPDIFTYNFLVKCLCKCRSLTTV----YNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLRE-AMRLVSALS 73 (91)
Q Consensus 1 m~~~~~~~~~~~~~~li~~~~~~~~~~~a----~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~-a~~~~~~m~ 73 (91)
|+.-.++||..|||+++++.++.|.++.| .+++.+|++- |+.|...+|..++.-+++.+++.+ +..+..++.
T Consensus 264 Misqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKei-GVePsLsSyh~iik~f~re~dp~k~as~~i~dI~ 340 (625)
T KOG4422|consen 264 MISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEI-GVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQ 340 (625)
T ss_pred HHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHh-CCCcchhhHHHHHHHhcccCCchhhhHHHHHHHH
Confidence 45567889999999999999999977654 5667788886 999999999999999999887644 455554443
No 23
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=98.20 E-value=3.7e-05 Score=47.61 Aligned_cols=74 Identities=11% Similarity=0.101 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
.+++.+..+|.+.|++++|...++.+.+. .|+...+..+...+.+.|++++|.++++++.+. .|+..++..++.
T Consensus 250 ~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~ 323 (389)
T PRK11788 250 EVLPKLMECYQALGDEAEGLEFLRRALEE---YPGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLD 323 (389)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHH
Confidence 34566667777777777777777776643 455555566777777777777777777766543 466666665543
No 24
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=98.01 E-value=4.1e-05 Score=47.44 Aligned_cols=72 Identities=15% Similarity=0.135 Sum_probs=60.2
Q ss_pred CcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHc---cCCHHHHHHHHHHHHhCCCCcCH
Q 038287 7 PPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCN---TKNLREAMRLVSALSDSGFKPDC 81 (91)
Q Consensus 7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~---~~~~~~a~~~~~~m~~~g~~p~~ 81 (91)
.|+...+..+...+.+.|++++|..+++.+.+. .|+..++..++..+.. .|...++..++++|.+.+++|+.
T Consensus 279 ~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~---~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p 353 (389)
T PRK11788 279 YPGADLLLALAQLLEEQEGPEAAQALLREQLRR---HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP 353 (389)
T ss_pred CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh---CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence 366666788899999999999999999988764 7999999988888775 55889999999999987766654
No 25
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=97.91 E-value=0.00033 Score=38.00 Aligned_cols=71 Identities=15% Similarity=0.257 Sum_probs=52.9
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHH-----hCCCCcCHHhHh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALS-----DSGFKPDCFVYN 85 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~-----~~g~~p~~~~~~ 85 (91)
....+...+...|++++|..+.+..... .| +...|..+|.++...|+...|.+.|+++. ..|+.|+..+-.
T Consensus 64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~---dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~ 140 (146)
T PF03704_consen 64 ALERLAEALLEAGDYEEALRLLQRALAL---DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA 140 (146)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHH---STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred HHHHHHHHHHhccCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence 3455667777899999999999999864 56 68899999999999999999999998885 258999876643
No 26
>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends. Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].
Probab=97.86 E-value=0.00021 Score=37.61 Aligned_cols=57 Identities=23% Similarity=0.377 Sum_probs=47.0
Q ss_pred CCCCC-CcCHHHHHHHHHHHHhcC--------ChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHcc
Q 038287 2 IFKQL-PPDIFTYNFLVKCLCKCR--------SLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNT 59 (91)
Q Consensus 2 ~~~~~-~~~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ 59 (91)
+.+|+ .|+..+|+.++.+-++.. .+-+++.+|+.|... +++|+..+|+.++.+..+.
T Consensus 52 kRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~etYnivl~~Llkg 117 (120)
T PF08579_consen 52 KRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDETYNIVLGSLLKG 117 (120)
T ss_pred HhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHHHHHHHHHHHHh
Confidence 35678 599999999999988764 245778889999876 8999999999999987653
No 27
>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]
Probab=97.86 E-value=0.00028 Score=42.91 Aligned_cols=83 Identities=16% Similarity=0.265 Sum_probs=65.2
Q ss_pred cCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC----------------CHHHHH
Q 038287 8 PDIFTYNFLVKCLCKC-----RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK----------------NLREAM 66 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~a~ 66 (91)
.|..+|-+.+..+... +..+-....+..|++ +|+..|..+|+.+++.+.+-. +.+-++
T Consensus 65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~e-yGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I 143 (406)
T KOG3941|consen 65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKE-YGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI 143 (406)
T ss_pred ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHH-hcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence 3556666666666533 456777777788876 699999999999999988763 234478
Q ss_pred HHHHHHHhCCCCcCHHhHhhhhhcC
Q 038287 67 RLVSALSDSGFKPDCFVYNTIMKGY 91 (91)
Q Consensus 67 ~~~~~m~~~g~~p~~~~~~~ll~~~ 91 (91)
.++++|...|+.||..+-..|+++|
T Consensus 144 ~vLeqME~hGVmPdkE~e~~lvn~F 168 (406)
T KOG3941|consen 144 KVLEQMEWHGVMPDKEIEDILVNAF 168 (406)
T ss_pred HHHHHHHHcCCCCchHHHHHHHHHh
Confidence 9999999999999999999998875
No 28
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=97.82 E-value=0.00021 Score=33.64 Aligned_cols=62 Identities=18% Similarity=0.221 Sum_probs=48.2
Q ss_pred HhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhh
Q 038287 21 CKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 21 ~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
.+.|++++|.++|+..... .| +...+-.+..+|.+.|++++|.++++++... .|+...|..+
T Consensus 2 l~~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l 64 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL 64 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred hhccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence 4678999999999999875 45 6777788999999999999999999998754 4554444333
No 29
>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses. ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].
Probab=97.78 E-value=0.00019 Score=41.76 Aligned_cols=58 Identities=17% Similarity=0.287 Sum_probs=49.7
Q ss_pred CCCCcCHHHHHHHHHHHHhcC----------------ChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCH
Q 038287 4 KQLPPDIFTYNFLVKCLCKCR----------------SLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNL 62 (91)
Q Consensus 4 ~~~~~~~~~~~~li~~~~~~~----------------~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (91)
-|+..|..+|+.||+.+-+.. +-+-|+.++++|... |+.||..++..+++.+++.+.+
T Consensus 81 fgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~-gV~Pd~Et~~~ll~iFG~~s~p 154 (228)
T PF06239_consen 81 FGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENN-GVMPDKETEQMLLNIFGRKSHP 154 (228)
T ss_pred cCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHc-CCCCcHHHHHHHHHHhccccHH
Confidence 467789999999999987642 347789999999875 9999999999999999999853
No 30
>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 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 entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].
Probab=97.76 E-value=0.0002 Score=45.61 Aligned_cols=86 Identities=19% Similarity=0.215 Sum_probs=70.9
Q ss_pred CCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCC-CCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhH
Q 038287 6 LPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLG-IKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
.+.+......+++......+.+++..++..++...+ ...-..|.+++++.|.+.|..+.+.++...-..-|+=||.+++
T Consensus 62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~ 141 (429)
T PF10037_consen 62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF 141 (429)
T ss_pred CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence 345666778888888888889999999999887522 2233456679999999999999999999999999999999999
Q ss_pred hhhhhcC
Q 038287 85 NTIMKGY 91 (91)
Q Consensus 85 ~~ll~~~ 91 (91)
|.|++.+
T Consensus 142 n~Lmd~f 148 (429)
T PF10037_consen 142 NLLMDHF 148 (429)
T ss_pred HHHHHHH
Confidence 9998753
No 31
>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]
Probab=97.75 E-value=1.3e-05 Score=54.29 Aligned_cols=60 Identities=20% Similarity=0.207 Sum_probs=49.8
Q ss_pred CCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhh-----------------------CCCCccHHhHHHHHHHHHccC
Q 038287 4 KQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRAS-----------------------LGIKPNLVTYTILIDNVCNTK 60 (91)
Q Consensus 4 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----------------------~~~~~~~~~~~~~~~~~~~~~ 60 (91)
.|+.|+-+||.++|.-||..|+.+.|- +|..|+-+ .--.|...||..+..+|.+.|
T Consensus 19 ~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~Ll~ayr~hG 97 (1088)
T KOG4318|consen 19 SGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNLLKAYRIHG 97 (1088)
T ss_pred hcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHHHHHHHhcc
Confidence 588899999999999999999998887 88777654 113577888999999999999
Q ss_pred CHHH
Q 038287 61 NLRE 64 (91)
Q Consensus 61 ~~~~ 64 (91)
++..
T Consensus 98 Dli~ 101 (1088)
T KOG4318|consen 98 DLIL 101 (1088)
T ss_pred chHH
Confidence 8766
No 32
>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase. The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].
Probab=97.46 E-value=0.0016 Score=34.96 Aligned_cols=57 Identities=12% Similarity=0.046 Sum_probs=51.3
Q ss_pred CCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCC
Q 038287 5 QLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKN 61 (91)
Q Consensus 5 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (91)
.+.|+..+..+++.+|+..+++..|+++.+.+.+.+++..+...|..+++-+....+
T Consensus 47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s~ 103 (126)
T PF12921_consen 47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLSS 103 (126)
T ss_pred CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcC
Confidence 445999999999999999999999999999999999998899999999997776554
No 33
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=97.43 E-value=0.0024 Score=29.76 Aligned_cols=55 Identities=13% Similarity=0.131 Sum_probs=46.8
Q ss_pred HHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 17 VKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 17 i~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
-..+.+.|++++|.+.|+...+. .| +...+..+-.++.+.|++++|.+.+++..+
T Consensus 4 a~~~~~~g~~~~A~~~~~~~l~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 4 ARALYQQGDYDEAIAAFEQALKQ---DPDNPEAWYLLGRILYQQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHCTHHHHHHHHHHHHHCC---STTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 35677899999999999999865 46 677888899999999999999999999864
No 34
>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]
Probab=97.43 E-value=0.0011 Score=45.49 Aligned_cols=78 Identities=12% Similarity=0.133 Sum_probs=65.5
Q ss_pred CcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhh
Q 038287 7 PPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNT 86 (91)
Q Consensus 7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ 86 (91)
.|+..++...+.+-..+|+.+.|..++.+|+++ |+..+..-|..++-+ .+....++.+.+-|...|+.|+..|+..
T Consensus 201 ~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~-gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~ad 276 (1088)
T KOG4318|consen 201 APTSETLHAVLKRALAAGDVDGAKNLLYEMKEK-GFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQAD 276 (1088)
T ss_pred CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHc-CCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHH
Confidence 388899999999999999999999999999987 777776656666544 7778888899999999999999988865
Q ss_pred hh
Q 038287 87 IM 88 (91)
Q Consensus 87 ll 88 (91)
-+
T Consensus 277 yv 278 (1088)
T KOG4318|consen 277 YV 278 (1088)
T ss_pred HH
Confidence 43
No 35
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=97.22 E-value=0.005 Score=41.41 Aligned_cols=76 Identities=8% Similarity=0.028 Sum_probs=48.7
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNT 86 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ 86 (91)
.+...++.+...+.+.|+ ++|...++..... .| +...+..+...+.+.|++++|.+.++++.+.+.. +..++..
T Consensus 802 ~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~ 876 (899)
T TIGR02917 802 DNAVVLNNLAWLYLELKD-PRALEYAEKALKL---APNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYH 876 (899)
T ss_pred CCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhh---CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHH
Confidence 455667777777777777 6677777776643 23 3445566666677777777777777777765432 4555544
Q ss_pred hh
Q 038287 87 IM 88 (91)
Q Consensus 87 ll 88 (91)
+.
T Consensus 877 l~ 878 (899)
T TIGR02917 877 LA 878 (899)
T ss_pred HH
Confidence 43
No 36
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=97.16 E-value=0.011 Score=39.82 Aligned_cols=59 Identities=10% Similarity=0.049 Sum_probs=26.4
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
+..+...|.+.|++++|..+++.+... ...+...|..+..++.+.|++++|.+.++++.
T Consensus 570 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~ 628 (899)
T TIGR02917 570 ALALAQYYLGKGQLKKALAILNEAADA--APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLL 628 (899)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 334444444444444444444444332 12233444444444445555555555444443
No 37
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=97.09 E-value=0.0072 Score=28.38 Aligned_cols=63 Identities=11% Similarity=0.053 Sum_probs=53.2
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccC-CHHHHHHHHHHHHh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTK-NLREAMRLVSALSD 74 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~a~~~~~~m~~ 74 (91)
+..+|..+=..+.+.+++++|+..|+...+. .| +...|..+-.++.+.| ++++|.+.+++..+
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~---~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL---DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH---STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 3567888888899999999999999998875 45 5778888999999999 79999999887754
No 38
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=96.94 E-value=0.035 Score=33.79 Aligned_cols=74 Identities=16% Similarity=0.219 Sum_probs=62.1
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh-----CCCCcCHHhH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD-----SGFKPDCFVY 84 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~~~ 84 (91)
.++..++..+..+++.+.+.+.++.+... .| +...|-.+|.+|.+.|....|+..++++.+ .|+.|...+.
T Consensus 154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~---dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~ 230 (280)
T COG3629 154 KALTKLAEALIACGRADAVIEHLERLIEL---DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELR 230 (280)
T ss_pred HHHHHHHHHHHhcccHHHHHHHHHHHHhc---CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHH
Confidence 35667888899999999999999999854 55 788899999999999999999999988864 5888887766
Q ss_pred hhh
Q 038287 85 NTI 87 (91)
Q Consensus 85 ~~l 87 (91)
...
T Consensus 231 ~~y 233 (280)
T COG3629 231 ALY 233 (280)
T ss_pred HHH
Confidence 543
No 39
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=96.92 E-value=0.013 Score=28.27 Aligned_cols=63 Identities=16% Similarity=0.173 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhh---CCC-Ccc-HHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRAS---LGI-KPN-LVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~-~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.+++.+-..|...|++++|+..|++...- .|- .|+ ..++..+-.++...|+.++|.+.+++..
T Consensus 6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al 73 (78)
T PF13424_consen 6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL 73 (78)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 45788888999999999999999986642 221 233 6778899999999999999999998764
No 40
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=96.84 E-value=0.008 Score=29.54 Aligned_cols=58 Identities=10% Similarity=0.138 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSA 71 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 71 (91)
..+-.+-.+|.+.|++++|..+++..... .. +....-.+-.++.+.|+.++|++++++
T Consensus 26 ~~~~~la~~~~~~~~y~~A~~~~~~~~~~--~~-~~~~~~l~a~~~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 26 AYLYNLAQCYFQQGKYEEAIELLQKLKLD--PS-NPDIHYLLARCLLKLGKYEEAIKALEK 83 (84)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHCHTHH--HC-HHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHhCCC--CC-CHHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence 34445678888888888888888773221 11 223333557778888888888888764
No 41
>PF13762 MNE1: Mitochondrial splicing apparatus component
Probab=96.82 E-value=0.028 Score=30.93 Aligned_cols=87 Identities=11% Similarity=0.196 Sum_probs=65.0
Q ss_pred CCCcCH--HHHHHHHHHHHhcCChHHHHHHHHHHHhhCC---C-CccHHhHHHHHHHHHccCC-HHHHHHHHHHHHhCCC
Q 038287 5 QLPPDI--FTYNFLVKCLCKCRSLTTVYNFVDQMRASLG---I-KPNLVTYTILIDNVCNTKN-LREAMRLVSALSDSGF 77 (91)
Q Consensus 5 ~~~~~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~-~~~~~~~~~~~~~~~~~~~-~~~a~~~~~~m~~~g~ 77 (91)
+..++. ...|+++...+.-+.+....++++.+..-.. . ..+-.+|.+++++.++... -.-+..+|.-|.+.+.
T Consensus 32 ~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~ 111 (145)
T PF13762_consen 32 NASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDI 111 (145)
T ss_pred ccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCC
Confidence 444433 4478888888888888888888888753100 1 3455679999999987776 4556899999998888
Q ss_pred CcCHHhHhhhhhcC
Q 038287 78 KPDCFVYNTIMKGY 91 (91)
Q Consensus 78 ~p~~~~~~~ll~~~ 91 (91)
+++..-|..+++++
T Consensus 112 ~~t~~dy~~li~~~ 125 (145)
T PF13762_consen 112 EFTPSDYSCLIKAA 125 (145)
T ss_pred CCCHHHHHHHHHHH
Confidence 99999998888764
No 42
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=96.81 E-value=0.015 Score=27.57 Aligned_cols=55 Identities=5% Similarity=0.035 Sum_probs=47.2
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
..|.+.+++++|..+++.+... .| +...|...-.++.+.|++.+|.+.+++..+.
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALEL---DPDDPELWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHh---CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 5688999999999999999864 45 5666777888899999999999999999864
No 43
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=96.77 E-value=0.03 Score=30.52 Aligned_cols=62 Identities=10% Similarity=-0.160 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
...|..+-..+.+.|++++|...|+..... .| +...+..+-.++.+.|+.++|.+.++....
T Consensus 58 ~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l---~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~ 120 (144)
T PRK15359 58 WRAHIALAGTWMMLKEYTTAINFYGHALML---DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIK 120 (144)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHhc---CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 344445555555555555555555555432 33 344555555555555666666665555543
No 44
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=96.72 E-value=0.039 Score=35.70 Aligned_cols=64 Identities=9% Similarity=-0.045 Sum_probs=55.4
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccH----HhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNL----VTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+...|+.+=.+|.+.|++++|+..|+...+ +.|+. .+|..+-.+|.+.|+.++|.+.+++....
T Consensus 74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 74 TAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 567799999999999999999999999765 36763 46999999999999999999999988764
No 45
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=96.64 E-value=0.016 Score=34.74 Aligned_cols=68 Identities=6% Similarity=-0.042 Sum_probs=39.4
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
++...+...+..+.+.++++++..+++..........+...|......+.+.|+.++|.+.+++..+.
T Consensus 108 ~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~ 175 (280)
T PF13429_consen 108 GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL 175 (280)
T ss_dssp ----------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_pred cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 44555667777778888888888888887654233556777777778888888888888888887653
No 46
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=96.39 E-value=0.015 Score=34.89 Aligned_cols=64 Identities=9% Similarity=-0.045 Sum_probs=41.9
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+...|..+-..+.+.|++++|.+.++...+. .|+ ......++..+...|+.+++.++++....
T Consensus 144 ~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~ 208 (280)
T PF13429_consen 144 DSARFWLALAEIYEQLGDPDKALRDYRKALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLK 208 (280)
T ss_dssp T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHH
Confidence 45556666667777777777777777777654 553 55566677777777777776666666643
No 47
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=96.37 E-value=0.077 Score=33.67 Aligned_cols=60 Identities=15% Similarity=0.094 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
......+=..+.+.+++++|.+.|+...+. .|+..++..+...+.+.|+.++|.+.+++-
T Consensus 328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~---~P~~~~~~~La~~~~~~g~~~~A~~~~~~~ 387 (398)
T PRK10747 328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQ---RPDAYDYAWLADALDRLHKPEEAAAMRRDG 387 (398)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 334455556666777777777777776643 677766677777777777777777666654
No 48
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=96.20 E-value=0.071 Score=28.20 Aligned_cols=59 Identities=15% Similarity=0.067 Sum_probs=31.0
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
...+...+.+.|++++|.+.|+..... .| +...|..+-.++.+.|+.++|...++....
T Consensus 20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~ 79 (135)
T TIGR02552 20 IYALAYNLYQQGRYDEALKLFQLLAAY---DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAA 79 (135)
T ss_pred HHHHHHHHHHcccHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334444555556666666666555432 22 344455555555555566666655555543
No 49
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=96.18 E-value=0.046 Score=25.90 Aligned_cols=58 Identities=14% Similarity=0.083 Sum_probs=34.0
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..+...+...|++++|...++...+. .| +...+..+...+...+++++|.+.++....
T Consensus 4 ~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 62 (100)
T cd00189 4 LNLGNLYYKLGDYDEALEYYEKALEL---DPDNADAYYNLAAAYYKLGKYEEALEDYEKALE 62 (100)
T ss_pred HHHHHHHHHHhcHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445555666677777776666542 22 234555566666666666667666666554
No 50
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=96.15 E-value=0.096 Score=33.30 Aligned_cols=68 Identities=15% Similarity=0.102 Sum_probs=56.2
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKP 79 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p 79 (91)
++..+.+|=..|.+.+.|.+|...|+.-.+ ..|+..+|+.+-+++.+.|++.+|.++.++-...-..|
T Consensus 327 ~p~L~~tLG~L~~k~~~w~kA~~~leaAl~---~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~ 394 (400)
T COG3071 327 DPLLLSTLGRLALKNKLWGKASEALEAALK---LRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQP 394 (400)
T ss_pred ChhHHHHHHHHHHHhhHHHHHHHHHHHHHh---cCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCC
Confidence 445666777778899999999999997664 48999999999999999999999999998876443333
No 51
>KOG4570 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.02 E-value=0.026 Score=35.16 Aligned_cols=49 Identities=18% Similarity=0.284 Sum_probs=36.0
Q ss_pred hHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 26 LTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 26 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+++++.++..=.. +|+-||.++++.+|+.+.+.++...|.++.-.|..+
T Consensus 116 pq~~i~~l~npIq-YGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q 164 (418)
T KOG4570|consen 116 PQKAIYTLVNPIQ-YGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ 164 (418)
T ss_pred hHHHHHHHhCcch-hccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence 3444444443322 799999999999999999999998888777666543
No 52
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=96.02 E-value=0.15 Score=33.60 Aligned_cols=79 Identities=16% Similarity=0.253 Sum_probs=55.8
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHH-ccCCHHHHHHHHHHHHhCCCCcCHHhHhh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVC-NTKNLREAMRLVSALSDSGFKPDCFVYNT 86 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ 86 (91)
-+..|...|-..|....-+++++..|+... -+.|+..-|..|+..|. +.|....|.+++++..+ .+.-|......
T Consensus 624 ~nie~iewl~ayyidtqf~ekai~y~ekaa---liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr-kfpedldclkf 699 (840)
T KOG2003|consen 624 CNIETIEWLAAYYIDTQFSEKAINYFEKAA---LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR-KFPEDLDCLKF 699 (840)
T ss_pred cchHHHHHHHHHHHhhHHHHHHHHHHHHHH---hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH-hCccchHHHHH
Confidence 355555566666677777788888888775 46899999999887666 55789999999988753 35555555555
Q ss_pred hhhc
Q 038287 87 IMKG 90 (91)
Q Consensus 87 ll~~ 90 (91)
|++.
T Consensus 700 lvri 703 (840)
T KOG2003|consen 700 LVRI 703 (840)
T ss_pred HHHH
Confidence 5543
No 53
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=95.93 E-value=0.064 Score=25.38 Aligned_cols=64 Identities=13% Similarity=0.015 Sum_probs=50.6
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
+...+..+-..+...+++++|...++..... . ..+..++..+...+...|+.+.|.+.+.....
T Consensus 33 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 33 NADAYYNLAAAYYKLGKYEEALEDYEKALEL-D-PDNAKAYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-C-CcchhHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 3456777788888899999999999988753 1 22346788888899999999999999887754
No 54
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=95.88 E-value=0.093 Score=26.82 Aligned_cols=64 Identities=5% Similarity=-0.122 Sum_probs=42.1
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCC-CccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGI-KPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
.+..+-..+.+.+++++|...|+.+.....- ......+..+..++.+.++.++|.+.+++....
T Consensus 41 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~ 105 (119)
T TIGR02795 41 AHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKR 105 (119)
T ss_pred HHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence 4455667777778888888888877653110 111345666667777778888888888777654
No 55
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=95.86 E-value=0.14 Score=28.85 Aligned_cols=18 Identities=6% Similarity=-0.066 Sum_probs=6.9
Q ss_pred HHHHhcCChHHHHHHHHH
Q 038287 18 KCLCKCRSLTTVYNFVDQ 35 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~ 35 (91)
..+...|++++|...++.
T Consensus 73 ~~~~~~~~~~~A~~~~~~ 90 (234)
T TIGR02521 73 LYYQQLGELEKAEDSFRR 90 (234)
T ss_pred HHHHHcCCHHHHHHHHHH
Confidence 333333333333333333
No 56
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=95.79 E-value=0.25 Score=31.08 Aligned_cols=64 Identities=9% Similarity=-0.040 Sum_probs=52.5
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+...|..+-.+|.+.|++++|...++..... .| +...|..+-.++...|+.++|.+.+++....
T Consensus 35 ~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l---~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l 99 (356)
T PLN03088 35 NAELYADRAQANIKLGNFTEAVADANKAIEL---DPSLAKAYLRKGTACMKLEEYQTAKAALEKGASL 99 (356)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence 4556777778889999999999999998753 55 4667888888899999999999999888753
No 57
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=95.74 E-value=0.14 Score=27.89 Aligned_cols=61 Identities=8% Similarity=-0.107 Sum_probs=51.5
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
.+..+-..+...|++++|...|+..... .| +...|..+-.++.+.|++++|.+.|++....
T Consensus 26 ~~~~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l 87 (144)
T PRK15359 26 TVYASGYASWQEGDYSRAVIDFSWLVMA---QPWSWRAHIALAGTWMMLKEYTTAINFYGHALML 87 (144)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 4555667778999999999999998753 55 6788889999999999999999999999864
No 58
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=95.74 E-value=0.16 Score=28.61 Aligned_cols=60 Identities=8% Similarity=0.091 Sum_probs=33.1
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+..+-..+...|++++|...++..... .| +...+..+...+...|+.++|.+.+++....
T Consensus 138 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~ 198 (234)
T TIGR02521 138 LENAGLCALKAGDFDKAEKYLTRALQI---DPQRPESLLELAELYYLRGQYKDARAYLERYQQT 198 (234)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 344444555556666666666655432 22 2344555556666666666666666665543
No 59
>PRK11189 lipoprotein NlpI; Provisional
Probab=95.61 E-value=0.26 Score=30.06 Aligned_cols=63 Identities=16% Similarity=0.122 Sum_probs=41.6
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
+...|+.+-..+...|++++|...|+...+ +.|+ ..+|..+-.++...|+.++|.+.+++..+
T Consensus 97 ~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~ 160 (296)
T PRK11189 97 MADAYNYLGIYLTQAGNFDAAYEAFDSVLE---LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ 160 (296)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 345566666777777777777777777664 2453 45566666666677777777777766654
No 60
>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]
Probab=95.55 E-value=0.037 Score=34.12 Aligned_cols=59 Identities=17% Similarity=0.156 Sum_probs=48.6
Q ss_pred CCCCCcCHHHHHHHHHHHHhcCC----------------hHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCH
Q 038287 3 FKQLPPDIFTYNFLVKCLCKCRS----------------LTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNL 62 (91)
Q Consensus 3 ~~~~~~~~~~~~~li~~~~~~~~----------------~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (91)
.-|+..|..+|+.||+.+-|-.- -+=++.++++|... |+.||-.+-..+++++++-+.+
T Consensus 100 eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~h-GVmPdkE~e~~lvn~FGr~~~p 174 (406)
T KOG3941|consen 100 EYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWH-GVMPDKEIEDILVNAFGRWNFP 174 (406)
T ss_pred HhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHc-CCCCchHHHHHHHHHhcccccc
Confidence 45777899999999998876542 24478899999886 9999999999999999998853
No 61
>PRK12370 invasion protein regulator; Provisional
Probab=95.52 E-value=0.41 Score=31.81 Aligned_cols=61 Identities=11% Similarity=-0.070 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..+..+-..+...|++++|...|+...+. .|+ ...+..+-..+...|+.++|.+.+++..+
T Consensus 339 ~a~~~lg~~~~~~g~~~~A~~~~~~Al~l---~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~ 400 (553)
T PRK12370 339 QALGLLGLINTIHSEYIVGSLLFKQANLL---SPISADIKYYYGWNLFMAGQLEEALQTINECLK 400 (553)
T ss_pred HHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 34444444555566666666666665542 343 34455555556666666666666666544
No 62
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=95.51 E-value=0.42 Score=31.74 Aligned_cols=69 Identities=12% Similarity=-0.038 Sum_probs=54.8
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCcC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS-GFKPD 80 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~-g~~p~ 80 (91)
+...+..+-......|++++|...++....- .|+...|..+-+.+...|+.++|.+.+++.... ...|+
T Consensus 419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L---~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt 488 (517)
T PRK10153 419 LPRIYEILAVQALVKGKTDEAYQAINKAIDL---EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT 488 (517)
T ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence 4455666655555679999999999998854 688899999999999999999999999888654 34443
No 63
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=95.51 E-value=0.14 Score=31.14 Aligned_cols=50 Identities=8% Similarity=0.069 Sum_probs=30.0
Q ss_pred CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 24 RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 24 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
++.+.|..+|+...+. +..+..-|..-++-..+.++.+.+..+|++....
T Consensus 50 ~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~ 99 (280)
T PF05843_consen 50 KDPKRARKIFERGLKK--FPSDPDFWLEYLDFLIKLNDINNARALFERAISS 99 (280)
T ss_dssp S-HHHHHHHHHHHHHH--HTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCT
T ss_pred CCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHh
Confidence 4555577777776654 2334555666667667777777777777776543
No 64
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=95.50 E-value=0.28 Score=31.30 Aligned_cols=60 Identities=12% Similarity=0.027 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
...++=..+.+.|++++|.+.|+....- ...|+...+..+...+-+.|+.++|.+++++-
T Consensus 337 ll~sLg~l~~~~~~~~~A~~~le~a~a~-~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~ 396 (409)
T TIGR00540 337 INRALGQLLMKHGEFIEAADAFKNVAAC-KEQLDANDLAMAADAFDQAGDKAEAAAMRQDS 396 (409)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHhHHh-hcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3445566677888888888888842221 34677777888888888888888888888765
No 65
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=95.45 E-value=0.25 Score=31.70 Aligned_cols=62 Identities=11% Similarity=0.161 Sum_probs=46.8
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
+....+.-...+.+.++.+.|..+.+...+ ..|+ ..+|..+..+|.+.|+++.|.-..+.+.
T Consensus 233 d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P 295 (395)
T PF09295_consen 233 DSELLNLQAEFLLSKKKYELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCP 295 (395)
T ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence 333444444556788888899988888875 3775 4589999999999999999988877764
No 66
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=95.41 E-value=0.068 Score=26.15 Aligned_cols=49 Identities=12% Similarity=0.124 Sum_probs=37.6
Q ss_pred cCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHH
Q 038287 23 CRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSA 71 (91)
Q Consensus 23 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 71 (91)
.++++.|..+++.+.....-.++...+-.+..++.+.|+.++|.+++++
T Consensus 2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 4789999999999987611122444555589999999999999999988
No 67
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=95.38 E-value=0.15 Score=25.98 Aligned_cols=61 Identities=10% Similarity=0.018 Sum_probs=49.5
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc----HHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN----LVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
++-.+...+.+.|++++|...|+.+... .|+ ...+..+..++.+.|+.++|.+.++.....
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~ 68 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLKK---YPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKK 68 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHH
Confidence 4566777788899999999999999865 232 345666888899999999999999998753
No 68
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=95.38 E-value=0.42 Score=32.52 Aligned_cols=63 Identities=10% Similarity=0.106 Sum_probs=39.5
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
+...+..+-..+.+.|++++|...++..... .|+ ...+..+..++.+.|++++|.+.++++..
T Consensus 283 ~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l---~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~ 346 (656)
T PRK15174 283 NVRIVTLYADALIRTGQNEKAIPLLQQSLAT---HPDLPYVRAMYARALRQVGQYTAASDEFVQLAR 346 (656)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3445666666666777777777777766543 342 44455566666677777777777766654
No 69
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=95.37 E-value=0.11 Score=24.12 Aligned_cols=42 Identities=14% Similarity=0.270 Sum_probs=33.0
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHH
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILI 53 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~ 53 (91)
+...+-.+..+|.+.|++++|..+++.+... .|+...|..++
T Consensus 24 ~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~---~~~~~~~~~l~ 65 (68)
T PF14559_consen 24 NPEARLLLAQCYLKQGQYDEAEELLERLLKQ---DPDNPEYQQLL 65 (68)
T ss_dssp SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG---GTTHHHHHHHH
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---CcCHHHHHHHH
Confidence 5667778999999999999999999999876 67755555544
No 70
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=95.33 E-value=0.49 Score=32.22 Aligned_cols=25 Identities=4% Similarity=0.083 Sum_probs=12.0
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQM 36 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m 36 (91)
.+..+...+...|++++|...++.+
T Consensus 146 a~~~la~~l~~~g~~~eA~~~~~~~ 170 (656)
T PRK15174 146 IFALHLRTLVLMDKELQAISLARTQ 170 (656)
T ss_pred HHHHHHHHHHHCCChHHHHHHHHHH
Confidence 3444444444555555555554444
No 71
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=95.29 E-value=0.19 Score=26.51 Aligned_cols=65 Identities=8% Similarity=-0.002 Sum_probs=53.3
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+...+..+-..+.+.+++++|...++..... . ..+...+..+-.++...|+.++|.+.++...+.
T Consensus 50 ~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~-~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 50 NSRYWLGLAACCQMLKEYEEAIDAYALAAAL-D-PDDPRPYFHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-C-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 5567778888999999999999999988653 1 235667777888999999999999999988764
No 72
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=95.22 E-value=0.069 Score=21.93 Aligned_cols=23 Identities=13% Similarity=0.134 Sum_probs=12.0
Q ss_pred HHHHHHHHHhcCChHHHHHHHHH
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQ 35 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~ 35 (91)
|+.|=..|.+.|++++|.++|+.
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~ 24 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQ 24 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHH
Confidence 34444555555555555555555
No 73
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=95.16 E-value=0.098 Score=22.43 Aligned_cols=28 Identities=7% Similarity=0.033 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
++..+-..|.+.|++++|.++|+...+.
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~ 30 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALAL 30 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 4555666777777777777777777654
No 74
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=95.09 E-value=0.56 Score=30.78 Aligned_cols=78 Identities=12% Similarity=0.089 Sum_probs=44.6
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
|+..+....+.+.+.++.++|.+.++.+... .|+ ...+-.+-+++-+.|.+.+|+.++.+-... ..-|...|..|
T Consensus 339 N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l---~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~L 414 (484)
T COG4783 339 NPYYLELAGDILLEANKAKEAIERLKKALAL---DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLL 414 (484)
T ss_pred CHHHHHHHHHHHHHcCChHHHHHHHHHHHhc---CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHH
Confidence 3344444456666777777777777776643 554 444555556666667766666666555422 23344555555
Q ss_pred hhc
Q 038287 88 MKG 90 (91)
Q Consensus 88 l~~ 90 (91)
-++
T Consensus 415 Aqa 417 (484)
T COG4783 415 AQA 417 (484)
T ss_pred HHH
Confidence 544
No 75
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=95.06 E-value=0.29 Score=27.31 Aligned_cols=65 Identities=8% Similarity=-0.091 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc--HHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN--LVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
...+..+-..+.+.|++++|...|++.... ...++ ...+..+...+.+.|+.++|.+.+.+..+.
T Consensus 35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 35 AFVYYRDGMSAQADGEYAEALENYEEALKL-EEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-hhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 345667777788899999999999988753 22222 467888889999999999999999988753
No 76
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=95.05 E-value=0.42 Score=30.43 Aligned_cols=59 Identities=8% Similarity=0.076 Sum_probs=48.7
Q ss_pred HHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 038287 17 VKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFK 78 (91)
Q Consensus 17 i~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~ 78 (91)
...+...|++++|...++...+. .| +......+...|.+.|+++++.+++..+.+.+..
T Consensus 160 a~l~l~~g~~~~Al~~l~~~~~~---~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~ 219 (398)
T PRK10747 160 VRIQLARNENHAARHGVDKLLEV---APRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVG 219 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCC
Confidence 45777889999999999998764 45 4677888899999999999999999999876544
No 77
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=95.04 E-value=0.087 Score=28.47 Aligned_cols=41 Identities=24% Similarity=0.366 Sum_probs=29.3
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHh----hCCCCccHHhH
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRA----SLGIKPNLVTY 49 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~~~~ 49 (91)
+...|-.+|.+|.+.|+...|.+.|+.+.. ..|+.|+..+-
T Consensus 95 ~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~ 139 (146)
T PF03704_consen 95 DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR 139 (146)
T ss_dssp -HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence 567899999999999999999999998764 35888887653
No 78
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=95.04 E-value=0.28 Score=30.85 Aligned_cols=62 Identities=5% Similarity=0.019 Sum_probs=49.0
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcC
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPD 80 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~ 80 (91)
+.....|+++.|.+.++...+. +..--..+...+..||.+.|+++++..++.++.+..-.++
T Consensus 222 ~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~ 283 (389)
T COG2956 222 RVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD 283 (389)
T ss_pred HHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc
Confidence 4566789999999999999876 4445567788999999999999999988888876543333
No 79
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=94.97 E-value=0.087 Score=21.62 Aligned_cols=26 Identities=8% Similarity=-0.052 Sum_probs=22.0
Q ss_pred hHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 48 TYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 48 ~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
+|+.+-+.|.+.|++++|.+++++..
T Consensus 1 al~~Lg~~~~~~g~~~~Ai~~y~~aL 26 (36)
T PF13176_consen 1 ALNNLGRIYRQQGDYEKAIEYYEQAL 26 (36)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 47788899999999999999999854
No 80
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=94.91 E-value=0.48 Score=29.06 Aligned_cols=49 Identities=8% Similarity=0.028 Sum_probs=31.5
Q ss_pred cCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 23 CRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 23 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
...+.+|..+|+++..+ ..++..+.+.+.-+....|++++|.+++.+..
T Consensus 180 ~e~~~~A~y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al 228 (290)
T PF04733_consen 180 GEKYQDAFYIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEAL 228 (290)
T ss_dssp TTCCCHHHHHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHC
T ss_pred chhHHHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 34566777777776543 34566677777777777777888777777654
No 81
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=94.59 E-value=0.88 Score=30.61 Aligned_cols=57 Identities=7% Similarity=-0.056 Sum_probs=22.6
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
|..+-..+...|++++|...|+..... .| +...+..+...+.+.|+.++|...+++.
T Consensus 402 ~~~lg~~~~~~g~~~~A~~~~~kal~l---~P~~~~~~~~la~~~~~~g~~~eA~~~~~~a 459 (615)
T TIGR00990 402 YYHRAQLHFIKGEFAQAGKDYQKSIDL---DPDFIFSHIQLGVTQYKEGSIASSMATFRRC 459 (615)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHc---CccCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 333334444444444444444444321 22 2233333333344444444444444443
No 82
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.54 E-value=0.6 Score=28.62 Aligned_cols=64 Identities=11% Similarity=0.068 Sum_probs=50.9
Q ss_pred HHHHHHHHHHHH----hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 10 IFTYNFLVKCLC----KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 10 ~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
..|.+.|-+++. ..+...+|.-+|++|-.+ ..|+..+.+-...++...|++++|..+++.....
T Consensus 169 d~tLtQLA~awv~la~ggek~qdAfyifeE~s~k--~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k 236 (299)
T KOG3081|consen 169 DATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK--TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK 236 (299)
T ss_pred HHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc--cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence 455565555544 445689999999999763 6889999999999999999999999999988754
No 83
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=94.45 E-value=0.62 Score=31.29 Aligned_cols=75 Identities=16% Similarity=0.080 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
.+++.|=..|-+.+..++|+..|+.-..- ...+..++.++--.|...|.++.|.+.|.+-. .+.||..+-..+++
T Consensus 456 p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l--~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~ 530 (611)
T KOG1173|consen 456 PTLNNLGHAYRKLNKYEEAIDYYQKALLL--SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLK 530 (611)
T ss_pred HHHHhHHHHHHHHhhHHHHHHHHHHHHHc--CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHH
Confidence 34566667778899999999999988753 24478899999999999999999999888764 56788877666654
No 84
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=94.40 E-value=0.65 Score=29.65 Aligned_cols=60 Identities=10% Similarity=0.137 Sum_probs=48.2
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFK 78 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~ 78 (91)
....+...|++++|...++.+.+. .| +......+...+.+.|+++++.+++..+.+.+..
T Consensus 159 ~a~l~l~~~~~~~Al~~l~~l~~~---~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~ 219 (409)
T TIGR00540 159 RTRILLAQNELHAARHGVDKLLEM---APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF 219 (409)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC
Confidence 356666788999999999998865 45 4567888889999999999999999999877644
No 85
>PRK14574 hmsH outer membrane protein; Provisional
Probab=94.26 E-value=0.6 Score=32.81 Aligned_cols=59 Identities=14% Similarity=0.016 Sum_probs=41.0
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
-.+-++.+.++..++++.|+.++.. +......+-.++.++|...+++++|..++.....
T Consensus 297 Drl~aL~~r~r~~~vi~~y~~l~~~-~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~ 355 (822)
T PRK14574 297 DRLGALLVRHQTADLIKEYEAMEAE-GYKMPDYARRWAASAYIDRRLPEKAAPILSSLYY 355 (822)
T ss_pred HHHHHHHHhhhHHHHHHHHHHhhhc-CCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhh
Confidence 3455566677777777777777764 5454555677777777777777777777777754
No 86
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=94.25 E-value=0.74 Score=30.41 Aligned_cols=63 Identities=16% Similarity=0.045 Sum_probs=36.8
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
|...|.+|=++|.+.+++++|+..|.....- -..+...+..+.+.|-+.++..+|.+.+..-+
T Consensus 431 DsRlw~aLG~CY~kl~~~~eAiKCykrai~~--~dte~~~l~~LakLye~l~d~~eAa~~yek~v 493 (559)
T KOG1155|consen 431 DSRLWVALGECYEKLNRLEEAIKCYKRAILL--GDTEGSALVRLAKLYEELKDLNEAAQYYEKYV 493 (559)
T ss_pred chHHHHHHHHHHHHhccHHHHHHHHHHHHhc--cccchHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 4555666666666666666666666655442 12344556666666666666666655555544
No 87
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=94.22 E-value=1 Score=32.34 Aligned_cols=63 Identities=8% Similarity=0.059 Sum_probs=30.3
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
|+...+..+-..+.+.|++++|...|++.... .|+ ...+..+-.++.+.|+.++|.+.+++..
T Consensus 607 P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l---~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL 670 (987)
T PRK09782 607 PSANAYVARATIYRQRHNVPAAVSDLRAALEL---EPNNSNYQAALGYALWDSGDIAQSREMLERAH 670 (987)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 33444444445555555555555555555432 332 3333444444555555555555555544
No 88
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=94.21 E-value=1.3 Score=32.25 Aligned_cols=64 Identities=13% Similarity=-0.021 Sum_probs=41.5
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+...+..+...|...|++++|...++..... .| +...+..+..++.+.|+.++|.++++++...
T Consensus 636 ~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~---~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~ 700 (1157)
T PRK11447 636 NADARLGLIEVDIAQGDLAAARAQLAKLPAT---ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQ 700 (1157)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc---CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence 4455666677777777777777777766532 33 3444555666667777777777777777643
No 89
>PRK12370 invasion protein regulator; Provisional
Probab=94.10 E-value=1.1 Score=29.86 Aligned_cols=60 Identities=12% Similarity=0.035 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHH-hHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLV-TYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
..+..+-..+...|++++|...++...+. .|+.. .+......+...|+.++|.+.+++..
T Consensus 373 ~a~~~lg~~l~~~G~~~eAi~~~~~Al~l---~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l 433 (553)
T PRK12370 373 DIKYYYGWNLFMAGQLEEALQTINECLKL---DPTRAAAGITKLWITYYHTGIDDAIRLGDELR 433 (553)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCChhhHHHHHHHHHhccCHHHHHHHHHHHH
Confidence 34555555666666666676666666542 34321 12223333444566666666666654
No 90
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=94.09 E-value=0.86 Score=30.25 Aligned_cols=54 Identities=6% Similarity=0.213 Sum_probs=45.0
Q ss_pred CCcCHHHHHHHHHHH-HhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCC
Q 038287 6 LPPDIFTYNFLVKCL-CKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKN 61 (91)
Q Consensus 6 ~~~~~~~~~~li~~~-~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (91)
++|+..-|..++..| -+.|.+..|..++.....+ +..|....-.+++.++..|.
T Consensus 655 iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk--fpedldclkflvri~~dlgl 709 (840)
T KOG2003|consen 655 IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK--FPEDLDCLKFLVRIAGDLGL 709 (840)
T ss_pred cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh--CccchHHHHHHHHHhccccc
Confidence 569999999998555 5679999999999999764 55588888899999998884
No 91
>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus. Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.
Probab=93.96 E-value=0.56 Score=25.88 Aligned_cols=66 Identities=15% Similarity=0.147 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFK 78 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~ 78 (91)
..++.-++...+.|.-++..++++.+.+ +-+++..-.-.+..||.+.|..+++.+++.+.-+.|++
T Consensus 87 e~vD~ALd~lv~~~kkDqLdki~~~l~k--n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k 152 (161)
T PF09205_consen 87 EYVDLALDILVKQGKKDQLDKIYNELKK--NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK 152 (161)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHhh--ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence 3445557777788888888888888864 23566777888999999999999999999999888875
No 92
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=93.95 E-value=0.67 Score=26.74 Aligned_cols=44 Identities=11% Similarity=0.198 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 27 TTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 27 ~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
++|.+++++..+. .| +...+..+-..+.+.|+.++|...|+++.
T Consensus 127 ~~A~~~l~~al~~---dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL 171 (198)
T PRK10370 127 PQTREMIDKALAL---DANEVTALMLLASDAFMQADYAQAIELWQKVL 171 (198)
T ss_pred HHHHHHHHHHHHh---CCCChhHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 4555555544432 23 34444555555555555555555555554
No 93
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=93.93 E-value=1.3 Score=29.88 Aligned_cols=64 Identities=14% Similarity=0.085 Sum_probs=53.5
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+...+..+-..+.+.|++++|...|+..... .| +...|+.+-..+...|++++|.+.|++....
T Consensus 432 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l 496 (615)
T TIGR00990 432 FIFSHIQLGVTQYKEGSIASSMATFRRCKKN---FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL 496 (615)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence 4556677778888999999999999998754 45 4678888999999999999999999998754
No 94
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=93.91 E-value=0.7 Score=26.87 Aligned_cols=64 Identities=9% Similarity=-0.017 Sum_probs=51.9
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc----HHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN----LVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
....+-.+...+.+.|++++|...|+..... .|+ ...+..+..++.+.|++++|.+.+++..+.
T Consensus 32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~ 99 (235)
T TIGR03302 32 PAEELYEEAKEALDSGDYTEAIKYFEALESR---YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL 99 (235)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 4456677778888999999999999998764 343 246677888999999999999999999753
No 95
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=93.91 E-value=1 Score=28.70 Aligned_cols=65 Identities=15% Similarity=0.109 Sum_probs=44.4
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhH
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
.+=.+|.+-|.+.+|...|+.-.+. .|-..||-.+-+.|-+..++..|..++.+-.+. -|-.+||
T Consensus 228 Q~gkCylrLgm~r~AekqlqssL~q---~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~ 292 (478)
T KOG1129|consen 228 QMGKCYLRLGMPRRAEKQLQSSLTQ---FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTY 292 (478)
T ss_pred HHHHHHHHhcChhhhHHHHHHHhhc---CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhh
Confidence 4456777778888888777776654 666777777778888888877777777665432 3444444
No 96
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=93.81 E-value=0.86 Score=27.58 Aligned_cols=66 Identities=9% Similarity=-0.029 Sum_probs=53.4
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
.|....+.......+.|++.+|...|++... .-.+|...|+.+=-+|-+.|+.++|..-+.+..+.
T Consensus 98 ~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L 163 (257)
T COG5010 98 KDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQLGRFDEARRAYRQALEL 163 (257)
T ss_pred ccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHccChhHHHHHHHHHHHh
Confidence 3555666678888899999999999999875 22457889999999999999999999888887653
No 97
>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....
Probab=93.80 E-value=0.49 Score=24.71 Aligned_cols=76 Identities=11% Similarity=0.162 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHhcC--ChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh-CCCCcCHHhHhhh
Q 038287 11 FTYNFLVKCLCKCR--SLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD-SGFKPDCFVYNTI 87 (91)
Q Consensus 11 ~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~-~g~~p~~~~~~~l 87 (91)
..|++.-..|.... +..+..+-++.+-. +.+.|......+.++||-+..++..|.++++-.+. -|-+-+ .|..+
T Consensus 9 eeF~ary~~~F~~~~iD~we~rrglN~l~~-~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~--~Y~~~ 85 (108)
T PF02284_consen 9 EEFDARYEKYFNRPDIDGWELRRGLNNLFG-YDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKE--IYPYI 85 (108)
T ss_dssp HHHHHHHHHHHH-TT--HHHHHHHHHHHTT-SSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TT--HHHHH
T ss_pred HHHHHHHHHHhCCccccHHHHHHHHHHHhc-cccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHH--HHHHH
Confidence 34555544454433 44556666666644 36788888888888888888888888888887763 233322 55555
Q ss_pred hh
Q 038287 88 MK 89 (91)
Q Consensus 88 l~ 89 (91)
++
T Consensus 86 lq 87 (108)
T PF02284_consen 86 LQ 87 (108)
T ss_dssp HH
T ss_pred HH
Confidence 43
No 98
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=93.74 E-value=0.25 Score=21.12 Aligned_cols=28 Identities=18% Similarity=0.073 Sum_probs=25.0
Q ss_pred hHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 48 TYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 48 ~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+|..+-.+|.+.|++++|++++++.++.
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~ 30 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALAL 30 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5777889999999999999999999864
No 99
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=93.60 E-value=0.24 Score=20.41 Aligned_cols=26 Identities=8% Similarity=0.087 Sum_probs=13.9
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~ 37 (91)
+++.|-..|...|++++|..++++..
T Consensus 4 ~~~~la~~~~~~g~~~~A~~~~~~al 29 (42)
T PF13374_consen 4 ALNNLANAYRAQGRYEEALELLEEAL 29 (42)
T ss_dssp HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence 44555555555555555555555543
No 100
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=93.59 E-value=1.2 Score=32.35 Aligned_cols=64 Identities=14% Similarity=0.043 Sum_probs=52.7
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+...+..+-..+.+.|++++|...|+...+. .| +...+..+...+...|+.++|.+.++....
T Consensus 601 ~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~---~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~ 665 (1157)
T PRK11447 601 PSTRIDLTLADWAQQRGDYAAARAAYQRVLTR---EPGNADARLGLIEVDIAQGDLAAARAQLAKLPA 665 (1157)
T ss_pred CCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 34455666778888999999999999998864 45 577888999999999999999999997764
No 101
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=93.52 E-value=1.4 Score=29.18 Aligned_cols=66 Identities=14% Similarity=0.073 Sum_probs=58.4
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
.|-..|-.|=++|.-.+.+.-|+-.|++... .+| |...|.++=++|.+.+++++|++.|.+....|
T Consensus 396 ~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~---~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~ 462 (559)
T KOG1155|consen 396 RDYRAWYGLGQAYEIMKMHFYALYYFQKALE---LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG 462 (559)
T ss_pred hhHHHHhhhhHHHHHhcchHHHHHHHHHHHh---cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc
Confidence 4777899999999999999999999998864 577 79999999999999999999999999987543
No 102
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=93.43 E-value=1.7 Score=30.24 Aligned_cols=59 Identities=10% Similarity=0.022 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+..+...+...|++++|...+++..+. .|+ .. +..+-.++...|+.++|...+++...
T Consensus 85 a~~~la~~l~~~g~~~eA~~~l~~~l~~---~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~ 144 (765)
T PRK10049 85 YQRGLILTLADAGQYDEALVKAKQLVSG---APDKAN-LLALAYVYKRAGRHWDELRAMTQALP 144 (765)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3444455555556666666666655543 332 22 55555555555666666665555543
No 103
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=93.35 E-value=0.15 Score=35.97 Aligned_cols=77 Identities=12% Similarity=0.072 Sum_probs=46.0
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCcCHHhHhhh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS-GFKPDCFVYNTI 87 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~l 87 (91)
+.+.-|-+=..++.+|++..|..+|....+. ..-...+|-.+..+|..+|++..|.++|+...+. ..+-+..+...|
T Consensus 645 N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa--~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~L 722 (1018)
T KOG2002|consen 645 NMYAANGIGIVLAEKGRFSEARDIFSQVREA--TSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYL 722 (1018)
T ss_pred hhhhccchhhhhhhccCchHHHHHHHHHHHH--HhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHH
Confidence 3344444445566677777777777777765 1223455777777777777777777777776533 333334444433
No 104
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=93.32 E-value=1.2 Score=27.53 Aligned_cols=62 Identities=10% Similarity=0.045 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccH--HhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNL--VTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.+..+-..+...|++++|..+++.........|+. ..|..+...+...|+.++|.+++++..
T Consensus 150 ~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~ 213 (355)
T cd05804 150 AVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI 213 (355)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence 34445555556666666666666554321111221 223345555666666666666666653
No 105
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=93.22 E-value=0.8 Score=25.37 Aligned_cols=64 Identities=9% Similarity=-0.097 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc--cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP--NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
..|..+...+...+++++|...|+..... ...+ ...+|..+-..+.+.|+.++|.+.+++....
T Consensus 36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l-~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~ 101 (168)
T CHL00033 36 FTYYRDGMSAQSEGEYAEALQNYYEAMRL-EIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER 101 (168)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHhc-cccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 44666667777889999999999988653 2222 2357888889999999999999999888753
No 106
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=93.13 E-value=1.1 Score=29.85 Aligned_cols=64 Identities=16% Similarity=0.203 Sum_probs=42.7
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHh
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYN 85 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~ 85 (91)
..+...|++++|+..++.-... |.-.........+.+.+.|+.++|..+++.+.+. -|+...|-
T Consensus 12 ~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~r--NPdn~~Yy 75 (517)
T PF12569_consen 12 SILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDR--NPDNYDYY 75 (517)
T ss_pred HHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHH
Confidence 3446678888888888776542 3333455666677777888888888888888754 35555443
No 107
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=93.02 E-value=0.31 Score=20.03 Aligned_cols=29 Identities=14% Similarity=0.138 Sum_probs=24.5
Q ss_pred HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 46 LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..+++.+-..|...|++++|.+++++...
T Consensus 2 a~~~~~la~~~~~~g~~~~A~~~~~~al~ 30 (42)
T PF13374_consen 2 ASALNNLANAYRAQGRYEEALELLEEALE 30 (42)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence 45788999999999999999999998863
No 108
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=93.00 E-value=0.62 Score=29.39 Aligned_cols=62 Identities=13% Similarity=0.065 Sum_probs=41.4
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKP 79 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p 79 (91)
|-.-|.+.|-++.|..+|..+.... ..-......++.-|-..++|++|+++-+++.+.+-.+
T Consensus 113 L~~Dym~aGl~DRAE~~f~~L~de~--efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~ 174 (389)
T COG2956 113 LGRDYMAAGLLDRAEDIFNQLVDEG--EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQT 174 (389)
T ss_pred HHHHHHHhhhhhHHHHHHHHHhcch--hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCcc
Confidence 3345666777778888877776531 2233456677778888888888888888777654443
No 109
>PF13281 DUF4071: Domain of unknown function (DUF4071)
Probab=92.96 E-value=1.6 Score=28.02 Aligned_cols=78 Identities=9% Similarity=0.030 Sum_probs=53.2
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCC--ccHHhHHHHHHHHHc---cCCHHHHHHHHHHHHhCCCCcCHHhHhh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIK--PNLVTYTILIDNVCN---TKNLREAMRLVSALSDSGFKPDCFVYNT 86 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~--~~~~~~~~~~~~~~~---~~~~~~a~~~~~~m~~~g~~p~~~~~~~ 86 (91)
+...++-+|-...+++.++++.+.+..-...+ -....--....|.-+ .|+.++|.+++.......-.++..||..
T Consensus 143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL 222 (374)
T PF13281_consen 143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGL 222 (374)
T ss_pred HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHH
Confidence 34466677999999999999999998632111 122222234445556 8999999999999766666677777765
Q ss_pred hhh
Q 038287 87 IMK 89 (91)
Q Consensus 87 ll~ 89 (91)
+-+
T Consensus 223 ~GR 225 (374)
T PF13281_consen 223 LGR 225 (374)
T ss_pred HHH
Confidence 543
No 110
>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.
Probab=92.93 E-value=1.3 Score=27.19 Aligned_cols=67 Identities=16% Similarity=0.123 Sum_probs=49.5
Q ss_pred CCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCH-HHHHHHHHHHHh
Q 038287 5 QLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNL-REAMRLVSALSD 74 (91)
Q Consensus 5 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~a~~~~~~m~~ 74 (91)
..+++..+.|.+.-+....|++++|.+++.+.... .| +..+...++-+....|.. +.+.+...+++.
T Consensus 196 ~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~---~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~ 264 (290)
T PF04733_consen 196 KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEK---DPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ 264 (290)
T ss_dssp CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC----CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh---ccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence 34577788899999999999999999999987543 33 566777888888888877 567788888764
No 111
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=92.82 E-value=0.42 Score=21.14 Aligned_cols=34 Identities=18% Similarity=0.280 Sum_probs=24.0
Q ss_pred HHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 56 VCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 56 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
.-+.|.+.++..++++|.+.|+.-+...+..+++
T Consensus 12 Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~ 45 (48)
T PF11848_consen 12 AKRRGLISEVKPLLDRLQQAGFRISPKLIEEILR 45 (48)
T ss_pred HHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHH
Confidence 3455667777778888877787777777766654
No 112
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=92.77 E-value=1.4 Score=26.80 Aligned_cols=61 Identities=10% Similarity=-0.002 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccH----HhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNL----VTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..|..-+....+.+++++|...|+.+... .|+. ..+-.+-.+|...|+.++|...|+.+..
T Consensus 144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~ 208 (263)
T PRK10803 144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVK 208 (263)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 34666666666779999999999999876 3443 4667778888899999999999999874
No 113
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=92.71 E-value=1.6 Score=27.54 Aligned_cols=55 Identities=15% Similarity=0.037 Sum_probs=46.1
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
..+...+++++|..+|+..... .| +...|..+..++.+.|++++|...+++....
T Consensus 10 ~~a~~~~~~~~Ai~~~~~Al~~---~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l 65 (356)
T PLN03088 10 KEAFVDDDFALAVDLYTQAIDL---DPNNAELYADRAQANIKLGNFTEAVADANKAIEL 65 (356)
T ss_pred HHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 4456779999999999999864 45 5677888889999999999999999999764
No 114
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=92.63 E-value=2.8 Score=30.34 Aligned_cols=51 Identities=12% Similarity=-0.014 Sum_probs=35.8
Q ss_pred hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+.|++++|...++...+. .|+...|..+-..+.+.|+.++|.+.+++....
T Consensus 588 ~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l 638 (987)
T PRK09782 588 IPGQPELALNDLTRSLNI---APSANAYVARATIYRQRHNVPAAVSDLRAALEL 638 (987)
T ss_pred hCCCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 347777777777776643 566667777777777778888888777777643
No 115
>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 200 amino acids in length.
Probab=92.61 E-value=1.1 Score=25.53 Aligned_cols=53 Identities=9% Similarity=0.048 Sum_probs=39.9
Q ss_pred hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
...+.+......+-..+-....|+..+|..++.++...|+.++|.++.+++..
T Consensus 120 ~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~ 172 (193)
T PF11846_consen 120 LPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR 172 (193)
T ss_pred CCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 45555555544444443334589999999999999999999999999988864
No 116
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=92.61 E-value=2.3 Score=29.46 Aligned_cols=60 Identities=5% Similarity=0.004 Sum_probs=37.8
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+..+...+.+.+.+++|....+..... .|+ ......+-.++.+.|+.++|.++|++...
T Consensus 122 a~~~~a~~L~~~~~~eeA~~~~~~~l~~---~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~ 182 (694)
T PRK15179 122 AFILMLRGVKRQQGIEAGRAEIELYFSG---GSSSAREILLEAKSWDEIGQSEQADACFERLSR 182 (694)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHh
Confidence 3555566666667777777766666543 553 44455555666667777777777777764
No 117
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=92.56 E-value=0.34 Score=32.80 Aligned_cols=72 Identities=18% Similarity=0.205 Sum_probs=50.0
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
.+.+|-++=++|+-.++.+.|++.|+... .+.| ..++|+.+=.-+......+.|...|+.. +..|...||+.
T Consensus 420 sPesWca~GNcfSLQkdh~~Aik~f~RAi---Qldp~faYayTLlGhE~~~~ee~d~a~~~fr~A----l~~~~rhYnAw 492 (638)
T KOG1126|consen 420 SPESWCALGNCFSLQKDHDTAIKCFKRAI---QLDPRFAYAYTLLGHESIATEEFDKAMKSFRKA----LGVDPRHYNAW 492 (638)
T ss_pred CcHHHHHhcchhhhhhHHHHHHHHHHHhh---ccCCccchhhhhcCChhhhhHHHHhHHHHHHhh----hcCCchhhHHH
Confidence 46789888899999999999999998876 3466 5666665555555555666666666555 34556666553
No 118
>PF13929 mRNA_stabil: mRNA stabilisation
Probab=92.36 E-value=1.5 Score=27.15 Aligned_cols=61 Identities=8% Similarity=0.095 Sum_probs=41.9
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRL 68 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~ 68 (91)
++..+--++|..+++.++|..-.++++.-....+..-|...|...++...+.|+.....++
T Consensus 200 l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~ki 260 (292)
T PF13929_consen 200 LTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKI 260 (292)
T ss_pred CChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHH
Confidence 4455667777888888888887777776654324555777788888888888875544443
No 119
>PRK14574 hmsH outer membrane protein; Provisional
Probab=92.28 E-value=2.9 Score=29.66 Aligned_cols=66 Identities=12% Similarity=0.118 Sum_probs=53.4
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCC----CCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLG----IKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..++--++-++|...+++++|..+|+.+....+ ..++......+.-++...++.++|..+.+++.+
T Consensus 326 P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~ 395 (822)
T PRK14574 326 PDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSE 395 (822)
T ss_pred CHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence 346777889999999999999999999865411 122344457889999999999999999999986
No 120
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=92.27 E-value=0.92 Score=32.35 Aligned_cols=77 Identities=10% Similarity=0.036 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
.+|-.+-.+|..+|++..|+++|+...++..-+.+..+.+.+.+++-+.|.+.++.+..-.....-..-..+-||..
T Consensus 681 dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a 757 (1018)
T KOG2002|consen 681 DVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLA 757 (1018)
T ss_pred ceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHH
Confidence 35667788999999999999999988776555668889999999999999999998877666544332223555543
No 121
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=92.25 E-value=0.56 Score=31.00 Aligned_cols=60 Identities=13% Similarity=0.213 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSA 71 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 71 (91)
..|...|+..-+...++.|..+|-+..+..-+.++.+.++++|.- ...|+...|..+|+-
T Consensus 398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~-~~~~d~~ta~~ifel 457 (660)
T COG5107 398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEY-YATGDRATAYNIFEL 457 (660)
T ss_pred hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHH-HhcCCcchHHHHHHH
Confidence 457777888888888889999998888763367888889998884 445666777777753
No 122
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=92.02 E-value=1.4 Score=25.37 Aligned_cols=65 Identities=8% Similarity=-0.003 Sum_probs=51.5
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHH-HccCC--HHHHHHHHHHHHhC
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNV-CNTKN--LREAMRLVSALSDS 75 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~-~~~~~--~~~a~~~~~~m~~~ 75 (91)
.+...|..+-..|...|++++|...|+....- .| +...+..+-.++ ...|+ .++|.+++++..+.
T Consensus 71 ~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l---~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~ 139 (198)
T PRK10370 71 QNSEQWALLGEYYLWRNDYDNALLAYRQALQL---RGENAELYAALATVLYYQAGQHMTPQTREMIDKALAL 139 (198)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Confidence 46677888888999999999999999988753 55 566677776664 56676 58999999999764
No 123
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=92.00 E-value=3 Score=29.06 Aligned_cols=64 Identities=11% Similarity=0.050 Sum_probs=47.7
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+...+..+-..+.+.|++++|..+|+..... .|+ ...+..+...+.+.|+.++|.+.+++....
T Consensus 48 ~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~ 112 (765)
T PRK10049 48 PARGYAAVAVAYRNLKQWQNSLTLWQKALSL---EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG 112 (765)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 3445777777888888888888888887653 443 455667777788888888888888888654
No 124
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=91.91 E-value=1.5 Score=25.45 Aligned_cols=60 Identities=10% Similarity=0.044 Sum_probs=47.6
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+-..|.+.|++++|...++.......-.| ....+..+..++.+.|+.++|.+.++.+..+
T Consensus 172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~ 232 (235)
T TIGR03302 172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN 232 (235)
T ss_pred HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 34567788999999999999887521122 3567889999999999999999999888654
No 125
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=91.73 E-value=0.97 Score=28.21 Aligned_cols=57 Identities=18% Similarity=0.311 Sum_probs=38.5
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSA 71 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 71 (91)
|+..-|...+.+++..++|++...+... +.++.-|--.+++|.+.|...+|.....+
T Consensus 206 ~dkrfw~lki~aLa~~~~w~eL~~fa~s-------kKsPIGyepFv~~~~~~~~~~eA~~yI~k 262 (319)
T PF04840_consen 206 PDKRFWWLKIKALAENKDWDELEKFAKS-------KKSPIGYEPFVEACLKYGNKKEASKYIPK 262 (319)
T ss_pred cHHHHHHHHHHHHHhcCCHHHHHHHHhC-------CCCCCChHHHHHHHHHCCCHHHHHHHHHh
Confidence 6777788888888888888776655332 12335566677777777777777666555
No 126
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=91.70 E-value=1.3 Score=27.55 Aligned_cols=36 Identities=17% Similarity=0.253 Sum_probs=18.0
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhH
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTY 49 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~ 49 (91)
||.-|..-.+.||+++|+.++++.++- |+.--..+|
T Consensus 260 y~~aI~~AVk~gDi~KAL~LldEAe~L-G~~~Ar~tF 295 (303)
T PRK10564 260 FNQAIKQAVKKGDVDKALKLLDEAERL-GSTSARSTF 295 (303)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHh-CCchHHHHH
Confidence 445555555555555555555555443 443333333
No 127
>PRK11189 lipoprotein NlpI; Provisional
Probab=91.63 E-value=2 Score=26.27 Aligned_cols=62 Identities=13% Similarity=-0.081 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
..|..+=..|.+.|++++|...|+...+. .| +...|+.+-..+...|+.++|.+.|++..+.
T Consensus 65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l 127 (296)
T PRK11189 65 QLHYERGVLYDSLGLRALARNDFSQALAL---RPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL 127 (296)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 34666666788899999999999988753 55 4788999999999999999999999998753
No 128
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=91.57 E-value=1.2 Score=23.70 Aligned_cols=54 Identities=13% Similarity=0.069 Sum_probs=32.2
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCcc--HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKPN--LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
+-..|+.++|+.+|+.-... |.... ...+-.+-..+...|+.++|..++++...
T Consensus 11 ~d~~G~~~~Ai~~Y~~Al~~-gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~ 66 (120)
T PF12688_consen 11 HDSLGREEEAIPLYRRALAA-GLSGADRRRALIQLASTLRNLGRYDEALALLEEALE 66 (120)
T ss_pred HHhcCCHHHHHHHHHHHHHc-CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 34556677777777766553 44332 33445555566666777777777766653
No 129
>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....
Probab=91.50 E-value=1.2 Score=23.33 Aligned_cols=48 Identities=6% Similarity=0.178 Sum_probs=35.9
Q ss_pred CCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHH
Q 038287 5 QLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILID 54 (91)
Q Consensus 5 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~ 54 (91)
.+.|++....+-+.+|-+..++..|.++|+..+.+ ..+....|..+++
T Consensus 40 DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K--~~~~~~~Y~~~lq 87 (108)
T PF02284_consen 40 DLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK--CGNKKEIYPYILQ 87 (108)
T ss_dssp SB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH--TTT-TTHHHHHHH
T ss_pred ccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--ccChHHHHHHHHH
Confidence 34588899999999999999999999999999976 3333337888877
No 130
>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.
Probab=91.47 E-value=1.1 Score=23.15 Aligned_cols=75 Identities=11% Similarity=0.155 Sum_probs=50.1
Q ss_pred HHHHHHHHHHhcC--ChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh-CCCCcCHHhHhhhh
Q 038287 12 TYNFLVKCLCKCR--SLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD-SGFKPDCFVYNTIM 88 (91)
Q Consensus 12 ~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~-~g~~p~~~~~~~ll 88 (91)
-|++.-..|.... +..++.+-++.+-. +.+.|+.-...+.++||-+..+...|.++++-.+. -|- +..+|..++
T Consensus 7 eF~aRye~~F~~~~iD~we~rr~mN~l~~-~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~l 83 (103)
T cd00923 7 EFDARYETYFNRPDIDGWELRRGLNNLFG-YDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYIL 83 (103)
T ss_pred HHHHHHHHHhCCcCccHHHHHHHHHHHhc-cccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHH
Confidence 4555544444433 56667777777654 37788888888999999999999999998887763 232 334555554
Q ss_pred h
Q 038287 89 K 89 (91)
Q Consensus 89 ~ 89 (91)
+
T Consensus 84 q 84 (103)
T cd00923 84 Q 84 (103)
T ss_pred H
Confidence 3
No 131
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=91.16 E-value=3.3 Score=27.83 Aligned_cols=65 Identities=9% Similarity=0.134 Sum_probs=50.0
Q ss_pred CcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 7 PPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.|+...|++.|+-=.+-..++.|.++++.... +.|++.+|--..+-=-+.|.+..+.++++....
T Consensus 171 ~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR~VyerAie 235 (677)
T KOG1915|consen 171 EPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEEKHGNVALARSVYERAIE 235 (677)
T ss_pred CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence 47888888888888888888888888888873 468888887777766677777777777776653
No 132
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=90.89 E-value=1.7 Score=24.02 Aligned_cols=56 Identities=5% Similarity=-0.047 Sum_probs=42.6
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
..+.|++++|...|+.+..++-..+ ..-.--.++.+|.+.++.++|...+++.++.
T Consensus 20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL 76 (142)
T PF13512_consen 20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL 76 (142)
T ss_pred HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence 3467899999999999987643222 3445566778899999999999999888764
No 133
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=90.81 E-value=1.6 Score=23.62 Aligned_cols=63 Identities=16% Similarity=0.191 Sum_probs=45.0
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCcc--HHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCc
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKPN--LVTYTILIDNVCNTKNLREAMRLVSALSDSGFKP 79 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p 79 (91)
+-..+...|++++|...|+..... ...|+ ....--+...+...|+.++|...++......+.|
T Consensus 54 lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~~~ 118 (145)
T PF09976_consen 54 LAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAFKA 118 (145)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcchHH
Confidence 447778889999999999999875 32332 2234445677788899999999987765444544
No 134
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=90.44 E-value=2.8 Score=25.85 Aligned_cols=61 Identities=8% Similarity=0.082 Sum_probs=48.8
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
....+-..+...|++++|...++...+. .| +...+..+-..+.+.|++++|.+.+++....
T Consensus 116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~---~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~ 177 (355)
T cd05804 116 LLGMLAFGLEEAGQYDRAEEAARRALEL---NPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDT 177 (355)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhc
Confidence 3344556778899999999999999864 45 3566788888999999999999999888654
No 135
>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]
Probab=90.29 E-value=2.2 Score=28.86 Aligned_cols=41 Identities=10% Similarity=0.218 Sum_probs=19.0
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHH
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILID 54 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~ 54 (91)
|-.+|+..-+...+..|..+|.+..+. +..+ .+++.+++|.
T Consensus 369 ~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mE 410 (656)
T KOG1914|consen 369 YCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALME 410 (656)
T ss_pred hhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHH
Confidence 444444444444455555555555443 2233 4444445544
No 136
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=90.24 E-value=3.9 Score=27.14 Aligned_cols=63 Identities=13% Similarity=0.057 Sum_probs=48.5
Q ss_pred cC-HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 8 PD-IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 8 ~~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
|+ ...+-.+-++|.+.|.+.+|...++..... ..-|...|..+..+|...|+..++..-..+.
T Consensus 371 P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~--~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~ 434 (484)
T COG4783 371 PNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN--DPEDPNGWDLLAQAYAELGNRAEALLARAEG 434 (484)
T ss_pred CCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc--CCCCchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence 44 445666778999999999999999998764 3447889999999999998766665544443
No 137
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=90.08 E-value=3.7 Score=26.60 Aligned_cols=58 Identities=17% Similarity=0.283 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
+...+|+..+...++++.|..+|+++.+. .|.. ...+.+.+...+.-.+|.++..+..
T Consensus 170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pev--~~~LA~v~l~~~~E~~AI~ll~~aL 227 (395)
T PF09295_consen 170 YLVDTLLKYLSLTQRYDEAIELLEKLRER---DPEV--AVLLARVYLLMNEEVEAIRLLNEAL 227 (395)
T ss_pred HHHHHHHHHHhhcccHHHHHHHHHHHHhc---CCcH--HHHHHHHHHhcCcHHHHHHHHHHHH
Confidence 44556666666777888888888888765 3543 3446666666666666666666655
No 138
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=90.04 E-value=2.9 Score=25.45 Aligned_cols=67 Identities=10% Similarity=0.093 Sum_probs=51.4
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+...|...++.+.+.++.+.|..+|+.......-.. ....|...++-=.+.|+++.+.++..++.+
T Consensus 68 ~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~ 135 (280)
T PF05843_consen 68 SDPDFWLEYLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEE 135 (280)
T ss_dssp T-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 4667788889999999999999999999976422222 234899999988888999999999988875
No 139
>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome. This entry also matches the evolutionarily related subunit 1 of the COP9 signalosome complex (CSN) from Arabidopsis []. The 26S proteasome plays a major role in ATP-dependent degradation of ubiquitinated proteins. Substrate specificity is conferred by the regulatory particle (RP), which can dissociate into stable lid and base subcomplexes. The regulatory subunit RPN7 is one of the lid subunits of the 26S proteasome and has been shown in Saccharomyces cerevisiae (Baker's yeast) to be required for structural integrity []. The COP9 signalosome is a conserved protein complex composed of eight subunits, where Individual subunits of the complex have been linked to various signal transduction pathways leading to gene expression and cell cycle control []. The overall organisation and the amino acid sequences of the COP9 signalosome subunits resemble the lid subcomplex of the 19 S regulatory particle for the 26 S proteasome []. COP9 subunit 1 (CSN1 or GPS1) of the COP9 complex is an essential subunit of the complex with regard to both structural integrity and functionality. The N-terminal region of subunit 1 (CSN1-N) can inhibit c-fos expression from either a transfected template or a chromosomal transgene (fos-lacZ), and may contain the activity domain that confers most of the repression functions of CSN1. The C-terminal region of subunit 1 (CSN1-C) allows integration of the protein into the COP9 signalosome.
Probab=89.99 E-value=2.3 Score=24.17 Aligned_cols=63 Identities=11% Similarity=0.116 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc--cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP--NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~--~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..+..+-..|++.|+.+.|.+.|..+... ...+ -...+-.+++.....+++..+.....+...
T Consensus 37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~-~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~ 101 (177)
T PF10602_consen 37 MALEDLADHYCKIGDLEEALKAYSRARDY-CTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES 101 (177)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHhhh-cCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 45778889999999999999999998874 3333 345567777888888898888887777654
No 140
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=89.61 E-value=0.72 Score=17.79 Aligned_cols=23 Identities=9% Similarity=0.329 Sum_probs=16.6
Q ss_pred HHHHHhcCChHHHHHHHHHHHhh
Q 038287 17 VKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 17 i~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
-.++.+.|++++|.+.|+.+...
T Consensus 7 a~~~~~~g~~~~A~~~~~~~~~~ 29 (33)
T PF13174_consen 7 ARCYYKLGDYDEAIEYFQRLIKR 29 (33)
T ss_dssp HHHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHHccCHHHHHHHHHHHHHH
Confidence 34556677888888888887765
No 141
>KOG4567 consensus GTPase-activating protein [General function prediction only]
Probab=89.60 E-value=1.3 Score=27.75 Aligned_cols=45 Identities=13% Similarity=0.231 Sum_probs=38.5
Q ss_pred HHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 30 YNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 30 ~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
.++++++++. ++.|..++|-.+.-.+.+.=.+.+.+.+|+.+...
T Consensus 263 ~EL~~~L~~~-~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~sD 307 (370)
T KOG4567|consen 263 EELWRHLEEK-EIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLSD 307 (370)
T ss_pred HHHHHHHHhc-CCCccchhHHHHHHHHhccCCchhHHHHHHHHhcC
Confidence 4678888865 89999999999988888988999999999998765
No 142
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=89.27 E-value=4.9 Score=28.67 Aligned_cols=65 Identities=11% Similarity=0.047 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
...+--+-.+|.+.|.+.+|..+|..+... ....+...|--+-.+|-..+..++|.+.++..+..
T Consensus 414 ~dL~~d~a~al~~~~~~~~Al~~l~~i~~~-~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~ 478 (895)
T KOG2076|consen 414 VDLYLDLADALTNIGKYKEALRLLSPITNR-EGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL 478 (895)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHhcC-ccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 345667778888889999999999888765 33445778888888888888899998888888653
No 143
>PF13762 MNE1: Mitochondrial splicing apparatus component
Probab=89.23 E-value=2.4 Score=23.54 Aligned_cols=50 Identities=18% Similarity=0.270 Sum_probs=40.4
Q ss_pred CHHHHHHHHHHHHhcCC-hHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHcc
Q 038287 9 DIFTYNFLVKCLCKCRS-LTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNT 59 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ 59 (91)
+...|++++.+.++... --.+..+|+-+++. +.+++..-|..+++++.+-
T Consensus 78 ~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~-~~~~t~~dy~~li~~~l~g 128 (145)
T PF13762_consen 78 DNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKN-DIEFTPSDYSCLIKAALRG 128 (145)
T ss_pred ccchHHHHHHHHccChHHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHcC
Confidence 45679999999987776 45667788888874 7889999999999987665
No 144
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.12 E-value=3.8 Score=25.47 Aligned_cols=74 Identities=8% Similarity=-0.002 Sum_probs=50.6
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhh
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
-++++...-..+++.-...++++..+. ....+..--+.+.+.--+.|+.+.|...|++..+..-+.|..+++.+
T Consensus 180 my~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~ 253 (366)
T KOG2796|consen 180 MYSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIM 253 (366)
T ss_pred HHHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHH
Confidence 445556666667777778888887765 43445666677777777889999998888877655445555555544
No 145
>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]
Probab=88.75 E-value=3.7 Score=24.78 Aligned_cols=73 Identities=12% Similarity=0.171 Sum_probs=45.2
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh--CCCCcCHHhHhhhhh
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD--SGFKPDCFVYNTIMK 89 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~--~g~~p~~~~~~~ll~ 89 (91)
+.-++.+.+.+++.+++...+.=.+. +| |...-..+++-++-.|++++|..-.+-.-+ -...+...+|..+|+
T Consensus 5 ~~t~seLL~~~sL~dai~~a~~qVka---kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir 80 (273)
T COG4455 5 RDTISELLDDNSLQDAIGLARDQVKA---KPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIR 80 (273)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHhc---CCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHH
Confidence 34456666777777877777765554 44 566667777888888888887654433322 134444566666654
No 146
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=88.73 E-value=1.9 Score=29.85 Aligned_cols=47 Identities=9% Similarity=0.152 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK 60 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~ 60 (91)
..|++|-+.|.+.|+++.|..+|++-... .-+..-|+.+.++|.+-.
T Consensus 249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~---v~tvrDFt~ifd~Ya~FE 295 (835)
T KOG2047|consen 249 FLWCSLADYYIRSGLFEKARDVYEEAIQT---VMTVRDFTQIFDAYAQFE 295 (835)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHh---heehhhHHHHHHHHHHHH
Confidence 56889999999999999999999887654 456667888888887644
No 147
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=88.72 E-value=1.8 Score=26.94 Aligned_cols=48 Identities=10% Similarity=0.204 Sum_probs=39.0
Q ss_pred CCccHHh-HHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 42 IKPNLVT-YTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 42 ~~~~~~~-~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
+.|+..+ |+..|+.-.+.|++++|.++.++.++.|..--..||-..++
T Consensus 252 v~~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~V~ 300 (303)
T PRK10564 252 MLNDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISSVK 300 (303)
T ss_pred cCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHHhh
Confidence 4455544 67999999999999999999999999998877777755544
No 148
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=88.39 E-value=7 Score=29.69 Aligned_cols=68 Identities=7% Similarity=0.034 Sum_probs=54.4
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDC 81 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~ 81 (91)
.-....+.-.++|+.+.+..+|+.....+ .+ -...|++.++.=.+.|+.+.+..+|++....++.|-.
T Consensus 1602 ~IskfAqLEFk~GDaeRGRtlfEgll~ay-PK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kk 1669 (1710)
T KOG1070|consen 1602 FISKFAQLEFKYGDAERGRTLFEGLLSAY-PK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKK 1669 (1710)
T ss_pred HHHHHHHHHhhcCCchhhHHHHHHHHhhC-cc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhH
Confidence 34455666678899999999999988762 11 2456999999999999999999999999988776643
No 149
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=88.22 E-value=4.5 Score=25.21 Aligned_cols=75 Identities=15% Similarity=0.107 Sum_probs=58.0
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
|.+-|...-.+|++.|..+.|++=.+.-.. +.|. .-+|.-|=.+|...|..++|.+.|.+.. .+.|+..+|..=
T Consensus 114 nAVyycNRAAAy~~Lg~~~~AVkDce~Al~---iDp~yskay~RLG~A~~~~gk~~~A~~aykKaL--eldP~Ne~~K~n 188 (304)
T KOG0553|consen 114 NAVYYCNRAAAYSKLGEYEDAVKDCESALS---IDPHYSKAYGRLGLAYLALGKYEEAIEAYKKAL--ELDPDNESYKSN 188 (304)
T ss_pred cchHHHHHHHHHHHhcchHHHHHHHHHHHh---cChHHHHHHHHHHHHHHccCcHHHHHHHHHhhh--ccCCCcHHHHHH
Confidence 566677788999999999998877666553 4664 6678888889999999999999887764 368888877653
Q ss_pred h
Q 038287 88 M 88 (91)
Q Consensus 88 l 88 (91)
|
T Consensus 189 L 189 (304)
T KOG0553|consen 189 L 189 (304)
T ss_pred H
Confidence 3
No 150
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=88.11 E-value=4.5 Score=24.99 Aligned_cols=51 Identities=16% Similarity=0.146 Sum_probs=43.1
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHh----hCCCCccHHhHHHHHHHHHcc
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRA----SLGIKPNLVTYTILIDNVCNT 59 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~~~~~~~~~~~~~~~~~~ 59 (91)
+...|-.+|.+|.+.|+...|+..|+.+.+ ..|+.|...+.....+...+.
T Consensus 186 ~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~~~~~~~ 240 (280)
T COG3629 186 DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYEEILRQD 240 (280)
T ss_pred chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHHHHhccc
Confidence 567899999999999999999999998876 358999999888888774443
No 151
>COG3898 Uncharacterized membrane-bound protein [Function unknown]
Probab=88.08 E-value=5.6 Score=26.12 Aligned_cols=70 Identities=19% Similarity=0.302 Sum_probs=50.1
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhh--------------------------------------CCCCccHHh-HHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRAS--------------------------------------LGIKPNLVT-YTIL 52 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~--------------------------------------~~~~~~~~~-~~~~ 52 (91)
.+.+.+...+..|+|+.|+++.+.-+.. ..+.||..- -..-
T Consensus 190 A~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~KL~pdlvPaav~A 269 (531)
T COG3898 190 AARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANKLAPDLVPAAVVA 269 (531)
T ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCccchHHHHH
Confidence 4567899999999999999998865543 345555332 2233
Q ss_pred HHHHHccCCHHHHHHHHHHHHhCCCCcCH
Q 038287 53 IDNVCNTKNLREAMRLVSALSDSGFKPDC 81 (91)
Q Consensus 53 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~ 81 (91)
.+++.+.|+++++..+++.+-+..-.|+.
T Consensus 270 Aralf~d~~~rKg~~ilE~aWK~ePHP~i 298 (531)
T COG3898 270 ARALFRDGNLRKGSKILETAWKAEPHPDI 298 (531)
T ss_pred HHHHHhccchhhhhhHHHHHHhcCCChHH
Confidence 46677888888888888888777666654
No 152
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=87.98 E-value=1.1 Score=17.64 Aligned_cols=27 Identities=7% Similarity=0.112 Sum_probs=15.2
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRA 38 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~ 38 (91)
+|..+-..|...+++++|+..|+...+
T Consensus 3 ~~~~~g~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF00515_consen 3 AYYNLGNAYFQLGDYEEALEYYQRALE 29 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence 445555556666666666666665543
No 153
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=87.85 E-value=4.3 Score=24.52 Aligned_cols=58 Identities=5% Similarity=-0.122 Sum_probs=40.0
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..|--+|...|+...|..-+++..+. .| +..+|.++...|.+.|+.+.|.+-|+...+
T Consensus 39 lqLal~YL~~gd~~~A~~nlekAL~~---DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls 97 (250)
T COG3063 39 LQLALGYLQQGDYAQAKKNLEKALEH---DPSYYLAHLVRAHYYQKLGENDLADESYRKALS 97 (250)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh
Confidence 34445677777777777777777653 55 356677777777777777777777777654
No 154
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.66 E-value=2.6 Score=27.30 Aligned_cols=55 Identities=11% Similarity=0.103 Sum_probs=25.1
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHH
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSA 71 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 71 (91)
+-++++..|...+|.++|-.+..- .++.+..=.+.+.++|.+++.++.|++++-.
T Consensus 399 ~AQAk~atgny~eaEelf~~is~~-~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk 453 (557)
T KOG3785|consen 399 LAQAKLATGNYVEAEELFIRISGP-EIKNKILYKSMLARCYIRNKKPQLAWDMMLK 453 (557)
T ss_pred HHHHHHHhcChHHHHHHHhhhcCh-hhhhhHHHHHHHHHHHHhcCCchHHHHHHHh
Confidence 344455555555565555544321 2222222223334555555555555554433
No 155
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=87.41 E-value=7.9 Score=27.05 Aligned_cols=62 Identities=11% Similarity=0.029 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
....+.+-.++.+.|++++|..+|+..... .|+ ..++...-.++-+.|+.++|...|+....
T Consensus 154 ~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~---~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~ 216 (694)
T PRK15179 154 AREILLEAKSWDEIGQSEQADACFERLSRQ---HPEFENGYVGWAQSLTRRGALWRARDVLQAGLD 216 (694)
T ss_pred HHHHHHHHHHHHHhcchHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 344556667778899999999999999863 443 67788888899999999999999999864
No 156
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=87.30 E-value=2.2 Score=29.68 Aligned_cols=61 Identities=15% Similarity=0.158 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
...|...|.+|...|+..+|..+.....++ +|+..-|..+-+......-.++|.++.+..-
T Consensus 424 lemw~~vi~CY~~lg~~~kaeei~~q~lek---~~d~~lyc~LGDv~~d~s~yEkawElsn~~s 484 (777)
T KOG1128|consen 424 LEMWDPVILCYLLLGQHGKAEEINRQELEK---DPDPRLYCLLGDVLHDPSLYEKAWELSNYIS 484 (777)
T ss_pred HHHHHHHHHHHHHhcccchHHHHHHHHhcC---CCcchhHHHhhhhccChHHHHHHHHHhhhhh
Confidence 356777888888888888888887776654 6788888888888877777888888777653
No 157
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=87.29 E-value=5 Score=28.00 Aligned_cols=62 Identities=16% Similarity=0.125 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..+|+.+-+.+-..|++++|+.+++.+.+. +| ....|..+..++...|+.+.|.+.|-+..+
T Consensus 116 ae~ysn~aN~~kerg~~~~al~~y~~aiel---~p~fida~inla~al~~~~~~~~a~~~~~~alq 178 (966)
T KOG4626|consen 116 AEAYSNLANILKERGQLQDALALYRAAIEL---KPKFIDAYINLAAALVTQGDLELAVQCFFEALQ 178 (966)
T ss_pred HHHHHHHHHHHHHhchHHHHHHHHHHHHhc---CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh
Confidence 457778888888899999999999999854 67 477899999999999999999888877764
No 158
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=87.21 E-value=1.6 Score=18.98 Aligned_cols=25 Identities=20% Similarity=0.295 Sum_probs=17.0
Q ss_pred HHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 52 LIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 52 ~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
+..+|.+.|+.+.|.+++++....|
T Consensus 5 LA~ayie~Gd~e~Ar~lL~evl~~~ 29 (44)
T TIGR03504 5 LARAYIEMGDLEGARELLEEVIEEG 29 (44)
T ss_pred HHHHHHHcCChHHHHHHHHHHHHcC
Confidence 4566777777777777777776443
No 159
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=86.93 E-value=1.2 Score=17.98 Aligned_cols=22 Identities=14% Similarity=0.087 Sum_probs=15.7
Q ss_pred CHHHHHHHHHHHHhcCChHHHH
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVY 30 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~ 30 (91)
+...|+.+=..|...|++++|.
T Consensus 12 n~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 12 NAEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred CHHHHHHHHHHHHHCcCHHhhc
Confidence 5566777777777777777764
No 160
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=86.93 E-value=5.1 Score=24.38 Aligned_cols=64 Identities=5% Similarity=-0.069 Sum_probs=47.3
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
.+-.+-..|...|++++|...|+.+...+--.| ....+-.+...+.+.|+.++|.++++...+.
T Consensus 182 A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~ 246 (263)
T PRK10803 182 ANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK 246 (263)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 455666888899999999999999986521111 2333444556677899999999999998754
No 161
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=86.92 E-value=2.3 Score=30.19 Aligned_cols=50 Identities=10% Similarity=0.149 Sum_probs=30.9
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
|..+-+.|+..|+++.|.++|-+-. -|+-.|..|++.|.|.+|.++-.+.
T Consensus 768 y~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~kw~da~kla~e~ 817 (1636)
T KOG3616|consen 768 YGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGKWEDAFKLAEEC 817 (1636)
T ss_pred chHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhccccHHHHHHHHHHh
Confidence 3344456666666666666665432 2555667788888888777765443
No 162
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=86.89 E-value=6.3 Score=25.37 Aligned_cols=32 Identities=16% Similarity=0.091 Sum_probs=24.1
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
|.+.||--|-..|.+..+++.|+.++.+-.++
T Consensus 254 ~~~dTfllLskvY~ridQP~~AL~~~~~gld~ 285 (478)
T KOG1129|consen 254 PHPDTFLLLSKVYQRIDQPERALLVIGEGLDS 285 (478)
T ss_pred CchhHHHHHHHHHHHhccHHHHHHHHhhhhhc
Confidence 55667777888888888888888887776543
No 163
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=86.55 E-value=5.4 Score=24.31 Aligned_cols=76 Identities=17% Similarity=0.034 Sum_probs=57.5
Q ss_pred CcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHh
Q 038287 7 PPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYN 85 (91)
Q Consensus 7 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~ 85 (91)
++|..+||.+=-+|-+.|+.++|..-|.+..+- .| +....+.+--.+.=.|+.+.|..++.+....+-....+--|
T Consensus 131 p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L---~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~N 207 (257)
T COG5010 131 PTDWEAWNLLGAALDQLGRFDEARRAYRQALEL---APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQN 207 (257)
T ss_pred CCChhhhhHHHHHHHHccChhHHHHHHHHHHHh---ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHH
Confidence 467788999999999999999999999887752 34 35556777667778889999999888887766554444433
No 164
>KOG4570 consensus Uncharacterized conserved protein [Function unknown]
Probab=86.54 E-value=1.9 Score=27.34 Aligned_cols=38 Identities=21% Similarity=0.303 Sum_probs=32.6
Q ss_pred CCCCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhh
Q 038287 2 IFKQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 2 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
+..|+-||.++++.+|+.+.+.++..+|.++.-.|...
T Consensus 127 IqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q 164 (418)
T KOG4570|consen 127 IQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ 164 (418)
T ss_pred chhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence 34577799999999999999999999999988777654
No 165
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=86.24 E-value=2 Score=30.51 Aligned_cols=55 Identities=11% Similarity=0.228 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLV 69 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~ 69 (91)
.++.-|.+|.+.|.|++|.++-.+.. |.......|-+-..-.-+.|.+.+|++++
T Consensus 793 ~~~dai~my~k~~kw~da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeqly 847 (1636)
T KOG3616|consen 793 LFKDAIDMYGKAGKWEDAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQLY 847 (1636)
T ss_pred hhHHHHHHHhccccHHHHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence 46778999999999999999987774 55666777777777677777777766644
No 166
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=85.95 E-value=8.4 Score=25.92 Aligned_cols=65 Identities=15% Similarity=0.017 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhh----CC-CCccH-HhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRAS----LG-IKPNL-VTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..++.-+-..|...|+++.|..++....+. .| ..|.. ...+.+-..|...+..++|..+|+++.+
T Consensus 199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~ 269 (508)
T KOG1840|consen 199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALT 269 (508)
T ss_pred HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 356666889999999999999999976543 12 13333 2344467788889999999999999964
No 167
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=85.94 E-value=7.6 Score=26.12 Aligned_cols=62 Identities=11% Similarity=-0.003 Sum_probs=49.1
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCC--CCc----cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLG--IKP----NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~~~----~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+.+...+...+++++|..++++..+.+. +.+ -.-+++.+-..|-+.|...+|.++++..++
T Consensus 328 l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~ 395 (508)
T KOG1840|consen 328 LSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQ 395 (508)
T ss_pred HHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence 66777888888999999999987665321 222 245789999999999999999999999864
No 168
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=85.90 E-value=5.7 Score=27.34 Aligned_cols=65 Identities=18% Similarity=0.067 Sum_probs=42.8
Q ss_pred CcCHHHHHHHH---HHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 7 PPDIFTYNFLV---KCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 7 ~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..|...||++- -.|.|.+.++.|.-.|+... .+.| +.+....+...+.+.|.-++|++++++...
T Consensus 483 ~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ 551 (638)
T KOG1126|consen 483 GVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIH 551 (638)
T ss_pred cCCchhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHh
Confidence 34555566553 45667777788777777765 3455 455566666667777777777777777754
No 169
>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]
Probab=85.77 E-value=9.1 Score=26.18 Aligned_cols=63 Identities=16% Similarity=0.227 Sum_probs=52.8
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
|...|+.||.-+-.. -.+++.+.++++. ++.| ....|..-+.+--...+.+..+.+|.+-...
T Consensus 19 di~sw~~lire~qt~-~~~~~R~~YEq~~---~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk 82 (656)
T KOG1914|consen 19 DIDSWSQLIREAQTQ-PIDKVRETYEQLV---NVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVK 82 (656)
T ss_pred cHHHHHHHHHHHccC-CHHHHHHHHHHHh---ccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 778899999877655 8899999999997 4566 4677888999999999999999999988654
No 170
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=85.77 E-value=1.3 Score=16.57 Aligned_cols=17 Identities=6% Similarity=0.034 Sum_probs=8.5
Q ss_pred HHHHHhcCChHHHHHHH
Q 038287 17 VKCLCKCRSLTTVYNFV 33 (91)
Q Consensus 17 i~~~~~~~~~~~a~~~~ 33 (91)
-..+...|++++|..++
T Consensus 8 a~~~~~~G~~~eA~~~l 24 (26)
T PF07721_consen 8 ARALLAQGDPDEAERLL 24 (26)
T ss_pred HHHHHHcCCHHHHHHHH
Confidence 34444555555555444
No 171
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=85.62 E-value=8 Score=29.42 Aligned_cols=58 Identities=10% Similarity=0.034 Sum_probs=33.0
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
|..|...|.+....++|-++++.|.++. ....-+|....+...+..+-+.|.+++.+.
T Consensus 1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF--~q~~~vW~~y~~fLl~~ne~~aa~~lL~rA 1590 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKF--GQTRKVWIMYADFLLRQNEAEAARELLKRA 1590 (1710)
T ss_pred HHHHHHHHHHhhcchhHHHHHHHHHHHh--cchhhHHHHHHHHHhcccHHHHHHHHHHHH
Confidence 5556666666666666666666666542 234445666666555555555555544444
No 172
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=85.48 E-value=7 Score=27.36 Aligned_cols=28 Identities=14% Similarity=0.040 Sum_probs=14.7
Q ss_pred HHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 46 LVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
...++.+...|-.+|.+.+|++-+++..
T Consensus 456 AeAhsNLasi~kDsGni~~AI~sY~~aL 483 (966)
T KOG4626|consen 456 AEAHSNLASIYKDSGNIPEAIQSYRTAL 483 (966)
T ss_pred HHHHhhHHHHhhccCCcHHHHHHHHHHH
Confidence 3344555555555555555555555543
No 173
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=85.48 E-value=4.8 Score=22.68 Aligned_cols=53 Identities=9% Similarity=0.051 Sum_probs=29.5
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCccHHh-HHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKPNLVT-YTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+...|++++|..+|+.+-. +.|.... |-.+--++-..|++++|++.+......
T Consensus 45 ly~~G~l~~A~~~f~~L~~---~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L 98 (157)
T PRK15363 45 LMEVKEFAGAARLFQLLTI---YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI 98 (157)
T ss_pred HHHCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 3456777777777776653 2453322 333333444456666666666666543
No 174
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.47 E-value=2.8 Score=28.14 Aligned_cols=50 Identities=6% Similarity=0.098 Sum_probs=40.0
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHH
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVS 70 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~ 70 (91)
+-|.+.+.+++|+.+|....+ ..|+ .+=|+....+|...|+|+++.+--.
T Consensus 123 N~~f~~kkY~eAIkyY~~AI~---l~p~epiFYsNraAcY~~lgd~~~Vied~T 173 (606)
T KOG0547|consen 123 NKFFRNKKYDEAIKYYTQAIE---LCPDEPIFYSNRAACYESLGDWEKVIEDCT 173 (606)
T ss_pred hhhhhcccHHHHHHHHHHHHh---cCCCCchhhhhHHHHHHHHhhHHHHHHHHH
Confidence 345677899999999999875 4788 6778889999999999998776433
No 175
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=85.33 E-value=5.6 Score=24.94 Aligned_cols=54 Identities=11% Similarity=0.174 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVS 70 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~ 70 (91)
+.+..|.-+...|+...|..+-.+++ .|+..=|...++++++.++|++-.++..
T Consensus 179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk-----v~dkrfw~lki~aLa~~~~w~eL~~fa~ 232 (319)
T PF04840_consen 179 SLNDTIRKLIEMGQEKQAEKLKKEFK-----VPDKRFWWLKIKALAENKDWDELEKFAK 232 (319)
T ss_pred CHHHHHHHHHHCCCHHHHHHHHHHcC-----CcHHHHHHHHHHHHHhcCCHHHHHHHHh
Confidence 34455666677788888888876664 4788889999999999999998877543
No 176
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=85.20 E-value=5.9 Score=25.16 Aligned_cols=57 Identities=16% Similarity=0.302 Sum_probs=44.8
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFK 78 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~ 78 (91)
..+.|+.+.|.+-|+...+-.|..|-. .||..+- ..+.++...|.+...+++.+|++
T Consensus 154 lykegqyEaAvqkFqaAlqvsGyqpll-AYniALa-Hy~~~qyasALk~iSEIieRG~r 210 (459)
T KOG4340|consen 154 LYKEGQYEAAVQKFQAALQVSGYQPLL-AYNLALA-HYSSRQYASALKHISEIIERGIR 210 (459)
T ss_pred eeccccHHHHHHHHHHHHhhcCCCchh-HHHHHHH-HHhhhhHHHHHHHHHHHHHhhhh
Confidence 357899999999999887755766654 6887765 66778889999999999887764
No 177
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=85.11 E-value=5.4 Score=23.00 Aligned_cols=57 Identities=7% Similarity=0.020 Sum_probs=41.6
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
......|++++|...|+.+...+.-.| .....-.+..++-+.|+...|...+++..+
T Consensus 13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~ 70 (203)
T PF13525_consen 13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIK 70 (203)
T ss_dssp HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 445678999999999999987632222 244456777889999999999999999875
No 178
>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.
Probab=85.01 E-value=3.9 Score=21.26 Aligned_cols=47 Identities=6% Similarity=0.196 Sum_probs=38.5
Q ss_pred CCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHH
Q 038287 6 LPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILID 54 (91)
Q Consensus 6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~ 54 (91)
+.|++....+-+.+|-+..++..|.++|+..+.+ ...+...|..+++
T Consensus 38 lVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K--~~~~~~~y~~~lq 84 (103)
T cd00923 38 LVPEPKVIEAALRACRRVNDFALAVRILEAIKDK--CGAHKEIYPYILQ 84 (103)
T ss_pred cCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--ccCchhhHHHHHH
Confidence 4588889999999999999999999999999864 2334557887776
No 179
>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene. The molecular function of this protein is uncertain.
Probab=84.89 E-value=9.6 Score=25.70 Aligned_cols=56 Identities=14% Similarity=0.169 Sum_probs=43.0
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.+.-+.|+.++|++.|++|.+.....-+....-.++.++-..+...++..++.+-.
T Consensus 267 mCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd 322 (539)
T PF04184_consen 267 MCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD 322 (539)
T ss_pred HHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence 34446699999999999998652222245567788999999999999999888764
No 180
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.68 E-value=7 Score=25.45 Aligned_cols=72 Identities=7% Similarity=0.208 Sum_probs=49.4
Q ss_pred cCHHHHHHHH-HHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhH
Q 038287 8 PDIFTYNFLV-KCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 8 ~~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
.|.++|-+++ .+|.+++.++.|-.++-.+... .-...-...+.+-|-+++.+--|.+.|+.+... .|++.-|
T Consensus 425 kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~l--DP~pEnW 497 (557)
T KOG3785|consen 425 KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELEIL--DPTPENW 497 (557)
T ss_pred hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHcc--CCCcccc
Confidence 5778887765 8889999999887776665421 112333455667788889988888888888653 4554443
No 181
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=84.13 E-value=1.8 Score=16.73 Aligned_cols=26 Identities=4% Similarity=0.213 Sum_probs=13.8
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHh
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRA 38 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~ 38 (91)
|..+=..|.+.|++++|...|+....
T Consensus 4 ~~~lg~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF07719_consen 4 WYYLGQAYYQLGNYEEAIEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 33344455566666666666665543
No 182
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=83.85 E-value=2.2 Score=22.88 Aligned_cols=58 Identities=16% Similarity=0.092 Sum_probs=42.0
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.+....+.++..|++.++.+...++++.. +.+-...+++.|.+.+.++++.-++.++.
T Consensus 40 ~~~~~~~~L~~ly~~~~~~~~l~~~L~~~--------~~yd~~~~~~~c~~~~l~~~a~~Ly~~~~ 97 (143)
T PF00637_consen 40 NNPDLHTLLLELYIKYDPYEKLLEFLKTS--------NNYDLDKALRLCEKHGLYEEAVYLYSKLG 97 (143)
T ss_dssp -SHHHHHHHHHHHHCTTTCCHHHHTTTSS--------SSS-CTHHHHHHHTTTSHHHHHHHHHCCT
T ss_pred cCHHHHHHHHHHHHhcCCchHHHHHcccc--------cccCHHHHHHHHHhcchHHHHHHHHHHcc
Confidence 45677899999999998878877777622 12445567777888888888888887764
No 183
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=83.75 E-value=11 Score=25.42 Aligned_cols=65 Identities=14% Similarity=0.262 Sum_probs=49.7
Q ss_pred cCHHHHH--HHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 8 PDIFTYN--FLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 8 ~~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
|+...|. -+-..|...|+.++|..+.+...+. .|+ ..-|..-.+.+-+.|++.+|.+..+..+..
T Consensus 190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~L 257 (517)
T PF12569_consen 190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGDLKEAAEAMDEAREL 257 (517)
T ss_pred chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhC
Confidence 5554554 4457788999999999999988764 665 556777778888999999999888887653
No 184
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=83.69 E-value=3.3 Score=19.32 Aligned_cols=46 Identities=20% Similarity=0.323 Sum_probs=29.6
Q ss_pred ChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 25 SLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 25 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.++...++.+.++.. .-|..---.++.++.+.|.+++|.+..+++.
T Consensus 5 ~~~~~~~~~~~lR~~---RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~ 50 (62)
T PF14689_consen 5 QLEELEELIDSLRAQ---RHDFLNHLQVIYGLLQLGKYEEAKEYIKELS 50 (62)
T ss_dssp -HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH---hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 345555666666543 3355556667788888888888888777775
No 185
>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]
Probab=83.60 E-value=13 Score=26.88 Aligned_cols=62 Identities=15% Similarity=0.177 Sum_probs=47.0
Q ss_pred HHHHHHHHHH--hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 12 TYNFLVKCLC--KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 12 ~~~~li~~~~--~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
.|...+.+++ +.|..++|..+++....- + .-|..|...+-.+|-+.++.+++..++++....
T Consensus 43 ~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~-~-~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~ 106 (932)
T KOG2053|consen 43 LYAKVLKALSLFRLGKGDEALKLLEALYGL-K-GTDDLTLQFLQNVYRDLGKLDEAVHLYERANQK 106 (932)
T ss_pred HHHHHHHHHHHHHhcCchhHHHHHhhhccC-C-CCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhh
Confidence 4566666664 668888888888887642 2 227888888989999999999999999888643
No 186
>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []. Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.
Probab=83.55 E-value=7.4 Score=23.30 Aligned_cols=58 Identities=5% Similarity=-0.001 Sum_probs=37.0
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCC----CCccHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLG----IKPNLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~----~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
.+-.-|.+.|++++|.++|+.+...+. ..+...+...+..|+.+.|+.+....+--++
T Consensus 183 ~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~~leL 244 (247)
T PF11817_consen 183 EMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTTSLEL 244 (247)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 344566777888888888887754321 2344555666677777777777766655444
No 187
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=83.50 E-value=5.7 Score=21.95 Aligned_cols=58 Identities=7% Similarity=-0.088 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHH-------ccCCHHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVC-------NTKNLREAMRLVSA 71 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~-------~~~~~~~a~~~~~~ 71 (91)
.++..+-..|...|++++|...++..... .| ...++..+...+. +.|+.+.|...+++
T Consensus 73 ~~~~~lg~~~~~~g~~~eA~~~~~~Al~~---~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~ 138 (168)
T CHL00033 73 YILYNIGLIHTSNGEHTKALEYYFQALER---NPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ 138 (168)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence 46778888899999999999999988753 33 3555667767777 77777755554443
No 188
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=83.47 E-value=5.3 Score=21.57 Aligned_cols=65 Identities=11% Similarity=0.076 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
..|..++..+. .++...+...++.+..++.-.+ .....=.+.+.+...|++++|.+.|+......
T Consensus 13 ~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~ 78 (145)
T PF09976_consen 13 ALYEQALQALQ-AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA 78 (145)
T ss_pred HHHHHHHHHHH-CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence 45677777774 8888999999999988622111 12333335577888999999999999998766
No 189
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=83.42 E-value=6.1 Score=26.60 Aligned_cols=49 Identities=10% Similarity=0.022 Sum_probs=39.0
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHH
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLV 69 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~ 69 (91)
+.+.+.|++..|+..|.++... .| |...|+.-.-||.+.+....|.+=-
T Consensus 366 ne~Fk~gdy~~Av~~YteAIkr---~P~Da~lYsNRAac~~kL~~~~~aL~Da 415 (539)
T KOG0548|consen 366 NEAFKKGDYPEAVKHYTEAIKR---DPEDARLYSNRAACYLKLGEYPEALKDA 415 (539)
T ss_pred HHHHhccCHHHHHHHHHHHHhc---CCchhHHHHHHHHHHHHHhhHHHHHHHH
Confidence 3456778999999999998765 46 6888999999999999888876643
No 190
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=83.40 E-value=3.1 Score=18.88 Aligned_cols=31 Identities=6% Similarity=0.084 Sum_probs=25.4
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
+...+..+-.++.+.|++++|...|+...+.
T Consensus 30 ~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 30 NPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5566777888899999999999999998764
No 191
>KOG4555 consensus TPR repeat-containing protein [Function unknown]
Probab=83.06 E-value=6.1 Score=21.99 Aligned_cols=54 Identities=13% Similarity=0.142 Sum_probs=44.2
Q ss_pred HHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 19 CLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 19 ~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+.+..|+++.|++.|..-.. +.| ....||.-..++--.|+.++|.+=+++..+.
T Consensus 52 alaE~g~Ld~AlE~F~qal~---l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleL 106 (175)
T KOG4555|consen 52 ALAEAGDLDGALELFGQALC---LAPERASAYNNRAQALRLQGDDEEALDDLNKALEL 106 (175)
T ss_pred HHHhccchHHHHHHHHHHHH---hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHh
Confidence 45678999999999998764 354 6788999999999999999998877777643
No 192
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=82.77 E-value=1.8 Score=28.76 Aligned_cols=46 Identities=15% Similarity=0.353 Sum_probs=40.6
Q ss_pred ccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC-CCcCHHhHhhhhh
Q 038287 44 PNLVTYTILIDNVCNTKNLREAMRLVSALSDSG-FKPDCFVYNTIMK 89 (91)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g-~~p~~~~~~~ll~ 89 (91)
.-.++|++.++..-+.+.++.|..+|.+.++.| +.++++++++.+.
T Consensus 395 k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E 441 (660)
T COG5107 395 KLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIE 441 (660)
T ss_pred hhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHH
Confidence 456789999999999999999999999999888 7888999988775
No 193
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=82.16 E-value=9.7 Score=23.68 Aligned_cols=79 Identities=11% Similarity=0.271 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHhc--CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHc--cC----CHHHHHHHHHHHHhC-CC--C
Q 038287 10 IFTYNFLVKCLCKC--RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCN--TK----NLREAMRLVSALSDS-GF--K 78 (91)
Q Consensus 10 ~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~--~~----~~~~a~~~~~~m~~~-g~--~ 78 (91)
..++.+++...... ..+++...+++.|.+. |++.+.++|-+..-.... .. ....+.++++.|++. .+ .
T Consensus 60 ~~~la~~l~~~~~~p~~~~~~~~~~y~~L~~~-gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs 138 (297)
T PF13170_consen 60 RFILAALLDISFEDPEEAFKEVLDIYEKLKEA-GFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTS 138 (297)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHh-ccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccC
Confidence 34455555544441 2356777888888886 888888777764333333 22 356688999999864 33 5
Q ss_pred cCHHhHhhhhh
Q 038287 79 PDCFVYNTIMK 89 (91)
Q Consensus 79 p~~~~~~~ll~ 89 (91)
++.+++..++.
T Consensus 139 ~~D~~~a~lLA 149 (297)
T PF13170_consen 139 PEDYPFAALLA 149 (297)
T ss_pred ccchhHHHHHh
Confidence 66777777664
No 194
>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]
Probab=81.85 E-value=16 Score=25.96 Aligned_cols=73 Identities=12% Similarity=0.148 Sum_probs=53.0
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhC-CCCccHHhHHHHHHHHHccCCHHH------HHHHHHHHHhCCCCcCHHhHhhh
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASL-GIKPNLVTYTILIDNVCNTKNLRE------AMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~~~~~~~~~~~~~~~------a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
+|+.+|...|++..+.++++.+.... |-+.-...+|..++...+.|.++. +.+++++ ..+.-|..||..+
T Consensus 33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l~~~~~~~~~~lq~---a~ln~d~~t~all 109 (1117)
T COG5108 33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFELTDVLSNAKELLQQ---ARLNGDSLTYALL 109 (1117)
T ss_pred HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccHHHHHHHHHHHHHH---hhcCCcchHHHHH
Confidence 89999999999999999999987642 334456778999999999997543 3333333 3355677788776
Q ss_pred hhc
Q 038287 88 MKG 90 (91)
Q Consensus 88 l~~ 90 (91)
.++
T Consensus 110 ~~~ 112 (1117)
T COG5108 110 CQA 112 (1117)
T ss_pred HHh
Confidence 653
No 195
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=81.34 E-value=4.5 Score=29.52 Aligned_cols=32 Identities=13% Similarity=0.168 Sum_probs=18.6
Q ss_pred CCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 42 IKP-NLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 42 ~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
+.| |...|..+..+|.++|....|.++|.+..
T Consensus 591 ~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs 623 (1238)
T KOG1127|consen 591 TDPKDYNLWLGLGEAYPESGRYSHALKVFTKAS 623 (1238)
T ss_pred CCchhHHHHHHHHHHHHhcCceehHHHhhhhhH
Confidence 344 45556666666666666666666665543
No 196
>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane. Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane
Probab=80.99 E-value=5.3 Score=19.87 Aligned_cols=51 Identities=10% Similarity=0.063 Sum_probs=37.6
Q ss_pred HHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHH
Q 038287 17 VKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRL 68 (91)
Q Consensus 17 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~ 68 (91)
+..| ....-++|+..|....++..-.++ ..++..++.+++.-|..++..++
T Consensus 14 lkLY-~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f 65 (80)
T PF10579_consen 14 LKLY-HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF 65 (80)
T ss_pred HHHh-ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444 667778999999988775222333 56789999999999988887653
No 197
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=80.85 E-value=9.7 Score=22.81 Aligned_cols=56 Identities=9% Similarity=-0.028 Sum_probs=41.6
Q ss_pred HHHHHhcCChHHHHHHHHHHHhhCCCCccHH-hH---HHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 17 VKCLCKCRSLTTVYNFVDQMRASLGIKPNLV-TY---TILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 17 i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~-~~---~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
-..+.+.|++++|...|+.+... .|+.. .- -.+..++-+.++.++|...+++..+.
T Consensus 39 A~~~~~~g~y~~Ai~~f~~l~~~---yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~ 98 (243)
T PRK10866 39 AQQKLQDGNWKQAITQLEALDNR---YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL 98 (243)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence 34445679999999999999875 44332 21 24557788999999999999999754
No 198
>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 200 amino acids in length.
Probab=80.69 E-value=5.9 Score=22.60 Aligned_cols=34 Identities=15% Similarity=0.121 Sum_probs=30.5
Q ss_pred CCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhh
Q 038287 6 LPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
..|+..++..++..+...|+.++|....+++..-
T Consensus 140 ~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l 173 (193)
T PF11846_consen 140 RRPDPNVYQRYALALALLGDPEEARQWLARARRL 173 (193)
T ss_pred hCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 3489999999999999999999999999999753
No 199
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=80.44 E-value=11 Score=23.07 Aligned_cols=70 Identities=9% Similarity=0.050 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCcCH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS-GFKPDC 81 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~-g~~p~~ 81 (91)
..|+.-+. -.+.|++++|.+.|+.+...+-..| ..-+--.++-++-+.++.++|....++..+. +-.||.
T Consensus 36 ~LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~ 107 (254)
T COG4105 36 ELYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNA 107 (254)
T ss_pred HHHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCCh
Confidence 34444443 3467999999999999997643333 3445556667777889999999999988754 555653
No 200
>COG0320 LipA Lipoate synthase [Coenzyme metabolism]
Probab=80.16 E-value=2.6 Score=26.04 Aligned_cols=50 Identities=14% Similarity=0.281 Sum_probs=40.9
Q ss_pred CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 038287 24 RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFK 78 (91)
Q Consensus 24 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~ 78 (91)
..++..+.+++..++. .|+..|-+.+|-++++. .++..++++++++.|+.
T Consensus 194 A~Y~~SL~~L~~~k~~---~P~i~TKSgiMlGLGEt--~~Ev~e~m~DLr~~gvd 243 (306)
T COG0320 194 ATYERSLSLLERAKEL---GPDIPTKSGLMVGLGET--DEEVIEVMDDLRSAGVD 243 (306)
T ss_pred CcHHHHHHHHHHHHHh---CCCcccccceeeecCCc--HHHHHHHHHHHHHcCCC
Confidence 4688999999999864 89999999999988874 45788888888877653
No 201
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=80.13 E-value=8.5 Score=21.70 Aligned_cols=61 Identities=10% Similarity=-0.042 Sum_probs=48.3
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
-|-.|=.++-..|++++|+..|...-.- .| |...+-..-.++-..|+.+.|.+.|+..+..
T Consensus 71 y~~gLG~~~Q~~g~~~~AI~aY~~A~~L---~~ddp~~~~~ag~c~L~lG~~~~A~~aF~~Ai~~ 132 (157)
T PRK15363 71 YWFRLGECCQAQKHWGEAIYAYGRAAQI---KIDAPQAPWAAAECYLACDNVCYAIKALKAVVRI 132 (157)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHhc---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 3445556666779999999999988653 44 5777777888999999999999999988643
No 202
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=79.10 E-value=3.1 Score=16.10 Aligned_cols=27 Identities=11% Similarity=0.132 Sum_probs=17.6
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRA 38 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~ 38 (91)
+|..+=..|...|++++|...|++..+
T Consensus 3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~ 29 (34)
T PF13181_consen 3 AYYNLGKIYEQLGDYEEALEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 345555666677777777777776553
No 203
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.04 E-value=15 Score=27.43 Aligned_cols=55 Identities=15% Similarity=0.128 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHH
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMR 67 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~ 67 (91)
+..|...++..++.|.|++..+++.-.+++ .-+|.. =+.++-+|++.+++.+.++
T Consensus 1133 ps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~i--d~eLi~AyAkt~rl~elE~ 1187 (1666)
T KOG0985|consen 1133 PSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYI--DSELIFAYAKTNRLTELEE 1187 (1666)
T ss_pred cHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccc--hHHHHHHHHHhchHHHHHH
Confidence 344556666666666666666555544443 223332 2455556666655554443
No 204
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=79.00 E-value=9 Score=21.31 Aligned_cols=61 Identities=5% Similarity=-0.036 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCC--------------HHHHHHHHHHHHh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKN--------------LREAMRLVSALSD 74 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~--------------~~~a~~~~~~m~~ 74 (91)
..+..+-..+.+.|++++|...++..... .| +...+..+...+...|. .++|.+.+.+...
T Consensus 73 ~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~ 148 (172)
T PRK02603 73 YILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSALNNIAVIYHKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR 148 (172)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh
Confidence 46777888889999999999999988763 44 45556666667777665 3556666666543
No 205
>COG5210 GTPase-activating protein [General function prediction only]
Probab=78.94 E-value=15 Score=24.43 Aligned_cols=56 Identities=11% Similarity=0.060 Sum_probs=44.6
Q ss_pred HHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhH
Q 038287 28 TVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 28 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
...++++++... ++.+..+++..++..+.+...++.+.++++.+-..|..-.-..+
T Consensus 360 ~~p~l~~hl~~~-~~~~~~~~~~w~l~lF~~~~p~e~~lriwD~lf~eg~~~l~~~~ 415 (496)
T COG5210 360 LDPELYEHLLRE-GVVLLMFAFRWFLTLFVREFPLEYALRIWDCLFLEGSSMLFQLA 415 (496)
T ss_pred HHHHHHHHHHHc-CCchhhhhHHHHHHHHHhcCCHHHHHHHHHHHHHhccHHHHHHH
Confidence 345677788776 88999999999999999999999999999988776665443333
No 206
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=78.77 E-value=8 Score=24.19 Aligned_cols=49 Identities=12% Similarity=0.132 Sum_probs=38.8
Q ss_pred HhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 21 CKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 21 ~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
.+.+++++|+..|.+..+ +.| |.+=|..-..+|.+.|..+.|.+=.+..
T Consensus 92 m~~~~Y~eAv~kY~~AI~---l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~A 141 (304)
T KOG0553|consen 92 MKNKDYQEAVDKYTEAIE---LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESA 141 (304)
T ss_pred HHhhhHHHHHHHHHHHHh---cCCCcchHHHHHHHHHHHhcchHHHHHHHHHH
Confidence 466889999999998874 466 6777889999999999988887655444
No 207
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=78.59 E-value=14 Score=25.98 Aligned_cols=68 Identities=9% Similarity=0.020 Sum_probs=46.0
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc--HHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN--LVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
.+...|+.+-+..++..+.-....+=..++...+.-+| ..-|+++.+-|.+.|.++.|.+++++-.+.
T Consensus 208 Sn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~ 277 (835)
T KOG2047|consen 208 SNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT 277 (835)
T ss_pred chhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence 45566777777777766544444333333321123444 566999999999999999999999987643
No 208
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=78.43 E-value=12 Score=22.65 Aligned_cols=63 Identities=11% Similarity=-0.044 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
..+|..+-..|-+.|+.+.|.+-|+...+. .| +..+.|..=.-.|..|.+++|..-|++....
T Consensus 69 ~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl---~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~ 132 (250)
T COG3063 69 YLAHLVRAHYYQKLGENDLADESYRKALSL---APNNGDVLNNYGAFLCAQGRPEEAMQQFERALAD 132 (250)
T ss_pred HHHHHHHHHHHHHcCChhhHHHHHHHHHhc---CCCccchhhhhhHHHHhCCChHHHHHHHHHHHhC
Confidence 456777777788888888888888877642 44 3445555555567777888888877777654
No 209
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=78.42 E-value=16 Score=26.30 Aligned_cols=62 Identities=15% Similarity=0.244 Sum_probs=50.5
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
+...|-.+-.+|-..+..++|...|+..... .|+ ...-..+-..+.+.|.+++|.+++..+.
T Consensus 448 ~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~---~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~ 510 (895)
T KOG2076|consen 448 NAFVWYKLARCYMELGEYEEAIEFYEKVLIL---APDNLDARITLASLYQQLGNHEKALETLEQII 510 (895)
T ss_pred chhhhHHHHHHHHHHhhHHHHHHHHHHHHhc---CCCchhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence 4567888889999999999999999998753 563 4455566677889999999999999875
No 210
>PF10366 Vps39_1: Vacuolar sorting protein 39 domain 1; InterPro: IPR019452 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised.
Probab=77.80 E-value=5.6 Score=20.80 Aligned_cols=27 Identities=11% Similarity=0.106 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRA 38 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~ 38 (91)
-|..|+.-|-..|..++|.+++.++..
T Consensus 41 ~~~eL~~lY~~kg~h~~AL~ll~~l~~ 67 (108)
T PF10366_consen 41 KYQELVDLYQGKGLHRKALELLKKLAD 67 (108)
T ss_pred CHHHHHHHHHccCccHHHHHHHHHHhc
Confidence 478899999999999999999998876
No 211
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=77.50 E-value=17 Score=23.71 Aligned_cols=67 Identities=6% Similarity=0.079 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcC
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPD 80 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~ 80 (91)
+|+.+++=....+..+.-...++..+.+ .+.+...-.+++.-+.++|+.++|.++..+-.+.+..|+
T Consensus 231 a~~glL~q~~~~~~~~gL~~~W~~~pr~--lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~ 297 (400)
T COG3071 231 AWEGLLQQARDDNGSEGLKTWWKNQPRK--LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR 297 (400)
T ss_pred HHHHHHHHHhccccchHHHHHHHhccHH--hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh
Confidence 3444444444444444444445544442 233333444455555555555555555555555444444
No 212
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=77.33 E-value=20 Score=24.53 Aligned_cols=51 Identities=12% Similarity=0.152 Sum_probs=23.7
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
|.-.+++++|...|+.... ++| |...||-+=...+...+-.+|++-+.+.+
T Consensus 440 y~ls~efdraiDcf~~AL~---v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rAL 491 (579)
T KOG1125|consen 440 YNLSGEFDRAVDCFEAALQ---VKPNDYLLWNRLGATLANGNRSEEAISAYNRAL 491 (579)
T ss_pred HhcchHHHHHHHHHHHHHh---cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHH
Confidence 3444555555555555542 244 34444444333333344455555555544
No 213
>smart00164 TBC Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs. Widespread domain present in Gyp6 and Gyp7, thereby giving rise to the notion that it performs a GTP-activator activity on Rab-like GTPases.
Probab=77.29 E-value=11 Score=21.38 Aligned_cols=45 Identities=20% Similarity=0.375 Sum_probs=27.4
Q ss_pred HHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 32 FVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 32 ~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
+++++.+..|+.|..+.+..++..+.+.-.++.+..+|+.+...|
T Consensus 153 l~~~l~~~~~i~~~~~~~~W~~~lF~~~~~~~~~~riwD~~l~eG 197 (199)
T smart00164 153 LYKHLKDKLGIDPSLYALRWFLTLFARELPLEIVLRIWDVLFAEG 197 (199)
T ss_pred HHHHHHHhcCCCchhHHHHHHHHHHHhhCCHHHHHHHHHHHHhcC
Confidence 444444312566666666666666666666667777776665544
No 214
>PF11663 Toxin_YhaV: Toxin with endonuclease activity YhaV; InterPro: IPR021679 YhaV causes reversible bacteriostasis and is part of a toxin-antitoxin system in Escherichia coli along with PrlF. The toxicity of YhaV is counteracted by PrlF by the formation of a tight complex which binds to the promoter of the prlF-yhaV operon. In vitro, YhaV also has endonuclease activity [].
Probab=77.15 E-value=2 Score=23.57 Aligned_cols=27 Identities=19% Similarity=0.434 Sum_probs=20.8
Q ss_pred CHHHHHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 61 NLREAMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 61 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
.-..|..+|+.|..+|-.||. |+.|+.
T Consensus 110 sk~DaY~VF~kML~~G~pPdd--W~~Ll~ 136 (140)
T PF11663_consen 110 SKTDAYAVFRKMLERGNPPDD--WDALLK 136 (140)
T ss_pred cCCcHHHHHHHHHhCCCCCcc--HHHHHH
Confidence 344688999999999999874 566654
No 215
>smart00804 TAP_C C-terminal domain of vertebrate Tap protein. The vertebrate Tap protein is a member of the NXF family of shuttling transport receptors for the nuclear export of mRNA. Its most C-terminal domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate shuttling. This domain forms a compact four-helix fold related to that of a UBA domain.
Probab=77.06 E-value=3.7 Score=19.37 Aligned_cols=25 Identities=8% Similarity=0.136 Sum_probs=18.3
Q ss_pred cCChHHHHHHHHHHHhhCCCCccHH
Q 038287 23 CRSLTTVYNFVDQMRASLGIKPNLV 47 (91)
Q Consensus 23 ~~~~~~a~~~~~~m~~~~~~~~~~~ 47 (91)
.-+++.|...|..++....+-|+.+
T Consensus 38 ~Wd~~~Al~~F~~lk~~~~IP~eAF 62 (63)
T smart00804 38 NWDYERALKNFTELKSEGSIPPEAF 62 (63)
T ss_pred CCCHHHHHHHHHHHHhcCCCChhhc
Confidence 3588999999999887645555543
No 216
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.82 E-value=15 Score=22.83 Aligned_cols=68 Identities=16% Similarity=0.077 Sum_probs=50.4
Q ss_pred CCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHH-HHHHHHHHh
Q 038287 5 QLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREA-MRLVSALSD 74 (91)
Q Consensus 5 ~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a-~~~~~~m~~ 74 (91)
+.+|+..+-|-...++...+++++|..+++....+. .-+..+...++-+....|...++ .+...+++.
T Consensus 202 k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd--~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~ 270 (299)
T KOG3081|consen 202 KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD--AKDPETLANLIVLALHLGKDAEVTERNLSQLKL 270 (299)
T ss_pred ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence 367888888888888999999999999999988751 23566777777777777765443 455555553
No 217
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=76.60 E-value=11 Score=21.27 Aligned_cols=61 Identities=15% Similarity=0.228 Sum_probs=33.7
Q ss_pred HHHHHHHHH---HhcCChHHHHHHHHHHHhhCCCCccHHhHHHH-HHHHHccCCHHHHHHHHHHHHhC
Q 038287 12 TYNFLVKCL---CKCRSLTTVYNFVDQMRASLGIKPNLVTYTIL-IDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 12 ~~~~li~~~---~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~-~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+.+.||... .+.++.+++..+++.+.. ..|........ -..+...|+|.+|..+++++...
T Consensus 9 iv~gLie~~~~al~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~ 73 (160)
T PF09613_consen 9 IVGGLIEVLSVALRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER 73 (160)
T ss_pred HHHHHHHHHHHHHccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence 344444433 355677777777777764 24433222221 11245667777777777777544
No 218
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.59 E-value=21 Score=24.30 Aligned_cols=63 Identities=8% Similarity=0.199 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+.|-.+--+..|.+.+++++..|++.+++ +..-..+|+.........+++++|.+-|+.....
T Consensus 429 ~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L 491 (606)
T KOG0547|consen 429 YAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL 491 (606)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence 34444444445778889999999998875 2334677888888899999999999999887653
No 219
>COG3898 Uncharacterized membrane-bound protein [Function unknown]
Probab=75.65 E-value=16 Score=24.17 Aligned_cols=60 Identities=13% Similarity=0.138 Sum_probs=43.3
Q ss_pred hcCChHHHHHHHHHHHhh-------------------------------CCCCcc-HHhHHHHHHHHHccCCHHHHHHHH
Q 038287 22 KCRSLTTVYNFVDQMRAS-------------------------------LGIKPN-LVTYTILIDNVCNTKNLREAMRLV 69 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~-------------------------------~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~ 69 (91)
-.|+.+.|.+-|+.|... .+..|. ...+.+.+...+..|+|+.|+++.
T Consensus 132 ~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLv 211 (531)
T COG3898 132 LEGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLV 211 (531)
T ss_pred hcCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHH
Confidence 347777777777777654 234453 567889999999999999999999
Q ss_pred HHHHhC-CCCcCH
Q 038287 70 SALSDS-GFKPDC 81 (91)
Q Consensus 70 ~~m~~~-g~~p~~ 81 (91)
+.-+.. -++++.
T Consensus 212 d~~~~~~vie~~~ 224 (531)
T COG3898 212 DAQRAAKVIEKDV 224 (531)
T ss_pred HHHHHHHhhchhh
Confidence 887643 355554
No 220
>PF13929 mRNA_stabil: mRNA stabilisation
Probab=75.17 E-value=17 Score=22.67 Aligned_cols=81 Identities=11% Similarity=0.144 Sum_probs=58.1
Q ss_pred CHHHHHHHHHHHHhc--CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC-CCCcCHHhHh
Q 038287 9 DIFTYNFLVKCLCKC--RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS-GFKPDCFVYN 85 (91)
Q Consensus 9 ~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~ 85 (91)
|..+-..+++.+... ..+..-.++.+.+....+-.++..+...+++..++.+++..-.++++.-... +..-|...|.
T Consensus 163 d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~ 242 (292)
T PF13929_consen 163 DEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWA 242 (292)
T ss_pred ChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHH
Confidence 445555566666542 2334444555555554567888889999999999999999999999888755 6777888888
Q ss_pred hhhh
Q 038287 86 TIMK 89 (91)
Q Consensus 86 ~ll~ 89 (91)
..|+
T Consensus 243 ~FI~ 246 (292)
T PF13929_consen 243 EFIK 246 (292)
T ss_pred HHHH
Confidence 7765
No 221
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.41 E-value=35 Score=25.77 Aligned_cols=67 Identities=10% Similarity=0.026 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHh
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFV 83 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~ 83 (91)
+..|+.+-.+-.+.+...+|++-|=+. -|...|.-+++...+.|.+++-.+.+...++...+|...+
T Consensus 1104 p~vWsqlakAQL~~~~v~dAieSyika-------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~ 1170 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKA-------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS 1170 (1666)
T ss_pred hHHHHHHHHHHHhcCchHHHHHHHHhc-------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH
Confidence 456777777777778877777655433 2677899999999999999999887766566666666543
No 222
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=74.17 E-value=23 Score=26.29 Aligned_cols=62 Identities=13% Similarity=0.217 Sum_probs=42.3
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHH--HccCCHHHHHHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNV--CNTKNLREAMRLVSALS 73 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~--~~~~~~~~a~~~~~~m~ 73 (91)
.|...|..+..+|..+|+...|.++|++... +.|+. +|...-.+- +..|...++...++...
T Consensus 594 kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~---LrP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii 657 (1238)
T KOG1127|consen 594 KDYNLWLGLGEAYPESGRYSHALKVFTKASL---LRPLS-KYGRFKEAVMECDNGKYKEALDALGLII 657 (1238)
T ss_pred hhHHHHHHHHHHHHhcCceehHHHhhhhhHh---cCcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence 4667799999999999999999999988753 35543 344333332 34466666666555543
No 223
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=74.14 E-value=32 Score=25.17 Aligned_cols=59 Identities=8% Similarity=0.037 Sum_probs=46.0
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..-.+-.+|-+.|+.+++...+++..+- .| |....|.+.-.+... ++++|.++..+.+.
T Consensus 118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~---D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~ 177 (906)
T PRK14720 118 ALRTLAEAYAKLNENKKLKGVWERLVKA---DRDNPEIVKKLATSYEEE-DKEKAITYLKKAIY 177 (906)
T ss_pred HHHHHHHHHHHcCChHHHHHHHHHHHhc---CcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHH
Confidence 3445566777779999999999999863 45 688888888888888 88888887777654
No 224
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.74 E-value=21 Score=22.88 Aligned_cols=70 Identities=9% Similarity=-0.024 Sum_probs=46.4
Q ss_pred CCCCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 2 IFKQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 2 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
...|+....--|++.+..+.+..+++++++++...-++ .| +.-..+.+--+|-+.-++..|-+.++++-.
T Consensus 2 ~~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er---~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~q 72 (459)
T KOG4340|consen 2 AGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELER---SPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQ 72 (459)
T ss_pred CcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhc---CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444433334667777777888888888888877654 44 555666676777777777777777766643
No 225
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=73.03 E-value=14 Score=20.52 Aligned_cols=48 Identities=10% Similarity=-0.022 Sum_probs=34.5
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK 60 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~ 60 (91)
.--.++.+|.+.+++++|...++.+.+- ...-.-..|...+.+++.-.
T Consensus 49 AqL~l~yayy~~~~y~~A~a~~~rFirL-hP~hp~vdYa~Y~~gL~~~~ 96 (142)
T PF13512_consen 49 AQLDLAYAYYKQGDYEEAIAAYDRFIRL-HPTHPNVDYAYYMRGLSYYE 96 (142)
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHHh-CCCCCCccHHHHHHHHHHHH
Confidence 3456788999999999999999999875 22222345777777766544
No 226
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=72.54 E-value=15 Score=20.68 Aligned_cols=53 Identities=17% Similarity=0.171 Sum_probs=35.4
Q ss_pred hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
...+++++..+++.|.--.--.+...+|...+ +...|+|.+|.+++++....+
T Consensus 22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~ 74 (153)
T TIGR02561 22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWL--LIARGNYDEAARILRELLSSA 74 (153)
T ss_pred hcCCHHHHHHHHHHHHHhCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccC
Confidence 46788888888888874211122344444443 457788999999998887664
No 227
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.25 E-value=20 Score=22.05 Aligned_cols=60 Identities=10% Similarity=0.082 Sum_probs=27.4
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCC-CCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLG-IKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
|+.-++.| +.|++..|..-|....+.+- =.-....+-.+-.++...|+.+.|..+|..+.
T Consensus 145 Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~ 205 (262)
T COG1729 145 YNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVV 205 (262)
T ss_pred HHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHH
Confidence 44444433 33445555555555554421 01122233444455555555555555555554
No 228
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=72.15 E-value=33 Score=24.45 Aligned_cols=63 Identities=11% Similarity=0.060 Sum_probs=50.1
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
.+-..+...|-...|..+|+... .|.-++.+|...|+..+|.++..+-.. -.||..-|..+.+
T Consensus 403 ~laell~slGitksAl~I~Erle----------mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD 465 (777)
T KOG1128|consen 403 LLAELLLSLGITKSALVIFERLE----------MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD 465 (777)
T ss_pred HHHHHHHHcchHHHHHHHHHhHH----------HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence 44566777888888888888774 588899999999999999998877765 5688888877654
No 229
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=72.10 E-value=14 Score=25.26 Aligned_cols=63 Identities=17% Similarity=0.246 Sum_probs=48.0
Q ss_pred Cc-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHh-HHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 7 PP-DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVT-YTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 7 ~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~-~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.| |..+||.|=..+++..+.++|++-|++..+ ++|+ +.+ ||.-| +|...|..++|.+.|=...
T Consensus 460 ~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq---LqP~yVR~RyNlgI-S~mNlG~ykEA~~hlL~AL 525 (579)
T KOG1125|consen 460 KPNDYLLWNRLGATLANGNRSEEAISAYNRALQ---LQPGYVRVRYNLGI-SCMNLGAYKEAVKHLLEAL 525 (579)
T ss_pred CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh---cCCCeeeeehhhhh-hhhhhhhHHHHHHHHHHHH
Confidence 45 456799999999999999999999999974 5775 333 55444 5889999999877555443
No 230
>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]
Probab=70.59 E-value=25 Score=22.38 Aligned_cols=70 Identities=7% Similarity=0.090 Sum_probs=50.9
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHH-----hCCCCcCHHhHh
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALS-----DSGFKPDCFVYN 85 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~-----~~g~~p~~~~~~ 85 (91)
++..-..|..+|.+.+|.++.+.... +.| +...|-.+|..+...|+--.+.+-++++. ..|+..|...++
T Consensus 282 lgkva~~yle~g~~neAi~l~qr~lt---ldpL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsiee 357 (361)
T COG3947 282 LGKVARAYLEAGKPNEAIQLHQRALT---LDPLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSIEE 357 (361)
T ss_pred HHHHHHHHHHcCChHHHHHHHHHHhh---cChhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhHHH
Confidence 34445788899999999999998864 345 67778889999999998555655555553 247777766554
No 231
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=70.39 E-value=4.9 Score=14.19 Aligned_cols=26 Identities=8% Similarity=0.054 Sum_probs=16.8
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~ 37 (91)
.|..+-..+...+++++|...|+...
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~ 28 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKAL 28 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 34555566666777777777776654
No 232
>COG4003 Uncharacterized protein conserved in archaea [Function unknown]
Probab=69.51 E-value=13 Score=18.73 Aligned_cols=29 Identities=14% Similarity=0.386 Sum_probs=19.0
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCc
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKP 44 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~ 44 (91)
+++.+.+|..-++|+++.+-|.++..+.|
T Consensus 37 V~D~L~rCdT~EEAlEii~yleKrGEi~~ 65 (98)
T COG4003 37 VIDFLRRCDTEEEALEIINYLEKRGEITP 65 (98)
T ss_pred HHHHHHHhCcHHHHHHHHHHHHHhCCCCH
Confidence 45666777777777777777776544444
No 233
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=69.38 E-value=30 Score=22.98 Aligned_cols=68 Identities=13% Similarity=0.030 Sum_probs=41.5
Q ss_pred cCHHHHHHHH-HHHHhcCChHHHHHHHHHHHhh-CC-CCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 8 PDIFTYNFLV-KCLCKCRSLTTVYNFVDQMRAS-LG-IKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 8 ~~~~~~~~li-~~~~~~~~~~~a~~~~~~m~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
|+...|.-.- ..+...|++++|.+.|+..... .. .......+--+.-++.-..++++|.+.|.++.+.
T Consensus 264 P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~ 334 (468)
T PF10300_consen 264 PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKE 334 (468)
T ss_pred CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhc
Confidence 5554444443 3344568889999888854321 00 1122334444555677778899999999888754
No 234
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=68.57 E-value=24 Score=21.49 Aligned_cols=62 Identities=10% Similarity=0.103 Sum_probs=40.5
Q ss_pred HHHHHHHHHhc-CChHHHHHHHHHHHhhC---CCCc--cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 13 YNFLVKCLCKC-RSLTTVYNFVDQMRASL---GIKP--NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 13 ~~~li~~~~~~-~~~~~a~~~~~~m~~~~---~~~~--~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+..+-..|-.. +++++|...|+....-+ + .+ -...+..+...+.+.|+.++|.++|++....
T Consensus 117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~ 184 (282)
T PF14938_consen 117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKK 184 (282)
T ss_dssp HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 44445556666 78888888887655421 2 22 2445677788888999999999999998754
No 235
>COG2405 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=68.10 E-value=15 Score=20.56 Aligned_cols=47 Identities=17% Similarity=0.273 Sum_probs=34.6
Q ss_pred CCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 41 GIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
|++... |...++.| -+.|.+.+...+.++|...||..+..+|+-.++
T Consensus 106 gL~V~G-tlGvL~~a-k~kgLisk~Kpild~LI~~GF~iS~~~~eeiL~ 152 (157)
T COG2405 106 GLKVTG-TLGVLALA-KSKGLISKDKPILDELIEKGFRISRSILEEILR 152 (157)
T ss_pred CCeeee-hhHHHHHH-HHcCcccchHHHHHHHHHhcCcccHHHHHHHHH
Confidence 444433 56666554 455778888899999999999999998887654
No 236
>PF14669 Asp_Glu_race_2: Putative aspartate racemase
Probab=67.72 E-value=23 Score=21.03 Aligned_cols=60 Identities=8% Similarity=0.031 Sum_probs=44.5
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhh-------------CCCCccHHhHHHHHHHHHccCCHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRAS-------------LGIKPNLVTYTILIDNVCNTKNLREAMRLVSA 71 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 71 (91)
+.-+++-.|-+.-+|.++..+++.|-+- .+..+--..-|....-+.++|.++.|..++++
T Consensus 134 iGiS~m~~Yhk~~qW~KGrkvLd~l~el~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLre 206 (233)
T PF14669_consen 134 IGISLMYSYHKTLQWSKGRKVLDKLHELQIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLRE 206 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHhc
Confidence 3457778888999999999999987653 11223334467777888999999999998873
No 237
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=67.49 E-value=15 Score=26.04 Aligned_cols=58 Identities=12% Similarity=0.243 Sum_probs=42.7
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHh-----------HHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVT-----------YTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
++++.....++|++|..+-+..++ ..||+.. |.-.=++|.+.|..++|.++++++-..
T Consensus 778 siVqlHve~~~W~eAFalAe~hPe---~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn 846 (1081)
T KOG1538|consen 778 SLVQLHVETQRWDEAFALAEKHPE---FKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN 846 (1081)
T ss_pred HHhhheeecccchHhHhhhhhCcc---ccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence 566777788899999988887764 3555432 444557888899999999988888644
No 238
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=66.29 E-value=22 Score=20.18 Aligned_cols=58 Identities=12% Similarity=0.161 Sum_probs=31.8
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHH-HHHHHhCCCCcCH
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRL-VSALSDSGFKPDC 81 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~-~~~m~~~g~~p~~ 81 (91)
+.+.|+|.+|..+|+++..+ .|...--..++..|-.... +-..+. -++....+-.|+.
T Consensus 54 ~i~r~~w~dA~rlLr~l~~~---~~~~p~~kALlA~CL~~~~-D~~Wr~~A~evle~~~d~~a 112 (160)
T PF09613_consen 54 HIVRGDWDDALRLLRELEER---APGFPYAKALLALCLYALG-DPSWRRYADEVLESGADPDA 112 (160)
T ss_pred HHHhCCHHHHHHHHHHHhcc---CCCChHHHHHHHHHHHHcC-ChHHHHHHHHHHhcCCChHH
Confidence 56889999999999999765 3433333344443333322 122222 2334445445554
No 239
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=66.24 E-value=40 Score=23.12 Aligned_cols=63 Identities=8% Similarity=0.078 Sum_probs=26.6
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
|...+|-..|..=.+.+.++....+++...+- .| +-.+|.....-=...|+.+.|..+|.-.+
T Consensus 435 PK~KlFk~YIelElqL~efDRcRkLYEkfle~---~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi 498 (677)
T KOG1915|consen 435 PKDKLFKGYIELELQLREFDRCRKLYEKFLEF---SPENCYAWSKYAELETSLGDTDRARAIFELAI 498 (677)
T ss_pred CchhHHHHHHHHHHHHhhHHHHHHHHHHHHhc---ChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence 33334444444434444455555555544431 33 23334433333334444444444444443
No 240
>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]
Probab=65.53 E-value=51 Score=24.13 Aligned_cols=70 Identities=19% Similarity=0.201 Sum_probs=49.4
Q ss_pred HHHHHHHHHHhcCCh---HHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhH
Q 038287 12 TYNFLVKCLCKCRSL---TTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 12 ~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
+-|.|++.+-+.++. -+|+.+++.-... .| |..+--.+++.|+-.|.+..|.+++..+....+.-|...|
T Consensus 438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~---s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh 511 (932)
T KOG2053|consen 438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTK---SPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGH 511 (932)
T ss_pred HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhc---CCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchH
Confidence 346777888877764 4555555555432 34 5666778899999999999999999988766666665444
No 241
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=65.53 E-value=19 Score=19.17 Aligned_cols=17 Identities=12% Similarity=0.016 Sum_probs=10.1
Q ss_pred cCHHHHHHHHHHHHhcC
Q 038287 8 PDIFTYNFLVKCLCKCR 24 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~ 24 (91)
.+...+|.++..|++..
T Consensus 39 ~~~~~~~~li~ly~~~~ 55 (140)
T smart00299 39 ENPALQTKLIELYAKYD 55 (140)
T ss_pred cchhHHHHHHHHHHHHC
Confidence 34455666677776553
No 242
>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]
Probab=65.33 E-value=21 Score=19.68 Aligned_cols=59 Identities=14% Similarity=0.202 Sum_probs=39.8
Q ss_pred HHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhh
Q 038287 28 TVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIM 88 (91)
Q Consensus 28 ~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll 88 (91)
+..+-++.+.. +.+.|+.-....-+++|-+..++..|.++++-.+.. ..+....|..++
T Consensus 67 EvrkglN~l~~-yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v 125 (149)
T KOG4077|consen 67 EVRKGLNNLFD-YDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYV 125 (149)
T ss_pred HHHHHHHhhhc-cccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHH
Confidence 33344444432 578898888999999999999999999999888633 223233454444
No 243
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=65.23 E-value=19 Score=19.17 Aligned_cols=59 Identities=12% Similarity=0.084 Sum_probs=40.4
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc----HHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN----LVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~----~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.+-.+-+.+-..|++++|..+|+..... .|+ ........-+....|+.++|.+.+-...
T Consensus 40 a~i~lastlr~LG~~deA~~~L~~~~~~---~p~~~~~~~l~~f~Al~L~~~gr~~eAl~~~l~~l 102 (120)
T PF12688_consen 40 ALIQLASTLRNLGRYDEALALLEEALEE---FPDDELNAALRVFLALALYNLGRPKEALEWLLEAL 102 (120)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCccccHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3445567778889999999999998865 343 1222223346678899999987665543
No 244
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=65.18 E-value=49 Score=23.78 Aligned_cols=65 Identities=12% Similarity=0.086 Sum_probs=49.1
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
-|...|..|.-+...+|+++.+.+.|+.... +.---...|..+-.++..+|.-..|..+.++-..
T Consensus 321 nd~ai~d~Lt~al~~~g~f~~lae~fE~~~~--~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~ 385 (799)
T KOG4162|consen 321 NDAAIFDHLTFALSRCGQFEVLAEQFEQALP--FSFGEHERWYQLALSYSAAGSDSKAVNLLRESLK 385 (799)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHhH--hhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcc
Confidence 4667788888888899999999988888764 2333456688888888888887778887766543
No 245
>PF07443 HARP: HepA-related protein (HARP); InterPro: IPR010003 This entry represents a conserved region approximately 60 residues long within eukaryotic HepA-related protein (HARP). This exhibits single-stranded DNA-dependent ATPase activity, and is ubiquitously expressed in human and mouse tissues []. Family members may contain more than one copy of this region.; GO: 0004386 helicase activity, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0016568 chromatin modification, 0005634 nucleus
Probab=65.01 E-value=2.5 Score=19.42 Aligned_cols=28 Identities=11% Similarity=0.195 Sum_probs=15.4
Q ss_pred ChHHHHHHHHHHHhhCCCCccHHhHHHHH
Q 038287 25 SLTTVYNFVDQMRASLGIKPNLVTYTILI 53 (91)
Q Consensus 25 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~ 53 (91)
-.++.+++|..|..+ .-.|....|+-.+
T Consensus 7 y~~~lI~vFK~~pSr-~YD~~Tr~W~F~L 34 (55)
T PF07443_consen 7 YHEELIAVFKQMPSR-NYDPKTRKWNFSL 34 (55)
T ss_pred CCHHHHHHHHcCccc-ccCccceeeeeeH
Confidence 345556666666554 4455555555544
No 246
>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional
Probab=64.86 E-value=43 Score=23.04 Aligned_cols=57 Identities=11% Similarity=0.112 Sum_probs=44.8
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCC
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFK 78 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~ 78 (91)
....|+++++...+..... -+.....+-.++++...+.+++++|..+-+-|....++
T Consensus 333 ~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie 389 (831)
T PRK15180 333 FSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIE 389 (831)
T ss_pred HHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccC
Confidence 4556888888888777754 35566778889999999999999999999888876654
No 247
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=64.63 E-value=44 Score=23.12 Aligned_cols=49 Identities=12% Similarity=0.072 Sum_probs=40.7
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHcc
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNT 59 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ 59 (91)
.+..++.++=-.|...|.++.|...|++-. .++|+-.+-..+++.+.+.
T Consensus 487 k~~~~~asig~iy~llgnld~Aid~fhKaL---~l~p~n~~~~~lL~~aie~ 535 (611)
T KOG1173|consen 487 KDASTHASIGYIYHLLGNLDKAIDHFHKAL---ALKPDNIFISELLKLAIED 535 (611)
T ss_pred CchhHHHHHHHHHHHhcChHHHHHHHHHHH---hcCCccHHHHHHHHHHHHh
Confidence 567788888888999999999999999886 5799988888887766554
No 248
>PF09868 DUF2095: Uncharacterized protein conserved in archaea (DUF2095); InterPro: IPR018662 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=64.18 E-value=18 Score=19.43 Aligned_cols=26 Identities=27% Similarity=0.410 Sum_probs=22.7
Q ss_pred HHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 51 ILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 51 ~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
.+++-.-+|...++|+++.+-|.++|
T Consensus 66 tViD~lrRC~T~EEALEVInylek~G 91 (128)
T PF09868_consen 66 TVIDYLRRCKTDEEALEVINYLEKRG 91 (128)
T ss_pred hHHHHHHHhCcHHHHHHHHHHHHHhC
Confidence 56777888899999999999999887
No 249
>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat. Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei
Probab=63.87 E-value=18 Score=18.37 Aligned_cols=35 Identities=6% Similarity=0.134 Sum_probs=16.5
Q ss_pred CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHH
Q 038287 24 RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLRE 64 (91)
Q Consensus 24 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 (91)
|+.+.|..+++.+. + .|+ -|+..+++.-+.|+-..
T Consensus 50 g~~~~ar~LL~~L~-r---g~~--aF~~Fl~aLreT~~~~L 84 (88)
T cd08819 50 GNESGARELLKRIV-Q---KEG--WFSKFLQALRETEHHEL 84 (88)
T ss_pred CcHHHHHHHHHHhc-c---CCc--HHHHHHHHHHHcCchhh
Confidence 44555555555554 2 222 24555555555554333
No 250
>TIGR02508 type_III_yscG type III secretion protein, YscG family. YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.
Probab=62.73 E-value=21 Score=18.83 Aligned_cols=62 Identities=13% Similarity=0.185 Sum_probs=40.2
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhH
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
+.+..+.+.|++++|..+.+.+ .-||...|-++.. .+.|.......-+.+|..+| .|....|
T Consensus 44 IRlsSLmNrG~Yq~Al~l~~~~-----~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg-~p~lq~F 105 (115)
T TIGR02508 44 IRLSSLMNRGDYQSALQLGNKL-----CYPDLEPWLALCE--WRLGLGSALESRLNRLAASG-DPRLQTF 105 (115)
T ss_pred HHHHHHHccchHHHHHHhcCCC-----CCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC-CHHHHHH
Confidence 3456667888999988877766 3689988887754 46676666555555665443 3434443
No 251
>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]
Probab=62.18 E-value=14 Score=24.11 Aligned_cols=43 Identities=14% Similarity=0.026 Sum_probs=23.4
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHH
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREA 65 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a 65 (91)
|.+.|.+++|+.+|..-. .+.| |.+++..-..+|.+...+..|
T Consensus 107 yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~A 150 (536)
T KOG4648|consen 107 YFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQA 150 (536)
T ss_pred hhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHH
Confidence 445566667776666544 2345 555555555555555444443
No 252
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=60.52 E-value=23 Score=18.48 Aligned_cols=46 Identities=17% Similarity=0.149 Sum_probs=27.7
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK 60 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~ 60 (91)
..+++.....+.+-.|.++++.+.+. +...+..|.=--++.+.+.|
T Consensus 11 ~~Il~~l~~~~~~~ta~ei~~~l~~~-~~~is~~TVYR~L~~L~e~G 56 (120)
T PF01475_consen 11 LAILELLKESPEHLTAEEIYDKLRKK-GPRISLATVYRTLDLLEEAG 56 (120)
T ss_dssp HHHHHHHHHHSSSEEHHHHHHHHHHT-TTT--HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHcCCCCCCHHHHHHHhhhc-cCCcCHHHHHHHHHHHHHCC
Confidence 45667777777678888888888865 55555443333335555555
No 253
>PF06580 His_kinase: Histidine kinase; InterPro: IPR010559 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This family represents a region within bacterial histidine kinase enzymes. Two-component signal transduction systems such as those mediated by histidine kinase are integral parts of bacterial cellular regulatory processes, and are used to regulate the expression of genes involved in virulence. Members of this family often contain IPR003594 from INTERPRO and/or IPR003660 from INTERPRO.; GO: 0000155 two-component sensor activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane
Probab=60.08 E-value=17 Score=17.78 Aligned_cols=31 Identities=19% Similarity=0.402 Sum_probs=21.3
Q ss_pred CCCcCHHHHHHH--HHHHHhcCChHHHHHHHHHHH
Q 038287 5 QLPPDIFTYNFL--VKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 5 ~~~~~~~~~~~l--i~~~~~~~~~~~a~~~~~~m~ 37 (91)
++.|+ ..||+| |..++..+ .+++.++...+.
T Consensus 8 QInPH-Fl~NtLn~I~~l~~~~-~~~~~~~i~~ls 40 (82)
T PF06580_consen 8 QINPH-FLFNTLNSISWLARID-PEKASEMILSLS 40 (82)
T ss_pred hcChH-HHHHHHHHHHHHHHcC-HHHHHHHHHHHH
Confidence 44454 578888 56677777 788877776664
No 254
>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH. Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.
Probab=59.40 E-value=34 Score=20.11 Aligned_cols=49 Identities=8% Similarity=0.181 Sum_probs=34.2
Q ss_pred hHHHHHHHHHHHhhCCCCcc-------HHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 26 LTTVYNFVDQMRASLGIKPN-------LVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 26 ~~~a~~~~~~m~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
++.|+.+|+.+.+... .|. ...--..+-.|.+.|.+++|.+++++...+
T Consensus 85 LESAl~v~~~I~~E~~-~~~~lhe~i~~lik~~aV~VCm~~g~Fk~A~eiLkr~~~d 140 (200)
T cd00280 85 LESALMVLESIEKEFS-LPETLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFSD 140 (200)
T ss_pred HHHHHHHHHHHHHhcC-CcHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhcC
Confidence 5889999999987521 210 112233445688999999999999998754
No 255
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=59.15 E-value=22 Score=17.78 Aligned_cols=53 Identities=8% Similarity=0.009 Sum_probs=31.5
Q ss_pred HhcCChHHHHHHHH----HHHhhCCCCc----cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 21 CKCRSLTTVYNFVD----QMRASLGIKP----NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 21 ~~~~~~~~a~~~~~----~m~~~~~~~~----~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+.+++..|.+-+. ..... +... -....-.+.......|++++|.+.+++.++
T Consensus 9 ~~~~dy~~A~d~L~~~fD~~~~~-~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~ 69 (94)
T PF12862_consen 9 LRSGDYSEALDALHRYFDYAKQS-NNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIR 69 (94)
T ss_pred HHcCCHHHHHHHHHHHHHHHhhc-ccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 46788877755444 44332 2112 122223344456677999999999988874
No 256
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=58.90 E-value=42 Score=20.97 Aligned_cols=58 Identities=17% Similarity=0.274 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccC-C--HHHHHHHHHHHHhCCCCcCHHhHh
Q 038287 27 TTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTK-N--LREAMRLVSALSDSGFKPDCFVYN 85 (91)
Q Consensus 27 ~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~-~--~~~a~~~~~~m~~~g~~p~~~~~~ 85 (91)
+.+..+|+.+... |+.. |..-+-+-+-+++... . .+.+.++++.+.+.|+++....|.
T Consensus 160 ~~~E~~Y~~L~~~-~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp 221 (297)
T PF13170_consen 160 ERMEQCYQKLADA-GFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYP 221 (297)
T ss_pred HHHHHHHHHHHHh-CCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCcccccccc
Confidence 4455555555553 4433 2222333333333222 1 335566676776666665554444
No 257
>PRK11906 transcriptional regulator; Provisional
Probab=58.58 E-value=53 Score=22.06 Aligned_cols=53 Identities=8% Similarity=-0.070 Sum_probs=36.7
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
....-.++++.+..+|+.... +.|| ...|...-....-+|+.++|.+.+++-.
T Consensus 346 ~~~~~~~~~~~a~~~f~rA~~---L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al 399 (458)
T PRK11906 346 LITGLSGQAKVSHILFEQAKI---HSTDIASLYYYRALVHFHNEKIEEARICIDKSL 399 (458)
T ss_pred HHHHhhcchhhHHHHHHHHhh---cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence 334566778899999988864 4665 4455555555667788888888888743
No 258
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=57.91 E-value=46 Score=21.07 Aligned_cols=23 Identities=9% Similarity=0.173 Sum_probs=13.6
Q ss_pred HHHHHHHhcCChHHHHHHHHHHH
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~ 37 (91)
.|++.|.+.|.+++|.++....+
T Consensus 111 ~Lm~~ci~~g~y~eALel~~~~~ 133 (338)
T PF04124_consen 111 QLMDTCIRNGNYSEALELSAHVR 133 (338)
T ss_pred HHHHHHHhcccHhhHHHHHHHHH
Confidence 34556666666666666655544
No 259
>PF03943 TAP_C: TAP C-terminal domain; InterPro: IPR005637 This entry contains the NXF family of shuttling transport receptors for nuclear export of mRNA, which include: vertebrate mRNA export factor TAP or nuclear RNA export factor 1 (NXF1). Caenorhabditis elegans nuclear RNA export factor 1 (nxf-1). yeast mRNA export factor MEX67. Members of the NXF family have a modular structure. A nuclear localization sequence and a noncanonical RNA recognition motif (RRM) (see PDOC00030 from PROSITEDOC) followed by four LRR repeats are located in its N-terminal half. The C-terminal half contains a NTF2 domain (see PDOC50177 from PROSITEDOC) followed by a second domain, TAP-C. The TAP-C domain is important for binding to FG repeat-containing nuclear pore proteins (FG-nucleoporins) and is sufficient to mediate nuclear shuttling [,]. The Tap-C domain is made of four alpha helices packed against each other. The arrangement of helices 1, 2 and 3 is similar to that seen in a UBA fold. and is joined to the next module by flexible 12-residue Pro-rich linker [, ].; GO: 0051028 mRNA transport, 0005634 nucleus; PDB: 1OAI_A 1GO5_A 2KHH_A 2JP7_A.
Probab=57.35 E-value=3.7 Score=18.41 Aligned_cols=25 Identities=12% Similarity=0.177 Sum_probs=16.2
Q ss_pred hcCChHHHHHHHHHHHhhCCCCccH
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPNL 46 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~~ 46 (91)
..-+++.|...|..+.....|.|+.
T Consensus 25 n~Wd~~~A~~~F~~l~~~~~IP~eA 49 (51)
T PF03943_consen 25 NNWDYERALQNFEELKAQGKIPPEA 49 (51)
T ss_dssp TTT-CCHHHHHHHHCCCTT-S-CCC
T ss_pred cCCCHHHHHHHHHHHHHcCCCChHh
Confidence 3458889999999888764455554
No 260
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=57.27 E-value=40 Score=20.23 Aligned_cols=53 Identities=13% Similarity=0.102 Sum_probs=29.1
Q ss_pred HHhcCChHHHHHHHHHHHhhC-CCCccHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 20 LCKCRSLTTVYNFVDQMRASL-GIKPNLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
|-+.|.+..|..-++.+.+++ +-.........+.++|.+.|..++|.++...+
T Consensus 185 Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l 238 (243)
T PRK10866 185 YTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKII 238 (243)
T ss_pred HHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence 455555655666666555543 22223444556666666666666666655444
No 261
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=57.23 E-value=26 Score=18.04 Aligned_cols=45 Identities=13% Similarity=0.147 Sum_probs=26.9
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCC
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKN 61 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (91)
++......+.+-.|.++++.+.+. +...+..|---.++.+.+.|-
T Consensus 6 Il~~l~~~~~~~sa~ei~~~l~~~-~~~i~~~TVYR~L~~L~~~Gl 50 (116)
T cd07153 6 ILEVLLESDGHLTAEEIYERLRKK-GPSISLATVYRTLELLEEAGL 50 (116)
T ss_pred HHHHHHhCCCCCCHHHHHHHHHhc-CCCCCHHHHHHHHHHHHhCCC
Confidence 455555666666788888888765 444454443334455666554
No 262
>PF14840 DNA_pol3_delt_C: Processivity clamp loader gamma complex DNA pol III C-term; PDB: 3GLG_F 1XXH_A 3GLF_F 1JQJ_C 3GLI_F.
Probab=57.15 E-value=19 Score=19.35 Aligned_cols=28 Identities=11% Similarity=0.443 Sum_probs=20.8
Q ss_pred cCChHHHHHHHHHHHhhCCCCccHHhHHH
Q 038287 23 CRSLTTVYNFVDQMRASLGIKPNLVTYTI 51 (91)
Q Consensus 23 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~ 51 (91)
.|+.+.+.++++.++.+ |+.|....|..
T Consensus 10 ~G~~~ra~riL~~L~~E-g~ep~~lLw~L 37 (125)
T PF14840_consen 10 AGDAKRALRILQGLQAE-GVEPPILLWAL 37 (125)
T ss_dssp TT-HHHHHHHHHHHHHT-T--HHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHC-CccHHHHHHHH
Confidence 57889999999999987 88888876654
No 263
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=56.20 E-value=47 Score=22.52 Aligned_cols=47 Identities=6% Similarity=-0.005 Sum_probs=34.1
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhh---CCCCccHHhHHHHHHHHHcc
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRAS---LGIKPNLVTYTILIDNVCNT 59 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~~~~~~~~~~ 59 (91)
-+....++...|++.++..+++++..+ .....+..+|+-.+-.++++
T Consensus 131 ~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS 180 (549)
T PF07079_consen 131 DEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRS 180 (549)
T ss_pred HHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH
Confidence 345567788889999999999988764 12346788888866666654
No 264
>PF09797 NatB_MDM20: N-acetyltransferase B complex (NatB) non catalytic subunit; InterPro: IPR019183 This is the non-catalytic subunit of the N-terminal acetyltransferase B complex (NatB). The NatB complex catalyses the acetylation of the amino-terminal methionine residue of all proteins beginning with Met-Asp or Met-Glu and of some proteins beginning with Met-Asn or Met-Met. In Saccharomyces cerevisiae (Baker's yeast) this subunit is called MDM20 and in Schizosaccharomyces pombe (Fission yeast) it is called Arm1. NatB acetylates the Tpm1 protein and regulates and tropomyocin-actin interactions. This subunit is required by the NatB complex for the N-terminal acetylation of Tpm1 [].
Probab=56.06 E-value=50 Score=20.99 Aligned_cols=68 Identities=13% Similarity=0.097 Sum_probs=43.7
Q ss_pred HHHHHHHHHhcCC---hHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHh
Q 038287 13 YNFLVKCLCKCRS---LTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFV 83 (91)
Q Consensus 13 ~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~ 83 (91)
-+.+++.+.+.++ +-+|..+++....+ .| +...--.++..|...|....|.+.|+.+.-..+.-|...
T Consensus 183 ~~~Ll~~~~~~~~~~~l~~Ai~lLE~~l~~---s~~n~~~~LlLvrlY~~LG~~~~A~~~~~~L~iK~IQ~DTL~ 254 (365)
T PF09797_consen 183 AHSLLDLYSKTKDSEYLLQAIALLEHALKK---SPHNYQLKLLLVRLYSLLGAGSLALEHYESLDIKNIQLDTLG 254 (365)
T ss_pred HHHHHHHhhccCCHHHHHHHHHHHHHHHHc---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHhcChHHHHHHHhH
Confidence 4455665555554 45666667766543 44 444455677889999999999998888865445544433
No 265
>PF13963 Transpos_assoc: Transposase-associated domain
Probab=56.04 E-value=7.5 Score=18.93 Aligned_cols=25 Identities=20% Similarity=0.311 Sum_probs=19.9
Q ss_pred CCHHHHHHHHHHHHhCCCCcCHHhH
Q 038287 60 KNLREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 60 ~~~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
.......++..++...|+.|+-.+|
T Consensus 48 ~~~~~~~~V~~HL~~~Gf~~~Y~~W 72 (77)
T PF13963_consen 48 EKRQSRDDVHEHLVCRGFMPNYTVW 72 (77)
T ss_pred CccCCHHHHHHHHHHhCCCCCCCee
Confidence 3456678999999999999986655
No 266
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=55.05 E-value=27 Score=25.67 Aligned_cols=30 Identities=13% Similarity=0.154 Sum_probs=17.7
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRA 38 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~ 38 (91)
+...|..|-+++.+..+++-|+=.+-+|..
T Consensus 756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~ 785 (1416)
T KOG3617|consen 756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKN 785 (1416)
T ss_pred hhHHHHHHHHHhhhhccccHHHHhhhhhhh
Confidence 345566666666666666666655555543
No 267
>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.
Probab=54.78 E-value=23 Score=16.75 Aligned_cols=49 Identities=12% Similarity=0.157 Sum_probs=34.9
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHc
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCN 58 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~ 58 (91)
|+...++.++..+++-.-.++++..+.....+ |. .+..+|---++..++
T Consensus 6 ~~~~l~~Ql~el~Aed~AieDtiy~L~~al~~-g~-I~~d~~lK~vR~LaR 54 (65)
T PF09454_consen 6 AEDPLSNQLYELVAEDHAIEDTIYYLDRALQR-GS-IDLDTFLKQVRSLAR 54 (65)
T ss_dssp -SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-TS-S-HHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-CC-CCHHHHHHHHHHHHH
Confidence 55578899999999999999999999988876 32 345555555555444
No 268
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.24 E-value=50 Score=20.41 Aligned_cols=63 Identities=13% Similarity=0.056 Sum_probs=51.7
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+-.|-.++...|++++|...|..+.+++.-.|- ..+.--+-.+..+.|+.++|..++++..+.
T Consensus 181 ~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~ 244 (262)
T COG1729 181 YYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKR 244 (262)
T ss_pred HHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 445778899999999999999999987654553 356667777888999999999999999765
No 269
>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex. It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.
Probab=54.02 E-value=72 Score=22.16 Aligned_cols=49 Identities=6% Similarity=0.074 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK 60 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~ 60 (91)
...-.++|=.+.|+|++++|.++.+.... ........|...+..+....
T Consensus 111 ~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~--~~~~~~~~f~~~l~~~~~s~ 159 (613)
T PF04097_consen 111 GDPIWALIYYCLRCGDYDEALEVANENRN--QFQKIERSFPTYLKAYASSP 159 (613)
T ss_dssp TEEHHHHHHHHHTTT-HHHHHHHHHHTGG--GS-TTTTHHHHHHHHCTTTT
T ss_pred CCccHHHHHHHHhcCCHHHHHHHHHHhhh--hhcchhHHHHHHHHHHHhCC
Confidence 33456778888999999999999977765 35566677888899987763
No 270
>PF12816 Vps8: Golgi CORVET complex core vacuolar protein 8
Probab=53.72 E-value=43 Score=19.51 Aligned_cols=47 Identities=11% Similarity=0.086 Sum_probs=34.3
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK 60 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~ 60 (91)
..+.....++..|...|+.+...++.-++. |...-.+.+++.|-+.|
T Consensus 20 lpp~v~k~lv~~y~~~~~~~~lE~lI~~LD------~~~LDidq~i~lC~~~~ 66 (196)
T PF12816_consen 20 LPPEVFKALVEHYASKGRLERLEQLILHLD------PSSLDIDQVIKLCKKHG 66 (196)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHhCC------HHhcCHHHHHHHHHHCC
Confidence 455788999999999999888887777664 44445566666666654
No 271
>PF15601 Imm42: Immunity protein 42
Probab=53.30 E-value=37 Score=18.68 Aligned_cols=65 Identities=11% Similarity=0.239 Sum_probs=38.8
Q ss_pred hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC----CHHHHHHHHHHHHh--CCCCcCHHhHhh
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK----NLREAMRLVSALSD--SGFKPDCFVYNT 86 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~----~~~~a~~~~~~m~~--~g~~p~~~~~~~ 86 (91)
..|..+....+|+.+........-..-|..+|+-+.+-. +...|.+-++++++ ..+.|+.++|..
T Consensus 11 eiG~~dfl~sFFsti~~~lE~~~wGskfP~Lm~~LY~g~L~~~~~~~A~~eL~~I~~~l~~~~p~~ViWD~ 81 (134)
T PF15601_consen 11 EIGPPDFLHSFFSTISYRLENEGWGSKFPLLMNELYRGYLRYEELEKALKELEEIRKELKKFPPSEVIWDI 81 (134)
T ss_pred EeCCHHHHHHHHHHHHHHhhccCCCCcchHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhcCChhhheech
Confidence 346677777778777654222334556888888774432 34445555555542 357788887754
No 272
>TIGR02328 conserved hypothetical protein. Members of this protein are found in a small number of taxonomically well separated species, yet are strongly conserved, suggesting lateral gene transfer. Members are found in Treponema denticola, Clostridium acetobutylicum, and several of the Firmicutes. The function of this protein is unknown.
Probab=53.19 E-value=17 Score=19.42 Aligned_cols=17 Identities=6% Similarity=0.266 Sum_probs=14.5
Q ss_pred HHHHHHHHhCCCCcCHH
Q 038287 66 MRLVSALSDSGFKPDCF 82 (91)
Q Consensus 66 ~~~~~~m~~~g~~p~~~ 82 (91)
..+.++|..+|++||..
T Consensus 55 ~lv~~EM~~RGY~~~~~ 71 (120)
T TIGR02328 55 LLVMEEMATRGYHVSKQ 71 (120)
T ss_pred HHHHHHHHHcCCCCChh
Confidence 46889999999999874
No 273
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=53.05 E-value=31 Score=17.64 Aligned_cols=63 Identities=6% Similarity=0.083 Sum_probs=35.3
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC--CHHHHHHHHHHHHhCCCCc
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK--NLREAMRLVSALSDSGFKP 79 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~--~~~~a~~~~~~m~~~g~~p 79 (91)
..++.-|...++.++|...+.++... .--......++..+.+.+ ..+....++.++.+.+..+
T Consensus 6 ~~~l~ey~~~~d~~ea~~~l~el~~~---~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~~ 70 (113)
T PF02847_consen 6 FSILMEYFSSGDVDEAVECLKELKLP---SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKLIS 70 (113)
T ss_dssp HHHHHHHHHHT-HHHHHHHHHHTT-G---GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS-
T ss_pred HHHHHHHhcCCCHHHHHHHHHHhCCC---ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCCC
Confidence 45666777789999999999887432 112222333444444442 2344556777776665443
No 274
>COG2040 MHT1 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]
Probab=53.03 E-value=42 Score=21.14 Aligned_cols=68 Identities=12% Similarity=-0.042 Sum_probs=46.7
Q ss_pred CCCCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 2 IFKQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 2 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.++|...+...|++.... ..++-..+++........--.++.||.+-...+.+....+++.++.++-+
T Consensus 22 e~rG~~l~~plWSa~~l~----~~peiv~~vh~df~~aGa~ii~T~TYqa~~~~~~e~~~~~~~~~l~~~sv 89 (300)
T COG2040 22 ERRGCDLSDPLWSALALV----DEPEIVRNVHADFLRAGADIITTATYQATPEGFAERVSEDEAKQLIRRSV 89 (300)
T ss_pred HhcCCCCCchhhhhhhcc----cCHHHHHHHHHHHHHhcCcEEeehhhhcCHHHHHHhcchhHHHHHHHHHH
Confidence 456666333377765433 34788888888887764445678899999999998877777666555443
No 275
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=52.74 E-value=85 Score=22.60 Aligned_cols=52 Identities=15% Similarity=0.145 Sum_probs=22.8
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
.-+-.+|+...|..++...-+. .| +...|-+-++.-..+.+.+.|..+|.+.
T Consensus 592 ke~w~agdv~~ar~il~~af~~---~pnseeiwlaavKle~en~e~eraR~llaka 644 (913)
T KOG0495|consen 592 KEKWKAGDVPAARVILDQAFEA---NPNSEEIWLAAVKLEFENDELERARDLLAKA 644 (913)
T ss_pred HHHHhcCCcHHHHHHHHHHHHh---CCCcHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence 3334444554554444444332 11 2333444444444444444444444444
No 276
>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.
Probab=52.14 E-value=36 Score=18.17 Aligned_cols=55 Identities=13% Similarity=0.102 Sum_probs=33.6
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
+.+..+.+.|++++| +..... ...||...|-++ +-.+.|.-.++...+.++..+|
T Consensus 45 Ir~~sLmNrG~Yq~A--Ll~~~~---~~~pdL~p~~AL--~a~klGL~~~~e~~l~rla~~g 99 (116)
T PF09477_consen 45 IRLSSLMNRGDYQEA--LLLPQC---HCYPDLEPWAAL--CAWKLGLASALESRLTRLASSG 99 (116)
T ss_dssp HHHHHHHHTT-HHHH--HHHHTT---S--GGGHHHHHH--HHHHCT-HHHHHHHHHHHCT-S
T ss_pred HHHHHHHhhHHHHHH--HHhccc---CCCccHHHHHHH--HHHhhccHHHHHHHHHHHHhCC
Confidence 334566788899888 222222 347888887776 4568888888888887776443
No 277
>PF02607 B12-binding_2: B12 binding domain; InterPro: IPR003759 Cobalamin-dependent methionine synthase (2.1.1.13 from EC) is a large modular protein that catalyses methyl transfer from methyltetrahydrofolate (CH3-H4folate) to homocysteine. During the catalytic cycle, it supports three distinct methyl transfer reactions, each involving the cobalamin (vitamin B12) cofactor and a substrate bound to its own functional unit []. The cobalamin cofactor plays an essential role in this reaction, accepting the methyl group from CH3-H4folate to form methylcob(III)alamin, and in turn donating the methyl group to homocysteine to generate methionine and cob(I)alamin. Methionine synthase is a large enzyme composed of four structurally and functionally distinct modules: the first two modules bind homocysteine and CH3-H4folate, the third module binds the cobalamin cofactor and the C-terminal module binds S-adenosylmethionine. The cobalamin-binding module is composed of two structurally distinct domains: a 4-helical bundle cap domain (residues 651-740 in the Escherichia coli enzyme) and an alpha/beta B12-binding domain (residues 741-896) (IPR006158 from INTERPRO). The 4-helical bundle forms a cap over the alpha/beta domain, which acts to shield the methyl ligand of cobalamin from solvent []. Furthermore, in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO). The alpha/beta domain is a common cobalamin-binding motif, whereas the 4-helical bundle domain with its methyl cap is a distinctive feature of methionine synthases. This entry represents the 4-helical bundle cap domain. This domain is also present in other shorter proteins that bind to B12, and is always found N terminus to the alpha/beta B12-binding domain.; GO: 0008705 methionine synthase activity, 0031419 cobalamin binding, 0046872 metal ion binding, 0009086 methionine biosynthetic process; PDB: 3EZX_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 2I2X_P.
Probab=51.95 E-value=27 Score=16.60 Aligned_cols=38 Identities=13% Similarity=0.149 Sum_probs=28.4
Q ss_pred hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK 60 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~ 60 (91)
-.++.+.+.+++++.... |..|.......+..+..+.|
T Consensus 13 ~~~d~~~~~~~~~~~l~~-g~~~~~i~~~~l~p~m~~iG 50 (79)
T PF02607_consen 13 LAGDEEEAEALLEEALAQ-GYPPEDIIEEILMPAMEEIG 50 (79)
T ss_dssp HTT-CCHHHHHHHHHHHC-SSSTTHHHHHTHHHHHHHHH
T ss_pred HhCCHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHHHHH
Confidence 457788999999999876 77887777777777766655
No 278
>KOG2223 consensus Uncharacterized conserved protein, contains TBC domain [Signal transduction mechanisms; General function prediction only]
Probab=51.76 E-value=34 Score=23.02 Aligned_cols=45 Identities=11% Similarity=0.203 Sum_probs=34.4
Q ss_pred HHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 30 YNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 30 ~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
-++|.++++ +.+.||.+.+..+...|.+.=.++.|-++|+-....
T Consensus 459 p~L~~Hl~k-l~l~PDiylidwiftlyskslpldlacRIwDvy~rd 503 (586)
T KOG2223|consen 459 PKLFTHLKK-LELTPDIYLIDWIFTLYSKSLPLDLACRIWDVYCRD 503 (586)
T ss_pred HHHHHHHHh-ccCCCchhhHHHHHHHHhccCChHHhhhhhheeeec
Confidence 345666664 589999999999999999988888887777655443
No 279
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=50.99 E-value=60 Score=20.37 Aligned_cols=47 Identities=19% Similarity=0.197 Sum_probs=29.2
Q ss_pred hHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 26 LTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 26 ~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
-.++..+|++... .+| +..+-..+-..+.+.|+..+|...|+.|.+.
T Consensus 209 ta~a~~ll~~al~---~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~ 256 (287)
T COG4235 209 TAKARALLRQALA---LDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL 256 (287)
T ss_pred cHHHHHHHHHHHh---cCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence 3445555555543 244 4555666666777777777777777777653
No 280
>PF14162 YozD: YozD-like protein
Probab=49.39 E-value=27 Score=15.85 Aligned_cols=18 Identities=22% Similarity=0.244 Sum_probs=14.2
Q ss_pred HHHHHHHHHHhCCCCcCH
Q 038287 64 EAMRLVSALSDSGFKPDC 81 (91)
Q Consensus 64 ~a~~~~~~m~~~g~~p~~ 81 (91)
-|.-+|.++.++|+.|+.
T Consensus 13 IAefFy~eL~kRGyvP~e 30 (57)
T PF14162_consen 13 IAEFFYHELVKRGYVPTE 30 (57)
T ss_pred HHHHHHHHHHHccCCCcH
Confidence 456678888899999875
No 281
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=49.34 E-value=63 Score=20.12 Aligned_cols=61 Identities=15% Similarity=0.340 Sum_probs=35.8
Q ss_pred hcCChHHHHHHHHHHHhhCC-----------CCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHh
Q 038287 22 KCRSLTTVYNFVDQMRASLG-----------IKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFV 83 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~ 83 (91)
..|+..+|..-++.-...+| =.|.......++..| -.+.+++|.+++.++.+.|+.|....
T Consensus 204 a~GDMRQalNnLQst~~g~g~Vn~enVfKv~d~PhP~~v~~ml~~~-~~~~~~~A~~il~~lw~lgysp~Dii 275 (333)
T KOG0991|consen 204 AQGDMRQALNNLQSTVNGFGLVNQENVFKVCDEPHPLLVKKMLQAC-LKRNIDEALKILAELWKLGYSPEDII 275 (333)
T ss_pred ccchHHHHHHHHHHHhccccccchhhhhhccCCCChHHHHHHHHHH-HhccHHHHHHHHHHHHHcCCCHHHHH
Confidence 34555666555555443222 134444555566644 34568888888888888888876543
No 282
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=49.23 E-value=30 Score=25.45 Aligned_cols=59 Identities=10% Similarity=0.146 Sum_probs=46.4
Q ss_pred CHHHHHHHH--HHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 9 DIFTYNFLV--KCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 9 ~~~~~~~li--~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
|..|--+++ +-|.-.|+.+.|.+-.+.++. ..+|..|.+.|.+..+++.|.-.+.+|..
T Consensus 725 d~~TRkaml~FSfyvtiG~MD~AfksI~~IkS-------~~vW~nmA~McVkT~RLDVAkVClGhm~~ 785 (1416)
T KOG3617|consen 725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS-------DSVWDNMASMCVKTRRLDVAKVCLGHMKN 785 (1416)
T ss_pred CHHHHHhhhceeEEEEeccHHHHHHHHHHHhh-------hHHHHHHHHHhhhhccccHHHHhhhhhhh
Confidence 455656665 445677899998888777764 46799999999999999999988888864
No 283
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=49.21 E-value=45 Score=18.38 Aligned_cols=26 Identities=8% Similarity=0.155 Sum_probs=15.7
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhh
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
-.+++.+...+++-.|..+++.+.+.
T Consensus 24 ~~vl~~L~~~~~~~sAeei~~~l~~~ 49 (145)
T COG0735 24 LAVLELLLEADGHLSAEELYEELREE 49 (145)
T ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHh
Confidence 34555566665556666666666654
No 284
>PF00566 RabGAP-TBC: Rab-GTPase-TBC domain; InterPro: IPR000195 Identification of a TBC domain in GYP6_YEAST and GYP7_YEAST, which are GTPase activator proteins of yeast Ypt6 and Ypt7, imply that these domains are GTPase activator proteins of Rab-like small GTPases [].; GO: 0005097 Rab GTPase activator activity, 0032313 regulation of Rab GTPase activity, 0005622 intracellular; PDB: 2G77_A 1FKM_A 3HZJ_A 3QYE_A 2QFZ_A 3QYB_A 2QQ8_A 3DZX_A 3QWL_A.
Probab=49.18 E-value=37 Score=19.30 Aligned_cols=42 Identities=14% Similarity=0.423 Sum_probs=29.9
Q ss_pred HHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 31 NFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 31 ~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
++++++.+ .++.+....+..++..+++.=..+.+..+|+-+.
T Consensus 150 ~l~~~l~~-~~~~~~~~~~~w~~~lF~~~l~~~~~~~lwD~l~ 191 (214)
T PF00566_consen 150 ELYNHLKQ-LGVDPEIYAFPWFLTLFSRSLPFDDVLRLWDFLL 191 (214)
T ss_dssp HHHHHHHH-TT-GGHHHHHHHHHTTTTTTS-HHHHHHHHHHHH
T ss_pred hhhhhhhh-hhhhhhhhhhhhhHhhcCCcCCHHHHHHHHHHHH
Confidence 34445544 3788888889999888888888888899998444
No 285
>PRK15331 chaperone protein SicA; Provisional
Probab=48.31 E-value=52 Score=18.84 Aligned_cols=51 Identities=12% Similarity=-0.082 Sum_probs=33.2
Q ss_pred HhcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 21 CKCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 21 ~~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
-..|++++|..+|+.+-.- .|. ..=|-.+-.++-..+..++|...+.....
T Consensus 48 y~~Gk~~eA~~~F~~L~~~---d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~ 99 (165)
T PRK15331 48 YNQGRLDEAETFFRFLCIY---DFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFT 99 (165)
T ss_pred HHCCCHHHHHHHHHHHHHh---CcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678899999999887642 332 22244454555556778888888776643
No 286
>KOG3154 consensus Uncharacterized conserved protein [Function unknown]
Probab=48.23 E-value=61 Score=19.66 Aligned_cols=57 Identities=18% Similarity=0.253 Sum_probs=38.0
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
-+|-.++.-+|..++|..++..++= |-.. ...=--+++.|.++.+-++..++-++..
T Consensus 151 EAlaA~l~I~G~~e~A~~lL~~F~w--G~~F-l~lN~~lLd~Ya~C~~s~ev~~~qn~~L 207 (263)
T KOG3154|consen 151 EALAACLYICGFPEEARELLDKFKW--GHAF-LELNKDLLDEYAKCASSAEVVEVQNEFL 207 (263)
T ss_pred HHHHhHeeeecChhHHHHHHhcCcc--hHHH-HHHhHHHHHHHHhhCCHHHHHHHHHHHH
Confidence 3555666788999999999998762 2111 1122357899999998777766554443
No 287
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=47.69 E-value=51 Score=18.63 Aligned_cols=25 Identities=12% Similarity=0.323 Sum_probs=12.9
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhh
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~ 39 (91)
+++..+....+.-.|.++++.+.+.
T Consensus 30 ~IL~~l~~~~~hlSa~eI~~~L~~~ 54 (169)
T PRK11639 30 EVLRLMSLQPGAISAYDLLDLLREA 54 (169)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHhh
Confidence 3344444444455566666666554
No 288
>PF12926 MOZART2: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR024332 The MOZART2 family of proteins (also known as FAM128 and Mitotic-spindle organizing protein 2) operate as part of the gamma-tubulin ring complex, gamma-TuRC, one of the complexes necessary for chromosome segregation. This complex is located at centrosomes and mediates the formation of bipolar spindles in mitosis; it consists of six subunits. However, unlike the other four known subunits, the MOZART proteins, both 1 and 2, do not carry the conserved 'Spc97-Spc98' GCP domain, so the TUBGCP nomenclature cannot be used for it. The exact function of MOZART2 is not clear [].
Probab=46.62 E-value=40 Score=17.13 Aligned_cols=44 Identities=7% Similarity=0.218 Sum_probs=36.9
Q ss_pred HHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 30 YNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 30 ~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.++|+-.... |+..|...|-.+++-.--+-.+.-..++++.|..
T Consensus 28 ~EL~ELa~~A-Gv~~dp~VFriildLL~~nVsP~AI~qmLK~m~s 71 (88)
T PF12926_consen 28 VELYELAQLA-GVPMDPEVFRIILDLLRLNVSPDAIFQMLKSMCS 71 (88)
T ss_pred HHHHHHHHHh-CCCcChHHHHHHHHHHHcCCCHHHHHHHHHHHHc
Confidence 3788887776 9999999999999977777778888899999964
No 289
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=46.51 E-value=47 Score=18.39 Aligned_cols=35 Identities=20% Similarity=0.240 Sum_probs=22.4
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHH
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTI 51 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~ 51 (91)
+|....+......+.++++.+.+. |+..+..|-.-
T Consensus 6 ~i~~Li~~~~i~tqeeL~~~L~~~-G~~vsqaTIsR 40 (146)
T TIGR01529 6 RIKEIITEEKISTQEELVALLKAE-GIEVTQATVSR 40 (146)
T ss_pred HHHHHHHcCCCCCHHHHHHHHHHh-CCCcCHHHHHH
Confidence 455556666677777777777665 66665555444
No 290
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=46.46 E-value=67 Score=19.59 Aligned_cols=79 Identities=5% Similarity=0.023 Sum_probs=48.5
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhC---C-CCccHH-hHHHHHHHHHccCCHHHHHHHHHHHHhC--CCCcC--HH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASL---G-IKPNLV-TYTILIDNVCNTKNLREAMRLVSALSDS--GFKPD--CF 82 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~-~~~~~~-~~~~~~~~~~~~~~~~~a~~~~~~m~~~--g~~p~--~~ 82 (91)
.+..+...+.+.+++++|..+|++..... + .+.+.- .|-..+-++...|++-.|.+.+++.... ++..+ ..
T Consensus 157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~ 236 (282)
T PF14938_consen 157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK 236 (282)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence 45666788899999999999999887641 1 122222 2223334667789999999999998643 45444 23
Q ss_pred hHhhhhhc
Q 038287 83 VYNTIMKG 90 (91)
Q Consensus 83 ~~~~ll~~ 90 (91)
....||++
T Consensus 237 ~~~~l~~A 244 (282)
T PF14938_consen 237 FLEDLLEA 244 (282)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 34444443
No 291
>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed.
Probab=45.62 E-value=64 Score=19.15 Aligned_cols=65 Identities=5% Similarity=-0.028 Sum_probs=31.8
Q ss_pred hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC---CCCcCHHhHhhhhh
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS---GFKPDCFVYNTIMK 89 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~~ll~ 89 (91)
+.|+ ++|.+.|-.+... +.--+...--.+.. |--..+.++++.++-+..+. +-.+|+..+.+|..
T Consensus 119 r~~d-~~A~~~fL~~E~~-~~l~t~elq~aLAt-yY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas 186 (203)
T PF11207_consen 119 RFGD-QEALRRFLQLEGT-PELETAELQYALAT-YYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLAS 186 (203)
T ss_pred ccCc-HHHHHHHHHHcCC-CCCCCHHHHHHHHH-HHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHH
Confidence 3444 4556666666543 22233333333333 33355566666666665431 22455555555544
No 292
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=45.06 E-value=1e+02 Score=21.27 Aligned_cols=62 Identities=13% Similarity=0.087 Sum_probs=36.6
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccH-HhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNL-VTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
++.+.|+....+|++.+++++|.+=-.+-. .++|+. --|+-.=.+..-.|++++|..-|.+=
T Consensus 34 ~nhvlySnrsaa~a~~~~~~~al~da~k~~---~l~p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~G 96 (539)
T KOG0548|consen 34 TNHVLYSNRSAAYASLGSYEKALKDATKTR---RLNPDWAKGYSRKGAALFGLGDYEEAILAYSEG 96 (539)
T ss_pred CccchhcchHHHHHHHhhHHHHHHHHHHHH---hcCCchhhHHHHhHHHHHhcccHHHHHHHHHHH
Confidence 466667777788888887777665444333 346653 23444444444556677776666543
No 293
>PF15297 CKAP2_C: Cytoskeleton-associated protein 2 C-terminus
Probab=44.58 E-value=87 Score=20.35 Aligned_cols=53 Identities=9% Similarity=0.090 Sum_probs=40.3
Q ss_pred hHHHHHHHHHHHhhCCCCccH----HhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCH
Q 038287 26 LTTVYNFVDQMRASLGIKPNL----VTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDC 81 (91)
Q Consensus 26 ~~~a~~~~~~m~~~~~~~~~~----~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~ 81 (91)
.++....++.+.+. -|++ -=|.++++.....|.++.++.+|++.+..|-.|=.
T Consensus 119 ~eei~~~L~~li~~---IP~A~K~aKYWIC~Arl~~~~~~~e~vi~iyEeAi~agAqPie 175 (353)
T PF15297_consen 119 KEEILATLSDLIKN---IPDAKKLAKYWICLARLEPRTGPIEDVIAIYEEAILAGAQPIE 175 (353)
T ss_pred HHHHHHHHHHHHhc---CchHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHcCCChHH
Confidence 45777788876654 3443 23788888888899999999999999988888744
No 294
>COG4339 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=44.27 E-value=64 Score=18.73 Aligned_cols=21 Identities=24% Similarity=0.392 Sum_probs=13.4
Q ss_pred CCCCccHHhHHHHHHHHHccC
Q 038287 40 LGIKPNLVTYTILIDNVCNTK 60 (91)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~ 60 (91)
.|+.|....|..++.+|+...
T Consensus 16 lg~~~~~~~f~~L~aaY~~~d 36 (208)
T COG4339 16 LGVDKTTQVFTHLIAAYSSPD 36 (208)
T ss_pred hcCCCchHHHHHHHHHhcCCc
Confidence 355666666777777776554
No 295
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.20 E-value=39 Score=24.22 Aligned_cols=30 Identities=13% Similarity=0.261 Sum_probs=19.6
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~ 37 (91)
||...|.-=+.+++..++|++..++-.+.+
T Consensus 713 pdKr~~wLk~~aLa~~~kweeLekfAkskk 742 (829)
T KOG2280|consen 713 PDKRLWWLKLTALADIKKWEELEKFAKSKK 742 (829)
T ss_pred cchhhHHHHHHHHHhhhhHHHHHHHHhccC
Confidence 666666666777777777776665555443
No 296
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=43.88 E-value=45 Score=16.85 Aligned_cols=27 Identities=15% Similarity=0.273 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~ 37 (91)
..|..+++.....++.+++..+|+.+-
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~l~ 29 (88)
T TIGR02531 3 ELLDELFDAILTLKNREECYRFFDDIA 29 (88)
T ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHhC
Confidence 358889999999999999999999875
No 297
>PF08967 DUF1884: Domain of unknown function (DUF1884); InterPro: IPR014418 This group represents an uncharacterised conserved protein.; PDB: 2PK8_A.
Probab=43.64 E-value=37 Score=17.05 Aligned_cols=19 Identities=26% Similarity=0.529 Sum_probs=10.2
Q ss_pred HHHHHHHHHHhCCCCcCHH
Q 038287 64 EAMRLVSALSDSGFKPDCF 82 (91)
Q Consensus 64 ~a~~~~~~m~~~g~~p~~~ 82 (91)
...+..++++..|+.||..
T Consensus 13 ~ie~~inELk~dG~ePDiv 31 (85)
T PF08967_consen 13 LIEEKINELKEDGFEPDIV 31 (85)
T ss_dssp HHHHHHHHHHHTT----EE
T ss_pred HHHHHHHHHHhcCCCCCEE
Confidence 3455667788899999964
No 298
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.46 E-value=1.2e+02 Score=21.46 Aligned_cols=55 Identities=11% Similarity=0.184 Sum_probs=35.7
Q ss_pred HHHHH--hcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 17 VKCLC--KCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 17 i~~~~--~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
=.+|| +.+.+++|...++.... -+..+...-.+.+-+.|..+++..+++++.+++
T Consensus 84 EKAYc~Yrlnk~Dealk~~~~~~~-----~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~ 140 (652)
T KOG2376|consen 84 EKAYCEYRLNKLDEALKTLKGLDR-----LDDKLLELRAQVLYRLERYDEALDIYQHLAKNN 140 (652)
T ss_pred HHHHHHHHcccHHHHHHHHhcccc-----cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence 34554 45666777766663322 233456666677778888889999998886554
No 299
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=43.40 E-value=92 Score=20.31 Aligned_cols=69 Identities=16% Similarity=0.302 Sum_probs=47.1
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhC--CCCccHHhHHH--HHHHHHccCCHHHHHHHHHHHHh-----CCCCcCHHh
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASL--GIKPNLVTYTI--LIDNVCNTKNLREAMRLVSALSD-----SGFKPDCFV 83 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~--~~~~~~~~~~~--~~~~~~~~~~~~~a~~~~~~m~~-----~g~~p~~~~ 83 (91)
.++...-+.++.++|.++++++.... --.|+.+.|.. +..++-..|++.++.++.++..+ .++.|++++
T Consensus 80 i~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~ 157 (380)
T KOG2908|consen 80 ILLVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHS 157 (380)
T ss_pred HHHHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhh
Confidence 33444456678999999999988642 12556666554 44555566899999998888876 577776543
No 300
>PF13723 Ketoacyl-synt_2: Beta-ketoacyl synthase, N-terminal domain
Probab=43.26 E-value=40 Score=20.10 Aligned_cols=27 Identities=7% Similarity=0.331 Sum_probs=21.5
Q ss_pred hcCChHHHHHHHHHHHhhCCCCccHHh
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPNLVT 48 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~~~~ 48 (91)
+.|+.+...++++.+.+...+.|+.++
T Consensus 60 ~~Gel~~t~~ll~~l~~~~~lSPT~Fs 86 (218)
T PF13723_consen 60 RHGELERTFKLLEALAEEEELSPTAFS 86 (218)
T ss_pred CCCcHHHHHHHHHHHHhCCCcCccchh
Confidence 458889999999999887667887654
No 301
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=42.83 E-value=1.2e+02 Score=21.57 Aligned_cols=65 Identities=18% Similarity=0.294 Sum_probs=48.2
Q ss_pred CcCHHHHH--HHHHHHHhcCChHHHHHHHHHHHhhCCCCccH-HhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 7 PPDIFTYN--FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNL-VTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 7 ~~~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
+|++..|. .+...+-+.|+++.|....+....+ .|+. .-|-+=.+.+.+.|.+++|..++++..+
T Consensus 366 ~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH---TPTliEly~~KaRI~kH~G~l~eAa~~l~ea~e 433 (700)
T KOG1156|consen 366 PPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH---TPTLIELYLVKARIFKHAGLLDEAAAWLDEAQE 433 (700)
T ss_pred CchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc---CchHHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Confidence 36665555 4567888999999999999988754 5653 3355555778888999999988888764
No 302
>PLN02789 farnesyltranstransferase
Probab=42.73 E-value=86 Score=19.81 Aligned_cols=46 Identities=7% Similarity=0.077 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 27 TTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 27 ~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
+++..+++.+.+. .| |..+|+..-.++.+.|.++++++.++++.+.
T Consensus 125 ~~el~~~~kal~~---dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~ 171 (320)
T PLN02789 125 NKELEFTRKILSL---DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE 171 (320)
T ss_pred HHHHHHHHHHHHh---CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 4555566555432 33 5666666666666667777777777777653
No 303
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=42.68 E-value=1e+02 Score=20.63 Aligned_cols=60 Identities=15% Similarity=0.086 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHH-HHccCCH-------HHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDN-VCNTKNL-------REAMRLVSALS 73 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~-~~~~~~~-------~~a~~~~~~m~ 73 (91)
-+-.+.-++.-..+|++|...|..+.+.. ..+...|.-+..+ +...++. ++|.++|++..
T Consensus 307 ~~~El~w~~~~~~~w~~A~~~f~~L~~~s--~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp 374 (468)
T PF10300_consen 307 CYFELAWCHMFQHDWEEAAEYFLRLLKES--KWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVP 374 (468)
T ss_pred HHHHHHHHHHHHchHHHHHHHHHHHHhcc--ccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHH
Confidence 34555666778899999999999998742 2333333333332 3345666 78888888775
No 304
>PF12000 Glyco_trans_4_3: Gkycosyl transferase family 4 group; InterPro: IPR022623 This presumed domain is functionally uncharacterised and found in bacteria. This region is about 170 amino acids in length and is found N-terminal to PF00534 from PFAM. There is a single completely conserved residue G that may be functionally important.
Probab=42.50 E-value=25 Score=20.09 Aligned_cols=19 Identities=32% Similarity=0.553 Sum_probs=14.3
Q ss_pred HHHHHHHHHHhCCCCcCHH
Q 038287 64 EAMRLVSALSDSGFKPDCF 82 (91)
Q Consensus 64 ~a~~~~~~m~~~g~~p~~~ 82 (91)
.+.+...++++.|+.||.+
T Consensus 52 av~~a~~~L~~~Gf~PDvI 70 (171)
T PF12000_consen 52 AVARAARQLRAQGFVPDVI 70 (171)
T ss_pred HHHHHHHHHHHcCCCCCEE
Confidence 4456777788889999975
No 305
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=42.48 E-value=66 Score=18.40 Aligned_cols=51 Identities=12% Similarity=0.230 Sum_probs=31.8
Q ss_pred CCCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHc
Q 038287 3 FKQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCN 58 (91)
Q Consensus 3 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~ 58 (91)
..+++|+...+..+++.+.+.+.+.....++ . +++-+|.-.....+-.++.
T Consensus 22 ~~~i~~~~~L~~lli~lLi~~~~~~~L~qll----q-~~Vi~DSk~lA~~LLs~~~ 72 (167)
T PF07035_consen 22 QHNIPVQHELYELLIDLLIRNGQFSQLHQLL----Q-YHVIPDSKPLACQLLSLGN 72 (167)
T ss_pred HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH----h-hcccCCcHHHHHHHHHhHc
Confidence 3467777788888888888888765543332 3 2555665555555544443
No 306
>cd08320 Pyrin_NALPs Pyrin death domain found in NALP proteins. Pyrin Death Domain found in NALP (NACHT, LRR and PYD domains) proteins including NALP1 (CARD7, NLRP1), NALP3 (NLRP3, Cryopyrin, CIAS1), and NALP12 (NLRP12, Monarch-1), among others. Mammals contains at least 14 NALP proteins, named NALP1-14 (or NLRP1-14). NALPs are members of the NBS-LRR family of proteins possessing a tripartite domain structure including a C-terminal LRR (leucine-rich repeats), a central nucleotide-binding site (NBS) domain or NACHT (for neuronal apoptosis inhibitor protein, CIITA, HET-E and TP1), and an N-terminal protein-protein interaction domain, which is a Pyrin domain in the case of NALPs. The NBS-LRR family is also referred to as the NLR (Nod-like Receptor) or CATERPILLER (for CARD, transcription enhancer, R-(purine)-binding, pyrin, lots of LRRs) family. NALP1 contains an additional Caspase activation and recruitment domain (CARD) at the C-terminus. NALP1 and NALP3 are both involved in the assembly
Probab=42.36 E-value=24 Score=17.69 Aligned_cols=25 Identities=4% Similarity=0.224 Sum_probs=17.1
Q ss_pred HHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 49 YTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 49 ~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
=+.++..|+...-++.+.++|+.|.
T Consensus 48 a~lLv~~y~~~~A~~~t~~if~~mn 72 (86)
T cd08320 48 AELLVEHYGGQQAWDVTLSIFEKMN 72 (86)
T ss_pred HHHHHHHcChhHHHHHHHHHHHHHC
Confidence 4455666666667777778887774
No 307
>PF02758 PYRIN: PAAD/DAPIN/Pyrin domain; InterPro: IPR004020 Pyrin domain was identified as putative protein-protein interaction domain at the N-terminal region of several proteins thought to function in apoptotic and inflammatory signalling pathways. Using secondary structure prediction and potential-based fold recognition methods, the PYRIN domain is predicted to be a member of the six-helix bundle death domain-fold superfamily that includes death domains (DDs), death effector domains (DEDs), and caspase recruitment domains (CARDs). Members of the death domain-fold superfamily are well established mediators of protein-protein interactions found in many proteins involved in apoptosis and inflammation, indicating further that the PYRIN domains serve a similar function. Comparison of a circular dichroism spectrum of the PYRIN domain of CARD7/DEFCAP/NAC/NALP1 with spectra of several proteins known to adopt the death domain-fold provides experimental support for the structure prediction [] It is found in interferon-inducible proteins, pyrin and myeloid cell nuclear differentiation antigen.; PDB: 2DO9_A 2YU0_A 2KN6_A 1UCP_A 2L6A_A 2KM6_A 1PN5_A 2DBG_A 3QF2_B 2HM2_Q.
Probab=41.97 E-value=12 Score=18.47 Aligned_cols=26 Identities=4% Similarity=0.267 Sum_probs=16.0
Q ss_pred hHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 48 TYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 48 ~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.-+.|++.|+..+-++.+.++|+.|.
T Consensus 48 la~lLv~~y~~~~A~~vt~~il~~m~ 73 (83)
T PF02758_consen 48 LADLLVQHYGEQRAWEVTLKILEKMN 73 (83)
T ss_dssp HHHHHHHHTCHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHcCHHHHHHHHHHHHHHcC
Confidence 34555566666666666667776664
No 308
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.48 E-value=1.4e+02 Score=22.00 Aligned_cols=69 Identities=9% Similarity=0.156 Sum_probs=47.5
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHH----HHHHHHHHhCCCCcCHHhHhhhh
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREA----MRLVSALSDSGFKPDCFVYNTIM 88 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a----~~~~~~m~~~g~~p~~~~~~~ll 88 (91)
.++..+.+..+++++..+.+..-+. +..-|-.+++.+++.+.++.- .++++.+.....-|-.....+|.
T Consensus 710 dl~~~~~q~~d~E~~it~~~~~g~~-----~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~~I~~~~~ippl~VL~~La 782 (933)
T KOG2114|consen 710 DLMLYFQQISDPETVITLCERLGKE-----DPSLWLHALKYFVSEESIEDCYEIVYKVLEAIEMQERIPPLHVLQILA 782 (933)
T ss_pred HHHHHHHHhhChHHHHHHHHHhCcc-----ChHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHhcccCCHHHHHHHHh
Confidence 4566677777788888777776432 666799999999998865554 45666666666666666666554
No 309
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=41.45 E-value=1.1e+02 Score=20.86 Aligned_cols=76 Identities=12% Similarity=0.156 Sum_probs=48.1
Q ss_pred HHHHHHHHH--HhcCChHHHHHHHHHHHhh-------------CCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh--
Q 038287 12 TYNFLVKCL--CKCRSLTTVYNFVDQMRAS-------------LGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD-- 74 (91)
Q Consensus 12 ~~~~li~~~--~~~~~~~~a~~~~~~m~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~-- 74 (91)
.|-.+..+. -+.+.+..|...+..=... ...-+|..-=+..+.+..+.|.+.+|..+.++|..
T Consensus 79 ~~l~LF~~L~~Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~l 158 (549)
T PF07079_consen 79 AYLPLFKALVAYKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERL 158 (549)
T ss_pred hHHHHHHHHHHHHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHH
Confidence 344454443 3567777777776654432 01122333335677888899999999998888864
Q ss_pred --CCCCcCHHhHhhh
Q 038287 75 --SGFKPDCFVYNTI 87 (91)
Q Consensus 75 --~g~~p~~~~~~~l 87 (91)
+...-|..+|+.+
T Consensus 159 lkrE~~w~~d~yd~~ 173 (549)
T PF07079_consen 159 LKRECEWNSDMYDRA 173 (549)
T ss_pred hhhhhcccHHHHHHH
Confidence 3455788888873
No 310
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=41.27 E-value=1.4e+02 Score=21.68 Aligned_cols=68 Identities=9% Similarity=0.043 Sum_probs=49.6
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH----hCCCCcCHHhH
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS----DSGFKPDCFVY 84 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~----~~g~~p~~~~~ 84 (91)
.|.-+|++-..++.|..+++..++ .+..+...|.+-...=-.+|..+...++.++-. ..|++.|..-|
T Consensus 411 dLwlAlarLetYenAkkvLNkaRe--~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqW 482 (913)
T KOG0495|consen 411 DLWLALARLETYENAKKVLNKARE--IIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQW 482 (913)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh--hCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHH
Confidence 355677788888999999999987 456678888888777777888888777766543 35666655444
No 311
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into s
Probab=41.20 E-value=52 Score=16.82 Aligned_cols=49 Identities=16% Similarity=0.094 Sum_probs=31.6
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHH
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLV 69 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~ 69 (91)
.-|-+.|..+++.+++..-+...|-+ -|...++.+.-.++.-..|++++
T Consensus 40 ~~y~r~gL~EqvyQ~L~~W~~~eg~~---Atv~~Lv~AL~~c~l~~lAe~l~ 88 (90)
T cd08780 40 YEYDREGLYEQAYQLLRRFIQSEGKK---ATLQRLVQALEENGLTSLAEDLL 88 (90)
T ss_pred hhcccccHHHHHHHHHHHHHHhcccc---chHHHHHHHHHHccchHHHHHHh
Confidence 34556667777777777776643322 56677777777777665565554
No 312
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=41.17 E-value=46 Score=16.20 Aligned_cols=45 Identities=4% Similarity=0.076 Sum_probs=27.7
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHcc
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNT 59 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ 59 (91)
....+++.+.+ ++++++...+..+... |+.++.. ...+.+.....
T Consensus 7 ~i~~i~~~~~~-~~~~~~~~~~~~l~~~-G~s~~~I-l~~l~~~l~~~ 51 (89)
T PF08542_consen 7 VIEEILESCLN-GDFKEARKKLYELLVE-GYSASDI-LKQLHEVLVES 51 (89)
T ss_dssp HHHHHHHHHHH-TCHHHHHHHHHHHHHT-T--HHHH-HHHHHHHHHTS
T ss_pred HHHHHHHHHHh-CCHHHHHHHHHHHHHc-CCCHHHH-HHHHHHHHHHh
Confidence 44455555444 4889999999988876 6666543 55555555555
No 313
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=40.91 E-value=24 Score=12.88 Aligned_cols=15 Identities=0% Similarity=0.078 Sum_probs=8.7
Q ss_pred ChHHHHHHHHHHHhh
Q 038287 25 SLTTVYNFVDQMRAS 39 (91)
Q Consensus 25 ~~~~a~~~~~~m~~~ 39 (91)
+.+.+..+|+.+...
T Consensus 2 ~~~~~r~i~e~~l~~ 16 (33)
T smart00386 2 DIERARKIYERALEK 16 (33)
T ss_pred cHHHHHHHHHHHHHH
Confidence 455666666666543
No 314
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=40.86 E-value=69 Score=18.13 Aligned_cols=20 Identities=10% Similarity=0.109 Sum_probs=17.6
Q ss_pred HHhcCChHHHHHHHHHHHhh
Q 038287 20 LCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~ 39 (91)
+.+.|+|.+|.++|+...++
T Consensus 54 ~i~rg~w~eA~rvlr~l~~~ 73 (153)
T TIGR02561 54 LIARGNYDEAARILRELLSS 73 (153)
T ss_pred HHHcCCHHHHHHHHHhhhcc
Confidence 46789999999999999875
No 315
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=40.18 E-value=1.5e+02 Score=21.98 Aligned_cols=30 Identities=7% Similarity=0.098 Sum_probs=21.0
Q ss_pred HhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 47 VTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
..+-.+..+|-+.|..+++..++++..+..
T Consensus 117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D 146 (906)
T PRK14720 117 LALRTLAEAYAKLNENKKLKGVWERLVKAD 146 (906)
T ss_pred HHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence 445556666667788888888888887543
No 316
>PF02184 HAT: HAT (Half-A-TPR) repeat; InterPro: IPR003107 The HAT (Half A TPR) repeat has a repetitive pattern characterised by three aromatic residues with a conserved spacing. They are structurally and sequentially similar to TPRs (tetratricopeptide repeats), though they lack the highly conserved alanine and glycine residues found in TPRs. The number of HAT repeats found in different proteins varies between 9 and 12. HAT-repeat-containing proteins appear to be components of macromolecular complexes that are required for RNA processing []. The repeats may be involved in protein-protein interactions. The HAT motif has striking structural similarities to HEAT repeats (IPR000357 from INTERPRO), being of a similar length and consisting of two short helices connected by a loop domain, as in HEAT repeats.; GO: 0006396 RNA processing, 0005622 intracellular
Probab=39.48 E-value=32 Score=13.92 Aligned_cols=12 Identities=0% Similarity=0.133 Sum_probs=6.4
Q ss_pred hHHHHHHHHHHH
Q 038287 26 LTTVYNFVDQMR 37 (91)
Q Consensus 26 ~~~a~~~~~~m~ 37 (91)
++.|..+|+...
T Consensus 3 ~dRAR~IyeR~v 14 (32)
T PF02184_consen 3 FDRARSIYERFV 14 (32)
T ss_pred HHHHHHHHHHHH
Confidence 445555555554
No 317
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=39.36 E-value=23 Score=24.06 Aligned_cols=31 Identities=19% Similarity=0.373 Sum_probs=23.0
Q ss_pred CHHHHHHHHHHHHhCCCCcCHHhHhhhhhcC
Q 038287 61 NLREAMRLVSALSDSGFKPDCFVYNTIMKGY 91 (91)
Q Consensus 61 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~ 91 (91)
.-+++.++..+-+-.-..|...||.+||+.|
T Consensus 540 nkr~gkQlASQ~ilq~lHPh~~twGSlLriY 570 (650)
T KOG4334|consen 540 NKRQGKQLASQRILQKLHPHLLTWGSLLRIY 570 (650)
T ss_pred chhHHHHHHHHHHHHHhCHHhhhHHHHHHHh
Confidence 3456666666665556789999999999876
No 318
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=39.35 E-value=1.2e+02 Score=20.33 Aligned_cols=29 Identities=7% Similarity=-0.015 Sum_probs=19.4
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~ 37 (91)
+...|..|-+...+.|+++-|.+.|.+..
T Consensus 346 ~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~ 374 (443)
T PF04053_consen 346 DPEKWKQLGDEALRQGNIELAEECYQKAK 374 (443)
T ss_dssp THHHHHHHHHHHHHTTBHHHHHHHHHHCT
T ss_pred cHHHHHHHHHHHHHcCCHHHHHHHHHhhc
Confidence 45567777777777777777777766654
No 319
>COG3294 HD supefamily hydrolase [General function prediction only]
Probab=39.18 E-value=30 Score=21.04 Aligned_cols=20 Identities=25% Similarity=0.438 Sum_probs=17.1
Q ss_pred HHHHHHHHHHhCCCCcCHHh
Q 038287 64 EAMRLVSALSDSGFKPDCFV 83 (91)
Q Consensus 64 ~a~~~~~~m~~~g~~p~~~~ 83 (91)
.|.++++.+.+.|++|+..+
T Consensus 68 ~Al~i~~lL~~~Gv~ps~v~ 87 (269)
T COG3294 68 SALAIYKLLLEKGVKPSGVT 87 (269)
T ss_pred hHHHHHHHHHhcCCCccccc
Confidence 47899999999999998765
No 320
>PF03013 Pyr_excise: Pyrimidine dimer DNA glycosylase; InterPro: IPR004260 Pyrimidine dimer DNA glycosylases are enzymes responsible for initiating the base excision repair pathway, excising pyrimidine dimers by hydrolysis of the glycosylic bond of the 5' pyrimidine, followed by the intra-pyrimidine phosphodiester bond []. One such enzyme is T4 endonuclease V, an enzyme responsible for the first step of a pyrimidine-dimer-specific excision-repair pathway []. Bacteriophage T4 that are deficient in these enzymes are extremely sensitive to UV.; PDB: 2FCC_B 1ENJ_A 1ENI_A 1ENK_A 1VAS_A 2END_A.
Probab=38.98 E-value=30 Score=18.88 Aligned_cols=20 Identities=20% Similarity=0.529 Sum_probs=10.9
Q ss_pred HHHHHHHHhCCCCcCHHhHh
Q 038287 66 MRLVSALSDSGFKPDCFVYN 85 (91)
Q Consensus 66 ~~~~~~m~~~g~~p~~~~~~ 85 (91)
..+.++|..+|+.|+..-..
T Consensus 66 ~~l~~EM~~RGY~~~~~~~~ 85 (130)
T PF03013_consen 66 QLLMAEMQRRGYKPNSPWFD 85 (130)
T ss_dssp HHHHHHHHHTT---S--S--
T ss_pred HHHHHHHHHcCCCCChhhhh
Confidence 47889999999998865544
No 321
>PRK09857 putative transposase; Provisional
Probab=38.71 E-value=98 Score=19.32 Aligned_cols=66 Identities=9% Similarity=0.147 Sum_probs=37.8
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCH
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDC 81 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~ 81 (91)
..++....+.++.++..++++.+.+. +.......-.+.+-.-+.|..+++.++..+|...|+.++.
T Consensus 210 ~~ll~Yi~~~~~~~~~~~~~~~l~~~--~~~~~e~iMTiAEqL~qeG~qe~~~~ia~~ml~~g~~~~~ 275 (292)
T PRK09857 210 KGLFNYILQTGDAVRFNDFIDGVAER--SPKHKESLMTIAERLRQEGEQSKALHIAKIMLESGVPLAD 275 (292)
T ss_pred HHHHHHHhhccccchHHHHHHHHHHh--CccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHH
Confidence 34555445566666666666666543 1112222334445555556556677788888877877653
No 322
>cd08326 CARD_CASP9 Caspase activation and recruitment domain of Caspase-9. Caspase activation and recruitment domain (CARD) similar to that found in caspase-9 (CASP9, MCH6, APAF3), which interacts with the CARD of apoptotic protease-activating factor 1 (APAF-1). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Initiator caspases are the first to be activated following death- or inflammation-inducing signals. Caspase-9 is the initiator caspase associated with the intrinsic or mitochondrial pathway of apoptosis, induced by many pro-apoptotic signals. Together with APAF-1, it forms the heptameric 'apoptosome' in response to the release of cytochrome c from mitochondria. Activated caspase-9 cleaves and activates downstream effector caspases, like caspase-3, caspase-6, and caspase-7, resulting in apoptosis. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apopt
Probab=38.28 E-value=55 Score=16.29 Aligned_cols=37 Identities=3% Similarity=0.038 Sum_probs=23.1
Q ss_pred cCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHH
Q 038287 23 CRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLRE 64 (91)
Q Consensus 23 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 (91)
..+.+++..+++.++.+ +...|.+..+|.-+.|+...
T Consensus 43 ~tr~~q~~~LLd~L~~R-----G~~AF~~F~~aL~~~~~~~L 79 (84)
T cd08326 43 GSRRDQARQLLIDLETR-----GKQAFPAFLSALRETGQTDL 79 (84)
T ss_pred CCHHHHHHHHHHHHHhc-----CHHHHHHHHHHHHhcCchHH
Confidence 34567777777777654 45566777777666665443
No 323
>PF09373 PMBR: Pseudomurein-binding repeat; InterPro: IPR018975 Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) is a methanogenic Gram-positive microorganism with a cell wall consisting of pseudomurein. This repeat specifically binds to pseudomurein. This repeat is found at the N terminus of PeiW and PeiP which are pseudomurein binding phage proteins.
Probab=38.10 E-value=33 Score=13.69 Aligned_cols=19 Identities=21% Similarity=0.251 Sum_probs=10.5
Q ss_pred HHHHHHHHHHhCCCCcCHH
Q 038287 64 EAMRLVSALSDSGFKPDCF 82 (91)
Q Consensus 64 ~a~~~~~~m~~~g~~p~~~ 82 (91)
.+.++..-+.+.|-.|+.+
T Consensus 13 ~a~rv~~f~~~ngRlPnyV 31 (33)
T PF09373_consen 13 MASRVNNFYESNGRLPNYV 31 (33)
T ss_pred HHHHHHHHHHHcCCCCCee
Confidence 3445555555666666654
No 324
>PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression. The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B ....
Probab=37.91 E-value=35 Score=17.22 Aligned_cols=26 Identities=12% Similarity=0.381 Sum_probs=21.3
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~ 37 (91)
.|..|+.+.....+.+++..+|+.+-
T Consensus 2 ~~~~l~~~i~~l~~~ee~~~f~~dL~ 27 (87)
T PF01371_consen 2 DWDELFEAILSLKDEEECYDFFEDLC 27 (87)
T ss_dssp HHHHHHHHHHCHHCHHCHHHHHHHHS
T ss_pred hHHHHHHHHHHcCCHHHHHHHHHHhC
Confidence 36778888888888888888888774
No 325
>KOG2536 consensus MAM33, mitochondrial matrix glycoprotein [Energy production and conversion]
Probab=37.62 E-value=1e+02 Score=19.14 Aligned_cols=45 Identities=18% Similarity=0.330 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 27 TTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 27 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
++....|+...+.+||+++..+ .+.+|....+-++=+..++.+++
T Consensus 215 e~Lqd~fh~fLEeRGI~esl~~---FL~~ym~~Kd~rEYl~WlksvK~ 259 (263)
T KOG2536|consen 215 EELQDSFHRFLEERGIKESLAS---FLHAYMKNKDSREYLRWLKSVKS 259 (263)
T ss_pred HHHHHHHHHHHHHcCCCHHHHH---HHHHHHhhhhHHHHHHHHHHHHH
Confidence 4555667776666699887654 46789988888887777777653
No 326
>cd08305 Pyrin Pyrin: a protein-protein interaction domain. The Pyrin domain (or PYD), also called DAPIN or PAAD, is a subfamily of the Death Domain (DD) superfamily and it functions in several signaling pathways. The Pyrin domain is found at the N-terminus of a variety of proteins and serves as a linker that recruits other domains into signaling complexes. Pyrin-containing proteins include NALPs, ASC (Apoptosis-associated speck-like protein containing a CARD), and the interferon-inducible p200 (IFI-200) family of proteins which includes the human IFI-16, myeloid cell nuclear differentiation antigen (MNDA) and absent in melanoma (AIM) 2. NALPs are members of the NBS-LRR family of proteins possessing a tripartite domain structure including a C-terminal LRR (leucine-rich repeats), a central nucleotide-binding site (NBS) domain or NACHT (for neuronal apoptosis inhibitor protein, CIITA, HET-E and TP1), and an N-terminal protein-protein interaction domain, which is a Pyrin domain in the case
Probab=37.56 E-value=27 Score=16.87 Aligned_cols=25 Identities=4% Similarity=0.169 Sum_probs=16.1
Q ss_pred HHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 49 YTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 49 ~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
=+.++..|+...-++.+.++|+.|.
T Consensus 40 a~lL~~~y~~~~a~~~t~~i~~~m~ 64 (73)
T cd08305 40 ADLMEQKFGAVSALDKLINIFEDMP 64 (73)
T ss_pred HHHHHHHcChhHHHHHHHHHHHHcC
Confidence 3445555566666777777777774
No 327
>PF07864 DUF1651: Protein of unknown function (DUF1651); InterPro: IPR012447 The proteins in this entry have not been characterised.
Probab=37.54 E-value=47 Score=16.01 Aligned_cols=19 Identities=26% Similarity=0.406 Sum_probs=15.4
Q ss_pred CHHHHHHHHHHHHhCCCCc
Q 038287 61 NLREAMRLVSALSDSGFKP 79 (91)
Q Consensus 61 ~~~~a~~~~~~m~~~g~~p 79 (91)
..++|.+.+.+|.+.|-.+
T Consensus 51 ~~~~A~e~W~~L~~~GW~~ 69 (75)
T PF07864_consen 51 TREEARELWKELQKTGWRR 69 (75)
T ss_pred EHHHHHHHHHHHHHcCCEE
Confidence 4778999999999888654
No 328
>PF14744 WASH-7_mid: WASH complex subunit 7
Probab=37.48 E-value=44 Score=21.57 Aligned_cols=25 Identities=16% Similarity=0.219 Sum_probs=20.7
Q ss_pred CHHHHHHHHHHHHhCCCCcCHHhHh
Q 038287 61 NLREAMRLVSALSDSGFKPDCFVYN 85 (91)
Q Consensus 61 ~~~~a~~~~~~m~~~g~~p~~~~~~ 85 (91)
..+.|+++.+.+++.|+.+|..+|-
T Consensus 281 p~erAekf~k~irkLG~~~dG~syl 305 (350)
T PF14744_consen 281 PYERAEKFNKGIRKLGLSDDGQSYL 305 (350)
T ss_pred CHHHHHHHHHHHHHcCCCCCcchHH
Confidence 3677889999999999999888774
No 329
>TIGR01914 cas_Csa4 CRISPR-associated protein, Csa4 family. CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein that tends to be found near CRISPR repeats. The species range for this species, so far, is exclusively archaeal. It is found so far in only four different species, and includes two tandem genes in Pyrococcus furiosus DSM 3638. This subfamily is found in a CRISPR/Cas locus we designate APERN, so the family is designated Csa4, for CRISPR/Cas Subtype Protein 4.
Probab=37.45 E-value=1.2e+02 Score=19.75 Aligned_cols=65 Identities=17% Similarity=0.163 Sum_probs=45.3
Q ss_pred HHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhhhh
Q 038287 19 CLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTIMK 89 (91)
Q Consensus 19 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~ 89 (91)
++.|..++-...++.+.+..+ +...-.++.++.. .|+.+.-...++.+.+.|+.++......+.+
T Consensus 285 ~~lK~r~~y~~~kfvd~L~r~-----d~e~~~~L~~ai~-~~~~~~~Ysa~R~~k~~g~~~~~~~v~~lae 349 (354)
T TIGR01914 285 AYLKARDFYSWPKFVDFLARR-----DPEISLQLTDAIL-NGDEEAFYTALRELKKSGVRYDPEQVDALAE 349 (354)
T ss_pred HHHhhhhhcchHHHHHHHhcc-----ChHHHHHHHHHHH-cCChhHHHHHHHHHhhcCCCCCHHHHHHHHH
Confidence 456666666778888888653 3355666666544 4555666788888998999888877776654
No 330
>PF08343 RNR_N: Ribonucleotide reductase N-terminal; InterPro: IPR013554 This domain is found at the N terminus of bacterial ribonucleoside-diphosphate reductases (ribonucleotide reductases, RNRs) which catalyse the formation of deoxyribonucleotides []. It occurs together with the RNR all-alpha domain (IPR013509 from INTERPRO) and the RNR barrel domain (IPR000788 from INTERPRO). ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0006260 DNA replication, 0055114 oxidation-reduction process, 0005971 ribonucleoside-diphosphate reductase complex; PDB: 1PEM_A 2BQ1_E 1PEU_A 1PEQ_A 1PEO_A.
Probab=37.21 E-value=25 Score=17.56 Aligned_cols=41 Identities=17% Similarity=0.122 Sum_probs=15.7
Q ss_pred HHHHHHHHHhcCC--hHHHHHHHHHHHhhCCCCccHHhHHHHHH
Q 038287 13 YNFLVKCLCKCRS--LTTVYNFVDQMRASLGIKPNLVTYTILID 54 (91)
Q Consensus 13 ~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~~~~~~~~~~~~~ 54 (91)
.|.++..+-..|. ++.=.+..+...+. .|.|+...|+++..
T Consensus 4 LNn~~~~~~~~G~~~l~kD~eA~~~y~~~-~V~pnt~~F~S~~E 46 (82)
T PF08343_consen 4 LNNELNIYDEDGKIQLEKDKEAVRAYFKE-HVNPNTVKFNSLKE 46 (82)
T ss_dssp HHHGGG---TTS---THHHHHHHHHHHHH-TTGGGB---SSHHH
T ss_pred HHHHHcCCCCCCCcCchhHHHHHHHHHHH-hcccceeecCCHHH
Confidence 4445555455554 22222333333332 56777777666644
No 331
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=36.73 E-value=43 Score=14.57 Aligned_cols=19 Identities=21% Similarity=0.538 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHhCCCCcC
Q 038287 62 LREAMRLVSALSDSGFKPD 80 (91)
Q Consensus 62 ~~~a~~~~~~m~~~g~~p~ 80 (91)
.+...++.+-+.+.|+.||
T Consensus 28 ~~tr~rI~~~a~~lgY~pN 46 (46)
T PF00356_consen 28 EETRERILEAAEELGYRPN 46 (46)
T ss_dssp HHHHHHHHHHHHHHTB-SS
T ss_pred HHHHHHHHHHHHHHCCCCC
Confidence 3444567777777788776
No 332
>cd08321 Pyrin_ASC-like Pyrin Death Domain found in ASC. Pyrin Death Domain found in ASC (Apoptosis-associated speck-like protein containing a CARD) and similar proteins. ASC is an adaptor molecule that functions in the assembly of the 'inflammasome', a multiprotein platform, which is responsible for caspase-1 activation and regulation of IL-1beta maturation. ASC contains two domains from the Death Domain (DD) superfamily, an N-terminal pyrin-like domain and a C-terminal Caspase activation and recruitment domain (CARD). Through these 2 domains, ASC serves as an adaptor for inflammasome integrity and oligomerizes to form supramolecular assemblies. Other members of this subfamily are associated with ATPase domains and their function remains unknown. In general, Pyrin is a subfamily of the DD superfamily and functions in several signaling pathways. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=36.21 E-value=37 Score=16.82 Aligned_cols=27 Identities=0% Similarity=0.105 Sum_probs=19.3
Q ss_pred hHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 48 TYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 48 ~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.-..++..|+...-++.+.++|+.|..
T Consensus 47 la~lLv~~y~~~~A~~vt~~il~~in~ 73 (82)
T cd08321 47 LVDKMVQFYGEEYAVEVTVKILRKMNQ 73 (82)
T ss_pred HHHHHHHHcChhHHHHHHHHHHHHhcc
Confidence 355666767777778888888888853
No 333
>PF07575 Nucleopor_Nup85: Nup85 Nucleoporin; InterPro: IPR011502 This is a family of nucleoporins conserved from yeast to human. Nup85 Nucleoporin is an essential component of the nuclear pore complex (NPC) that seems to be required for NPC assembly and maintenance. As part of the NPC Nup107-160 subcomplex plays a role in RNA export and in tethering NUP98/Nup98 and NUP153 to the nucleus. The Nup107-160 complex seems to be required for spindle assembly during mitosis. NUP85 is required for membrane clustering of CCL2-activated CCR2. Seems to be involved in CCR2-mediated chemotaxis of monocytes and may link activated CCR2 to the phosphatidyl-inositol-3-kinase-Rac-lammellipodium protrusion cascade [, , ]. ; PDB: 3F3F_D 3F3P_G 3F3G_G 3EWE_B.
Probab=36.15 E-value=1.4e+02 Score=20.45 Aligned_cols=63 Identities=6% Similarity=-0.054 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 9 DIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 9 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
+...-..++..|.+.|..+.+.++.+.+-.+ .....-|..-+..+.++++......+-+.+.+
T Consensus 404 t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~---~~~~~~~g~AL~~~~ra~d~~~v~~i~~~ll~ 466 (566)
T PF07575_consen 404 TNDDAEKLLEICAELGLEDVAREICKILGQR---LLKEGRYGEALSWFIRAGDYSLVTRIADRLLE 466 (566)
T ss_dssp SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHH---HHHHHHHHHHHHHHH-----------------
T ss_pred chHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---HHHCCCHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3344566777777888888888887776553 12334566777777888877776666665553
No 334
>PF03745 DUF309: Domain of unknown function (DUF309); InterPro: IPR005500 This family consists of eubacterial and archaebacterial proteins of unknown function. The proteins contain a motif HXXXEXX(W/Y) where X can be any amino acid. This motif is likely to be functionally important and may be involved in metal binding.; PDB: 2CXD_B 2CWY_A 2IJQ_B.
Probab=35.99 E-value=52 Score=15.31 Aligned_cols=48 Identities=19% Similarity=0.169 Sum_probs=29.8
Q ss_pred HHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHH-----ccCCHHHHHHH
Q 038287 20 LCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVC-----NTKNLREAMRL 68 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~a~~~ 68 (91)
+.+.|++-+|-++++..-.. ...+....+..+|+... +.|+.+.|..+
T Consensus 9 l~n~g~f~EaHEvlE~~W~~-~~~~~~~~lqglIq~A~a~~h~~~gn~~gA~~l 61 (62)
T PF03745_consen 9 LFNAGDFFEAHEVLEELWKA-APGPERDFLQGLIQLAVALYHLRRGNPRGARRL 61 (62)
T ss_dssp HHHTT-HHHHHHHHHHHCCC-T-CCHHHHHHHHHHHHHHHHHHHCTSHHHHHHH
T ss_pred HHcCCCHHHhHHHHHHHHHH-CCcchHHHHHHHHHHHHHHHHHHhCCHHHHHHh
Confidence 45688999999999998753 12234555666666544 34666666554
No 335
>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]
Probab=35.55 E-value=69 Score=21.65 Aligned_cols=51 Identities=18% Similarity=0.248 Sum_probs=35.2
Q ss_pred HHHhcCChHHHHHHHHHHHhhCC---CCccHHhHHHHHHHHHccCCHHHHHHHHH
Q 038287 19 CLCKCRSLTTVYNFVDQMRASLG---IKPNLVTYTILIDNVCNTKNLREAMRLVS 70 (91)
Q Consensus 19 ~~~~~~~~~~a~~~~~~m~~~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~ 70 (91)
-+++.|+....+.+|+...+. | ++.-.-.|+.+=++|...++.++|.+.+.
T Consensus 26 RLck~gdcraGv~ff~aA~qv-GTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~ 79 (639)
T KOG1130|consen 26 RLCKMGDCRAGVDFFKAALQV-GTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHT 79 (639)
T ss_pred HHHhccchhhhHHHHHHHHHh-cchHHHHHHHHHHHhcchhhhHhhHHHHHhhhh
Confidence 468899999999999988764 2 12223345555566667778888877554
No 336
>cd08789 CARD_IPS-1_RIG-I Caspase activation and recruitment domains (CARDs) found in IPS-1 and RIG-I-like RNA helicases. Caspase activation and recruitment domains (CARDs) found in IPS-1 (Interferon beta promoter stimulator protein 1) and Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. RIG-I-like helicases and IPS-1 play important roles in the induction of interferons in response to viral infection. They are crucial in triggering innate immunity and in developing adaptive immunity against viral pathogens. RIG-I-like helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. MDA5 and RIG-I associate with IPS-1 through a CARD-CAR
Probab=35.51 E-value=62 Score=16.09 Aligned_cols=45 Identities=9% Similarity=0.124 Sum_probs=30.1
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHH
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAM 66 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 66 (91)
+.......|..+.|..+++.+. + .|+. |..+++|.-++|....|.
T Consensus 38 I~a~~~~~G~~~aa~~Ll~~L~-r---~~~W--f~~Fl~AL~~~~~~~LA~ 82 (84)
T cd08789 38 IQAAENNSGNIKAAWTLLDTLV-R---RDNW--LEPFLDALRECGLGHLAR 82 (84)
T ss_pred HHHHHhcCChHHHHHHHHHHHh-c---cCCh--HHHHHHHHHHcCCHHHHH
Confidence 3344445678888888888887 3 3444 677788888777655554
No 337
>KOG3807 consensus Predicted membrane protein ST7 (tumor suppressor in humans) [General function prediction only]
Probab=35.23 E-value=1.3e+02 Score=19.79 Aligned_cols=31 Identities=10% Similarity=0.157 Sum_probs=21.3
Q ss_pred CHHHHHHH-HHHHH-hcCChHHHHHHHHHHHhh
Q 038287 9 DIFTYNFL-VKCLC-KCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 9 ~~~~~~~l-i~~~~-~~~~~~~a~~~~~~m~~~ 39 (91)
+..+|-.. +.+|+ +.|+..+|.+.|+.+.++
T Consensus 272 nvl~YIKRRLAMCARklGrlrEA~K~~RDL~ke 304 (556)
T KOG3807|consen 272 NVLVYIKRRLAMCARKLGRLREAVKIMRDLMKE 304 (556)
T ss_pred chhhHHHHHHHHHHHHhhhHHHHHHHHHHHhhh
Confidence 33445433 45555 459999999999998765
No 338
>PRK13808 adenylate kinase; Provisional
Probab=34.92 E-value=1.3e+02 Score=19.41 Aligned_cols=46 Identities=30% Similarity=0.386 Sum_probs=27.9
Q ss_pred hhCCCCccHHhHHHHHHHHHcc------------CCHHHHHHHHHHHHhCCCCcCHHh
Q 038287 38 ASLGIKPNLVTYTILIDNVCNT------------KNLREAMRLVSALSDSGFKPDCFV 83 (91)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~------------~~~~~a~~~~~~m~~~g~~p~~~~ 83 (91)
...+..||..+...+.+...+. +..+++..+...+...|+.||.+.
T Consensus 54 ~~G~lVPdeiv~~li~e~l~~~~~~~G~ILDGFPRt~~QA~~L~~ll~~~gi~PDlVI 111 (333)
T PRK13808 54 ASGGLVPDEVVVGIISDRIEQPDAANGFILDGFPRTVPQAEALDALLKDKQLKLDAVV 111 (333)
T ss_pred HcCCCCCHHHHHHHHHHHHhcccccCCEEEeCCCCCHHHHHHHHHHHHhcCCCcCeEE
Confidence 3346777776665554444332 245677776666666788888644
No 339
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=34.82 E-value=38 Score=14.75 Aligned_cols=18 Identities=22% Similarity=0.362 Sum_probs=11.8
Q ss_pred HHHHHHHHhCCCCcCHHh
Q 038287 66 MRLVSALSDSGFKPDCFV 83 (91)
Q Consensus 66 ~~~~~~m~~~g~~p~~~~ 83 (91)
.++..++.+.|+.|-++|
T Consensus 9 ~eL~~~L~~~G~~~gPIt 26 (44)
T smart00540 9 AELRAELKQYGLPPGPIT 26 (44)
T ss_pred HHHHHHHHHcCCCCCCcC
Confidence 356667777777776655
No 340
>PF07304 SRA1: Steroid receptor RNA activator (SRA1); InterPro: IPR009917 This entry consists of several hypothetical mammalian steroid receptor RNA activator proteins. The SRA-RNAs encode stable proteins that are widely expressed and upregulated in breast cancer cell lines. SRA-RNA is a steroid receptor co-activator which acts as a functional RNA. This domain is also found at the C terminus of Sec31, a component of the coat protein complex II (COPII, which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). COPII has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. ; PDB: 2YRU_A.
Probab=34.71 E-value=88 Score=17.60 Aligned_cols=42 Identities=10% Similarity=0.142 Sum_probs=24.7
Q ss_pred HHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 33 VDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 33 ~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
|+++... .+..++..--.-+....+.++++.|.+++..+...
T Consensus 78 fd~ln~g-~Ls~~v~~~L~~L~~aL~~~d~~~A~~Ih~~L~t~ 119 (157)
T PF07304_consen 78 FDHLNNG-KLSKPVVDKLHQLAQALQARDYDAADEIHVDLMTD 119 (157)
T ss_dssp HHHHHHT--S-HHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHS
T ss_pred HHHHhcC-CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 4444332 45445444444445556778999999999998754
No 341
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=34.24 E-value=66 Score=15.97 Aligned_cols=40 Identities=15% Similarity=0.014 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHH
Q 038287 26 LTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRL 68 (91)
Q Consensus 26 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~ 68 (91)
.+++..++..=.++.| ...|...++.++.+.|.-+.|.++
T Consensus 46 ~eq~~~mL~~W~~r~g---~~AT~~~L~~aL~~~~~~diae~l 85 (86)
T cd08318 46 KMQAKQLLVAWQDREG---SQATPETLITALNAAGLNEIAESL 85 (86)
T ss_pred HHHHHHHHHHHHHhcC---ccccHHHHHHHHHHcCcHHHHHhh
Confidence 3445555555444322 334667777777777766555554
No 342
>PHA02265 hypothetical protein
Probab=34.01 E-value=69 Score=16.16 Aligned_cols=33 Identities=15% Similarity=0.123 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHhhCCCCccHHhHHHHHHHHHcc
Q 038287 27 TTVYNFVDQMRASLGIKPNLVTYTILIDNVCNT 59 (91)
Q Consensus 27 ~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ 59 (91)
+.-.+++.+|+...+.-|..+..++--.|..-.
T Consensus 4 ~k~~~i~~~mk~el~~~p~~v~~tsk~~a~~i~ 36 (103)
T PHA02265 4 DKLRAIYTEMKVELHKFPKEVDITSKSTAIAIN 36 (103)
T ss_pred hHHHHHHHHHHHHhccCCCccccccchhHHHHH
Confidence 455678999988777777666655554444433
No 343
>COG2987 HutU Urocanate hydratase [Amino acid transport and metabolism]
Probab=33.96 E-value=35 Score=23.02 Aligned_cols=47 Identities=21% Similarity=0.388 Sum_probs=30.6
Q ss_pred cCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHh
Q 038287 23 CRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFV 83 (91)
Q Consensus 23 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~ 83 (91)
...+++|+++-++-... + +|-. -|-.-.|-+++.++.++|+.||..|
T Consensus 216 a~~ldeAl~~a~~~~~a-g-~p~S------------Igl~GNaaei~~~l~~r~~~pD~vt 262 (561)
T COG2987 216 AETLDEALALAEEATAA-G-EPIS------------IGLLGNAAEILPELLRRGIRPDLVT 262 (561)
T ss_pred cCCHHHHHHHHHHHHhc-C-CceE------------EEEeccHHHHHHHHHHcCCCCceec
Confidence 35666676666665543 2 2221 1234467889999999999999876
No 344
>PF14044 NETI: NETI protein
Probab=33.32 E-value=49 Score=15.35 Aligned_cols=16 Identities=13% Similarity=0.353 Sum_probs=11.5
Q ss_pred HHHHHHHHHhCCCCcC
Q 038287 65 AMRLVSALSDSGFKPD 80 (91)
Q Consensus 65 a~~~~~~m~~~g~~p~ 80 (91)
..+.+++|...|+.|-
T Consensus 10 I~~CL~RM~~eGY~Pv 25 (57)
T PF14044_consen 10 ISDCLARMKKEGYMPV 25 (57)
T ss_pred HHHHHHHHHHcCCCce
Confidence 4467788888887763
No 345
>TIGR03362 VI_chp_7 type VI secretion-associated protein, VC_A0119 family. This protein family is one of two related families in type VI secretion systems that contain an ImpA-related N-terminal domain (pfam06812).
Probab=33.28 E-value=1.3e+02 Score=19.02 Aligned_cols=56 Identities=14% Similarity=0.151 Sum_probs=37.1
Q ss_pred HHHHhcCChHHHHHHHHH-HHhhCCCCccHHhHH-HHHHHHHccCCHHHHHHHHHHHHh
Q 038287 18 KCLCKCRSLTTVYNFVDQ-MRASLGIKPNLVTYT-ILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~-m~~~~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..+...+.++.|+..++. +... .-..+.+-+. .+.+.|.+.|..+.|..++.++.+
T Consensus 221 ~~l~~~~gl~~Al~~L~~~~~~~-~s~R~rf~~rL~~A~l~~~~g~~~lA~~ll~~L~~ 278 (301)
T TIGR03362 221 RALAAEGGLEAALQRLQQRLAQA-REPRERFHWRLLLARLLEQAGKAELAQQLYAALDQ 278 (301)
T ss_pred HHHHHcCCHHHHHHHHHhhcccC-CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 455677889999999987 4322 1122333333 445667788999999888888764
No 346
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=33.11 E-value=1.6e+02 Score=20.07 Aligned_cols=48 Identities=21% Similarity=0.176 Sum_probs=34.8
Q ss_pred HHHhcCChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHH
Q 038287 19 CLCKCRSLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLV 69 (91)
Q Consensus 19 ~~~~~~~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~ 69 (91)
.+.+.+++++|.=.|+... .+.| +..+|.-++.+|-..+.+++|.-+-
T Consensus 343 lL~~~~R~~~A~IaFR~Aq---~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~A 391 (564)
T KOG1174|consen 343 LLIALERHTQAVIAFRTAQ---MLAPYRLEIYRGLFHSYLAQKRFKEANALA 391 (564)
T ss_pred HHHhccchHHHHHHHHHHH---hcchhhHHHHHHHHHHHHhhchHHHHHHHH
Confidence 3446678888887787765 4565 5778888888888888888875433
No 347
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=33.04 E-value=1.6e+02 Score=20.06 Aligned_cols=28 Identities=14% Similarity=-0.006 Sum_probs=13.8
Q ss_pred cHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 45 NLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
|..-...+-+++...|+-.+++..|+..
T Consensus 231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~ 258 (564)
T KOG1174|consen 231 NEHLMMALGKCLYYNGDYFQAEDIFSST 258 (564)
T ss_pred cHHHHHHHhhhhhhhcCchHHHHHHHHH
Confidence 3444445555555555555555544444
No 348
>PF07875 Coat_F: Coat F domain; InterPro: IPR012851 The Coat F proteins contribute to the Bacillales spore coat. They occur multiple times in the genomes in which they are found. Bacillus subtilis endospore protein coats protect them and may play a role in their germination []. Spore coat protein F, on the outer surface of the endospore, is one of a suite of proteins that could be used to differentiate between members of the Bacillus genus [].
Probab=32.94 E-value=58 Score=14.98 Aligned_cols=18 Identities=11% Similarity=0.248 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHhCCCCc
Q 038287 62 LREAMRLVSALSDSGFKP 79 (91)
Q Consensus 62 ~~~a~~~~~~m~~~g~~p 79 (91)
.+...++|+-|.+.|.-|
T Consensus 44 ~~~~~~l~~~m~~kGwY~ 61 (64)
T PF07875_consen 44 QQMQYELFNYMNQKGWYQ 61 (64)
T ss_pred HHHHHHHHHHHHHcCCcC
Confidence 446688999999988654
No 349
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=32.76 E-value=1.6e+02 Score=19.96 Aligned_cols=28 Identities=7% Similarity=-0.041 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRA 38 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~ 38 (91)
.+|..+-.+|++.|+.++|...++...+
T Consensus 113 ~A~yNLAcaya~LGr~dEAla~LrrALe 140 (453)
T PLN03098 113 AAYYNKACCHAYREEGKKAADCLRTALR 140 (453)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 4699999999999999999999999875
No 350
>cd01786 STE50_RA Ubiquitin-like domain of STE50_RA. STE50_RA The fungal adaptor protein STE50 is an essential component of three MAPK-mediated signalling pathways, which control the mating response, invasive/filamentous growth and osmotolerance (HOG pathway), respectively. STE50 functions in cell signalling between the activated G protein and STE11. The domain architecture of STE50 includes an amino-terminal SAM (sterile alpha motif) domain in addition to the carboxy-terminal ubiquitin-like RA (RAS-associated) domain. While the SAM domain interacts with STE11, the RA domain interacts with CDC42 and RAS. Modulation of signal transduction by STE50 specifically affects the pheromone-response pathway in yeast.
Probab=32.41 E-value=18 Score=18.61 Aligned_cols=53 Identities=9% Similarity=0.221 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccC----CHHHHHHHHHHHHhCCCCcC
Q 038287 27 TTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTK----NLREAMRLVSALSDSGFKPD 80 (91)
Q Consensus 27 ~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~----~~~~a~~~~~~m~~~g~~p~ 80 (91)
+-..+++....+++++.. |..-|..+| +|+... .-++-..+|.++.+.|.+|-
T Consensus 35 DpC~kVL~~Alkry~I~~~dW~~Y~L~I-~YgdqER~L~ldEKPl~lFk~L~~~g~~P~ 92 (98)
T cd01786 35 DSCEKILKNAMKRHNLNDQDWRQYVLVI-CYGDQERILDLDEKPVIIFKNLKQQGLHPA 92 (98)
T ss_pred CcHHHHHHHHHHHcCCChhhhhheEEEE-EeCCeeeeccccccHHHHHHHHHHcCCCCe
Confidence 456677777777677777 344444333 355442 34456789999999998874
No 351
>COG5210 GTPase-activating protein [General function prediction only]
Probab=32.23 E-value=1.4e+02 Score=20.15 Aligned_cols=48 Identities=8% Similarity=0.052 Sum_probs=36.1
Q ss_pred CCCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHH
Q 038287 3 FKQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTI 51 (91)
Q Consensus 3 ~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~ 51 (91)
..++.....++..++..+.+...++.+.++++.+... |..-....+.+
T Consensus 370 ~~~~~~~~~~~~w~l~lF~~~~p~e~~lriwD~lf~e-g~~~l~~~~~~ 417 (496)
T COG5210 370 REGVVLLMFAFRWFLTLFVREFPLEYALRIWDCLFLE-GSSMLFQLALA 417 (496)
T ss_pred HcCCchhhhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-ccHHHHHHHHH
Confidence 4566777888999999999999999999999998764 44333333333
No 352
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=32.06 E-value=1e+02 Score=17.42 Aligned_cols=37 Identities=14% Similarity=0.179 Sum_probs=16.6
Q ss_pred CCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 038287 41 GIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGF 77 (91)
Q Consensus 41 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~ 77 (91)
|+.++......+...+........+.++++.+.+.|+
T Consensus 73 g~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~~~g~ 109 (198)
T TIGR01428 73 GLEDDESAADRLAEAYLRLPPHPDVPAGLRALKERGY 109 (198)
T ss_pred CCCCCHHHHHHHHHHHhcCCCCCCHHHHHHHHHHCCC
Confidence 4443333333344444444444455555555554443
No 353
>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A.
Probab=31.36 E-value=60 Score=14.61 Aligned_cols=34 Identities=15% Similarity=0.115 Sum_probs=22.7
Q ss_pred HHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHH
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTIL 52 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~ 52 (91)
+--++.+.|++++|.+..+.+.+. .|+-.-.-.+
T Consensus 7 lAig~ykl~~Y~~A~~~~~~lL~~---eP~N~Qa~~L 40 (53)
T PF14853_consen 7 LAIGHYKLGEYEKARRYCDALLEI---EPDNRQAQSL 40 (53)
T ss_dssp HHHHHHHTT-HHHHHHHHHHHHHH---TTS-HHHHHH
T ss_pred HHHHHHHhhhHHHHHHHHHHHHhh---CCCcHHHHHH
Confidence 345678889999999999988764 7765443333
No 354
>PRK05094 dsDNA-mimic protein; Reviewed
Probab=31.18 E-value=89 Score=16.54 Aligned_cols=30 Identities=10% Similarity=0.424 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHH
Q 038287 27 TTVYNFVDQMRASLGIKP-NLVTYTILIDNVC 57 (91)
Q Consensus 27 ~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~ 57 (91)
+.|..+|-+|..+ ++.| +...||.-..-.+
T Consensus 14 d~AYDiFLE~A~d-NL~paDi~lFnlqFeerG 44 (107)
T PRK05094 14 EQAYDIFLELAAD-NLDPADILLFNLQFEERG 44 (107)
T ss_pred HHHHHHHHHhhhh-cCCHHHHHHHHHHHHhcC
Confidence 4455555555544 4444 3444544444333
No 355
>PF07064 RIC1: RIC1; InterPro: IPR009771 This entry represents RIC1 (Ribosomal control protein1) and has been identified in yeast as a Golgi protein involved in retrograde transport to the cis-Golgi network. It forms a heterodimer with Rgp1 and functions as a guanyl-nucleotide exchange factor [] which activates YPT6 by exchanging bound GDP for free GTP. RIC1 is thereby required for efficient fusion of endosome-derived vesicles with the Golgi. The RIC1-RGP1 complex participates in the recycling of SNC1, presumably by mediating fusion of endosomal vesicles with the Golgi compartment and may also be indirectly involved in the transcription of both ribosomal protein genes and ribosomal RNA [, , ].
Probab=31.01 E-value=1.3e+02 Score=18.47 Aligned_cols=60 Identities=13% Similarity=0.031 Sum_probs=39.4
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHhhCCCCc-----cHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 15 FLVKCLCKCRSLTTVYNFVDQMRASLGIKP-----NLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 15 ~li~~~~~~~~~~~a~~~~~~m~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.|+.-+.+.++++.|-.++--+....+... +...-.-++....+.++++.+.++.+-+..
T Consensus 184 dLf~~cl~~~~l~tAa~yLlVl~~~e~~~~~~~~~~~~~al~LL~~a~~~~~w~Lc~eL~RFL~~ 248 (258)
T PF07064_consen 184 DLFEECLENGNLKTAASYLLVLQNLEGSSVVKDEESRQCALRLLVMALESGDWDLCFELVRFLKA 248 (258)
T ss_pred HHHHHHHHcCcHHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence 455566667777777777666653322333 344455567777788889999888887764
No 356
>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]
Probab=30.90 E-value=1.3e+02 Score=18.18 Aligned_cols=66 Identities=11% Similarity=0.063 Sum_probs=43.5
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
|+...--.|-.+....|+..+|...|++-... -..-|.-..-.+.++....+++..+..+++++-+
T Consensus 87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e 152 (251)
T COG4700 87 PTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLME 152 (251)
T ss_pred hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Confidence 44444445566777788888888888877652 2334566666666777777777777777777653
No 357
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=30.48 E-value=86 Score=16.75 Aligned_cols=15 Identities=0% Similarity=0.182 Sum_probs=6.6
Q ss_pred CChHHHHHHHHHHHh
Q 038287 24 RSLTTVYNFVDQMRA 38 (91)
Q Consensus 24 ~~~~~a~~~~~~m~~ 38 (91)
++..++...++++..
T Consensus 28 ~d~~~~l~~~~~l~~ 42 (143)
T PF12169_consen 28 GDAAEALELLNELLE 42 (143)
T ss_dssp T-HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHH
Confidence 444444444444444
No 358
>KOG2672 consensus Lipoate synthase [Coenzyme transport and metabolism]
Probab=29.88 E-value=1.4e+02 Score=19.01 Aligned_cols=46 Identities=17% Similarity=0.308 Sum_probs=32.9
Q ss_pred ChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhC
Q 038287 25 SLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDS 75 (91)
Q Consensus 25 ~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~ 75 (91)
.+.+.++++.+.++ ..|+..|-+++|-+++... ++..+....++..
T Consensus 238 ~yrQSL~VLk~aK~---~~P~litktsiMlglgetd--eei~~tl~dLr~~ 283 (360)
T KOG2672|consen 238 NYRQSLSVLKHAKE---VKPGLITKTSIMLGLGETD--EEIKQTLKDLRAA 283 (360)
T ss_pred chHHhHHHHHHHHh---hCCCceehhhhhhccCCCH--HHHHHHHHHHHHc
Confidence 46788888888875 5899999999998887754 3444555555443
No 359
>KOG4567 consensus GTPase-activating protein [General function prediction only]
Probab=29.04 E-value=1.7e+02 Score=19.03 Aligned_cols=50 Identities=16% Similarity=0.391 Sum_probs=39.8
Q ss_pred CCCCcCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHcc
Q 038287 4 KQLPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNT 59 (91)
Q Consensus 4 ~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~ 59 (91)
.++.|.-+.|--+...+++.=.+.+.+.+|+.+..+ ..-|..++..||..
T Consensus 272 ~~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~sD------~~rfd~Ll~iCcsm 321 (370)
T KOG4567|consen 272 KEIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLSD------PQRFDFLLYICCSM 321 (370)
T ss_pred cCCCccchhHHHHHHHHhccCCchhHHHHHHHHhcC------hhhhHHHHHHHHHH
Confidence 467788888888888889999999999999999764 33388888877753
No 360
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=28.48 E-value=2e+02 Score=19.83 Aligned_cols=62 Identities=26% Similarity=0.366 Sum_probs=38.2
Q ss_pred HHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHH--------------ccCCHHHHHHHHHHHHhCCCCcCHHh
Q 038287 19 CLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVC--------------NTKNLREAMRLVSALSDSGFKPDCFV 83 (91)
Q Consensus 19 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~--------------~~~~~~~a~~~~~~m~~~g~~p~~~~ 83 (91)
+....|...++.++++.+... + .+.++...+-+..+ -.++..++...++++...|..|....
T Consensus 207 a~~a~Gs~RDalslLDq~i~~-~--~~~It~~~v~~~lG~~~~~~~~~~~~~i~~~d~~~~~~~~~~l~~~G~~~~~~l 282 (515)
T COG2812 207 ARAAEGSLRDALSLLDQAIAF-G--EGEITLESVRDMLGLTDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEAFL 282 (515)
T ss_pred HHHcCCChhhHHHHHHHHHHc-c--CCcccHHHHHHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcCHHHHH
Confidence 344557778888888887653 1 13333333332222 33678888888888888888776543
No 361
>KOG3036 consensus Protein involved in cell differentiation/sexual development [General function prediction only]
Probab=28.15 E-value=1.6e+02 Score=18.48 Aligned_cols=50 Identities=12% Similarity=0.012 Sum_probs=36.4
Q ss_pred CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 24 RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 24 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
.++-..-.++.+|....--.|+......++++|.+..+-..|...++.-.
T Consensus 210 eRF~av~~~L~kmv~~l~~~ps~RllKhviRcYlrLsdnprar~aL~~cl 259 (293)
T KOG3036|consen 210 ERFSAVALVLGKMVFQLVSMPSPRLLKHVIRCYLRLSDNPRARAALRSCL 259 (293)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHhcCCHHHHHHHHhhC
Confidence 45555666677776543347888899999999999988777777766554
No 362
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=28.00 E-value=99 Score=17.55 Aligned_cols=35 Identities=6% Similarity=0.062 Sum_probs=28.8
Q ss_pred CCCC-cCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 038287 4 KQLP-PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRA 38 (91)
Q Consensus 4 ~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~ 38 (91)
+|+. ++.-.|...+.+|.-..+.+.|.-++..++.
T Consensus 32 eGIa~~~dw~Ya~~L~~Yf~~dD~dnARfLWKRIP~ 67 (197)
T KOG4414|consen 32 EGIATHDDWPYAIHLAGYFLHDDCDNARFLWKRIPP 67 (197)
T ss_pred CCccCCCcchHHHHHHHHHHhccchhHHHHHHhCCH
Confidence 3555 6667899999999999999999999988764
No 363
>smart00777 Mad3_BUB1_I Mad3/BUB1 hoMad3/BUB1 homology region 1. Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of the binding of BUB1 and MAD3 to CDC20p.
Probab=27.96 E-value=1.1e+02 Score=16.58 Aligned_cols=17 Identities=18% Similarity=0.184 Sum_probs=10.1
Q ss_pred HHHHHHHHHhCCCCcCH
Q 038287 65 AMRLVSALSDSGFKPDC 81 (91)
Q Consensus 65 a~~~~~~m~~~g~~p~~ 81 (91)
..++|..|.+.|+.-..
T Consensus 82 p~~if~~L~~~~IG~~~ 98 (125)
T smart00777 82 PRELFQFLYSKGIGTKL 98 (125)
T ss_pred HHHHHHHHHHCCcchhh
Confidence 45667777666665443
No 364
>PF14066 DUF4256: Protein of unknown function (DUF4256)
Probab=27.96 E-value=46 Score=19.02 Aligned_cols=37 Identities=14% Similarity=0.266 Sum_probs=24.7
Q ss_pred HHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHh
Q 038287 46 LVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYN 85 (91)
Q Consensus 46 ~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~ 85 (91)
...|..+-...-.. .+-+..+.+|...|-+||++.|.
T Consensus 18 ~l~W~~V~~kL~~~---p~kLwsL~eME~TgGEPDVv~~d 54 (173)
T PF14066_consen 18 GLEWAKVQAKLEAN---PEKLWSLNEMERTGGEPDVVGYD 54 (173)
T ss_pred CCcHHHHHHHHHcC---hHHHHHHHHHHHhCCCCCeeeec
Confidence 34566665544332 24456678999999999998775
No 365
>cd08315 Death_TRAILR_DR4_DR5 Death domain of Tumor necrosis factor-Related Apoptosis-Inducing Ligand Receptors. Death Domain (DD) found in Tumor necrosis factor-Related Apoptosis-Inducing Ligand (TRAIL) Receptors. In mammals, this family includes TRAILR1 (also called DR4 or TNFRSF10A) and TRAILR2 (also called DR5, TNFRSF10B, or KILLER). They function as receptors for the cytokine TRAIL and are involved in apoptosis signaling pathways. TRAIL preferentially induces apoptosis in cancer cells while exhibiting little toxicity in normal cells. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=27.90 E-value=95 Score=15.86 Aligned_cols=48 Identities=13% Similarity=0.090 Sum_probs=32.4
Q ss_pred hHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 26 LTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 26 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
-++..+++..=..+ ....-|+..+++++.+.+.-..|.++-+.+.+.|
T Consensus 47 ~eq~~qmL~~W~~~---~G~~At~~~L~~aL~~~~~~~~Ae~I~~~l~~~~ 94 (96)
T cd08315 47 REQLYQMLLTWVNK---TGRKASVNTLLDALEAIGLRLAKESIQDELISSG 94 (96)
T ss_pred HHHHHHHHHHHHHh---hCCCcHHHHHHHHHHHcccccHHHHHHHHHHHcC
Confidence 45555555554443 2234568889999998888888888877777665
No 366
>PF14165 YtzH: YtzH-like protein
Probab=27.82 E-value=93 Score=15.82 Aligned_cols=41 Identities=12% Similarity=0.152 Sum_probs=23.5
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHH--HHHHccC
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILI--DNVCNTK 60 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~--~~~~~~~ 60 (91)
++|.-..+.++..++...|.....+.++ .-.++- -.|++.|
T Consensus 20 DccgTvsEcEQieRLvksLm~n~~i~~~--ik~~L~~Iy~ysq~G 62 (87)
T PF14165_consen 20 DCCGTVSECEQIERLVKSLMANPNIDAD--IKQTLEEIYSYSQNG 62 (87)
T ss_pred hccCcHHHHHHHHHHHHHHHcCCCcCHH--HHHHHHHHHHHHccC
Confidence 3444445667777888888775455444 344444 4455554
No 367
>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins. Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.
Probab=27.72 E-value=1.4e+02 Score=17.59 Aligned_cols=42 Identities=14% Similarity=0.225 Sum_probs=25.5
Q ss_pred hHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCC
Q 038287 26 LTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSG 76 (91)
Q Consensus 26 ~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g 76 (91)
+++|...|+.... .+|+...|..-+.... +|-+++.++.+++
T Consensus 96 F~kA~~~FqkAv~---~~P~ne~Y~ksLe~~~------kap~lh~e~~~~~ 137 (186)
T PF06552_consen 96 FEKATEYFQKAVD---EDPNNELYRKSLEMAA------KAPELHMEIHKQG 137 (186)
T ss_dssp HHHHHHHHHHHHH---H-TT-HHHHHHHHHHH------THHHHHHHHHHSS
T ss_pred HHHHHHHHHHHHh---cCCCcHHHHHHHHHHH------hhHHHHHHHHHHH
Confidence 4555555555553 4899999999998764 3556666655443
No 368
>PF03790 KNOX1: KNOX1 domain ; InterPro: IPR005540 The MEINOX region is comprised of two domains, KNOX1 and KNOX2. KNOX1 plays a role in suppressing target gene expression. KNOX2, essential for function, is thought to be necessary for homo-dimerization [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=27.70 E-value=68 Score=14.11 Aligned_cols=27 Identities=22% Similarity=0.331 Sum_probs=17.7
Q ss_pred HHHHHHHHHHhc---CChHHHHHHHHHHHh
Q 038287 12 TYNFLVKCLCKC---RSLTTVYNFVDQMRA 38 (91)
Q Consensus 12 ~~~~li~~~~~~---~~~~~a~~~~~~m~~ 38 (91)
.|..|+.+|..| |-+.+....++++..
T Consensus 12 ~Y~~Ll~Ayi~C~KVGAP~e~~~~L~e~~~ 41 (45)
T PF03790_consen 12 LYPRLLAAYIDCQKVGAPPEVVARLDEILA 41 (45)
T ss_pred CcHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 467788887655 666666666666543
No 369
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=27.43 E-value=2e+02 Score=19.33 Aligned_cols=62 Identities=13% Similarity=-0.006 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhh----------------CCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRAS----------------LGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
-.+.++.-+-+.|-++.|+.+-+.-..+ -....+...|..+-+...+.|+++.|++.+.+..
T Consensus 297 ~~~~i~~fL~~~G~~e~AL~~~~D~~~rFeLAl~lg~L~~A~~~a~~~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~ 374 (443)
T PF04053_consen 297 QGQSIARFLEKKGYPELALQFVTDPDHRFELALQLGNLDIALEIAKELDDPEKWKQLGDEALRQGNIELAEECYQKAK 374 (443)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHSS-HHHHHHHHHHCT-HHHHHHHCCCCSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT
T ss_pred HHHHHHHHHHHCCCHHHHHhhcCChHHHhHHHHhcCCHHHHHHHHHhcCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc
Confidence 3667777777778888777774432221 1233467799999999999999999999887764
No 370
>PF11695 DUF3291: Domain of unknown function (DUF3291); InterPro: IPR021708 This bacterial family of proteins has no known function.
Probab=27.43 E-value=71 Score=17.74 Aligned_cols=23 Identities=17% Similarity=0.345 Sum_probs=11.4
Q ss_pred hHHHHHHHHHHHhhCCCCccHHhH
Q 038287 26 LTTVYNFVDQMRASLGIKPNLVTY 49 (91)
Q Consensus 26 ~~~a~~~~~~m~~~~~~~~~~~~~ 49 (91)
+++|.+-++.+... |..|..+||
T Consensus 114 ~~EA~~RL~~L~~h-Gps~~AFtf 136 (140)
T PF11695_consen 114 WQEAVERLEHLRDH-GPSPFAFTF 136 (140)
T ss_pred HHHHHHHHHHHHHh-CCCcccccC
Confidence 45555555555544 444444443
No 371
>PRK02301 putative deoxyhypusine synthase; Provisional
Probab=27.36 E-value=1.7e+02 Score=18.71 Aligned_cols=28 Identities=21% Similarity=0.208 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHhc----CChHHHHHHHHHHHh
Q 038287 11 FTYNFLVKCLCKC----RSLTTVYNFVDQMRA 38 (91)
Q Consensus 11 ~~~~~li~~~~~~----~~~~~a~~~~~~m~~ 38 (91)
.+...|++.|.+. +++.+|.+++++|..
T Consensus 23 ~~v~~l~~~~~~~gF~A~~l~~A~~i~~~ml~ 54 (316)
T PRK02301 23 MTVGELVREYGGAGFGAGRLAEAVDIYEEMLA 54 (316)
T ss_pred CcHHHHHHHHHhcCccHHHHHHHHHHHHHHHh
Confidence 4688899888864 578899999999974
No 372
>PF06252 DUF1018: Protein of unknown function (DUF1018); InterPro: IPR009363 This family consists of several bacterial and phage proteins, related to Gp16 of phage Mu, of unknown function.
Probab=27.04 E-value=1.1e+02 Score=16.15 Aligned_cols=33 Identities=18% Similarity=0.217 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHhc-----CChHHHHHHHHHHHhhCCCC
Q 038287 10 IFTYNFLVKCLCKC-----RSLTTVYNFVDQMRASLGIK 43 (91)
Q Consensus 10 ~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~ 43 (91)
..+|-.++...... -...++..++++|... |.+
T Consensus 3 dd~YR~~L~~~~Gk~S~k~lt~~el~~vl~~l~~~-G~k 40 (119)
T PF06252_consen 3 DDTYRALLQRVTGKSSSKDLTEAELEKVLDELKRL-GFK 40 (119)
T ss_pred HHHHHHHHHHHhChhhHHHCCHHHHHHHHHHHHHc-cCc
Confidence 34555555443221 1355666666666654 443
No 373
>COG1899 DYS1 Deoxyhypusine synthase [Posttranslational modification, protein turnover, chaperones]
Probab=27.00 E-value=73 Score=20.33 Aligned_cols=29 Identities=21% Similarity=0.293 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhc-----CChHHHHHHHHHHHhh
Q 038287 11 FTYNFLVKCLCKC-----RSLTTVYNFVDQMRAS 39 (91)
Q Consensus 11 ~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~ 39 (91)
.....+|+.|.+. +++.+|.+++++|.++
T Consensus 20 ~~~~eli~~~~~~~gF~a~~l~eA~~I~~~m~~~ 53 (318)
T COG1899 20 ISVSELIDEMYKTGGFQARRLAEAVEILREMLES 53 (318)
T ss_pred CcHHHHHHHHHhhccccchhHHHHHHHHHHHHhh
Confidence 4677888866555 4789999999999876
No 374
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.81 E-value=38 Score=22.52 Aligned_cols=25 Identities=16% Similarity=0.430 Sum_probs=20.1
Q ss_pred CCHHHHHHHHHHHHh--CCCCcCHHhH
Q 038287 60 KNLREAMRLVSALSD--SGFKPDCFVY 84 (91)
Q Consensus 60 ~~~~~a~~~~~~m~~--~g~~p~~~~~ 84 (91)
|+..+..++|++|++ .-+.||...+
T Consensus 193 GRh~qe~sLfeEM~~v~~ai~Pd~vi~ 219 (483)
T KOG0780|consen 193 GRHKQEASLFEEMKQVSKAIKPDEIIF 219 (483)
T ss_pred CchhhhHHHHHHHHHHHhhcCCCeEEE
Confidence 678888899999974 5688987665
No 375
>TIGR01503 MthylAspMut_E methylaspartate mutase, E subunit. This model represents the E (epsilon) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=26.53 E-value=57 Score=22.01 Aligned_cols=47 Identities=11% Similarity=0.044 Sum_probs=35.1
Q ss_pred CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 24 RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 24 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
+.+++..++++.+.+.. .+| ..+.-+++|.+.++.+.|.+.+++=.+
T Consensus 68 ~~~~e~i~lL~~l~~~g--~ad--~lp~TIDSyTR~n~y~~A~~~l~~s~~ 114 (480)
T TIGR01503 68 ALLDEHIELLRTLQEEG--GAD--FLPSTIDAYTRQNRYDEAAVGIKESIK 114 (480)
T ss_pred CcHHHHHHHHHHHHHcc--CCC--ccceeeecccccccHHHHHHHHHhhhh
Confidence 46788889999988752 233 345568999999999999887776543
No 376
>cd04438 DEP_dishevelled DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in dishevelled-like proteins. Dishevelled-like proteins play a key role in the transduction of the Wnt signal from the cell surface to the nucleus, which in turn is an important regulatory pathway for cellular development and growth. They contain an N-terminal DIX domain, a central PDZ domain, and a C-terminal DEP domain.
Probab=26.41 E-value=97 Score=15.44 Aligned_cols=26 Identities=31% Similarity=0.452 Sum_probs=17.3
Q ss_pred HHHHHHccCCHHHHHHHHHHHHhCCC
Q 038287 52 LIDNVCNTKNLREAMRLVSALSDSGF 77 (91)
Q Consensus 52 ~~~~~~~~~~~~~a~~~~~~m~~~g~ 77 (91)
+++-+......++|..+...+.+.|+
T Consensus 39 L~~~~~~~~~R~eAv~~g~~Ll~~G~ 64 (84)
T cd04438 39 LLSHVEGLTDRREARKYASSLLKLGY 64 (84)
T ss_pred HHHhCCCCCCHHHHHHHHHHHHHCCc
Confidence 44434334567788888888887775
No 377
>cd04449 DEP_DEPDC5-like DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in DEPDC5-like proteins. DEPDC5, in human also known as KIAA0645, is a DEP domain containing protein of unknown function.
Probab=26.03 E-value=96 Score=15.25 Aligned_cols=19 Identities=26% Similarity=0.382 Sum_probs=15.2
Q ss_pred cCCHHHHHHHHHHHHhCCC
Q 038287 59 TKNLREAMRLVSALSDSGF 77 (91)
Q Consensus 59 ~~~~~~a~~~~~~m~~~g~ 77 (91)
....++|.++...|.+.|+
T Consensus 46 ~~~r~eAv~lgq~Ll~~g~ 64 (83)
T cd04449 46 VDTREEAVELGQELMNEGL 64 (83)
T ss_pred CCCHHHHHHHHHHHHHCCC
Confidence 4567889999999988775
No 378
>PRK02492 deoxyhypusine synthase-like protein; Provisional
Probab=25.98 E-value=1.3e+02 Score=19.46 Aligned_cols=59 Identities=15% Similarity=0.215 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhc----CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCC
Q 038287 11 FTYNFLVKCLCKC----RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSDSGF 77 (91)
Q Consensus 11 ~~~~~li~~~~~~----~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~ 77 (91)
.++..|++.|.+. +++.+|.+++++|.++ ++...|-.+-.+...+| ..+++..|.++|+
T Consensus 24 ~~v~~Lv~~~~~~gF~A~~L~~A~~i~~~Ml~~----~~~~ifL~~tgamvsaG----lr~~i~~Li~~~~ 86 (347)
T PRK02492 24 FDAVPIIDAMGKMAFQSRDLARAADIYDMMLQD----KECAVILTLAGSLSSAG----CMQVYIDLVRNNM 86 (347)
T ss_pred CCHHHHHHHHHHhCccHHHHHHHHHHHHHHHhC----CCCeEEEEeccchHHHH----HHHHHHHHHHcCC
Confidence 3777788777764 4677777778877542 34333333333322222 2356666766654
No 379
>PF08771 Rapamycin_bind: Rapamycin binding domain; InterPro: IPR009076 Rapamycin and FK506 are potent immunosuppressive agents that bind to the FK506-binding protein (FKBP12), inhibiting its peptidyl-prolyl isomerase activity. The rapamycin-FKBP12 complex can then bind to and inhibit the FKBP12-rapamycin-associated protein (FRAP) in humans and RAFT1 in rats, causing cell-cycle arrest []. The FK506-FKBP12 complex cannot bind FRAP, but can bind to and inhibit calcineurin. Rapamycin is able to bind to two proteins, FKBP12 and FRAP, by simultaneously occupying two hydrophobic binding pockets, thereby linking these two proteins together to form a dimer []. The structure of the FKBP12-rapamycin-binding domain of FRAP consists of a core bundle of four helices arranged up-and-down in a left-handed twist. FRAP has been shown to interact in vitro with CLIP-170, a protein involved in microtubule organisation and function []. FRAP is thought to act as a kinase to phosphorylate CLIP-170, thereby regulating its binding to microtubules. FRAP is also thought to cooperate with p85/p110 phosphatidylinositol 3-kinase (PI3K) to induce the activation of the serine/threonine kinase p70 S6 kinase (p70S6K), which in turn phosphorylates the 40S ribosomal protein S6, thereby altering the translation of ribosomal proteins and translation elongation factors [].; GO: 0016772 transferase activity, transferring phosphorus-containing groups; PDB: 2NPU_A 2RSE_B 4FAP_B 1AUE_A 2GAQ_A 1FAP_B 2FAP_B 3FAP_B 1NSG_B.
Probab=25.87 E-value=1.1e+02 Score=15.79 Aligned_cols=54 Identities=9% Similarity=0.198 Sum_probs=28.3
Q ss_pred HHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 18 KCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 18 ~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
..|...++.+.+..+++.+-+...-.|.+..=......|++ ++.+|.+.+.+-.
T Consensus 22 ~~y~~~~n~~~m~~~L~pLh~~l~k~PeT~~E~~F~~~fg~--~L~~A~~~~~~y~ 75 (100)
T PF08771_consen 22 RLYFGENNVEKMFKILEPLHEMLEKGPETLREVSFAQAFGR--DLQEAREWLKRYE 75 (100)
T ss_dssp HHHHTTT-HHHHHHHHHHHHHHHHHS-SSHHHHHHHHHHHH--HHHHHHHHHHHHH
T ss_pred HHHHhhcCHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHHHHHHHh
Confidence 34556778888888777554421113544444444555554 4555655555443
No 380
>cd08332 CARD_CASP2 Caspase activation and recruitment domain of Caspase-2. Caspase activation and recruitment domain (CARD) similar to that found in caspase-2. Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. Caspase-2 (also known as ICH1, NEDD2, or CASP2) is one of the most evolutionarily conserved caspases, and plays a role in apoptosis, DNA damage response, cell cycle regulation, and tumor suppression. It is localized in the nucleus and exhibits properties of both an initiator and an effector caspase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and
Probab=25.84 E-value=1e+02 Score=15.50 Aligned_cols=33 Identities=6% Similarity=0.176 Sum_probs=21.8
Q ss_pred CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCC
Q 038287 24 RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKN 61 (91)
Q Consensus 24 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (91)
.+.+++..+++.++.+ +...|....+++-..+.
T Consensus 48 t~~~k~~~Lld~L~~R-----G~~AF~~F~~aL~~~~~ 80 (90)
T cd08332 48 TSFSQNVALLNLLPKR-----GPRAFSAFCEALRETSQ 80 (90)
T ss_pred CcHHHHHHHHHHHHHh-----ChhHHHHHHHHHHhcCh
Confidence 4567777777777754 45567777777766554
No 381
>PRK14529 adenylate kinase; Provisional
Probab=25.78 E-value=1.6e+02 Score=17.67 Aligned_cols=45 Identities=22% Similarity=0.354 Sum_probs=31.7
Q ss_pred hhCCCCccHHhHHHHHHHHHcc-----------CCHHHHHHHHHHHHhCCCCcCHH
Q 038287 38 ASLGIKPNLVTYTILIDNVCNT-----------KNLREAMRLVSALSDSGFKPDCF 82 (91)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~-----------~~~~~a~~~~~~m~~~g~~p~~~ 82 (91)
.+....|+..+...+.+...+. +..++|..+...+...|..|+.+
T Consensus 54 ~~G~lvpdei~~~lv~~~l~~~~~~g~iLDGfPRt~~Qa~~l~~~l~~~~~~~~~v 109 (223)
T PRK14529 54 DRGDLVPDDITIPMILETLKQDGKNGWLLDGFPRNKVQAEKLWEALQKEGMKLDYV 109 (223)
T ss_pred hccCcchHHHHHHHHHHHHhccCCCcEEEeCCCCCHHHHHHHHHHHHhcCCCCCEE
Confidence 3347788888888887777553 35778888776666667777753
No 382
>cd08812 CARD_RIG-I_like Caspase activation and recruitment domains found in RIG-I-like DEAD box helicases. Caspase activation and recruitment domains (CARDs) found in Retinoic acid Inducible Gene I (RIG-I)-like DEAD box helicases. These helicases, including MDA5 and RIG-I, contain two N-terminal CARD domains and a C-terminal DEAD box RNA helicase domain. They are cytoplasmic RNA helicases that play an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, RIG-I and MDA5 have been shown to recognize different sets of viruses. MDA5 and RIG-I associate with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mec
Probab=25.70 E-value=1e+02 Score=15.43 Aligned_cols=37 Identities=16% Similarity=0.312 Sum_probs=23.9
Q ss_pred cCChHHHHHHHHHHHh-hCCCCccHHhHHHHHHHHHccCCHHH
Q 038287 23 CRSLTTVYNFVDQMRA-SLGIKPNLVTYTILIDNVCNTKNLRE 64 (91)
Q Consensus 23 ~~~~~~a~~~~~~m~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 (91)
.|..+.|..+++.+.+ + .|+. |...++|.-++|....
T Consensus 47 ~g~~~aa~~Ll~~L~~~r---~~~w--f~~Fl~AL~~~g~~~l 84 (88)
T cd08812 47 KGNIAAAEELLDRLERCD---KPGW--FQAFLDALRRTGNDDL 84 (88)
T ss_pred cChHHHHHHHHHHHHHhc---cCCc--HHHHHHHHHHcCCccH
Confidence 3777777888887775 2 3443 6677777777765433
No 383
>PRK04841 transcriptional regulator MalT; Provisional
Probab=25.63 E-value=2.6e+02 Score=20.15 Aligned_cols=62 Identities=10% Similarity=-0.047 Sum_probs=41.8
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhC---C-CCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASL---G-IKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~---~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+.+-..+...|++++|...++...... + ...-..+...+...+...|++++|.+.+++...
T Consensus 494 ~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~ 559 (903)
T PRK04841 494 TSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQ 559 (903)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3445556677899999999988776420 1 111233455566677889999999988877653
No 384
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=25.54 E-value=8.8 Score=19.24 Aligned_cols=22 Identities=14% Similarity=0.273 Sum_probs=10.5
Q ss_pred CCCCccHHhHHHHHHHHHccCC
Q 038287 40 LGIKPNLVTYTILIDNVCNTKN 61 (91)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~~ 61 (91)
+.+..+..+|.+.+++|++.|.
T Consensus 18 YeLsk~~~vyRvFiNgYar~g~ 39 (88)
T PF11491_consen 18 YELSKNEAVYRVFINGYARNGF 39 (88)
T ss_dssp HTTTTTTTB------TTSS--E
T ss_pred HHhhcccceeeeeecccccceE
Confidence 4556678899999999999984
No 385
>KOG1166 consensus Mitotic checkpoint serine/threonine protein kinase [Cell cycle control, cell division, chromosome partitioning]
Probab=24.68 E-value=3.1e+02 Score=20.75 Aligned_cols=58 Identities=14% Similarity=0.184 Sum_probs=42.0
Q ss_pred hcCChHHHHHHHHHHHhhCCCCcc-HHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcC
Q 038287 22 KCRSLTTVYNFVDQMRASLGIKPN-LVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPD 80 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~ 80 (91)
....+.++..+|..|... |+... ...|-..-..+.+.+.+++|.++|..=++..-+|-
T Consensus 90 ~~e~~~d~~d~f~~m~~k-gIg~~lalfYe~~a~~lE~k~~~keA~~v~q~Giq~~aeP~ 148 (974)
T KOG1166|consen 90 LREELQDAEDFFSYLENK-GIGTTLALFYEAYAKHLERKEYFKEAKEVFQLGIQNKAEPL 148 (974)
T ss_pred HHHHHhhHHHHHHHHHhc-cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCH
Confidence 455678888899999876 66553 55577777777777888888888877665555553
No 386
>PHA01754 hypothetical protein
Probab=24.57 E-value=93 Score=14.61 Aligned_cols=16 Identities=25% Similarity=0.488 Sum_probs=11.1
Q ss_pred HHHHHHHHHHhCCCCc
Q 038287 64 EAMRLVSALSDSGFKP 79 (91)
Q Consensus 64 ~a~~~~~~m~~~g~~p 79 (91)
+..++.++|++..++|
T Consensus 48 EViKvvkemrr~~vkp 63 (69)
T PHA01754 48 EVVKVVKEMRRLQVKP 63 (69)
T ss_pred HHHHHHHHHHHcccCc
Confidence 3466778887776666
No 387
>TIGR01228 hutU urocanate hydratase. This model represents the second of four enzymes involved in the degradation of histidine to glutamate.
Probab=24.51 E-value=67 Score=21.99 Aligned_cols=23 Identities=26% Similarity=0.390 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHhCCCCcCHHhH
Q 038287 62 LREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 62 ~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
+-.+-+++.++.++|+.||..|=
T Consensus 232 ~GNaadv~~~l~~r~i~pDlvtD 254 (545)
T TIGR01228 232 LGNAAEVLPELLKRGVVPDVVTD 254 (545)
T ss_pred eccHHHHHHHHHHcCCCCCCcCC
Confidence 44677899999999999998663
No 388
>cd08340 DED_c-FLIP_repeat2 Death Effector Domain, repeat 2, of cellular FLICE-Inhibitory Protein. Death Effector Domain (DED), repeat 2, similar to that found in cellular FLICE-inhibitory protein (c-FLIP/CASH, also known as Casper/iFLICE/FLAME-1/CLARP/MRIT/usurpin). c-FLIP is a catalytically inactive homolog of the initator procaspases-8 and -10. It negatively influences apoptotic signaling by interfering with the efficient formation of the Death Inducing Signalling Complex (DISC). At low levels, c-FLIP has been shown to enhance apoptotic signaling by allosterically activating caspase-8. As a modulator of the initiator caspases, c-FLIP regulates life and death in various types of cells and tissues. All members contain two N-terminal DEDs and a C-terminal pseudo-caspase domain. DEDs comprise a subfamily of the Death Domain (DD) superfamily. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-as
Probab=24.08 E-value=82 Score=15.57 Aligned_cols=21 Identities=19% Similarity=0.257 Sum_probs=13.9
Q ss_pred CHHHHHHHHHHHHhCC-CCcCH
Q 038287 61 NLREAMRLVSALSDSG-FKPDC 81 (91)
Q Consensus 61 ~~~~a~~~~~~m~~~g-~~p~~ 81 (91)
....+.++|.+|.+.| +.|+.
T Consensus 37 ~~~s~l~lf~~Lek~~~l~~~n 58 (81)
T cd08340 37 KDKSFLELVLELEKLNLVSPNK 58 (81)
T ss_pred ccCCHHHHHHHHHhcCCCCCcc
Confidence 3455677888887765 56653
No 389
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=23.82 E-value=2.5e+02 Score=19.27 Aligned_cols=41 Identities=17% Similarity=0.099 Sum_probs=30.7
Q ss_pred cHHhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHHhHhhh
Q 038287 45 NLVTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCFVYNTI 87 (91)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l 87 (91)
+...|.++--.....|++++|...+++....+ |+...|..+
T Consensus 419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~l 459 (517)
T PRK10153 419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLL 459 (517)
T ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHH
Confidence 45667777666667899999999999998765 666666544
No 390
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=23.67 E-value=1.2e+02 Score=15.48 Aligned_cols=61 Identities=8% Similarity=0.058 Sum_probs=35.4
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccC--CHHHHHHHHHHHHhCC
Q 038287 13 YNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTK--NLREAMRLVSALSDSG 76 (91)
Q Consensus 13 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~--~~~~a~~~~~~m~~~g 76 (91)
...++.-|...++.++|...+.++... .. .......++.++.+.+ ..+....++..+.+.+
T Consensus 5 i~~~l~ey~~~~D~~ea~~~l~~L~~~-~~--~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~~ 67 (113)
T smart00544 5 IFLIIEEYLSSGDTDEAVHCLLELKLP-EQ--HHEVVKVLLTCALEEKRTYREMYSVLLSRLCQAN 67 (113)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHhCCC-cc--hHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHcC
Confidence 345677888889999999999988642 21 1222333444444432 3344456666665443
No 391
>TIGR03581 EF_0839 conserved hypothetical protein EF_0839/AHA_3917. Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. The function is unknown.
Probab=23.63 E-value=1.8e+02 Score=17.70 Aligned_cols=63 Identities=16% Similarity=0.261 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHhcC---------ChHHHHHHHHHHHhhCCCCc-cHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 10 IFTYNFLVKCLCKCR---------SLTTVYNFVDQMRASLGIKP-NLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 10 ~~~~~~li~~~~~~~---------~~~~a~~~~~~m~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
..-|-.+-.++++.| +.+.-.++++...+. |++. =...|+++|+.-.-.-++++..+++..++
T Consensus 163 leE~~avA~aca~~g~~lEPTGGIdl~Nf~~I~~i~lda-Gv~kviPHIYssiIDk~tG~TrpedV~~l~~~~k 235 (236)
T TIGR03581 163 LEEYAAVAKACAKHGFYLEPTGGIDLDNFEEIVQIALDA-GVEKVIPHVYSSIIDKETGNTRVEDVKQLLAIVK 235 (236)
T ss_pred HHHHHHHHHHHHHcCCccCCCCCccHHhHHHHHHHHHHc-CCCeeccccceeccccccCCCCHHHHHHHHHHhh
Confidence 344666667777665 344555555555554 4432 34557777766555556777777776553
No 392
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=23.62 E-value=1.9e+02 Score=17.95 Aligned_cols=34 Identities=21% Similarity=0.186 Sum_probs=23.5
Q ss_pred HhHHHHHHHHHccCCHHHHHHHHHHHHhCCCCcCHH
Q 038287 47 VTYTILIDNVCNTKNLREAMRLVSALSDSGFKPDCF 82 (91)
Q Consensus 47 ~~~~~~~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~ 82 (91)
..|. ++++... |+...|.++++.+...|..|-..
T Consensus 202 ~if~-l~dai~~-~~~~~A~~~l~~L~~~g~~p~~i 235 (326)
T PRK07452 202 NSLQ-LADALLQ-GNTGKALALLDDLLDANEPALRI 235 (326)
T ss_pred cHHH-HHHHHHC-CCHHHHHHHHHHHHHCCCcHHHH
Confidence 4454 6665554 77888888888888877776443
No 393
>PRK05414 urocanate hydratase; Provisional
Probab=23.36 E-value=73 Score=21.91 Aligned_cols=23 Identities=26% Similarity=0.439 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHhCCCCcCHHhH
Q 038287 62 LREAMRLVSALSDSGFKPDCFVY 84 (91)
Q Consensus 62 ~~~a~~~~~~m~~~g~~p~~~~~ 84 (91)
+-.+-+++.++.++|+.||..|=
T Consensus 241 ~GNaadv~~~l~~~~i~pDlvtD 263 (556)
T PRK05414 241 LGNAADVLPELVRRGIRPDLVTD 263 (556)
T ss_pred eccHHHHHHHHHHcCCCCCccCc
Confidence 44677899999999999998663
No 394
>cd00215 PTS_IIA_lac PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. This family of proteins normally function as a homotrimer, stabilized by a centrally located metal ion. Separation into subunits is thought to occur after phosphorylation.
Probab=23.22 E-value=1.2e+02 Score=15.56 Aligned_cols=19 Identities=11% Similarity=0.190 Sum_probs=14.9
Q ss_pred HhcCChHHHHHHHHHHHhh
Q 038287 21 CKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 21 ~~~~~~~~a~~~~~~m~~~ 39 (91)
++.|++++|.+++++-.+.
T Consensus 26 a~~g~fe~A~~~l~ea~~~ 44 (97)
T cd00215 26 AKEGDFAEAEELLEEANDS 44 (97)
T ss_pred HHcCCHHHHHHHHHHHHHH
Confidence 6778899998888876653
No 395
>TIGR01561 gde_arch glycogen debranching enzyme, archaeal type, putative. The seed for this model is composed of two uncharacterized archaeal proteins from Methanosarcina acetivorans and Sulfolobus solfataricus. Trusted cutoff is set so that essentially only archaeal members hit the model. The notable exceptions to archaeal membership are the Gram positive Clostridium perfringens which scores much better than some other archaea and the Cyanobacterium Nostoc sp. which scores just above the trusted cutoff. Noise cutoff is set to exclude the characterized eukaryotic glycogen debranching enzyme in S. cerevisiae. These cutoffs leave the prokaryotes Porphyromonas gingivalis and Deinococcus radiodurans below trusted but above noise. Multiple alignments including these last two species exhibit sequence divergence which may suggest a subtly different function for these prokaryotic proteins.
Probab=22.86 E-value=2.6e+02 Score=19.58 Aligned_cols=37 Identities=16% Similarity=0.212 Sum_probs=28.3
Q ss_pred cHHhHHHHHHHHHccCCHHHHHHHHHHHH---hCCCCcCH
Q 038287 45 NLVTYTILIDNVCNTKNLREAMRLVSALS---DSGFKPDC 81 (91)
Q Consensus 45 ~~~~~~~~~~~~~~~~~~~~a~~~~~~m~---~~g~~p~~ 81 (91)
...|+-++-..+...|+.++|.+++..+. +.|..||.
T Consensus 295 GRDt~Isl~Gl~l~tgr~~~A~~iL~~fa~~~~~GliPN~ 334 (575)
T TIGR01561 295 GRDSFISLEGLLLIDKQFDEAKEAILKFANLCKRGLIPNN 334 (575)
T ss_pred hhHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhHCCCCCCc
Confidence 35567777777777899999988777664 67898885
No 396
>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins. Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane
Probab=22.86 E-value=2.2e+02 Score=18.22 Aligned_cols=55 Identities=13% Similarity=0.131 Sum_probs=31.0
Q ss_pred HHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHcc-----CCHHHHHHHH
Q 038287 14 NFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNT-----KNLREAMRLV 69 (91)
Q Consensus 14 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~a~~~~ 69 (91)
--.|-.|+|.+++..+.++-..=....+ ..+...|..+..-|-.. |.+++|+++.
T Consensus 122 eLCILLysKv~Ep~amlev~~~WL~~p~-Nq~lp~y~~vaELyLl~VLlPLG~~~eAeelv 181 (309)
T PF07163_consen 122 ELCILLYSKVQEPAAMLEVASAWLQDPS-NQSLPEYGTVAELYLLHVLLPLGHFSEAEELV 181 (309)
T ss_pred HHHHHHHHHhcCHHHHHHHHHHHHhCcc-cCCchhhHHHHHHHHHHHHhccccHHHHHHHH
Confidence 4445667777777776666555443211 12233366666665543 6677766654
No 397
>PRK01221 putative deoxyhypusine synthase; Provisional
Probab=22.81 E-value=1.3e+02 Score=19.17 Aligned_cols=26 Identities=12% Similarity=0.166 Sum_probs=12.6
Q ss_pred HHHHHHHHHHhc-----CChHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKC-----RSLTTVYNFVDQMR 37 (91)
Q Consensus 12 ~~~~li~~~~~~-----~~~~~a~~~~~~m~ 37 (91)
+...|++.|.+. +++.+|.+++++|.
T Consensus 21 ~~~~lv~~~~~~~gF~a~~l~~A~~i~~~ml 51 (312)
T PRK01221 21 SISDLIEVYRKIGGFMAGHIVRASEILKEMI 51 (312)
T ss_pred CHHHHHHHhhccCCcchHHHHHHHHHHHHHH
Confidence 445555555443 23445555555553
No 398
>PF02841 GBP_C: Guanylate-binding protein, C-terminal domain; InterPro: IPR003191 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma. GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function (IPR015894 from INTERPRO), and an alpha-helical finger-like C-terminal domain. Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.
Probab=22.72 E-value=2e+02 Score=17.87 Aligned_cols=64 Identities=11% Similarity=0.096 Sum_probs=33.2
Q ss_pred CCCCcCHH-HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHH
Q 038287 4 KQLPPDIF-TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSA 71 (91)
Q Consensus 4 ~~~~~~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~ 71 (91)
+|-.|+.. +|.++...=+.. -.+.|...|...... .+..+..|...+...+..+ ..+|..+|..
T Consensus 23 ~G~vP~iesa~~~~~e~e~~~-A~~~A~~~Y~~~m~~-~~~~P~~~~~eL~~~H~~~--~~~A~~~F~~ 87 (297)
T PF02841_consen 23 SGSVPCIESAWQAVAEAENRA-AVEKAVEHYEEQMEQ-RVKLPTETLEELLELHEQC--EKEALEVFMK 87 (297)
T ss_dssp TTS--BHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH-H--SS-SSHHHHHHHHHHH--HHHHHHHHHH
T ss_pred CCCCCCchHHHHHHHHHHHHH-HHHHHHHHHHHHHHH-HhCCCccCHHHHHHHHHHH--HHHHHHHHHH
Confidence 34445542 355554443322 236777777764443 2355555677777766554 5577777765
No 399
>cd02663 Peptidase_C19G A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=22.65 E-value=2e+02 Score=17.70 Aligned_cols=60 Identities=12% Similarity=0.159 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHc------cCCHHHHHHHHHHH
Q 038287 12 TYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCN------TKNLREAMRLVSAL 72 (91)
Q Consensus 12 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~------~~~~~~a~~~~~~m 72 (91)
-.|++|+++....-......+|..|... .......+-..++++..+ .+....|.|++..+
T Consensus 10 Y~NsvLQ~L~~~~l~~~L~~lf~~l~~~-~~~~~~isP~~f~~~l~~~~~~f~~~~QqDA~EFl~~l 75 (300)
T cd02663 10 YCNSVLQALYFENLLTCLKDLFESISEQ-KKRTGVISPKKFITRLKRENELFDNYMHQDAHEFLNFL 75 (300)
T ss_pred ehhHHHHHhhhHHHHHHHHHHHHHHHhC-CCCCeeECHHHHHHHHHhhcCCCCCCccccHHHHHHHH
Confidence 3578888887633344445577777653 111112222333333332 24456676655444
No 400
>PF10963 DUF2765: Protein of unknown function (DUF2765); InterPro: IPR024406 This family of proteins with no known function is found in phages and suspected prophages.
Probab=22.60 E-value=1.2e+02 Score=15.23 Aligned_cols=32 Identities=13% Similarity=0.240 Sum_probs=24.6
Q ss_pred CCcCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 038287 6 LPPDIFTYNFLVKCLCKCRSLTTVYNFVDQMR 37 (91)
Q Consensus 6 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~ 37 (91)
+.|+...||.+++.....+...-|..++....
T Consensus 12 F~pt~~~yn~yiN~~~~~nkVaPa~n~L~r~V 43 (83)
T PF10963_consen 12 FNPTPTAYNKYINEMAMDNKVAPAHNYLMRIV 43 (83)
T ss_pred eccCHHHHHHHHHHhccCCCchHHHHHHHHHc
Confidence 34888899999999888887777766666554
No 401
>COG2062 SixA Phosphohistidine phosphatase SixA [Signal transduction mechanisms]
Probab=22.55 E-value=71 Score=18.21 Aligned_cols=22 Identities=18% Similarity=0.308 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHhhCCCCccHHhH
Q 038287 27 TTVYNFVDQMRASLGIKPNLVTY 49 (91)
Q Consensus 27 ~~a~~~~~~m~~~~~~~~~~~~~ 49 (91)
.++..+-+.+... ++.||.+-.
T Consensus 32 ~ea~~~a~~L~~~-~~~~D~VL~ 53 (163)
T COG2062 32 KEAELVAAWLAGQ-GVEPDLVLV 53 (163)
T ss_pred HHHHHHHHHHHhc-CCCCCEEEe
Confidence 4556666666554 666665433
No 402
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=22.12 E-value=1.4e+02 Score=15.65 Aligned_cols=20 Identities=5% Similarity=-0.017 Sum_probs=15.0
Q ss_pred HHhcCChHHHHHHHHHHHhh
Q 038287 20 LCKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 20 ~~~~~~~~~a~~~~~~m~~~ 39 (91)
.++.|++++|.+.+++-.+.
T Consensus 30 ~ak~gdf~~A~~~l~eA~~~ 49 (104)
T PRK09591 30 AMREGNFDLAEQKLNQSNEE 49 (104)
T ss_pred HHHcCCHHHHHHHHHHHHHH
Confidence 35778888888888876653
No 403
>PF10428 SOG2: RAM signalling pathway protein; InterPro: IPR019487 The RAM signalling pathway regulates Ace2p transcription factor activity and cellular morphogenesis in Saccharomyces cerevisiae (Baker's yeast), and is thought to be conserved amongst eukaryotes []. This entry is found in one of the components of this pathway, the leucine-rich repeat-containing protein SOG2.
Probab=21.88 E-value=1.1e+02 Score=20.50 Aligned_cols=14 Identities=14% Similarity=0.067 Sum_probs=5.6
Q ss_pred ccHHhHHHHHHHHH
Q 038287 44 PNLVTYTILIDNVC 57 (91)
Q Consensus 44 ~~~~~~~~~~~~~~ 57 (91)
|.......++++|.
T Consensus 88 ~~~~~~~~v~~~c~ 101 (445)
T PF10428_consen 88 PSPRVNENVIRACQ 101 (445)
T ss_pred cchhhHHHHHHHHH
Confidence 33333444444433
No 404
>PF10474 DUF2451: Protein of unknown function C-terminus (DUF2451); InterPro: IPR019514 This protein is found in eukaryotes but its function is not known. The N-terminal domain of some members is PF10475 from PFAM (DUF2450).
Probab=21.81 E-value=2e+02 Score=17.40 Aligned_cols=47 Identities=17% Similarity=0.172 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhcC---ChHHHHHHHHH------HHhhCC--CCccHHhHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCR---SLTTVYNFVDQ------MRASLG--IKPNLVTYTILIDNVC 57 (91)
Q Consensus 11 ~~~~~li~~~~~~~---~~~~a~~~~~~------m~~~~~--~~~~~~~~~~~~~~~~ 57 (91)
.+.+.|+++|++.+ +-..|...++- +..--+ ..|+..-....++||-
T Consensus 132 ~~~~~Lveg~s~vkKCs~eGRalM~lD~q~~~~~le~l~~~~~~p~~~~Ve~YIKAyY 189 (234)
T PF10474_consen 132 FAFETLVEGYSRVKKCSNEGRALMQLDFQQLQNKLEKLSGIRPIPNREYVENYIKAYY 189 (234)
T ss_pred HHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHc
Confidence 34567888998654 33444443331 111112 3455544555556555
No 405
>cd02679 MIT_spastin MIT: domain contained within Microtubule Interacting and Trafficking molecules. This MIT domain sub-family is found in the AAA protein spastin, a probable ATPase involved in the assembly or function of nuclear protein complexes; spastins might also be involved in microtubule dynamics. The molecular function of the MIT domain is unclear.
Probab=21.72 E-value=87 Score=15.49 Aligned_cols=46 Identities=11% Similarity=0.025 Sum_probs=28.6
Q ss_pred hcCChHHHHHHHHHHHhh--CCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 22 KCRSLTTVYNFVDQMRAS--LGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 22 ~~~~~~~a~~~~~~m~~~--~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
..|+.++|..+|+.-... .|+..+.. ..+....++.|.++-+.|..
T Consensus 20 E~g~~e~Al~~Y~~gi~~l~eg~ai~~~-------~~~~~~~w~~ar~~~~Km~~ 67 (79)
T cd02679 20 EWGDKEQALAHYRKGLRELEEGIAVPVP-------SAGVGSQWERARRLQQKMKT 67 (79)
T ss_pred hcCCHHHHHHHHHHHHHHHHHHcCCCCC-------cccccHHHHHHHHHHHHHHH
Confidence 348899999998864432 13322221 23444568888888888864
No 406
>TIGR00823 EIIA-LAC phosphotransferase system enzyme II, lactose-specific, factor III. operon. While the Lac permeases consist of two polypeptide chains (IIA and IICB), the Chb permease of E. coli consists of three (IIA, IIB and IIC). In B. subtilis, a PTS permease similar to the Chb permease of E. coli is believed to transport lichenan (a b-1,3;1,4 glucan) degradation products, oligosaccharides of 2-4 glucose units. This model is specific for the IIA subunit of the Lac PTS family.
Probab=21.49 E-value=1.4e+02 Score=15.46 Aligned_cols=19 Identities=16% Similarity=0.228 Sum_probs=14.7
Q ss_pred HhcCChHHHHHHHHHHHhh
Q 038287 21 CKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 21 ~~~~~~~~a~~~~~~m~~~ 39 (91)
++.|++++|.+.++.-.+.
T Consensus 28 a~~gdfe~A~~~l~eA~~~ 46 (99)
T TIGR00823 28 AKAGDFAKARALVEQAGMC 46 (99)
T ss_pred HHcCCHHHHHHHHHHHHHH
Confidence 6778898888888876653
No 407
>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=21.42 E-value=2.3e+02 Score=18.09 Aligned_cols=23 Identities=13% Similarity=0.325 Sum_probs=12.5
Q ss_pred HHHHHHhcCChHHHHHHHHHHHh
Q 038287 16 LVKCLCKCRSLTTVYNFVDQMRA 38 (91)
Q Consensus 16 li~~~~~~~~~~~a~~~~~~m~~ 38 (91)
+..+|...|+.+.|..+++.++.
T Consensus 174 la~~~l~~g~~e~A~~iL~~lP~ 196 (304)
T COG3118 174 LAECLLAAGDVEAAQAILAALPL 196 (304)
T ss_pred HHHHHHHcCChHHHHHHHHhCcc
Confidence 44455555666555555555443
No 408
>PRK10454 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA; Provisional
Probab=21.31 E-value=1.5e+02 Score=15.86 Aligned_cols=19 Identities=21% Similarity=0.282 Sum_probs=14.3
Q ss_pred HhcCChHHHHHHHHHHHhh
Q 038287 21 CKCRSLTTVYNFVDQMRAS 39 (91)
Q Consensus 21 ~~~~~~~~a~~~~~~m~~~ 39 (91)
++.|++++|.++++.-.+.
T Consensus 42 Ak~gdfe~A~~~l~eA~e~ 60 (115)
T PRK10454 42 AKQGDFAAAKAMMDQSRMA 60 (115)
T ss_pred HHhCCHHHHHHHHHHHHHH
Confidence 5778888888888876653
No 409
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=21.17 E-value=1.2e+02 Score=14.54 Aligned_cols=57 Identities=9% Similarity=-0.047 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLV 69 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~ 69 (91)
..|..-.+-+...|++++|-++-..-+. |+-.+..|.+-.-..-...|...=....|
T Consensus 7 ~l~~~~F~~l~~~g~y~eAA~~AA~sP~--giLRt~~Ti~rFk~~p~~pGq~splL~YF 63 (66)
T PF13838_consen 7 DLYVQQFNELFSQGQYEEAAKVAANSPR--GILRTPETINRFKQVPAQPGQPSPLLQYF 63 (66)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHSGG--GTT-SHHHHHHHHTS---TTS--HHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhCcc--chhcCHHHHHHHHcCCCCCCCCCHHHHHH
Confidence 3466667777888999999888877764 67777777776665555555544333333
No 410
>PF04078 Rcd1: Cell differentiation family, Rcd1-like ; InterPro: IPR007216 Rcd1 (Required cell differentiation 1) -like proteins are found among a wide range of organisms []. Rcd1 was initially identified as an essential factor in nitrogen starvation-invoked differentiation in fission yeast. This results largely from a defect in nitrogen starvation-invoked induction of ste11+, a key transcriptional factor gene required for the onset of sexual development. It is one of the most conserved proteins in eukaryotes, and its mammalian homologue is expressed in a variety of differentiating tissues [, ]. The mammalian Rcd1 is a novel transcriptional cofactor and is critical for retinoic acid-induced differentiation of F9 mouse teratocarcinoma cells, at least in part, via forming complexes with retinoic acid receptor and activation transcription factor-2 (ATF-2) []. Two of the members in this family have been characterised as being involved in regulation of Ste11 regulated sex genes [, ].; PDB: 2FV2_B.
Probab=21.09 E-value=1.1e+02 Score=19.03 Aligned_cols=49 Identities=12% Similarity=0.059 Sum_probs=34.1
Q ss_pred CChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHH
Q 038287 24 RSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSAL 72 (91)
Q Consensus 24 ~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m 72 (91)
.++.....++..|.....-.|+..-.-.++++|.+..+-..|.+.++.-
T Consensus 181 eRf~av~~vL~~mV~~l~~~pS~RLLKhIIrCYlRLsdnprar~aL~~~ 229 (262)
T PF04078_consen 181 ERFFAVAMVLNKMVEQLVKQPSPRLLKHIIRCYLRLSDNPRAREALRQC 229 (262)
T ss_dssp HHHHHHHHHHHHHHHHHHHS--HHHHHHHHHHHHHHTTSTTHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHccCCChhHHHHHHHHHHHHccCHHHHHHHHHh
Confidence 3455666677777654334788899999999999998877777766654
No 411
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=21.02 E-value=2.2e+02 Score=17.65 Aligned_cols=23 Identities=9% Similarity=-0.026 Sum_probs=15.3
Q ss_pred CccHHhHHHHHHHHHccCCHHHH
Q 038287 43 KPNLVTYTILIDNVCNTKNLREA 65 (91)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~a 65 (91)
..|...|..++.||.-.|....+
T Consensus 194 ~Fd~~~Y~~v~~AY~lLgk~~~~ 216 (291)
T PF10475_consen 194 DFDPDKYSKVQEAYQLLGKTQSA 216 (291)
T ss_pred hCCHHHHHHHHHHHHHHhhhHHH
Confidence 45666777788887777754443
No 412
>PF09090 MIF4G_like_2: MIF4G like; InterPro: IPR015174 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 2", and is found in nuclear cap-binding proteins and eIF4G. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=20.78 E-value=2.1e+02 Score=17.35 Aligned_cols=62 Identities=6% Similarity=0.119 Sum_probs=38.8
Q ss_pred cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhh---CCCCccHHhHHHHHHHHHccCC--HHHHHHHH
Q 038287 8 PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRAS---LGIKPNLVTYTILIDNVCNTKN--LREAMRLV 69 (91)
Q Consensus 8 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~~~~~~~~~~~~~~~~~~~~--~~~a~~~~ 69 (91)
|-......++...-+....++...+++.+... .+..++..+...++.+++..|. +.....++
T Consensus 9 P~~~~a~~l~~~ir~k~~~eei~~~l~~i~~~~~~~~~~~~~~~i~v~~q~ll~~GSkS~SH~~~~l 75 (253)
T PF09090_consen 9 PFHALAQKLLDLIRKKAPPEEISELLEEIEEPAEEHGSDFDKFVIDVFVQCLLHIGSKSFSHVLSAL 75 (253)
T ss_dssp TTHHHHHHHHHHHHTT--HHHHHHHHTTS------------HHHHHHHHHHHHHHTTTSHHHHHHHH
T ss_pred ccHHHHHHHHHHHHcCCCHHHHHHHHHhccccccccccchhhHHHHHHHHHHHHhcCchHHHHHHHH
Confidence 66667778888888778888888888877653 2334567889999999998874 44444333
No 413
>KOG1873 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=20.52 E-value=3.6e+02 Score=19.93 Aligned_cols=67 Identities=18% Similarity=0.301 Sum_probs=40.6
Q ss_pred CCCC--cCHHHHHHHHHHHHhcCChHHHHHHHHHHHhhCC----CC-ccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 4 KQLP--PDIFTYNFLVKCLCKCRSLTTVYNFVDQMRASLG----IK-PNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 4 ~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
+|+. -++..||+.|+.++....+ ..++.+.... | |. |+.....-+......-|.+.-|.....+|.+
T Consensus 206 rGL~NLGNTCFFNavMQnL~qt~~L---~d~l~e~~~S-gt~v~I~~~~~s~l~~L~~el~~~g~lt~al~~~~e~~e 279 (877)
T KOG1873|consen 206 RGLTNLGNTCFFNAVMQNLAQTPAL---RDVLKEEKES-GTSVKIRPPLDSSLSPLFSELSSPGPLTYALANLLEMSE 279 (877)
T ss_pred cccccccchhhHHHHHHHHhhcHHH---HHHHHhhccC-CceeEecCccccchhhHHHhccCCcchhHHHHhhhhhhh
Confidence 4554 5778899999999977544 3455555543 3 43 3444555565666666666555544555543
No 414
>PF05853 DUF849: Prokaryotic protein of unknown function (DUF849); InterPro: IPR008567 This family consists of several hypothetical prokaryotic proteins with no known function.; PDB: 3C6C_A 2Y7G_B 2Y7F_B 2Y7D_D 2Y7E_B 3LOT_A 3FA5_B 3NO5_C 3E02_A 3E49_B ....
Probab=20.45 E-value=47 Score=20.42 Aligned_cols=24 Identities=25% Similarity=0.502 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHhCCCCcCHHhHh
Q 038287 62 LREAMRLVSALSDSGFKPDCFVYN 85 (91)
Q Consensus 62 ~~~a~~~~~~m~~~g~~p~~~~~~ 85 (91)
...+.++++.|.+.|++|....|+
T Consensus 125 ~~~~~~~~~~~~e~Gi~pe~ev~d 148 (272)
T PF05853_consen 125 PADARELARRMRERGIKPEIEVFD 148 (272)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEESS
T ss_pred HHHHHHHHHHHHHcCCeEEEEEEc
Confidence 566777888888888887766554
No 415
>PRK03911 heat-inducible transcription repressor; Provisional
Probab=20.45 E-value=2.3e+02 Score=17.65 Aligned_cols=49 Identities=8% Similarity=0.051 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCH
Q 038287 10 IFTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNL 62 (91)
Q Consensus 10 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (91)
.....+++..|.+.+.+-....+-+.. ++..+..|--..|....+.|-+
T Consensus 6 ~~IL~~iV~~Yi~t~~PVGSk~L~~~~----~l~~SsATIRn~m~~LE~~G~L 54 (260)
T PRK03911 6 DLLLDSIIQTYLQDNEPIGSNELKSLM----NLKISAATIRNYFKKLSDEGLL 54 (260)
T ss_pred HHHHHHHHHHHhccCCccCHHHHHHHc----CCCCCcHHHHHHHHHHHHCcCc
Confidence 346788999999999998888777765 4556666777777777777643
No 416
>PF04090 RNA_pol_I_TF: RNA polymerase I specific initiation factor; InterPro: IPR007224 The RNA polymerase I specific transcription initiation factor Rrn11 is a member of a multiprotein complex essential for the initiation of transcription by RNA polymerase I. Binding to the DNA template is dependent on the initial binding of other factors [].
Probab=20.44 E-value=2e+02 Score=17.04 Aligned_cols=62 Identities=6% Similarity=-0.022 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHhcCChHHHHHHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHH
Q 038287 11 FTYNFLVKCLCKCRSLTTVYNFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALS 73 (91)
Q Consensus 11 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~ 73 (91)
...+.++..+.-.|+++.|.+.|.-+....++..-. .|..=+.-..+.+......+.++.|.
T Consensus 42 ~~L~~lLh~~llr~d~~rA~Raf~lLiR~~~VDiR~-~W~iG~eIL~~~~~~~~~~~fl~~l~ 103 (199)
T PF04090_consen 42 RVLTDLLHLCLLRGDWDRAYRAFGLLIRCPEVDIRS-LWGIGAEILMRRGEQNSELEFLEWLI 103 (199)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHcCCCCChHh-cchHHHHHHHcCCCcchHHHHHHHHH
Confidence 446678888889999999999999988653443332 46666666666665555446665553
No 417
>PF01450 IlvC: Acetohydroxy acid isomeroreductase, catalytic domain; InterPro: IPR000506 Acetohydroxy acid isomeroreductase catalyses the conversion of acetohydroxy acids into dihydroxy valerates. This reaction is the second in the synthetic pathway of the essential branched side chain amino acids valine and isoleucine []. The enzyme forms a tetramer of similar but non-identical chains, and requires magnesium as a cofactor.; GO: 0004455 ketol-acid reductoisomerase activity, 0009082 branched chain family amino acid biosynthetic process, 0055114 oxidation-reduction process; PDB: 1QMG_A 1YVE_J 1NP3_C 1YRL_C 3FR8_B 3FR7_A.
Probab=20.30 E-value=1.4e+02 Score=16.55 Aligned_cols=20 Identities=15% Similarity=0.406 Sum_probs=11.0
Q ss_pred HHHHHHHHhCCCCcCHHhHh
Q 038287 66 MRLVSALSDSGFKPDCFVYN 85 (91)
Q Consensus 66 ~~~~~~m~~~g~~p~~~~~~ 85 (91)
...|+.|++.|+.|...-+.
T Consensus 25 ~~~Fe~lve~G~~pE~Ay~e 44 (145)
T PF01450_consen 25 EAGFETLVEAGYSPEIAYFE 44 (145)
T ss_dssp HHHHHHHHHTT--HHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHH
Confidence 45677777777776554443
No 418
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.19 E-value=4.1e+02 Score=20.39 Aligned_cols=43 Identities=12% Similarity=0.298 Sum_probs=32.6
Q ss_pred HHHHHHHhhCCCCccHHhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 038287 31 NFVDQMRASLGIKPNLVTYTILIDNVCNTKNLREAMRLVSALSD 74 (91)
Q Consensus 31 ~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~m~~ 74 (91)
.+|+++.+. .+.|...-.-.-|..+.+.+++++|.+++.+|..
T Consensus 983 ~L~~~L~~~-~LSp~~~~~L~~la~~i~~~~y~~a~~i~~~iat 1025 (1049)
T KOG0307|consen 983 ILFDKLRDG-TLSPPITDGLHQLAQSIKNRDYSEALQIHAQIAT 1025 (1049)
T ss_pred HHHHHHhcC-CcChHHHHHHHHHHHHHhhccHHHHHHHHHHHhh
Confidence 345555442 4778777776777778889999999999999984
Done!