Query 042276
Match_columns 71
No_of_seqs 115 out of 1807
Neff 10.2
Searched_HMMs 46136
Date Fri Mar 29 04:39:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042276.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042276hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13041 PPR_2: PPR repeat fam 99.9 1.2E-23 2.5E-28 94.0 6.3 50 18-67 1-50 (50)
2 PLN03218 maturation of RBCL 1; 99.8 7.6E-18 1.7E-22 109.5 8.8 67 3-69 490-556 (1060)
3 PLN03218 maturation of RBCL 1; 99.7 1E-17 2.2E-22 109.0 8.5 70 1-70 453-522 (1060)
4 PLN03077 Protein ECB2; Provisi 99.7 1.3E-16 2.7E-21 102.0 8.0 69 2-70 571-640 (857)
5 PLN03081 pentatricopeptide (PP 99.7 1.7E-16 3.6E-21 99.8 8.1 69 2-70 408-477 (697)
6 PLN03081 pentatricopeptide (PP 99.7 2.9E-16 6.2E-21 98.8 7.5 69 2-70 307-375 (697)
7 PF12854 PPR_1: PPR repeat 99.6 4.5E-16 9.7E-21 64.3 4.1 34 14-47 1-34 (34)
8 PLN03077 Protein ECB2; Provisi 99.6 1.5E-15 3.3E-20 97.2 8.0 69 2-70 270-338 (857)
9 TIGR00756 PPR pentatricopeptid 99.4 5E-13 1.1E-17 54.7 3.7 35 21-55 1-35 (35)
10 PF13812 PPR_3: Pentatricopept 99.3 4E-12 8.7E-17 51.9 3.9 33 21-53 2-34 (34)
11 PF13041 PPR_2: PPR repeat fam 99.3 7.1E-12 1.5E-16 55.5 3.6 32 1-32 19-50 (50)
12 PF01535 PPR: PPR repeat; Int 99.2 1.9E-11 4.1E-16 48.8 3.3 31 21-51 1-31 (31)
13 KOG4422 Uncharacterized conser 99.1 4.1E-10 8.9E-15 68.5 7.1 67 4-70 257-327 (625)
14 PF12854 PPR_1: PPR repeat 99.0 6.3E-10 1.4E-14 45.7 2.6 22 49-70 1-22 (34)
15 PF08579 RPM2: Mitochondrial r 98.9 7.6E-08 1.7E-12 49.3 8.4 66 3-68 43-117 (120)
16 PF06239 ECSIT: Evolutionarily 98.7 1.2E-07 2.5E-12 53.4 6.7 65 5-69 72-152 (228)
17 PF10037 MRP-S27: Mitochondria 98.3 3.8E-06 8.1E-11 51.5 6.9 65 3-67 121-185 (429)
18 KOG4422 Uncharacterized conser 98.2 6.1E-06 1.3E-10 50.9 5.9 66 2-71 224-289 (625)
19 PF10037 MRP-S27: Mitochondria 98.2 7.6E-06 1.6E-10 50.2 5.8 70 2-71 83-154 (429)
20 KOG3941 Intermediate in Toll s 98.1 2.7E-05 5.8E-10 46.0 6.4 65 5-69 92-172 (406)
21 PRK11788 tetratricopeptide rep 97.9 7.9E-05 1.7E-09 44.4 6.5 23 24-46 253-275 (389)
22 KOG4318 Bicoid mRNA stability 97.8 6.6E-05 1.4E-09 49.6 5.3 65 2-69 221-285 (1088)
23 PF14559 TPR_19: Tetratricopep 97.8 0.0003 6.5E-09 32.2 5.9 57 2-62 8-65 (68)
24 PRK11788 tetratricopeptide rep 97.7 0.00029 6.3E-09 42.0 7.0 68 2-70 197-264 (389)
25 KOG4318 Bicoid mRNA stability 97.7 5.9E-05 1.3E-09 49.8 3.4 64 6-70 11-98 (1088)
26 PF03704 BTAD: Bacterial trans 97.3 0.0061 1.3E-07 32.0 7.5 56 3-60 80-141 (146)
27 TIGR00756 PPR pentatricopeptid 97.1 0.00038 8.3E-09 27.5 1.8 19 2-20 17-35 (35)
28 TIGR02917 PEP_TPR_lipo putativ 97.0 0.011 2.3E-07 38.1 8.2 65 4-71 822-887 (899)
29 TIGR02917 PEP_TPR_lipo putativ 97.0 0.0084 1.8E-07 38.5 7.8 27 21-47 704-730 (899)
30 PF12921 ATP13: Mitochondrial 97.0 0.012 2.6E-07 30.7 7.1 54 14-67 46-100 (126)
31 PF13432 TPR_16: Tetratricopep 96.8 0.0098 2.1E-07 26.9 5.1 46 2-49 14-60 (65)
32 PF08579 RPM2: Mitochondrial r 96.7 0.019 4.2E-07 29.7 6.2 46 22-67 27-73 (120)
33 PF04733 Coatomer_E: Coatomer 96.7 0.038 8.3E-07 32.7 8.0 67 1-69 183-249 (290)
34 PF13812 PPR_3: Pentatricopept 96.7 0.0019 4.1E-08 25.4 1.9 17 2-18 18-34 (34)
35 PF12895 Apc3: Anaphase-promot 96.5 0.0038 8.2E-08 29.8 2.9 66 2-70 6-73 (84)
36 TIGR02552 LcrH_SycD type III s 96.5 0.038 8.3E-07 28.2 7.0 67 2-70 34-100 (135)
37 PF06239 ECSIT: Evolutionarily 96.4 0.0072 1.6E-07 34.5 3.8 35 3-37 121-155 (228)
38 PF12921 ATP13: Mitochondrial 96.2 0.055 1.2E-06 28.3 6.2 52 19-70 1-67 (126)
39 PRK15359 type III secretion sy 96.2 0.074 1.6E-06 28.1 7.1 66 2-70 41-107 (144)
40 COG3629 DnrI DNA-binding trans 96.1 0.13 2.8E-06 30.5 7.8 61 4-66 172-238 (280)
41 cd00189 TPR Tetratricopeptide 95.9 0.061 1.3E-06 24.5 6.6 67 2-70 17-83 (100)
42 PF09295 ChAPs: ChAPs (Chs5p-A 95.8 0.16 3.5E-06 31.5 7.8 66 3-71 218-284 (395)
43 PF13429 TPR_15: Tetratricopep 95.8 0.11 2.5E-06 30.0 6.9 67 2-70 127-195 (280)
44 PF13176 TPR_7: Tetratricopept 95.7 0.038 8.2E-07 22.3 3.6 26 22-47 1-26 (36)
45 PLN03088 SGT1, suppressor of 95.6 0.21 4.5E-06 30.3 7.7 66 2-70 19-85 (356)
46 PF13428 TPR_14: Tetratricopep 95.6 0.055 1.2E-06 22.7 3.9 28 22-49 3-30 (44)
47 PF14559 TPR_19: Tetratricopep 95.4 0.039 8.6E-07 24.9 3.3 39 31-71 2-41 (68)
48 TIGR02521 type_IV_pilW type IV 95.3 0.21 4.5E-06 27.0 7.6 30 20-49 169-198 (234)
49 PF11848 DUF3368: Domain of un 95.2 0.1 2.2E-06 22.7 4.8 38 27-64 9-46 (48)
50 TIGR02521 type_IV_pilW type IV 95.2 0.24 5.1E-06 26.8 7.8 29 20-48 65-93 (234)
51 PF02284 COX5A: Cytochrome c o 95.1 0.19 4.2E-06 25.6 6.6 57 7-64 32-88 (108)
52 PF13762 MNE1: Mitochondrial s 95.1 0.14 3E-06 27.6 5.2 50 19-68 78-128 (145)
53 PRK10747 putative protoheme IX 95.1 0.43 9.2E-06 29.3 8.5 64 3-70 312-376 (398)
54 PRK15174 Vi polysaccharide exp 94.8 0.61 1.3E-05 30.6 8.4 20 28-47 220-239 (656)
55 PF09976 TPR_21: Tetratricopep 94.7 0.29 6.3E-06 25.7 5.9 67 2-70 65-133 (145)
56 PF13374 TPR_10: Tetratricopep 94.6 0.13 2.7E-06 20.8 4.1 29 20-48 2-30 (42)
57 PF13429 TPR_15: Tetratricopep 94.6 0.17 3.7E-06 29.2 5.1 65 4-70 199-263 (280)
58 cd00923 Cyt_c_Oxidase_Va Cytoc 94.5 0.29 6.2E-06 24.8 6.9 58 6-64 28-85 (103)
59 PF03704 BTAD: Bacterial trans 94.4 0.35 7.5E-06 25.3 6.1 49 21-70 63-111 (146)
60 TIGR02795 tol_pal_ybgF tol-pal 94.4 0.28 6E-06 24.1 7.3 69 2-70 19-91 (119)
61 PRK12370 invasion protein regu 94.4 0.75 1.6E-05 29.5 7.9 45 3-49 356-401 (553)
62 KOG2003 TPR repeat-containing 94.3 0.69 1.5E-05 29.9 7.5 55 14-69 653-708 (840)
63 PF11663 Toxin_YhaV: Toxin wit 94.3 0.086 1.9E-06 28.1 3.1 24 3-28 113-136 (140)
64 PF11663 Toxin_YhaV: Toxin wit 94.2 0.066 1.4E-06 28.5 2.6 32 32-65 107-138 (140)
65 PRK15174 Vi polysaccharide exp 94.2 0.93 2E-05 29.8 8.1 44 3-48 94-138 (656)
66 PF13432 TPR_16: Tetratricopep 94.0 0.18 3.9E-06 22.6 3.7 41 28-70 5-46 (65)
67 TIGR00540 hemY_coli hemY prote 94.0 0.86 1.9E-05 28.1 8.3 65 4-70 318-385 (409)
68 PRK14574 hmsH outer membrane p 93.8 0.88 1.9E-05 30.9 7.7 69 2-70 309-382 (822)
69 KOG1915 Cell cycle control pro 93.8 0.42 9.2E-06 30.8 5.9 56 2-61 158-213 (677)
70 TIGR00990 3a0801s09 mitochondr 93.8 1 2.2E-05 29.2 7.7 65 2-70 144-209 (615)
71 KOG4570 Uncharacterized conser 93.8 0.34 7.3E-06 29.7 5.2 46 4-49 119-164 (418)
72 PRK10370 formate-dependent nit 93.7 0.67 1.5E-05 25.9 6.9 46 2-49 127-173 (198)
73 TIGR00990 3a0801s09 mitochondr 93.6 1.1 2.4E-05 28.9 7.8 28 20-47 433-460 (615)
74 PF13414 TPR_11: TPR repeat; P 93.4 0.35 7.5E-06 21.8 4.5 29 21-49 4-32 (69)
75 PRK10564 maltose regulon perip 93.4 0.34 7.3E-06 29.1 4.8 39 20-58 257-295 (303)
76 PRK12370 invasion protein regu 93.4 1.3 2.9E-05 28.4 7.7 45 2-48 389-434 (553)
77 PF13371 TPR_9: Tetratricopept 93.3 0.37 8.1E-06 21.9 6.3 52 2-57 12-64 (73)
78 PRK09782 bacteriophage N4 rece 93.3 1.3 2.9E-05 30.7 7.9 45 3-49 594-638 (987)
79 PRK10747 putative protoheme IX 93.2 1.2 2.6E-05 27.4 7.6 30 20-49 187-216 (398)
80 KOG2002 TPR-containing nuclear 93.0 0.099 2.1E-06 35.6 2.4 66 2-70 629-695 (1018)
81 PF04733 Coatomer_E: Coatomer 92.8 0.76 1.6E-05 27.3 5.7 67 2-71 148-217 (290)
82 PF13414 TPR_11: TPR repeat; P 92.7 0.47 1E-05 21.4 4.5 45 2-48 20-66 (69)
83 PF13929 mRNA_stabil: mRNA sta 92.7 1.3 2.9E-05 26.5 7.3 65 6-70 187-253 (292)
84 cd07153 Fur_like Ferric uptake 92.5 0.58 1.3E-05 23.6 4.5 45 25-69 5-49 (116)
85 PRK15359 type III secretion sy 92.5 0.88 1.9E-05 24.0 6.8 54 2-59 75-129 (144)
86 PRK10049 pgaA outer membrane p 92.4 2 4.4E-05 28.7 7.8 50 2-55 376-426 (765)
87 PF13170 DUF4003: Protein of u 92.3 1.2 2.5E-05 26.7 6.1 63 2-64 79-150 (297)
88 KOG4340 Uncharacterized conser 92.3 0.68 1.5E-05 28.4 5.1 49 2-52 161-210 (459)
89 PF13371 TPR_9: Tetratricopept 92.2 0.59 1.3E-05 21.2 4.1 42 28-70 3-44 (73)
90 TIGR00540 hemY_coli hemY prote 92.1 1.8 3.9E-05 26.7 7.8 49 2-52 170-219 (409)
91 PRK02603 photosystem I assembl 92.1 1.1 2.4E-05 24.1 7.9 64 2-67 52-118 (172)
92 PRK11447 cellulose synthase su 92.0 2.2 4.8E-05 29.9 7.8 45 2-48 620-665 (1157)
93 PF13424 TPR_12: Tetratricopep 91.9 0.51 1.1E-05 21.8 3.6 51 20-70 5-61 (78)
94 PF01475 FUR: Ferric uptake re 91.8 0.49 1.1E-05 24.1 3.8 48 22-69 9-56 (120)
95 COG5107 RNA14 Pre-mRNA 3'-end 91.8 0.51 1.1E-05 30.3 4.3 50 19-68 396-446 (660)
96 PRK11189 lipoprotein NlpI; Pro 91.7 1.7 3.7E-05 25.6 8.4 64 3-70 82-147 (296)
97 COG4783 Putative Zn-dependent 91.6 2.4 5.3E-05 27.2 7.9 65 3-70 358-423 (484)
98 PF13431 TPR_17: Tetratricopep 91.6 0.28 6.1E-06 19.5 2.2 24 17-40 9-33 (34)
99 PRK11639 zinc uptake transcrip 91.5 1.4 3E-05 24.1 6.9 59 10-69 16-74 (169)
100 COG0735 Fur Fe2+/Zn2+ uptake r 91.3 1.3 2.9E-05 23.6 6.6 62 7-69 8-69 (145)
101 cd05804 StaR_like StaR_like; a 91.2 2 4.3E-05 25.5 7.2 45 3-48 132-176 (355)
102 PLN03088 SGT1, suppressor of 91.2 2.2 4.8E-05 26.0 7.3 60 2-65 53-113 (356)
103 KOG4570 Uncharacterized conser 91.2 0.27 5.9E-06 30.1 2.6 38 33-70 113-150 (418)
104 PF08311 Mad3_BUB1_I: Mad3/BUB 91.1 1.3 2.8E-05 23.1 5.9 43 3-45 81-124 (126)
105 PF09295 ChAPs: ChAPs (Chs5p-A 91.1 1.1 2.5E-05 27.9 5.3 45 2-48 251-296 (395)
106 PRK14574 hmsH outer membrane p 91.0 2.9 6.2E-05 28.6 7.3 45 3-49 120-165 (822)
107 KOG3941 Intermediate in Toll s 90.8 1.7 3.6E-05 26.6 5.6 51 17-67 64-119 (406)
108 PF11846 DUF3366: Domain of un 90.6 1.8 3.9E-05 23.9 6.2 36 14-49 138-173 (193)
109 PF13174 TPR_6: Tetratricopept 90.6 0.28 6E-06 18.6 1.7 22 28-49 8-29 (33)
110 KOG1914 mRNA cleavage and poly 90.5 2.5 5.5E-05 27.8 6.4 48 20-67 366-414 (656)
111 PRK10153 DNA-binding transcrip 90.4 2.7 5.8E-05 27.1 6.6 49 20-70 420-468 (517)
112 PLN03098 LPA1 LOW PSII ACCUMUL 90.3 2.8 6E-05 26.8 6.4 49 19-69 74-126 (453)
113 PRK15179 Vi polysaccharide bio 90.2 4.1 8.9E-05 27.3 8.2 64 2-69 137-202 (694)
114 PRK10049 pgaA outer membrane p 90.2 4.1 9E-05 27.3 8.2 28 21-48 84-111 (765)
115 KOG3081 Vesicle coat complex C 90.2 2.7 5.9E-05 25.2 7.7 47 2-49 190-236 (299)
116 PRK15179 Vi polysaccharide bio 89.8 4.4 9.6E-05 27.2 8.2 46 2-49 103-149 (694)
117 COG2956 Predicted N-acetylgluc 89.8 2.4 5.2E-05 26.2 5.7 48 2-49 231-278 (389)
118 PF07721 TPR_4: Tetratricopept 89.8 0.61 1.3E-05 17.3 3.0 21 24-44 5-25 (26)
119 PRK09782 bacteriophage N4 rece 89.7 5.3 0.00012 27.9 7.8 36 33-70 589-624 (987)
120 PF14689 SPOB_a: Sensor_kinase 89.6 0.9 1.9E-05 20.7 3.2 30 19-48 22-51 (62)
121 TIGR02508 type_III_yscG type I 89.5 1.8 3.9E-05 22.2 4.8 34 27-64 46-79 (115)
122 cd00189 TPR Tetratricopeptide 89.5 1.2 2.5E-05 19.9 5.4 47 2-49 51-97 (100)
123 CHL00033 ycf3 photosystem I as 89.2 2.2 4.8E-05 22.8 7.7 64 2-66 52-117 (168)
124 KOG1129 TPR repeat-containing 89.1 3.6 7.7E-05 25.7 6.1 54 2-59 240-293 (478)
125 TIGR02561 HrpB1_HrpK type III 89.1 2.4 5.2E-05 23.1 6.4 47 2-50 27-74 (153)
126 smart00299 CLH Clathrin heavy 89.1 2 4.4E-05 22.2 5.1 28 5-33 27-54 (140)
127 KOG2047 mRNA splicing factor [ 89.1 2.1 4.5E-05 28.8 5.4 45 20-66 248-292 (835)
128 PF10602 RPN7: 26S proteasome 89.0 2.1 4.7E-05 23.6 4.9 35 20-54 36-70 (177)
129 PF04840 Vps16_C: Vps16, C-ter 88.8 2.1 4.5E-05 25.9 5.1 48 17-70 205-252 (319)
130 PF09613 HrpB1_HrpK: Bacterial 88.8 2.6 5.7E-05 23.1 7.4 60 2-67 27-89 (160)
131 KOG2053 Mitochondrial inherita 88.8 3.4 7.3E-05 28.6 6.3 65 2-69 60-124 (932)
132 PF10579 Rapsyn_N: Rapsyn N-te 88.7 1.8 3.8E-05 21.1 4.2 41 2-42 23-65 (80)
133 COG4783 Putative Zn-dependent 88.2 5.1 0.00011 25.8 8.0 65 2-70 323-389 (484)
134 COG3071 HemY Uncharacterized e 88.1 3.1 6.6E-05 26.1 5.4 48 21-70 329-376 (400)
135 PRK11447 cellulose synthase su 88.0 7.1 0.00015 27.6 7.7 53 17-70 600-652 (1157)
136 TIGR03504 FimV_Cterm FimV C-te 87.5 1.5 3.2E-05 18.8 3.3 25 26-50 5-29 (44)
137 PF00515 TPR_1: Tetratricopept 87.5 1.1 2.3E-05 17.2 4.1 29 21-49 2-30 (34)
138 PF02607 B12-binding_2: B12 bi 87.5 1.9 4.2E-05 20.1 3.9 37 33-69 14-50 (79)
139 PRK02603 photosystem I assembl 87.3 3.1 6.8E-05 22.4 6.7 52 19-70 34-87 (172)
140 COG5010 TadD Flp pilus assembl 87.3 4 8.6E-05 24.2 5.4 30 19-48 133-162 (257)
141 PF07443 HARP: HepA-related pr 87.3 0.19 4.1E-06 22.7 0.1 30 3-32 10-39 (55)
142 PF12569 NARP1: NMDA receptor- 87.1 6.3 0.00014 25.6 6.9 60 2-65 21-81 (517)
143 PLN03098 LPA1 LOW PSII ACCUMUL 87.0 6.1 0.00013 25.3 7.3 47 1-49 91-141 (453)
144 TIGR02795 tol_pal_ybgF tol-pal 86.3 2.7 5.8E-05 20.5 6.5 48 2-49 56-105 (119)
145 TIGR02552 LcrH_SycD type III s 86.2 3.1 6.6E-05 21.1 7.4 55 2-59 68-122 (135)
146 KOG3081 Vesicle coat complex C 85.9 4.5 9.7E-05 24.4 5.2 66 2-71 154-223 (299)
147 PRK09462 fur ferric uptake reg 85.9 3.7 8.1E-05 21.8 6.9 60 9-69 6-66 (148)
148 cd08326 CARD_CASP9 Caspase act 85.7 2.9 6.3E-05 20.4 6.1 58 5-70 19-76 (84)
149 COG5210 GTPase-activating prot 85.4 7.5 0.00016 24.9 6.5 59 5-63 362-420 (496)
150 smart00777 Mad3_BUB1_I Mad3/BU 85.3 3.9 8.4E-05 21.5 5.2 16 39-54 82-97 (125)
151 COG5107 RNA14 Pre-mRNA 3'-end 85.2 2.1 4.5E-05 27.8 3.8 45 2-47 414-459 (660)
152 PRK10153 DNA-binding transcrip 85.1 8.1 0.00018 25.0 8.2 55 2-60 437-491 (517)
153 PF09454 Vps23_core: Vps23 cor 84.8 2.8 6.1E-05 19.5 4.2 51 16-67 4-54 (65)
154 COG4235 Cytochrome c biogenesi 84.5 6.7 0.00015 23.6 6.9 60 2-65 210-270 (287)
155 KOG1914 mRNA cleavage and poly 84.5 4.4 9.5E-05 26.8 5.0 45 2-47 383-428 (656)
156 KOG1070 rRNA processing protei 84.4 8.3 0.00018 28.4 6.5 63 4-69 1516-1578(1710)
157 PF07035 Mic1: Colon cancer-as 84.3 3 6.4E-05 23.0 3.8 56 6-65 15-70 (167)
158 KOG4567 GTPase-activating prot 84.1 7.7 0.00017 23.9 6.2 58 5-67 263-320 (370)
159 KOG2003 TPR repeat-containing 83.9 3.9 8.4E-05 26.7 4.6 53 2-56 293-345 (840)
160 KOG1155 Anaphase-promoting com 83.7 9.7 0.00021 24.8 7.6 53 14-67 425-478 (559)
161 PF13181 TPR_8: Tetratricopept 83.6 1.8 4E-05 16.4 3.9 27 22-48 3-29 (34)
162 PF13170 DUF4003: Protein of u 83.4 7.7 0.00017 23.3 6.2 56 3-58 161-220 (297)
163 KOG2002 TPR-containing nuclear 83.1 2.8 6E-05 29.2 3.9 69 1-70 662-731 (1018)
164 COG2405 Predicted nucleic acid 82.3 4.9 0.00011 21.8 4.0 40 26-65 115-154 (157)
165 PF07035 Mic1: Colon cancer-as 82.2 6.5 0.00014 21.7 6.8 28 42-69 16-43 (167)
166 COG3629 DnrI DNA-binding trans 82.2 8.6 0.00019 23.1 6.2 50 20-70 153-202 (280)
167 cd08318 Death_NMPP84 Death dom 82.0 4.4 9.6E-05 19.7 3.7 35 34-70 44-78 (86)
168 PRK10803 tol-pal system protei 81.8 8.4 0.00018 22.7 7.0 46 2-49 160-209 (263)
169 COG4003 Uncharacterized protei 81.3 4.4 9.6E-05 20.0 3.3 26 25-50 36-61 (98)
170 PF09868 DUF2095: Uncharacteri 80.9 6.3 0.00014 20.7 5.3 39 25-64 66-104 (128)
171 PF00637 Clathrin: Region in C 80.7 0.7 1.5E-05 24.0 0.5 38 7-44 29-66 (143)
172 KOG0985 Vesicle coat protein c 80.5 8.3 0.00018 27.8 5.4 50 19-70 1132-1181(1666)
173 PF10366 Vps39_1: Vacuolar sor 80.1 6.2 0.00013 20.1 3.9 28 21-48 40-67 (108)
174 PF05843 Suf: Suppressor of fo 79.9 10 0.00022 22.4 7.5 29 19-47 69-97 (280)
175 CHL00033 ycf3 photosystem I as 79.6 7.5 0.00016 20.7 5.8 52 19-70 34-87 (168)
176 cd08315 Death_TRAILR_DR4_DR5 D 79.6 6.1 0.00013 19.7 5.1 29 21-49 65-93 (96)
177 PF07719 TPR_2: Tetratricopept 79.2 2.9 6.2E-05 15.7 4.1 28 22-49 3-30 (34)
178 KOG1129 TPR repeat-containing 79.2 3.5 7.7E-05 25.7 3.2 49 2-52 307-356 (478)
179 COG3947 Response regulator con 79.1 12 0.00027 23.0 5.9 48 22-70 281-328 (361)
180 PF05843 Suf: Suppressor of fo 79.1 11 0.00023 22.3 7.1 66 2-69 18-84 (280)
181 PF14840 DNA_pol3_delt_C: Proc 78.2 3.8 8.3E-05 21.4 2.8 28 33-60 10-37 (125)
182 KOG1840 Kinesin light chain [C 78.2 6.6 0.00014 25.5 4.2 46 2-47 258-310 (508)
183 cd08332 CARD_CASP2 Caspase act 78.2 6.6 0.00014 19.3 6.2 57 5-69 23-79 (90)
184 KOG1166 Mitotic checkpoint ser 78.2 15 0.00033 26.0 6.0 56 2-57 95-151 (974)
185 cd05804 StaR_like StaR_like; a 77.6 12 0.00027 22.1 7.2 48 22-70 116-163 (355)
186 KOG1126 DNA-binding cell divis 77.5 19 0.00041 24.2 7.4 41 27-69 564-605 (638)
187 PF12926 MOZART2: Mitotic-spin 77.4 7.2 0.00016 19.3 5.8 43 6-48 29-71 (88)
188 PRK11189 lipoprotein NlpI; Pro 77.3 12 0.00027 22.1 7.7 46 2-49 115-161 (296)
189 KOG1173 Anaphase-promoting com 76.6 20 0.00043 23.9 7.5 62 2-67 472-534 (611)
190 PF12688 TPR_5: Tetratrico pep 75.9 9.2 0.0002 19.8 8.2 48 2-49 18-67 (120)
191 COG2956 Predicted N-acetylgluc 75.8 15 0.00032 23.0 5.0 17 31-47 80-96 (389)
192 PF02840 Prp18: Prp18 domain; 75.7 11 0.00023 20.5 4.5 45 4-48 43-87 (144)
193 smart00164 TBC Domain in Tre-2 75.7 11 0.00024 20.6 5.8 44 7-50 153-197 (199)
194 smart00028 TPR Tetratricopepti 75.3 3.2 7E-05 14.3 3.1 27 22-48 3-29 (34)
195 KOG0547 Translocase of outer m 75.1 4.7 0.0001 26.4 3.0 40 30-71 125-165 (606)
196 KOG4648 Uncharacterized conser 74.9 3.1 6.7E-05 26.1 2.1 40 29-70 106-146 (536)
197 KOG3616 Selective LIM binding 74.7 8.5 0.00018 26.9 4.2 23 23-45 794-816 (1636)
198 KOG0547 Translocase of outer m 74.5 11 0.00023 24.8 4.4 46 2-48 445-490 (606)
199 PRK10803 tol-pal system protei 74.0 16 0.00034 21.6 5.0 49 20-70 143-195 (263)
200 KOG4077 Cytochrome c oxidase, 74.0 12 0.00026 20.2 7.0 56 7-63 71-126 (149)
201 cd08819 CARD_MDA5_2 Caspase ac 73.9 9.3 0.0002 18.9 6.9 61 4-70 21-81 (88)
202 TIGR03302 OM_YfiO outer membra 73.8 13 0.00029 20.7 7.1 46 2-49 50-99 (235)
203 smart00804 TAP_C C-terminal do 73.7 6.1 0.00013 18.2 2.5 21 33-53 38-58 (63)
204 COG5010 TadD Flp pilus assembl 73.6 17 0.00036 21.7 6.9 52 19-71 99-150 (257)
205 KOG1070 rRNA processing protei 73.1 21 0.00045 26.6 5.8 50 3-54 1618-1668(1710)
206 PRK15363 pathogenicity island 72.8 14 0.00029 20.3 7.2 46 2-49 52-98 (157)
207 KOG2076 RNA polymerase III tra 72.2 31 0.00067 24.2 7.3 59 8-66 400-460 (895)
208 TIGR03302 OM_YfiO outer membra 72.2 15 0.00032 20.5 7.5 45 27-71 173-219 (235)
209 cd00280 TRFH Telomeric Repeat 71.9 16 0.00035 20.8 7.0 48 2-49 86-140 (200)
210 KOG4626 O-linked N-acetylgluco 71.5 22 0.00049 24.4 5.4 50 19-70 115-165 (966)
211 KOG2796 Uncharacterized conser 71.5 21 0.00045 21.9 5.3 58 5-62 197-254 (366)
212 PF04840 Vps16_C: Vps16, C-ter 71.4 17 0.00038 22.1 4.7 49 19-71 176-224 (319)
213 PF04184 ST7: ST7 protein; In 71.3 27 0.00057 23.1 6.2 38 32-69 271-309 (539)
214 PF13512 TPR_18: Tetratricopep 71.2 14 0.00031 19.9 7.1 65 2-67 27-94 (142)
215 PF07304 SRA1: Steroid recepto 70.8 15 0.00033 20.0 4.6 43 7-49 77-119 (157)
216 PF04269 DUF440: Protein of un 70.7 3.3 7.1E-05 21.1 1.3 24 2-25 11-35 (103)
217 KOG0548 Molecular co-chaperone 70.5 6 0.00013 25.8 2.7 25 19-43 35-59 (539)
218 PRK05094 dsDNA-mimic protein; 70.3 4.2 9E-05 20.9 1.7 30 2-31 14-44 (107)
219 KOG1127 TPR repeat-containing 69.8 6.9 0.00015 27.8 3.0 36 14-49 589-625 (1238)
220 PF09976 TPR_21: Tetratricopep 69.6 14 0.00031 19.2 7.9 47 3-50 29-78 (145)
221 smart00299 CLH Clathrin heavy 69.4 14 0.0003 19.0 6.5 47 21-68 8-54 (140)
222 smart00386 HAT HAT (Half-A-TPR 69.2 5.6 0.00012 14.5 3.7 29 34-63 1-29 (33)
223 cd04438 DEP_dishevelled DEP (D 69.0 12 0.00026 18.2 3.5 36 17-52 26-65 (84)
224 KOG2058 Ypt/Rab GTPase activat 68.9 27 0.00058 22.5 5.2 56 7-65 304-359 (436)
225 PF09543 DUF2379: Protein of u 68.7 15 0.00033 19.3 4.4 52 2-53 54-107 (121)
226 KOG1125 TPR repeat-containing 68.5 32 0.0007 22.9 6.5 60 4-67 413-476 (579)
227 cd06182 CYPOR_like NADPH cytoc 68.2 12 0.00026 21.9 3.6 37 35-71 226-262 (267)
228 KOG4626 O-linked N-acetylgluco 68.1 37 0.0008 23.4 7.6 65 2-69 303-368 (966)
229 PF00610 DEP: Domain found in 68.0 11 0.00024 17.3 3.2 34 18-51 15-53 (74)
230 KOG3785 Uncharacterized conser 67.9 29 0.00063 22.2 6.3 29 19-47 426-455 (557)
231 PF09090 MIF4G_like_2: MIF4G l 67.7 22 0.00048 20.7 4.6 55 17-71 8-66 (253)
232 PF11207 DUF2989: Protein of u 67.4 21 0.00046 20.5 8.3 69 2-71 123-194 (203)
233 TIGR01529 argR_whole arginine 67.3 18 0.00038 19.5 3.8 38 26-63 6-43 (146)
234 KOG2223 Uncharacterized conser 66.7 33 0.00072 22.4 5.5 45 6-50 460-504 (586)
235 PF00566 RabGAP-TBC: Rab-GTPas 66.2 20 0.00043 19.6 4.4 45 5-50 149-193 (214)
236 PF03745 DUF309: Domain of unk 66.2 12 0.00026 17.1 4.7 40 3-42 17-61 (62)
237 cd04445 DEP_PLEK1 DEP (Disheve 65.4 17 0.00036 18.5 3.2 46 5-50 16-64 (99)
238 KOG1125 TPR repeat-containing 65.2 36 0.00078 22.7 5.3 47 1-49 446-493 (579)
239 PRK10370 formate-dependent nit 65.2 22 0.00048 19.8 8.7 43 19-63 72-115 (198)
240 KOG2911 Uncharacterized conser 64.0 25 0.00054 22.6 4.4 50 2-68 148-201 (439)
241 cd04450 DEP_RGS7-like DEP (Dis 64.0 16 0.00034 17.8 3.4 35 17-51 25-62 (88)
242 cd08317 Death_ank Death domain 62.7 16 0.00035 17.5 4.5 33 36-70 44-76 (84)
243 COG3071 HemY Uncharacterized e 62.3 38 0.00082 21.6 6.8 51 2-54 345-395 (400)
244 PF07079 DUF1347: Protein of u 62.2 25 0.00053 23.1 4.2 43 14-61 489-531 (549)
245 PF09373 PMBR: Pseudomurein-bi 61.9 8.2 0.00018 15.2 1.5 21 37-57 12-32 (33)
246 cd04449 DEP_DEPDC5-like DEP (D 61.8 17 0.00038 17.5 3.7 39 14-52 23-65 (83)
247 PF10300 DUF3808: Protein of u 61.7 39 0.00085 21.7 5.1 42 3-46 251-293 (468)
248 PF09797 NatB_MDM20: N-acetylt 61.4 35 0.00076 20.9 4.9 56 3-60 201-257 (365)
249 PF10963 DUF2765: Protein of u 61.1 19 0.00041 17.7 3.3 33 15-47 11-43 (83)
250 cd04441 DEP_2_DEP6 DEP (Dishev 61.1 18 0.0004 17.7 2.9 36 17-52 29-67 (85)
251 PF08542 Rep_fac_C: Replicatio 61.1 17 0.00038 17.2 4.2 31 23-54 8-38 (89)
252 cd08316 Death_FAS_TNFRSF6 Deat 61.0 20 0.00044 18.0 5.0 20 23-42 69-88 (97)
253 cd04443 DEP_GPR155 DEP (Dishev 60.9 19 0.0004 17.5 3.8 37 16-52 26-65 (83)
254 PF00531 Death: Death domain; 60.6 17 0.00036 16.9 3.4 31 37-69 41-71 (83)
255 TIGR02328 conserved hypothetic 60.5 10 0.00022 19.8 2.0 18 39-56 54-71 (120)
256 PF13606 Ank_3: Ankyrin repeat 60.4 10 0.00022 14.4 2.4 26 25-54 4-29 (30)
257 cd04439 DEP_1_P-Rex DEP (Dishe 60.0 19 0.00041 17.4 3.3 35 17-51 25-62 (81)
258 PF05944 Phage_term_smal: Phag 60.0 25 0.00054 18.7 5.4 35 17-52 46-80 (132)
259 KOG1840 Kinesin light chain [C 59.5 48 0.001 21.8 5.3 47 19-65 449-501 (508)
260 cd08784 Death_DRs Death Domain 59.4 19 0.00041 17.1 4.2 33 36-70 39-71 (79)
261 PF08986 DUF1889: Domain of un 58.9 23 0.00051 18.0 3.4 52 2-53 26-80 (119)
262 PF07079 DUF1347: Protein of u 58.8 33 0.00072 22.5 4.3 49 19-67 127-179 (549)
263 cd01670 Death Death Domain: a 58.8 18 0.00039 16.7 4.3 33 36-70 38-70 (79)
264 KOG3616 Selective LIM binding 58.6 36 0.00079 24.1 4.7 59 2-71 749-807 (1636)
265 PRK14956 DNA polymerase III su 58.6 49 0.0011 21.6 5.3 41 19-59 247-287 (484)
266 TIGR02710 CRISPR-associated pr 58.3 45 0.00097 21.1 5.0 38 29-66 139-176 (380)
267 PRK14700 recombination factor 58.2 39 0.00084 20.7 4.4 44 22-65 125-171 (300)
268 PF12816 Vps8: Golgi CORVET co 58.2 32 0.0007 19.4 5.5 47 18-69 20-66 (196)
269 PF14853 Fis1_TPR_C: Fis1 C-te 58.0 17 0.00036 16.1 4.2 34 28-63 9-42 (53)
270 COG3294 HD supefamily hydrolas 57.9 9.5 0.00021 22.5 1.8 20 38-57 68-87 (269)
271 PF14744 WASH-7_mid: WASH comp 57.7 10 0.00023 23.5 2.0 30 1-30 282-311 (350)
272 cd08325 CARD_CASP1-like Caspas 57.7 21 0.00046 17.2 5.7 57 5-69 19-76 (83)
273 KOG1126 DNA-binding cell divis 57.6 17 0.00036 24.5 3.0 40 19-60 420-460 (638)
274 COG4455 ImpE Protein of avirul 57.2 39 0.00085 20.1 6.1 61 3-64 19-81 (273)
275 PF04124 Dor1: Dor1-like famil 57.1 29 0.00063 21.2 3.8 33 25-57 111-144 (338)
276 PLN02789 farnesyltranstransfer 56.7 43 0.00093 20.4 7.8 60 4-66 127-187 (320)
277 KOG3785 Uncharacterized conser 56.6 49 0.0011 21.2 4.7 66 2-69 376-442 (557)
278 PF09205 DUF1955: Domain of un 56.5 32 0.00069 18.8 6.1 34 18-51 118-151 (161)
279 PF02184 HAT: HAT (Half-A-TPR) 56.2 14 0.00031 14.7 2.3 24 35-60 2-25 (32)
280 smart00005 DEATH DEATH domain, 56.2 22 0.00047 16.8 4.8 34 35-70 45-78 (88)
281 KOG3364 Membrane protein invol 56.1 32 0.0007 18.7 4.5 47 2-49 52-100 (149)
282 cd08810 CARD_BCL10 Caspase act 55.7 24 0.00053 17.3 5.9 56 4-68 18-73 (84)
283 KOG1155 Anaphase-promoting com 55.6 58 0.0013 21.5 6.8 55 9-63 251-307 (559)
284 COG3099 Uncharacterized protei 55.4 2.6 5.5E-05 21.1 -0.6 26 2-27 15-41 (108)
285 PF03943 TAP_C: TAP C-terminal 54.8 5.7 0.00012 17.4 0.5 21 33-53 26-46 (51)
286 PRK10866 outer membrane biogen 54.7 41 0.00088 19.5 7.2 61 2-65 49-114 (243)
287 PF12554 MOZART1: Mitotic-spin 54.1 20 0.00043 15.7 3.1 26 29-54 13-38 (48)
288 COG1608 Predicted archaeal kin 53.8 9.7 0.00021 22.5 1.4 46 5-53 84-130 (252)
289 COG3898 Uncharacterized membra 53.4 29 0.00063 22.4 3.4 37 19-55 187-224 (531)
290 PF12796 Ank_2: Ankyrin repeat 53.4 24 0.00051 16.4 3.4 44 6-55 11-54 (89)
291 TIGR02267 Myxococcus xanthus p 53.0 33 0.00072 18.0 3.3 51 3-53 57-109 (123)
292 PF04184 ST7: ST7 protein; In 52.0 68 0.0015 21.3 8.0 60 2-62 276-338 (539)
293 PF14066 DUF4256: Protein of u 51.9 7.9 0.00017 21.4 0.8 37 20-59 18-54 (173)
294 PLN03025 replication factor C 51.8 51 0.0011 19.8 5.2 37 20-57 225-261 (319)
295 cd08304 DD_superfamily The Dea 51.3 26 0.00056 16.2 3.6 29 38-70 34-62 (69)
296 cd04442 DEP_1_DEP6 DEP (Dishev 50.8 30 0.00065 16.8 3.1 36 17-52 25-63 (82)
297 cd08323 CARD_APAF1 Caspase act 50.7 31 0.00066 16.9 6.5 57 4-68 16-72 (86)
298 cd04448 DEP_PIKfyve DEP (Dishe 50.7 29 0.00063 16.7 3.7 36 17-52 25-63 (81)
299 PF00244 14-3-3: 14-3-3 protei 50.3 50 0.0011 19.2 4.7 38 28-65 9-46 (236)
300 PF12000 Glyco_trans_4_3: Gkyc 50.2 14 0.00031 20.4 1.7 20 37-56 51-70 (171)
301 TIGR02531 yecD_yerC TrpR-relat 49.8 32 0.0007 16.9 3.7 27 21-47 3-29 (88)
302 COG4455 ImpE Protein of avirul 49.8 55 0.0012 19.5 4.3 49 22-71 3-51 (273)
303 PF11491 DUF3213: Protein of u 49.8 2.8 6E-05 20.6 -1.0 22 13-34 17-38 (88)
304 PF08461 HTH_12: Ribonuclease 49.5 28 0.0006 16.0 3.9 9 42-50 38-46 (66)
305 KOG0548 Molecular co-chaperone 48.9 65 0.0014 21.4 4.5 39 30-69 368-406 (539)
306 KOG2297 Predicted translation 48.8 26 0.00057 21.9 2.7 53 9-70 280-336 (412)
307 PF04097 Nic96: Nup93/Nic96; 48.3 54 0.0012 21.9 4.2 43 25-68 116-158 (613)
308 COG3063 PilF Tfp pilus assembl 47.7 59 0.0013 19.4 7.1 43 4-48 54-97 (250)
309 cd08329 CARD_BIRC2_BIRC3 Caspa 47.6 36 0.00079 16.9 5.7 56 5-68 26-81 (94)
310 smart00049 DEP Domain found in 47.5 30 0.00066 15.9 3.2 36 16-51 16-54 (77)
311 PF03013 Pyr_excise: Pyrimidin 47.5 19 0.00042 19.1 1.8 25 5-29 66-90 (130)
312 PRK14962 DNA polymerase III su 47.0 78 0.0017 20.5 4.8 38 24-62 248-285 (472)
313 COG2987 HutU Urocanate hydrata 46.8 16 0.00035 23.8 1.7 40 3-42 243-287 (561)
314 COG3682 Predicted transcriptio 46.7 45 0.00097 17.6 4.1 30 37-67 21-50 (123)
315 KOG2127 Calmodulin-binding pro 46.6 52 0.0011 23.7 4.0 54 14-67 413-466 (1020)
316 PF14938 SNAP: Soluble NSF att 46.3 61 0.0013 19.1 4.8 30 20-49 155-184 (282)
317 PF08967 DUF1884: Domain of un 45.7 30 0.00066 17.0 2.2 21 37-57 12-32 (85)
318 KOG0985 Vesicle coat protein c 45.4 1.3E+02 0.0027 22.5 5.7 46 20-71 1104-1149(1666)
319 cd08785 CARD_CARD9-like Caspas 45.3 39 0.00085 16.6 5.2 52 4-59 18-72 (86)
320 KOG2076 RNA polymerase III tra 45.2 1.1E+02 0.0024 21.8 7.5 43 2-46 156-199 (895)
321 PF12569 NARP1: NMDA receptor- 44.9 89 0.0019 20.6 6.7 52 17-70 189-243 (517)
322 COG0292 RplT Ribosomal protein 44.5 48 0.001 17.4 4.2 43 17-64 70-112 (118)
323 cd04444 DEP_PLEK2 DEP (Disheve 44.4 47 0.001 17.2 3.5 37 16-52 27-66 (109)
324 cd04371 DEP DEP domain, named 44.3 35 0.00076 15.8 3.2 36 17-52 25-63 (81)
325 KOG2908 26S proteasome regulat 43.7 83 0.0018 19.9 6.7 65 2-66 92-167 (380)
326 PF07864 DUF1651: Protein of u 43.2 23 0.00049 16.7 1.6 14 3-16 54-67 (75)
327 KOG4334 Uncharacterized conser 43.0 33 0.00072 22.7 2.6 29 5-33 545-573 (650)
328 PF02847 MA3: MA3 domain; Int 42.5 45 0.00097 16.5 4.1 12 39-50 56-67 (113)
329 COG5108 RPO41 Mitochondrial DN 42.2 1.2E+02 0.0026 21.4 5.2 45 25-69 33-79 (1117)
330 PF09986 DUF2225: Uncharacteri 42.1 67 0.0015 18.4 5.9 51 2-52 142-197 (214)
331 PF15595 Imm31: Immunity prote 41.5 48 0.001 16.9 2.7 28 11-38 30-57 (107)
332 KOG0991 Replication factor C, 41.5 81 0.0018 19.2 5.3 37 17-54 236-272 (333)
333 KOG4340 Uncharacterized conser 41.5 84 0.0018 19.8 4.0 37 31-67 155-191 (459)
334 TIGR03581 EF_0839 conserved hy 41.5 33 0.00072 20.1 2.3 42 6-47 193-235 (236)
335 cd08311 Death_p75NR Death doma 41.2 44 0.00095 16.0 3.9 30 37-70 40-69 (77)
336 KOG1128 Uncharacterized conser 41.2 1.2E+02 0.0027 21.2 5.4 43 20-64 424-466 (777)
337 cd04440 DEP_2_P-Rex DEP (Dishe 41.1 49 0.0011 16.5 3.6 36 17-52 34-72 (93)
338 PF05131 Pep3_Vps18: Pep3/Vps1 41.1 44 0.00095 18.0 2.6 20 26-45 109-128 (147)
339 cd01056 Euk_Ferritin eukaryoti 41.0 38 0.00081 18.2 2.4 18 2-19 52-69 (161)
340 PF12169 DNA_pol3_gamma3: DNA 40.9 54 0.0012 17.0 3.8 26 32-57 26-51 (143)
341 PF09397 Ftsk_gamma: Ftsk gamm 40.4 42 0.00092 15.6 2.3 27 25-52 24-50 (65)
342 cd08340 DED_c-FLIP_repeat2 Dea 40.3 28 0.00062 16.8 1.7 21 34-54 36-57 (81)
343 KOG1173 Anaphase-promoting com 40.2 1.2E+02 0.0025 20.6 6.1 64 2-66 431-500 (611)
344 cd01041 Rubrerythrin Rubreryth 40.1 56 0.0012 16.9 3.9 15 4-18 50-64 (134)
345 PF07720 TPR_3: Tetratricopept 39.8 31 0.00067 13.8 2.2 16 29-44 10-25 (36)
346 cd08330 CARD_ASC_NALP1 Caspase 39.6 48 0.001 15.9 5.9 56 4-67 17-72 (82)
347 PRK10304 ferritin; Provisional 39.5 54 0.0012 18.0 2.9 18 2-19 52-69 (165)
348 KOG2053 Mitochondrial inherita 39.5 1.4E+02 0.0031 21.4 6.3 64 3-70 27-92 (932)
349 TIGR03236 dnd_assoc_1 dnd syst 39.4 58 0.0013 20.5 3.2 32 6-37 317-348 (363)
350 PF09477 Type_III_YscG: Bacter 38.8 61 0.0013 16.9 7.1 58 2-64 23-80 (116)
351 cd08321 Pyrin_ASC-like Pyrin D 38.8 31 0.00067 16.7 1.7 29 21-49 46-74 (82)
352 PF12793 SgrR_N: Sugar transpo 38.8 59 0.0013 16.8 5.4 25 20-44 70-94 (115)
353 COG0320 LipA Lipoate synthase 38.7 32 0.0007 21.0 2.0 44 4-51 199-242 (306)
354 PRK02492 deoxyhypusine synthas 38.5 61 0.0013 20.3 3.2 35 14-48 17-55 (347)
355 PTZ00445 p36-lilke protein; Pr 38.4 34 0.00073 20.0 2.0 57 4-60 31-101 (219)
356 PRK14958 DNA polymerase III su 38.3 1.2E+02 0.0025 20.0 5.4 37 20-57 246-282 (509)
357 PF00317 Ribonuc_red_lgN: Ribo 38.3 39 0.00084 16.1 2.0 26 34-59 51-76 (83)
358 PF09288 UBA_3: Fungal ubiquit 38.3 43 0.00094 15.1 4.4 42 25-66 11-54 (55)
359 PF05261 Tra_M: TraM protein, 37.7 52 0.0011 17.5 2.5 54 4-62 16-70 (127)
360 COG4397 Mu-like prophage major 37.6 56 0.0012 19.4 2.8 23 7-29 102-125 (308)
361 PF14044 NETI: NETI protein 37.2 35 0.00075 15.5 1.6 16 38-53 9-24 (57)
362 PF13963 Transpos_assoc: Trans 37.0 32 0.0007 16.3 1.6 25 33-57 47-71 (77)
363 cd00215 PTS_IIA_lac PTS_IIA, P 37.0 58 0.0013 16.3 2.5 19 30-48 25-43 (97)
364 PF06252 DUF1018: Protein of u 36.7 63 0.0014 16.5 4.1 34 19-52 2-40 (119)
365 KOG0543 FKBP-type peptidyl-pro 36.7 1.2E+02 0.0025 19.5 4.4 35 29-65 300-334 (397)
366 PF01371 Trp_repressor: Trp re 36.6 42 0.00092 16.5 2.0 24 23-46 3-26 (87)
367 cd08334 DED_Caspase_8_10_repea 36.5 36 0.00078 16.5 1.7 29 35-63 38-68 (83)
368 smart00843 Ftsk_gamma This dom 36.5 50 0.0011 15.3 2.1 27 25-52 23-49 (63)
369 PRK10162 acetyl esterase; Prov 36.4 18 0.00039 21.6 0.8 46 2-47 263-309 (318)
370 PRK09591 celC cellobiose phosp 36.2 59 0.0013 16.5 2.5 19 30-48 30-48 (104)
371 TIGR00823 EIIA-LAC phosphotran 36.0 61 0.0013 16.3 2.5 19 30-48 27-45 (99)
372 PRK13341 recombination factor 35.8 1.5E+02 0.0032 20.6 5.2 33 32-64 270-302 (725)
373 cd08775 DED_Caspase-like_repea 35.7 37 0.00079 16.4 1.7 20 34-53 36-56 (81)
374 PF04910 Tcf25: Transcriptiona 35.6 1.1E+02 0.0024 19.0 4.9 48 19-66 99-149 (360)
375 PF03235 DUF262: Protein of un 35.5 60 0.0013 17.8 2.7 22 34-55 191-212 (221)
376 cd08313 Death_TNFR1 Death doma 35.3 59 0.0013 15.7 4.4 32 36-69 39-71 (80)
377 smart00540 LEM in nuclear memb 35.2 32 0.00069 14.7 1.3 15 6-20 10-24 (44)
378 PF08356 EF_assoc_2: EF hand a 35.2 63 0.0014 16.0 3.7 43 5-47 13-58 (89)
379 COG0619 CbiQ ABC-type cobalt t 34.9 94 0.002 18.0 4.8 52 2-53 160-215 (252)
380 KOG4162 Predicted calmodulin-b 34.7 1.6E+02 0.0036 20.7 7.3 65 3-70 702-769 (799)
381 TIGR01228 hutU urocanate hydra 34.4 34 0.00074 22.6 1.7 40 3-42 234-278 (545)
382 COG1466 HolA DNA polymerase II 34.3 83 0.0018 19.1 3.3 27 30-56 218-244 (334)
383 PF11768 DUF3312: Protein of u 34.1 54 0.0012 21.8 2.6 25 23-47 411-435 (545)
384 PRK10454 PTS system N,N'-diace 34.0 65 0.0014 16.8 2.5 19 30-48 41-59 (115)
385 cd08792 DED_Caspase_8_10_repea 34.0 52 0.0011 15.6 2.0 17 35-51 35-51 (77)
386 KOG2280 Vacuolar assembly/sort 33.8 1.1E+02 0.0025 21.5 4.0 24 21-44 745-768 (829)
387 PRK05414 urocanate hydratase; 33.4 37 0.00079 22.5 1.8 40 3-42 243-287 (556)
388 KOG1128 Uncharacterized conser 33.3 1.4E+02 0.0031 20.9 4.4 33 17-49 549-582 (777)
389 PHA01754 hypothetical protein 33.3 58 0.0012 15.0 2.0 16 38-53 48-63 (69)
390 KOG0687 26S proteasome regulat 33.3 1.3E+02 0.0028 19.1 5.4 45 21-65 105-153 (393)
391 KOG1538 Uncharacterized conser 33.2 1.8E+02 0.0038 20.6 4.8 36 8-46 623-658 (1081)
392 PF09435 DUF2015: Fungal prote 32.9 73 0.0016 17.0 2.6 20 35-54 100-121 (128)
393 KOG0307 Vesicle coat complex C 32.9 2E+02 0.0043 21.1 5.1 42 6-47 983-1024(1049)
394 cd02070 corrinoid_protein_B12- 32.9 95 0.002 17.4 3.6 28 7-34 16-43 (201)
395 cd04437 DEP_Epac DEP (Dishevel 32.8 82 0.0018 16.6 3.2 36 17-52 27-66 (125)
396 PRK13342 recombination factor 32.8 1.3E+02 0.0028 18.9 7.2 43 22-64 229-274 (413)
397 smart00544 MA3 Domain in DAP-5 32.5 71 0.0015 15.8 5.8 20 27-46 9-28 (113)
398 PRK05907 hypothetical protein; 32.5 60 0.0013 19.8 2.5 25 32-56 216-241 (311)
399 KOG1174 Anaphase-promoting com 32.5 1.5E+02 0.0033 19.6 5.8 36 14-49 226-261 (564)
400 KOG2808 U5 snRNP-associated RN 32.4 1.3E+02 0.0028 18.8 4.6 44 5-48 228-271 (341)
401 PF00356 LacI: Bacterial regul 32.3 50 0.0011 14.0 2.1 20 35-54 27-46 (46)
402 PRK05629 hypothetical protein; 32.1 67 0.0015 19.3 2.7 26 31-56 204-229 (318)
403 PF07875 Coat_F: Coat F domain 32.1 57 0.0012 14.6 2.4 18 36-53 44-61 (64)
404 cd08777 Death_RIP1 Death Domai 32.0 69 0.0015 15.6 4.6 34 36-70 43-76 (86)
405 PF09670 Cas_Cas02710: CRISPR- 31.9 1.3E+02 0.0029 18.8 4.8 20 30-49 141-160 (379)
406 TIGR02120 GspF general secreti 31.8 91 0.002 19.3 3.3 40 6-47 315-354 (399)
407 KOG1130 Predicted G-alpha GTPa 31.7 1.2E+02 0.0025 20.1 3.7 31 20-50 15-47 (639)
408 smart00535 RIBOc Ribonuclease 31.7 77 0.0017 16.0 3.9 30 19-48 94-123 (129)
409 cd08813 DED_Caspase_8_repeat2 31.6 56 0.0012 16.0 1.9 21 36-56 39-60 (83)
410 PF08785 Ku_PK_bind: Ku C term 31.6 64 0.0014 16.6 2.3 41 27-67 31-75 (120)
411 cd08338 DED_PEA15 Death Effect 31.5 50 0.0011 16.1 1.7 20 35-54 37-57 (84)
412 PF05687 DUF822: Plant protein 31.3 92 0.002 17.1 2.8 30 39-68 26-57 (150)
413 PF02937 COX6C: Cytochrome c o 31.2 59 0.0013 15.5 1.9 17 38-54 55-71 (73)
414 cd04890 ACT_AK-like_1 ACT doma 31.1 25 0.00053 15.3 0.6 24 33-56 11-34 (62)
415 PF14669 Asp_Glu_race_2: Putat 31.0 89 0.0019 18.3 2.9 27 19-45 180-206 (233)
416 PF13525 YfiO: Outer membrane 30.8 1E+02 0.0022 17.1 7.8 48 2-49 22-71 (203)
417 cd08803 Death_ank3 Death domai 30.6 74 0.0016 15.4 4.3 33 36-70 44-76 (84)
418 cd08341 DED_Caspase_10_repeat1 30.4 74 0.0016 15.4 2.4 20 35-54 37-57 (82)
419 PF07218 RAP1: Rhoptry-associa 30.3 63 0.0014 21.9 2.4 41 19-65 619-659 (782)
420 PF13281 DUF4071: Domain of un 30.3 1.5E+02 0.0032 18.8 7.9 34 33-66 195-228 (374)
421 COG1447 CelC Phosphotransferas 30.3 86 0.0019 16.1 2.5 19 30-48 29-47 (105)
422 PF06580 His_kinase: Histidine 30.2 71 0.0015 15.2 3.9 28 19-47 11-40 (82)
423 PRK13808 adenylate kinase; Pro 29.9 1.4E+02 0.0031 18.5 4.7 46 10-55 52-109 (333)
424 PF15601 Imm42: Immunity prote 29.9 22 0.00047 19.1 0.3 41 21-61 36-82 (134)
425 PRK07914 hypothetical protein; 29.9 1E+02 0.0023 18.5 3.2 26 31-56 206-231 (320)
426 KOG3617 WD40 and TPR repeat-co 29.7 1.1E+02 0.0023 22.3 3.5 31 19-49 1329-1359(1416)
427 TIGR00539 hemN_rel putative ox 29.7 1.4E+02 0.003 18.4 4.0 47 6-52 101-151 (360)
428 COG2040 MHT1 Homocysteine/sele 29.6 1.1E+02 0.0023 18.9 3.2 55 9-67 19-74 (300)
429 cd08779 Death_PIDD Death Domai 29.6 77 0.0017 15.3 4.8 14 56-69 61-74 (86)
430 PRK07452 DNA polymerase III su 29.6 1.3E+02 0.0028 18.0 5.5 36 20-57 201-236 (326)
431 KOG1156 N-terminal acetyltrans 29.5 1.7E+02 0.0036 20.3 4.2 36 27-64 226-261 (700)
432 KOG3060 Uncharacterized conser 29.5 1.4E+02 0.003 18.2 6.6 29 33-62 99-127 (289)
433 KOG2229 Protein required for a 29.4 1.8E+02 0.004 19.6 5.4 51 18-68 97-149 (616)
434 cd08327 CARD_RAIDD Caspase act 29.4 83 0.0018 15.7 5.5 42 20-65 35-76 (94)
435 PF04123 DUF373: Domain of unk 29.1 93 0.002 19.5 2.9 39 14-52 18-66 (344)
436 cd04914 ACT_AKi-DapG-BS_1 ACT 29.1 7.8 0.00017 17.7 -1.3 44 4-47 16-60 (67)
437 PRK03971 putative deoxyhypusin 28.8 1.2E+02 0.0025 19.0 3.3 29 20-48 28-60 (334)
438 PF13925 Katanin_con80: con80 28.8 64 0.0014 17.6 2.1 25 26-50 20-44 (164)
439 PF07575 Nucleopor_Nup85: Nup8 28.7 1.8E+02 0.0039 19.3 5.8 63 6-70 391-453 (566)
440 PF08069 Ribosomal_S13_N: Ribo 28.6 48 0.001 15.2 1.3 22 35-56 29-50 (60)
441 cd01786 STE50_RA Ubiquitin-lik 28.5 55 0.0012 16.5 1.6 18 37-54 75-92 (98)
442 PRK13754 conjugal transfer fer 28.5 1.1E+02 0.0024 17.4 2.9 32 39-70 101-132 (186)
443 PF11817 Foie-gras_1: Foie gra 28.4 1.3E+02 0.0028 17.5 4.3 23 25-47 183-205 (247)
444 PF02255 PTS_IIA: PTS system, 28.4 88 0.0019 15.6 2.5 19 30-48 24-42 (96)
445 PHA00099 minor capsid protein 28.3 47 0.001 17.8 1.4 17 25-41 94-110 (147)
446 CHL00165 ftrB ferredoxin thior 28.3 1E+02 0.0022 16.2 3.3 35 35-69 12-49 (116)
447 PRK15331 chaperone protein Sic 28.3 1.2E+02 0.0025 17.0 4.6 15 32-46 83-97 (165)
448 PF04212 MIT: MIT (microtubule 28.1 71 0.0015 14.4 2.0 17 32-48 17-33 (69)
449 PF13998 MgrB: MgrB protein 28.1 51 0.0011 12.8 1.3 11 59-69 3-13 (29)
450 PF07223 DUF1421: Protein of u 28.0 1.4E+02 0.0031 18.8 3.6 36 19-54 317-353 (358)
451 smart00668 CTLH C-terminal to 27.9 62 0.0013 13.7 2.7 22 27-48 8-29 (58)
452 PF00382 TFIIB: Transcription 27.7 73 0.0016 14.4 3.7 32 37-68 16-51 (71)
453 PRK08207 coproporphyrinogen II 27.5 1.5E+02 0.0032 19.4 3.7 46 6-51 270-319 (488)
454 cd00045 DED The Death Effector 27.5 80 0.0017 14.9 2.4 20 35-54 35-55 (77)
455 PF01522 Polysacc_deac_1: Poly 27.5 41 0.00089 16.6 1.1 40 5-53 21-60 (123)
456 KOG1642 Ribonuclease, T2 famil 27.4 95 0.0021 18.7 2.7 26 35-60 148-173 (263)
457 PF07723 LRR_2: Leucine Rich R 27.4 30 0.00066 12.7 0.5 12 54-65 14-25 (26)
458 PF11894 DUF3414: Protein of u 27.3 2.9E+02 0.0063 21.3 6.5 51 14-66 490-543 (1691)
459 PF09082 DUF1922: Domain of un 27.2 43 0.00094 15.8 1.1 20 30-49 37-56 (68)
460 COG5053 CDC33 Translation init 27.2 1.4E+02 0.0029 17.4 3.2 46 19-64 54-99 (217)
461 PF01846 FF: FF domain; Inter 27.1 63 0.0014 13.6 1.7 26 4-30 2-28 (51)
462 PF13495 Phage_int_SAM_4: Phag 26.9 78 0.0017 14.5 6.8 49 6-54 4-62 (85)
463 PRK00805 putative deoxyhypusin 26.7 1.3E+02 0.0029 18.7 3.3 26 22-47 13-42 (329)
464 PF10428 SOG2: RAM signalling 26.6 1.9E+02 0.004 18.8 4.4 41 25-66 61-101 (445)
465 PF05119 Terminase_4: Phage te 26.5 89 0.0019 15.1 3.3 30 17-46 16-46 (100)
466 TIGR02530 flg_new flagellar op 26.4 1E+02 0.0022 15.6 3.9 31 39-69 18-48 (96)
467 PF05734 DUF832: Herpesvirus p 26.2 1.5E+02 0.0032 17.5 5.0 30 19-48 14-43 (228)
468 PF09384 UTP15_C: UTP15 C term 26.1 1.2E+02 0.0026 16.3 5.4 47 21-67 32-85 (148)
469 COG5159 RPN6 26S proteasome re 26.1 1.5E+02 0.0033 18.6 3.4 43 28-70 11-60 (421)
470 cd08790 DED_DEDD Death Effecto 26.0 1E+02 0.0022 15.6 3.8 22 31-52 35-56 (97)
471 PF02361 CbiQ: Cobalt transpor 25.8 1.3E+02 0.0028 16.6 5.9 51 2-53 160-217 (224)
472 PF14162 YozD: YozD-like prote 25.6 79 0.0017 14.1 3.8 18 39-56 14-31 (57)
473 COG2979 Uncharacterized protei 25.6 1.5E+02 0.0033 17.4 3.6 38 21-58 112-151 (225)
474 KOG4555 TPR repeat-containing 25.6 1.3E+02 0.0028 16.6 5.0 45 2-48 60-105 (175)
475 PF13034 DUF3895: Protein of u 25.5 96 0.0021 15.1 2.9 31 24-54 6-36 (78)
476 cd04934 ACT_AK-Hom3_1 CT domai 25.5 75 0.0016 14.8 1.7 24 33-56 12-35 (73)
477 PF05089 NAGLU: Alpha-N-acetyl 25.5 38 0.00083 21.0 0.9 19 35-53 93-111 (333)
478 cd00927 Cyt_c_Oxidase_VIc Cyto 25.4 52 0.0011 15.6 1.1 14 39-52 54-67 (70)
479 COG2812 DnaX DNA polymerase II 25.3 2.1E+02 0.0047 19.0 6.0 55 2-58 215-283 (515)
480 PF11426 Tn7_TnsC_Int: Tn7 tra 25.2 76 0.0017 13.8 2.0 18 41-58 26-43 (48)
481 cd00904 Ferritin Ferritin iron 24.6 1.3E+02 0.0028 16.2 3.6 17 2-18 52-68 (160)
482 PF09413 DUF2007: Domain of un 24.6 63 0.0014 14.4 1.4 18 30-47 49-66 (67)
483 PF01175 Urocanase: Urocanase; 24.5 46 0.001 22.1 1.1 41 3-43 233-278 (546)
484 cd04935 ACT_AKiii-DAPDC_1 ACT 24.5 75 0.0016 14.8 1.7 23 34-56 13-35 (75)
485 PF14430 Imm1: Immunity protei 24.5 52 0.0011 17.0 1.2 18 4-21 105-122 (127)
486 cd04933 ACT_AK1-AT_1 ACT domai 24.4 77 0.0017 15.1 1.7 23 34-56 13-35 (78)
487 smart00031 DED Death effector 24.3 95 0.0021 14.7 2.4 16 36-51 37-52 (79)
488 PF10474 DUF2451: Protein of u 24.3 1.6E+02 0.0035 17.2 5.4 46 21-66 132-189 (234)
489 KOG2376 Signal recognition par 24.3 2.5E+02 0.0053 19.4 5.7 38 30-68 468-505 (652)
490 PRK14720 transcript cleavage f 24.2 2.8E+02 0.0061 20.0 5.8 45 14-60 24-69 (906)
491 PF03965 Penicillinase_R: Peni 24.1 1.1E+02 0.0024 15.4 3.7 11 37-47 18-28 (115)
492 PF05853 DUF849: Prokaryotic p 23.9 24 0.00052 21.0 -0.2 25 35-59 124-148 (272)
493 PF10073 DUF2312: Uncharacteri 23.8 98 0.0021 14.9 1.9 24 3-28 26-49 (74)
494 TIGR03829 YokU_near_AblA uncha 23.7 43 0.00092 16.7 0.7 26 39-64 51-78 (89)
495 cd08805 Death_ank1 Death domai 23.5 1.1E+02 0.0023 14.9 3.7 33 36-70 44-76 (84)
496 cd04932 ACT_AKiii-LysC-EC_1 AC 23.5 85 0.0018 14.6 1.7 23 34-56 13-35 (75)
497 COG2206 c-di-GMP phosphodieste 23.5 1.9E+02 0.0041 17.8 3.9 36 30-67 278-313 (344)
498 PF11740 KfrA_N: Plasmid repli 23.4 1.2E+02 0.0025 15.3 5.5 42 3-48 5-46 (120)
499 cd01671 CARD Caspase activatio 23.4 94 0.002 14.2 6.4 57 5-69 16-72 (80)
500 PF07840 FadR_C: FadR C-termin 23.4 92 0.002 17.3 2.0 9 39-47 118-126 (164)
No 1
>PF13041 PPR_2: PPR repeat family
Probab=99.90 E-value=1.2e-23 Score=93.99 Aligned_cols=50 Identities=40% Similarity=0.735 Sum_probs=49.1
Q ss_pred cCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 18 PDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 18 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
||+.+||++|++|++.|++++|+++|++|.++|+.||..||+++|++|||
T Consensus 1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k 50 (50)
T PF13041_consen 1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK 50 (50)
T ss_pred CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence 89999999999999999999999999999999999999999999999986
No 2
>PLN03218 maturation of RBCL 1; Provisional
Probab=99.75 E-value=7.6e-18 Score=109.50 Aligned_cols=67 Identities=25% Similarity=0.249 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+|.++|++|.+.|+.||..+||++|++|++.|++++|+++|++|.+.|+.||..||++||.+|++.|
T Consensus 490 ~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G 556 (1060)
T PLN03218 490 AMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSG 556 (1060)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Confidence 4455555555555555555555555555555555555555555555555555555555555555544
No 3
>PLN03218 maturation of RBCL 1; Provisional
Probab=99.75 E-value=1e-17 Score=108.95 Aligned_cols=70 Identities=19% Similarity=0.292 Sum_probs=67.6
Q ss_pred ChHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 1 MDEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 1 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+++|.++|++|.+.|+.||..+||++|.+|++.|++++|.++|++|.+.|+.||..||+++|++|++.|+
T Consensus 453 ~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~ 522 (1060)
T PLN03218 453 IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ 522 (1060)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence 3679999999999999999999999999999999999999999999999999999999999999999886
No 4
>PLN03077 Protein ECB2; Provisional
Probab=99.69 E-value=1.3e-16 Score=102.04 Aligned_cols=69 Identities=19% Similarity=0.148 Sum_probs=65.2
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHh-hCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMG-SKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|+.|. +.|+.||..+|++++++|+++|+
T Consensus 571 ~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~ 640 (857)
T PLN03077 571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGK 640 (857)
T ss_pred HHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCC
Confidence 6799999999999999999999999999999999999999999998 67999999999999999999986
No 5
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=99.69 E-value=1.7e-16 Score=99.83 Aligned_cols=69 Identities=22% Similarity=0.202 Sum_probs=54.8
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh-CCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGS-KGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|+.|.+ .|+.|+..+|++++++|+++|+
T Consensus 408 ~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~ 477 (697)
T PLN03081 408 TKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGL 477 (697)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCC
Confidence 56778888888888888888888888888888888888888888865 5788888888888888887775
No 6
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=99.67 E-value=2.9e-16 Score=98.79 Aligned_cols=69 Identities=22% Similarity=0.175 Sum_probs=45.2
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|.++|++|.+.|+.||..||+++|.+|++.|++++|.+++..|.+.|+.||..+|++||++|++.|+
T Consensus 307 ~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~ 375 (697)
T PLN03081 307 EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGR 375 (697)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCC
Confidence 456666666666666666666666666666666666666666666666666666666666666666554
No 7
>PF12854 PPR_1: PPR repeat
Probab=99.64 E-value=4.5e-16 Score=64.32 Aligned_cols=34 Identities=50% Similarity=0.822 Sum_probs=32.5
Q ss_pred cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 14 RGVNPDTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
+|+.||..|||++|++||+.|++++|+++|++|+
T Consensus 1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~ 34 (34)
T PF12854_consen 1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK 34 (34)
T ss_pred CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence 5899999999999999999999999999999995
No 8
>PLN03077 Protein ECB2; Provisional
Probab=99.64 E-value=1.5e-15 Score=97.19 Aligned_cols=69 Identities=20% Similarity=0.048 Sum_probs=54.5
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|.++|++|.+.|+.||..||+++|.+|++.|+++.|.+++..|.+.|+.||..+||+||.+|++.|+
T Consensus 270 ~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~ 338 (857)
T PLN03077 270 LEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS 338 (857)
T ss_pred HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCC
Confidence 567777888877788888888888888888888888888888888777888888888888888877765
No 9
>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=99.41 E-value=5e-13 Score=54.72 Aligned_cols=35 Identities=40% Similarity=0.642 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccH
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSKGCKQDA 55 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~ 55 (71)
.+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus 1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~ 35 (35)
T TIGR00756 1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV 35 (35)
T ss_pred CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence 37999999999999999999999999999999984
No 10
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=99.32 E-value=4e-12 Score=51.92 Aligned_cols=33 Identities=33% Similarity=0.353 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p 53 (71)
.+||++|++|++.|+++.|+++|++|++.|+.|
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 689999999999999999999999999999988
No 11
>PF13041 PPR_2: PPR repeat family
Probab=99.28 E-value=7.1e-12 Score=55.54 Aligned_cols=32 Identities=41% Similarity=0.717 Sum_probs=30.2
Q ss_pred ChHHHHHHHHHHhcCCCcCHHHHHHHHHHHHh
Q 042276 1 MDEANGLAELMIQRGVNPDTSTCNALMDGFCL 32 (71)
Q Consensus 1 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~ 32 (71)
+++|.++|++|.++|+.||..||+++|++|||
T Consensus 19 ~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k 50 (50)
T PF13041_consen 19 FEEALKLFKEMKKRGIKPDSYTYNILINGLCK 50 (50)
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence 37899999999999999999999999999986
No 12
>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=99.22 E-value=1.9e-11 Score=48.85 Aligned_cols=31 Identities=32% Similarity=0.663 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSKGC 51 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~ 51 (71)
++||++|++|++.|++++|.++|++|.+.|+
T Consensus 1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~ 31 (31)
T PF01535_consen 1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI 31 (31)
T ss_pred CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence 4899999999999999999999999999875
No 13
>KOG4422 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.13 E-value=4.1e-10 Score=68.53 Aligned_cols=67 Identities=22% Similarity=0.258 Sum_probs=61.1
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHH----HHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDR----ARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.+++..+|.+..+.||..|||+++.+.++.|+++. |.+++.+|++-|++|+..+|-.+|..+++.++
T Consensus 257 ~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~d 327 (625)
T KOG4422|consen 257 GKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESD 327 (625)
T ss_pred cHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCC
Confidence 47899999999999999999999999999998876 66789999999999999999999999987653
No 14
>PF12854 PPR_1: PPR repeat
Probab=98.97 E-value=6.3e-10 Score=45.70 Aligned_cols=22 Identities=32% Similarity=0.582 Sum_probs=20.7
Q ss_pred CCCCccHHHHHHHHHHHHhccc
Q 042276 49 KGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 49 ~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+|+.||..|||+||++||+.|+
T Consensus 1 ~G~~Pd~~ty~~lI~~~Ck~G~ 22 (34)
T PF12854_consen 1 RGCEPDVVTYNTLIDGYCKAGR 22 (34)
T ss_pred CCCCCcHhHHHHHHHHHHHCCC
Confidence 5899999999999999999987
No 15
>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=98.87 E-value=7.6e-08 Score=49.28 Aligned_cols=66 Identities=12% Similarity=0.152 Sum_probs=57.2
Q ss_pred HHHHHHHHHHhcCC-CcCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 3 EANGLAELMIQRGV-NPDTSTCNALMDGFCLAD--------RFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 3 ~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
....+++.++..|+ -|++.+||.++.+-++.. ++-..+.++++|..+++.|+..||++++..+.+.
T Consensus 43 ~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Llkg 117 (120)
T PF08579_consen 43 IINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLLKG 117 (120)
T ss_pred HHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHh
Confidence 34578899999999 999999999999998753 2335788999999999999999999999998764
No 16
>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=98.71 E-value=1.2e-07 Score=53.42 Aligned_cols=65 Identities=25% Similarity=0.242 Sum_probs=56.0
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhc----------------CCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLA----------------DRFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~----------------g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
...+..|.+-|+.-|..+|+.||+.+=+. .+-+-|++++++|...|+.||..|+..|++.|++.
T Consensus 72 ~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~ 151 (228)
T PF06239_consen 72 YAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRK 151 (228)
T ss_pred HHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccc
Confidence 44567889999999999999999997642 24456999999999999999999999999999875
Q ss_pred c
Q 042276 69 I 69 (71)
Q Consensus 69 ~ 69 (71)
+
T Consensus 152 s 152 (228)
T PF06239_consen 152 S 152 (228)
T ss_pred c
Confidence 5
No 17
>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=98.34 E-value=3.8e-06 Score=51.52 Aligned_cols=65 Identities=20% Similarity=0.219 Sum_probs=46.9
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
++..++..=...|+-||..+||.+|+.+.+.|++..|.++...|...+...+..|+..-+.+|.+
T Consensus 121 ~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~ 185 (429)
T PF10037_consen 121 ELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYK 185 (429)
T ss_pred HHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHH
Confidence 45555555556777788888888888888888888888877777766666677777777766654
No 18
>KOG4422 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.22 E-value=6.1e-06 Score=50.93 Aligned_cols=66 Identities=14% Similarity=0.099 Sum_probs=49.8
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
+.|.+++++-.......+..+||.+|.+-.-.- ..++..+|....+.||..|+|+++++..+.|++
T Consensus 224 ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F 289 (625)
T KOG4422|consen 224 ERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALLSCAAKFGKF 289 (625)
T ss_pred HHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHHHHHHHhcch
Confidence 567777777776666777777777776544322 267788888888999999999999999988753
No 19
>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=98.19 E-value=7.6e-06 Score=50.23 Aligned_cols=70 Identities=21% Similarity=0.074 Sum_probs=56.8
Q ss_pred hHHHHHHHHHHhc--CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 2 DEANGLAELMIQR--GVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 2 ~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
+++..++-..... ....-..|.+++|..|.+.|..+.++.+++.=..-|+-||.+|+|.||+.+.+.|.|
T Consensus 83 d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~ 154 (429)
T PF10037_consen 83 DEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNY 154 (429)
T ss_pred HHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccH
Confidence 4455555555543 222345566799999999999999999999999999999999999999999998864
No 20
>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]
Probab=98.08 E-value=2.7e-05 Score=46.05 Aligned_cols=65 Identities=22% Similarity=0.190 Sum_probs=55.3
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcC----------------CHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLAD----------------RFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g----------------~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
...++.|++-|+..|..+|+.+|+.+=|-. +-+-+++++++|..+|+.||..+=..|+++|.+.
T Consensus 92 y~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~ 171 (406)
T KOG3941|consen 92 YTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRW 171 (406)
T ss_pred HHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccc
Confidence 345678899999999999999999876532 2345899999999999999999999999999875
Q ss_pred c
Q 042276 69 I 69 (71)
Q Consensus 69 ~ 69 (71)
+
T Consensus 172 ~ 172 (406)
T KOG3941|consen 172 N 172 (406)
T ss_pred c
Confidence 5
No 21
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=97.91 E-value=7.9e-05 Score=44.36 Aligned_cols=23 Identities=17% Similarity=0.133 Sum_probs=8.6
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHH
Q 042276 24 NALMDGFCLADRFDRARELLVSM 46 (71)
Q Consensus 24 ~~li~~~~~~g~~~~a~~~~~~m 46 (71)
+.+..+|.+.|++++|.+.++.+
T Consensus 253 ~~l~~~~~~~g~~~~A~~~l~~~ 275 (389)
T PRK11788 253 PKLMECYQALGDEAEGLEFLRRA 275 (389)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHH
Confidence 33333333333333333333333
No 22
>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]
Probab=97.81 E-value=6.6e-05 Score=49.62 Aligned_cols=65 Identities=17% Similarity=0.096 Sum_probs=52.6
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+.|+.++.+|++.|++-+.+-|-.+|-+ .++...++.+++.|.+.|+.|+..|+...+-.+.++|
T Consensus 221 d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~ 285 (1088)
T KOG4318|consen 221 DGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNG 285 (1088)
T ss_pred hhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcch
Confidence 5678888888888888888888888766 7777888888888888888888888888777766644
No 23
>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=97.76 E-value=0.0003 Score=32.20 Aligned_cols=57 Identities=30% Similarity=0.356 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILI 62 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li 62 (71)
++|.++|+...+. .| +...+-.+..++.+.|++++|.++++..... .|+...|..++
T Consensus 8 ~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~ 65 (68)
T PF14559_consen 8 DEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL 65 (68)
T ss_dssp HHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred HHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence 6789999999766 44 7778888999999999999999999999877 56655555554
No 24
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=97.74 E-value=0.00029 Score=41.97 Aligned_cols=68 Identities=15% Similarity=-0.037 Sum_probs=45.6
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|...|+++.+.. +.+...+..+...+.+.|++++|.++|+++...+-.....+++.+..+|.+.|+
T Consensus 197 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~ 264 (389)
T PRK11788 197 DAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGD 264 (389)
T ss_pred HHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCC
Confidence 45777777776542 224566777777888888888888888888765322224567777777777665
No 25
>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]
Probab=97.65 E-value=5.9e-05 Score=49.84 Aligned_cols=64 Identities=17% Similarity=0.199 Sum_probs=52.2
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC------------------------CCccHHHHHHH
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKG------------------------CKQDAFSHSIL 61 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g------------------------~~p~~~~~~~l 61 (71)
.++..+...|+.|+.+||-.+|.-||..|+.+.|- +|.-|+-+. -+|...||+.|
T Consensus 11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpkep~aDtyt~L 89 (1088)
T KOG4318|consen 11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPKEPLADTYTNL 89 (1088)
T ss_pred hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCCCCchhHHHHH
Confidence 46778889999999999999999999999999888 666665321 35777888888
Q ss_pred HHHHHhccc
Q 042276 62 INGGSARIR 70 (71)
Q Consensus 62 i~~~~~~~~ 70 (71)
+++|...|+
T Consensus 90 l~ayr~hGD 98 (1088)
T KOG4318|consen 90 LKAYRIHGD 98 (1088)
T ss_pred HHHHHhccc
Confidence 888887775
No 26
>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=97.25 E-value=0.0061 Score=31.95 Aligned_cols=56 Identities=18% Similarity=0.212 Sum_probs=38.1
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh-----CCCCccHHHHHH
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGS-----KGCKQDAFSHSI 60 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~ 60 (71)
+|..+....... .| |...|-.+|.++...|+..+|.++|+.+.. .|+.|+..+-..
T Consensus 80 ~a~~~~~~~l~~--dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l 141 (146)
T PF03704_consen 80 EALRLLQRALAL--DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRAL 141 (146)
T ss_dssp HHHHHHHHHHHH--STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHH
T ss_pred HHHHHHHHHHhc--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHH
Confidence 455555555543 55 899999999999999999999999998863 499998876543
No 27
>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=97.14 E-value=0.00038 Score=27.46 Aligned_cols=19 Identities=42% Similarity=0.726 Sum_probs=17.3
Q ss_pred hHHHHHHHHHHhcCCCcCH
Q 042276 2 DEANGLAELMIQRGVNPDT 20 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~ 20 (71)
++|.++|++|.+.|+.||.
T Consensus 17 ~~a~~~~~~M~~~g~~p~~ 35 (35)
T TIGR00756 17 EEALELFKEMLERGIEPDV 35 (35)
T ss_pred HHHHHHHHHHHHcCCCCCC
Confidence 6899999999999999984
No 28
>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=97.03 E-value=0.011 Score=38.07 Aligned_cols=65 Identities=23% Similarity=0.003 Sum_probs=46.0
Q ss_pred HHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 4 ANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 4 a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
|...++...+. .| +..++..+-..+.+.|++++|..+|+++.+.+.. +..++..+..++.+.|++
T Consensus 822 A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~ 887 (899)
T TIGR02917 822 ALEYAEKALKL--APNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRK 887 (899)
T ss_pred HHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCH
Confidence 44444444432 22 4555666677778888999999999999877543 888888888888888763
No 29
>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=97.03 E-value=0.0084 Score=38.54 Aligned_cols=27 Identities=7% Similarity=-0.140 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
..+..+...+.+.|++++|.+.|+.+.
T Consensus 704 ~~~~~~~~~~~~~g~~~~A~~~~~~~~ 730 (899)
T TIGR02917 704 LGFELEGDLYLRQKDYPAAIQAYRKAL 730 (899)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 333334444444444444444444443
No 30
>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=97.03 E-value=0.012 Score=30.73 Aligned_cols=54 Identities=13% Similarity=0.020 Sum_probs=47.6
Q ss_pred cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCccHHHHHHHHHHHHh
Q 042276 14 RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK-GCKQDAFSHSILINGGSA 67 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~ 67 (71)
....|+..+-.+++.+|+..+++..|+++.+...+. ++..+..+|..|++....
T Consensus 46 spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v 100 (126)
T PF12921_consen 46 SPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV 100 (126)
T ss_pred CCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence 446789999999999999999999999999999765 888889999999988754
No 31
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=96.80 E-value=0.0098 Score=26.87 Aligned_cols=46 Identities=20% Similarity=0.152 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|...|++..+.. | +...+..+=..+.+.|++++|..+|++..+.
T Consensus 14 ~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 14 DEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 67889999998764 5 7888888888899999999999999998754
No 32
>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=96.72 E-value=0.019 Score=29.73 Aligned_cols=46 Identities=9% Similarity=0.032 Sum_probs=40.0
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhhCCC-CccHHHHHHHHHHHHh
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGSKGC-KQDAFSHSILINGGSA 67 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~~~~~li~~~~~ 67 (71)
|-...|.-+...+++....-+|+.++..|+ .|+..+|+.++.+.++
T Consensus 27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~ 73 (120)
T PF08579_consen 27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAK 73 (120)
T ss_pred HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHH
Confidence 334556677777999999999999999999 9999999999998875
No 33
>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=96.67 E-value=0.038 Score=32.65 Aligned_cols=67 Identities=18% Similarity=0.055 Sum_probs=46.5
Q ss_pred ChHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 1 MDEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 1 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+++|..+|+++.+ .+.++..+.|.+..++...|++++|.+++.+..+.. .-|..+..-++-.....|
T Consensus 183 ~~~A~y~f~El~~-~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~g 249 (290)
T PF04733_consen 183 YQDAFYIFEELSD-KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLG 249 (290)
T ss_dssp CCHHHHHHHHHHC-CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhC
Confidence 3678999999754 467789999999999999999999999999976542 124455555555544444
No 34
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=96.67 E-value=0.0019 Score=25.44 Aligned_cols=17 Identities=41% Similarity=0.559 Sum_probs=15.5
Q ss_pred hHHHHHHHHHHhcCCCc
Q 042276 2 DEANGLAELMIQRGVNP 18 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p 18 (71)
++|..+|++|.+.|+.|
T Consensus 18 ~~a~~~~~~M~~~gv~P 34 (34)
T PF13812_consen 18 DAALQLFDEMKEQGVKP 34 (34)
T ss_pred HHHHHHHHHHHHhCCCC
Confidence 67899999999999987
No 35
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=96.55 E-value=0.0038 Score=29.85 Aligned_cols=66 Identities=17% Similarity=0.139 Sum_probs=43.2
Q ss_pred hHHHHHHHHHHhcCC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccH-HHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGV-NPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDA-FSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~~~ 70 (71)
++|..+++.+.+..- .|+...+-.+-.++.+.|++++|..+++. .+. .|+. ...-.+-.+|.+.|+
T Consensus 6 ~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~--~~~~~~~~~l~a~~~~~l~~ 73 (84)
T PF12895_consen 6 ENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKL--DPSNPDIHYLLARCLLKLGK 73 (84)
T ss_dssp HHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTH--HHCHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCC--CCCCHHHHHHHHHHHHHhCC
Confidence 578889999976532 23455555578899999999999999998 222 2323 333344455556655
No 36
>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=96.50 E-value=0.038 Score=28.24 Aligned_cols=67 Identities=13% Similarity=-0.013 Sum_probs=42.5
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|.+.|+.....+ +.+...|..+-..+.+.|++++|..+++...... ..+...+..+-..+...|+
T Consensus 34 ~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~ 100 (135)
T TIGR02552 34 DEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGE 100 (135)
T ss_pred HHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCC
Confidence 45667777665542 2266777777777778888888888888776553 3345555555555555554
No 37
>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=96.41 E-value=0.0072 Score=34.53 Aligned_cols=35 Identities=31% Similarity=0.242 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHH
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCLADRFD 37 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~ 37 (71)
-|..++++|...|+-||..++..+++.|++.+.+-
T Consensus 121 c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~ 155 (228)
T PF06239_consen 121 CAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPM 155 (228)
T ss_pred HHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHH
Confidence 47899999999999999999999999999988654
No 38
>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=96.21 E-value=0.055 Score=28.30 Aligned_cols=52 Identities=8% Similarity=-0.016 Sum_probs=42.8
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHh---------------hCCCCccHHHHHHHHHHHHhccc
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMG---------------SKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~---------------~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
|..++.++|-++++.|+++...++.+..= .....|+..+..+++.+|+.+|+
T Consensus 1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~ 67 (126)
T PF12921_consen 1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGD 67 (126)
T ss_pred ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhccc
Confidence 45688999999999999999999886541 12467999999999999988775
No 39
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=96.16 E-value=0.074 Score=28.08 Aligned_cols=66 Identities=8% Similarity=-0.139 Sum_probs=38.0
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|...|+..... .| +...|..+-.++.+.|++++|...|+...... ..+..++..+-.++.+.|+
T Consensus 41 ~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~ 107 (144)
T PRK15359 41 SRAVIDFSWLVMA--QPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGE 107 (144)
T ss_pred HHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCC
Confidence 3556666665433 33 56666666666777777777777777776542 2244555555445544443
No 40
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=96.06 E-value=0.13 Score=30.52 Aligned_cols=61 Identities=15% Similarity=0.120 Sum_probs=49.1
Q ss_pred HHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh-----CCCCccHHHHHHHHHHHH
Q 042276 4 ANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGS-----KGCKQDAFSHSILINGGS 66 (71)
Q Consensus 4 a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~~~~li~~~~ 66 (71)
+.+.++++... .| +...|..+|.+|.+.|+...|++.|+++.+ .|+.|...+......+..
T Consensus 172 ~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~~~~~ 238 (280)
T COG3629 172 VIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYEEILR 238 (280)
T ss_pred HHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHHHHhc
Confidence 34445555433 55 899999999999999999999999999875 599999999888777643
No 41
>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=95.85 E-value=0.061 Score=24.49 Aligned_cols=67 Identities=13% Similarity=-0.010 Sum_probs=45.9
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|...+++..+.. +.+...+..+-..+...+++++|.+.|....... ..+..++..+...+...|+
T Consensus 17 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 83 (100)
T cd00189 17 DEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGK 83 (100)
T ss_pred HHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHh
Confidence 56777787776542 2244677778888889999999999999887653 2233566666666655443
No 42
>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=95.83 E-value=0.16 Score=31.46 Aligned_cols=66 Identities=12% Similarity=-0.052 Sum_probs=42.3
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccH-HHHHHHHHHHHhcccC
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDA-FSHSILINGGSARIRK 71 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~~~~ 71 (71)
+|.+++++..+. .+-|....+...+-+.+.++.+.|+.+.+++.+. .|+. .+|..|..+|.+.|++
T Consensus 218 ~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~ 284 (395)
T PF09295_consen 218 EAIRLLNEALKE-NPQDSELLNLQAEFLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDF 284 (395)
T ss_pred HHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCH
Confidence 344455554432 1124445555555567788888888888888765 4654 4888888888887764
No 43
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=95.81 E-value=0.11 Score=29.96 Aligned_cols=67 Identities=16% Similarity=-0.053 Sum_probs=42.8
Q ss_pred hHHHHHHHHHHh-cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQ-RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~ 70 (71)
+++..+++.... ....++...|..+-..+.+.|++++|++.+++..+. .| |....+.++..+...|+
T Consensus 127 ~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~ 195 (280)
T PF13429_consen 127 DEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGD 195 (280)
T ss_dssp HHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCH
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCC
Confidence 345566666543 223457777888888888888888888888888766 35 45667777776665553
No 44
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=95.75 E-value=0.038 Score=22.31 Aligned_cols=26 Identities=15% Similarity=0.085 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
+|+.+=..|.+.|++++|+++|++..
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 46778889999999999999999854
No 45
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=95.64 E-value=0.21 Score=30.34 Aligned_cols=66 Identities=11% Similarity=-0.149 Sum_probs=40.5
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|...|.+..+. .| +...|..+-.++.+.|++++|+..+++..... ..+...|..+-.+|...|+
T Consensus 19 ~~Ai~~~~~Al~~--~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~ 85 (356)
T PLN03088 19 ALAVDLYTQAIDL--DPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE 85 (356)
T ss_pred HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence 4566667666643 33 56666666667777777777777777776542 1244555555555555554
No 46
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=95.60 E-value=0.055 Score=22.75 Aligned_cols=28 Identities=21% Similarity=0.095 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+|..+-..|.+.|++++|+++|++..+.
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~ 30 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALAL 30 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5667778899999999999999999876
No 47
>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=95.38 E-value=0.039 Score=24.93 Aligned_cols=39 Identities=15% Similarity=0.064 Sum_probs=30.9
Q ss_pred HhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHhcccC
Q 042276 31 CLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSARIRK 71 (71)
Q Consensus 31 ~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~~ 71 (71)
.+.|++++|+++|++.... .| |...+-.+..+|.+.|++
T Consensus 2 l~~~~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~ 41 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQR--NPDNPEARLLLAQCYLKQGQY 41 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHH--TTTSHHHHHHHHHHHHHTT-H
T ss_pred hhccCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCH
Confidence 4679999999999999876 34 677777888888888763
No 48
>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=95.31 E-value=0.21 Score=27.03 Aligned_cols=30 Identities=17% Similarity=0.245 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
...+..+-..+.+.|++++|...+++....
T Consensus 169 ~~~~~~la~~~~~~~~~~~A~~~~~~~~~~ 198 (234)
T TIGR02521 169 PESLLELAELYYLRGQYKDARAYLERYQQT 198 (234)
T ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 344555555555566666666666555444
No 49
>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=95.20 E-value=0.1 Score=22.72 Aligned_cols=38 Identities=8% Similarity=-0.021 Sum_probs=31.6
Q ss_pred HHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 27 MDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 27 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
+....+.|...++..++++|.+.|+..+...|..++.-
T Consensus 9 L~~Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~ 46 (48)
T PF11848_consen 9 LLLAKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR 46 (48)
T ss_pred HHHHHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence 44456788888999999999999999999988887753
No 50
>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=95.16 E-value=0.24 Score=26.81 Aligned_cols=29 Identities=10% Similarity=-0.018 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
...+..+-..+...|++++|.+.+++..+
T Consensus 65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~ 93 (234)
T TIGR02521 65 YLAYLALALYYQQLGELEKAEDSFRRALT 93 (234)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 44445555555555555555555555544
No 51
>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=95.13 E-value=0.19 Score=25.63 Aligned_cols=57 Identities=11% Similarity=0.086 Sum_probs=39.2
Q ss_pred HHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 7 LAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 7 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
-++.+....+.|+..+..+.+.+|-+.+++..|.++|+..+.+- .+....|.-+++-
T Consensus 32 glN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lqE 88 (108)
T PF02284_consen 32 GLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQE 88 (108)
T ss_dssp HHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHHH
T ss_pred HHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHHH
Confidence 34444556678999999999999999999999999999997541 2222377776654
No 52
>PF13762 MNE1: Mitochondrial splicing apparatus component
Probab=95.11 E-value=0.14 Score=27.59 Aligned_cols=50 Identities=12% Similarity=0.068 Sum_probs=43.6
Q ss_pred CHHHHHHHHHHHHhcCC-HHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 19 DTSTCNALMDGFCLADR-FDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
+..+|++++.+.++... --.+..+|.-|++.+.++++.-|..+|+++.+.
T Consensus 78 ~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g 128 (145)
T PF13762_consen 78 DNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRG 128 (145)
T ss_pred ccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcC
Confidence 66789999999988776 556888999999988999999999999998763
No 53
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=95.07 E-value=0.43 Score=29.30 Aligned_cols=64 Identities=9% Similarity=0.059 Sum_probs=48.2
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++.+..+.+.++ .| |....-++=..+.+.+++++|.+.|+...+. .|+..+|..+-..+-+.|+
T Consensus 312 ~al~~~e~~lk~--~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~ 376 (398)
T PRK10747 312 QLEKVLRQQIKQ--HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHK 376 (398)
T ss_pred HHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCC
Confidence 455556666544 45 5566777777888999999999999999876 6888888888888777665
No 54
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=94.80 E-value=0.61 Score=30.60 Aligned_cols=20 Identities=20% Similarity=0.275 Sum_probs=9.4
Q ss_pred HHHHhcCCHHHHHHHHHHHh
Q 042276 28 DGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 28 ~~~~~~g~~~~a~~~~~~m~ 47 (71)
..+.+.|++++|+..+++..
T Consensus 220 ~~l~~~g~~~eA~~~~~~al 239 (656)
T PRK15174 220 DTLCAVGKYQEAIQTGESAL 239 (656)
T ss_pred HHHHHCCCHHHHHHHHHHHH
Confidence 34444444444444444444
No 55
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=94.72 E-value=0.29 Score=25.67 Aligned_cols=67 Identities=18% Similarity=0.144 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHhcCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPD--TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|...|+......-.|+ ....--+-..+...|++++|+..++....... ....+...=.++.+.|+
T Consensus 65 ~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~~~~~--~~~~~~~~Gdi~~~~g~ 133 (145)
T PF09976_consen 65 DEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIPDEAF--KALAAELLGDIYLAQGD 133 (145)
T ss_pred HHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccCcch--HHHHHHHHHHHHHHCCC
Confidence 466677777766542222 12233344555667777777777755332222 22334444444444444
No 56
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=94.57 E-value=0.13 Score=20.76 Aligned_cols=29 Identities=28% Similarity=0.359 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
..+++.+-..|...|++++|+.++++...
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 35788889999999999999999998864
No 57
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=94.55 E-value=0.17 Score=29.23 Aligned_cols=65 Identities=15% Similarity=0.127 Sum_probs=33.0
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+.+++....+.. +.|...|..+-.++...|+.++|+..|++..+.. ..|......+..++...|+
T Consensus 199 ~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~ 263 (280)
T PF13429_consen 199 AREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGR 263 (280)
T ss_dssp HHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----
T ss_pred HHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccc
Confidence 334444443332 3345556666666777777777777777765531 2255555566666655554
No 58
>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=94.54 E-value=0.29 Score=24.79 Aligned_cols=58 Identities=10% Similarity=0.081 Sum_probs=43.5
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
+-++.+....+.|+..+..+.+++|-+-+++..|.++|+..+.+. ..+...|.-+++-
T Consensus 28 r~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~-~~~~~~y~~~lqe 85 (103)
T cd00923 28 RGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKC-GAHKEIYPYILQE 85 (103)
T ss_pred HHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cCchhhHHHHHHH
Confidence 334444556678999999999999999999999999999887431 2244567666653
No 59
>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=94.43 E-value=0.35 Score=25.25 Aligned_cols=49 Identities=18% Similarity=0.162 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.+...+...+...|++++|.++.+.+.... +.|...|-.+|.+|...|+
T Consensus 63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~ 111 (146)
T PF03704_consen 63 DALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGR 111 (146)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcC
Confidence 345556667778999999999999998662 3378899999999999886
No 60
>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=94.41 E-value=0.28 Score=24.12 Aligned_cols=69 Identities=7% Similarity=-0.030 Sum_probs=43.1
Q ss_pred hHHHHHHHHHHhcCC-Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC--CCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGV-NP-DTSTCNALMDGFCLADRFDRARELLVSMGSKG--CKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~-~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~~~ 70 (71)
++|...|..+.+..- .| ....+..+-..+.+.|++++|.+.|+...... .......+..+-..+.+.|+
T Consensus 19 ~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~ 91 (119)
T TIGR02795 19 ADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGD 91 (119)
T ss_pred HHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCC
Confidence 567888888865421 11 13456667888889999999999999987642 11123345555555554443
No 61
>PRK12370 invasion protein regulator; Provisional
Probab=94.37 E-value=0.75 Score=29.49 Aligned_cols=45 Identities=9% Similarity=-0.063 Sum_probs=22.9
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+|...|++..+. .| +...+..+-..+...|++++|...+++..+.
T Consensus 356 ~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l 401 (553)
T PRK12370 356 VGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECLKL 401 (553)
T ss_pred HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence 444555554433 23 3444444555555556666666666655544
No 62
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=94.34 E-value=0.69 Score=29.88 Aligned_cols=55 Identities=11% Similarity=0.147 Sum_probs=45.0
Q ss_pred cCCCcCHHHHHHHHHHHH-hcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 14 RGVNPDTSTCNALMDGFC-LADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
.=+.|+..-|-.||..|. +.|++..|++++++.- +.+.-|..+.-.|+..+...|
T Consensus 653 aliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~h-rkfpedldclkflvri~~dlg 708 (840)
T KOG2003|consen 653 ALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIH-RKFPEDLDCLKFLVRIAGDLG 708 (840)
T ss_pred HhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHH-HhCccchHHHHHHHHHhcccc
Confidence 346899999999998877 5799999999999984 446678888888888877655
No 63
>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=94.27 E-value=0.086 Score=28.10 Aligned_cols=24 Identities=33% Similarity=0.587 Sum_probs=12.1
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMD 28 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~ 28 (71)
+|..+|..|..+|-+|| .|+.|+.
T Consensus 113 DaY~VF~kML~~G~pPd--dW~~Ll~ 136 (140)
T PF11663_consen 113 DAYAVFRKMLERGNPPD--DWDALLK 136 (140)
T ss_pred cHHHHHHHHHhCCCCCc--cHHHHHH
Confidence 44555555555555554 2444443
No 64
>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=94.19 E-value=0.066 Score=28.53 Aligned_cols=32 Identities=16% Similarity=0.144 Sum_probs=25.9
Q ss_pred hcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 32 LADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 32 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
+.|.-..|..+|+.|.++|-.|| .|+.|+...
T Consensus 107 ~ygsk~DaY~VF~kML~~G~pPd--dW~~Ll~~a 138 (140)
T PF11663_consen 107 AYGSKTDAYAVFRKMLERGNPPD--DWDALLKEA 138 (140)
T ss_pred hhccCCcHHHHHHHHHhCCCCCc--cHHHHHHHh
Confidence 34566679999999999999987 488888764
No 65
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=94.15 E-value=0.93 Score=29.78 Aligned_cols=44 Identities=5% Similarity=0.003 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
+|...++.+... .| +...+..+-..+.+.|++++|...+++...
T Consensus 94 ~A~~~l~~~l~~--~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~ 138 (656)
T PRK15174 94 AVLQVVNKLLAV--NVCQPEDVLLVASVLLKSKQYATVADLAEQAWL 138 (656)
T ss_pred HHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 344444444332 22 233444444444445555555555554443
No 66
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=94.04 E-value=0.18 Score=22.59 Aligned_cols=41 Identities=10% Similarity=-0.032 Sum_probs=31.2
Q ss_pred HHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHhccc
Q 042276 28 DGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSARIR 70 (71)
Q Consensus 28 ~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~ 70 (71)
..+.+.|++++|.+.|++..+.. | +...+..+-.++...|+
T Consensus 5 ~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~ 46 (65)
T PF13432_consen 5 RALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGR 46 (65)
T ss_dssp HHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-
T ss_pred HHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCC
Confidence 45778999999999999998874 5 55666666666666665
No 67
>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=93.96 E-value=0.86 Score=28.05 Aligned_cols=65 Identities=14% Similarity=0.014 Sum_probs=44.0
Q ss_pred HHHHHHHHHhcCCCcC-H--HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 4 ANGLAELMIQRGVNPD-T--STCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~-~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+.+.++...+. .|+ . ....++=..+.+.|++++|.+.|+........||...+..+-..+.+.|+
T Consensus 318 ~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~ 385 (409)
T TIGR00540 318 LEKLIEKQAKN--VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGD 385 (409)
T ss_pred HHHHHHHHHHh--CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCC
Confidence 34444444332 453 3 44556667778899999999999964444447888888888888877665
No 68
>PRK14574 hmsH outer membrane protein; Provisional
Probab=93.83 E-value=0.88 Score=30.89 Aligned_cols=69 Identities=12% Similarity=-0.020 Sum_probs=51.8
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-----CCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKG-----CKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-----~~p~~~~~~~li~~~~~~~~ 70 (71)
.++.+.++.+...+......+--++-++|...+++++|+.+++...... ..++......|.-++..+++
T Consensus 309 ~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~ 382 (822)
T PRK14574 309 ADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQ 382 (822)
T ss_pred HHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhccc
Confidence 4677888888888777667788889999999999999999999986532 12344445667777777665
No 69
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=93.79 E-value=0.42 Score=30.84 Aligned_cols=56 Identities=13% Similarity=0.070 Sum_probs=45.5
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSIL 61 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l 61 (71)
..|.++|....+- .|+...|++.|+-=.+...++.|..++.+..-. .|++.+|--.
T Consensus 158 ~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wiky 213 (677)
T KOG1915|consen 158 AGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKY 213 (677)
T ss_pred HHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHH
Confidence 4577788777654 899999999999999999999999999988654 4887776543
No 70
>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=93.77 E-value=1 Score=29.16 Aligned_cols=65 Identities=11% Similarity=-0.027 Sum_probs=48.1
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~ 70 (71)
++|...|.+... +.|+...|..+-.+|.+.|++++|++.+....+. .| +...|..+-.++...|+
T Consensus 144 ~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l--~p~~~~a~~~~a~a~~~lg~ 209 (615)
T TIGR00990 144 NKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALEL--DPDYSKALNRRANAYDGLGK 209 (615)
T ss_pred HHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCC
Confidence 567778877664 3677788888888899999999999999988765 34 44566666666665554
No 71
>KOG4570 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.76 E-value=0.34 Score=29.70 Aligned_cols=46 Identities=26% Similarity=0.249 Sum_probs=33.9
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+..++..=++-|+-||.++++.+|+.+.+.++..+|.++...|...
T Consensus 119 ~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q 164 (418)
T KOG4570|consen 119 AIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ 164 (418)
T ss_pred HHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence 3344444456788888888888888888888888888877766543
No 72
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=93.67 E-value=0.67 Score=25.86 Aligned_cols=46 Identities=9% Similarity=0.118 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|.+++++..+. .| +..++..+-..+.+.|++++|+..++.+.+.
T Consensus 127 ~~A~~~l~~al~~--dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l 173 (198)
T PRK10370 127 PQTREMIDKALAL--DANEVTALMLLASDAFMQADYAQAIELWQKVLDL 173 (198)
T ss_pred HHHHHHHHHHHHh--CCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 4566666666654 44 5666677777777888888888888887655
No 73
>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=93.65 E-value=1.1 Score=28.94 Aligned_cols=28 Identities=4% Similarity=-0.218 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
...+..+-..+.+.|++++|+..|++..
T Consensus 433 ~~~~~~la~~~~~~g~~~eA~~~~~~al 460 (615)
T TIGR00990 433 IFSHIQLGVTQYKEGSIASSMATFRRCK 460 (615)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3334444444444455555555544443
No 74
>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=93.43 E-value=0.35 Score=21.81 Aligned_cols=29 Identities=10% Similarity=0.028 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
.+|..+=..+.+.|++++|+..|++..+.
T Consensus 4 ~~~~~~g~~~~~~~~~~~A~~~~~~ai~~ 32 (69)
T PF13414_consen 4 EAWYNLGQIYFQQGDYEEAIEYFEKAIEL 32 (69)
T ss_dssp HHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 34444444455555555555555555443
No 75
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=93.41 E-value=0.34 Score=29.13 Aligned_cols=39 Identities=18% Similarity=0.121 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSH 58 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~ 58 (71)
..-||..|+...+.||+++|++++++.++.|..--..+|
T Consensus 257 e~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tF 295 (303)
T PRK10564 257 ESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTF 295 (303)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHH
Confidence 455789999999999999999999999999965444444
No 76
>PRK12370 invasion protein regulator; Provisional
Probab=93.38 E-value=1.3 Score=28.41 Aligned_cols=45 Identities=16% Similarity=0.025 Sum_probs=20.7
Q ss_pred hHHHHHHHHHHhcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 2 DEANGLAELMIQRGVNPD-TSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
++|...++...+. .|+ ...+..+...+...|++++|+..+++...
T Consensus 389 ~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~l~ 434 (553)
T PRK12370 389 EEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGDELRS 434 (553)
T ss_pred HHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence 3455555555433 232 11222233334445666666666665543
No 77
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=93.35 E-value=0.37 Score=21.92 Aligned_cols=52 Identities=19% Similarity=0.128 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~ 57 (71)
++|.++++.+... .| +...|...=..+.+.|++++|.+.|+...+. .|+...
T Consensus 12 ~~A~~~~~~~l~~--~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~ 64 (73)
T PF13371_consen 12 EEALEVLERALEL--DPDDPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPD 64 (73)
T ss_pred HHHHHHHHHHHHh--CcccchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHH
Confidence 5677888888765 34 6777777777888999999999999999866 344433
No 78
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=93.26 E-value=1.3 Score=30.66 Aligned_cols=45 Identities=11% Similarity=-0.113 Sum_probs=24.8
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+|...+++..+. .|+...|..+-..+.+.|++++|+..|++....
T Consensus 594 eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l 638 (987)
T PRK09782 594 LALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALEL 638 (987)
T ss_pred HHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 444445444433 345555555555666666666666666665544
No 79
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=93.18 E-value=1.2 Score=27.35 Aligned_cols=30 Identities=10% Similarity=0.145 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
......+...|.+.|++++|.+++..+.+.
T Consensus 187 ~~al~ll~~~~~~~gdw~~a~~~l~~l~k~ 216 (398)
T PRK10747 187 PEVLRLAEQAYIRTGAWSSLLDILPSMAKA 216 (398)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHc
Confidence 444444444444444444444444444444
No 80
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=92.98 E-value=0.099 Score=35.64 Aligned_cols=66 Identities=14% Similarity=0.107 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|.++|.+.... .| |...-|.+=-+++..|++.+|.++|.+-++.+. -+..+|--+-++|..+|+
T Consensus 629 ~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~q 695 (1018)
T KOG2002|consen 629 EKALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQ 695 (1018)
T ss_pred HHHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHH
Confidence 3566666666543 33 667777776677777777777777777776532 122334444444444443
No 81
>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=92.77 E-value=0.76 Score=27.29 Aligned_cols=67 Identities=12% Similarity=-0.053 Sum_probs=40.6
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHH---HHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNAL---MDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
+.|.+.++.|.+. ..|....+.. +....-.+.+.+|.-+|+++... +.+++.+.+.+.-++...|+|
T Consensus 148 dlA~k~l~~~~~~--~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~ 217 (290)
T PF04733_consen 148 DLAEKELKNMQQI--DEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHY 217 (290)
T ss_dssp HHHHHHHHHHHCC--SCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-H
T ss_pred HHHHHHHHHHHhc--CCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCH
Confidence 5677888888654 4454443322 22222234788899999998654 456777777777777666653
No 82
>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=92.71 E-value=0.47 Score=21.36 Aligned_cols=45 Identities=18% Similarity=0.143 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcC-CHHHHHHHHHHHhh
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLAD-RFDRARELLVSMGS 48 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~ 48 (71)
++|...|.+..+. .| +...|..+=.++.+.| ++++|++.++...+
T Consensus 20 ~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 20 EEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence 5788888888775 45 6788888888899999 79999999988764
No 83
>PF13929 mRNA_stabil: mRNA stabilisation
Probab=92.70 E-value=1.3 Score=26.55 Aligned_cols=65 Identities=3% Similarity=-0.029 Sum_probs=52.9
Q ss_pred HHHHHHH-hcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCccHHHHHHHHHHHHhccc
Q 042276 6 GLAELMI-QRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK-GCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 6 ~~~~~m~-~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~~~ 70 (71)
++.+.+. ..+-.++..+--++|..+++.+++..-+++....... +..-|...|...|+...+.|+
T Consensus 187 EvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD 253 (292)
T PF13929_consen 187 EVVDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGD 253 (292)
T ss_pred HHHHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCC
Confidence 3444443 3456778889999999999999999999998888755 666799999999999988875
No 84
>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=92.52 E-value=0.58 Score=23.60 Aligned_cols=45 Identities=13% Similarity=0.005 Sum_probs=32.1
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
.+++.+...+..-.|.++++.+.+.+..++..|..-.|+.+.+.|
T Consensus 5 ~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~G 49 (116)
T cd07153 5 AILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAG 49 (116)
T ss_pred HHHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCC
Confidence 355556666666778888888887776677777777777776655
No 85
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=92.49 E-value=0.88 Score=23.98 Aligned_cols=54 Identities=11% Similarity=-0.072 Sum_probs=42.2
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHS 59 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~ 59 (71)
++|...|+..... .| +...+..+-.++.+.|++++|...|+...+. .|+..-|.
T Consensus 75 ~~A~~~y~~Al~l--~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~--~p~~~~~~ 129 (144)
T PRK15359 75 TTAINFYGHALML--DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM--SYADASWS 129 (144)
T ss_pred HHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHH
Confidence 5778888888764 45 7888888888999999999999999999776 45543333
No 86
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=92.45 E-value=2 Score=28.72 Aligned_cols=50 Identities=10% Similarity=-0.066 Sum_probs=38.2
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDA 55 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~ 55 (71)
++|..+++++... .| +...+..+...+...|++++|++.+++.... .|+.
T Consensus 376 ~eA~~~l~~al~~--~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l--~Pd~ 426 (765)
T PRK10049 376 PQAEMRARELAYN--APGNQGLRIDYASVLQARGWPRAAENELKKAEVL--EPRN 426 (765)
T ss_pred HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh--CCCC
Confidence 5778888887654 34 6778888888888899999999999888765 3653
No 87
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=92.32 E-value=1.2 Score=26.72 Aligned_cols=63 Identities=16% Similarity=0.158 Sum_probs=43.0
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHh--cC----CHHHHHHHHHHHhhCC---CCccHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCL--AD----RFDRARELLVSMGSKG---CKQDAFSHSILING 64 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~--~g----~~~~a~~~~~~m~~~g---~~p~~~~~~~li~~ 64 (71)
++...+++.|++.|+.-+..+|-+....... .. ....|..+|+.|++.. -.++..++..++..
T Consensus 79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~ 150 (297)
T PF13170_consen 79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM 150 (297)
T ss_pred HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc
Confidence 4567888899999999888888774433333 33 3345888999998753 12455677777654
No 88
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.32 E-value=0.68 Score=28.38 Aligned_cols=49 Identities=12% Similarity=0.162 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHh-cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 042276 2 DEANGLAELMIQ-RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 2 ~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
+.|.+-|++-.+ .|.. +...||..+. ..+.++.+.|++...+..++|++
T Consensus 161 EaAvqkFqaAlqvsGyq-pllAYniALa-Hy~~~qyasALk~iSEIieRG~r 210 (459)
T KOG4340|consen 161 EAAVQKFQAALQVSGYQ-PLLAYNLALA-HYSSRQYASALKHISEIIERGIR 210 (459)
T ss_pred HHHHHHHHHHHhhcCCC-chhHHHHHHH-HHhhhhHHHHHHHHHHHHHhhhh
Confidence 567788888876 4444 5678888774 55678899999999998888754
No 89
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=92.18 E-value=0.59 Score=21.24 Aligned_cols=42 Identities=12% Similarity=-0.078 Sum_probs=29.1
Q ss_pred HHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 28 DGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 28 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
..|.+.+++++|+++++.+.... +.+...|...-..+.+.|+
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~ 44 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGR 44 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhcc
Confidence 46788999999999999998773 1244455545555555554
No 90
>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=92.13 E-value=1.8 Score=26.69 Aligned_cols=49 Identities=8% Similarity=0.186 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
++|...++.+.+. .| +......+...+.+.|++++|.+++....+.+..
T Consensus 170 ~~Al~~l~~l~~~--~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~ 219 (409)
T TIGR00540 170 HAARHGVDKLLEM--APRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF 219 (409)
T ss_pred HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC
Confidence 4677778887766 35 6677888888888999999999999988887644
No 91
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=92.09 E-value=1.1 Score=24.15 Aligned_cols=64 Identities=11% Similarity=-0.060 Sum_probs=40.9
Q ss_pred hHHHHHHHHHHhcCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHh
Q 042276 2 DEANGLAELMIQRGVNPD--TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSA 67 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~ 67 (71)
++|...|++..+..-.++ ...+..+-..+.+.|++++|...+.+.... .| +...+..+-..+..
T Consensus 52 ~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~ 118 (172)
T PRK02603 52 AEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIAVIYHK 118 (172)
T ss_pred HHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHH
Confidence 567777777765433332 467777778888889999999988887764 23 33444444444433
No 92
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=91.99 E-value=2.2 Score=29.87 Aligned_cols=45 Identities=16% Similarity=0.206 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
++|...|++..+. .| +...+..+...+...|++++|++.++...+
T Consensus 620 ~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~ 665 (1157)
T PRK11447 620 AAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKLPA 665 (1157)
T ss_pred HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 3455555555443 23 455555566666666666666666665543
No 93
>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=91.86 E-value=0.51 Score=21.82 Aligned_cols=51 Identities=18% Similarity=0.025 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----C-CCcc-HHHHHHHHHHHHhccc
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSK----G-CKQD-AFSHSILINGGSARIR 70 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g-~~p~-~~~~~~li~~~~~~~~ 70 (71)
..+++.+=..|...|++++|++.|++..+. | -.|+ ..++..+-..+.+.|+
T Consensus 5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~ 61 (78)
T PF13424_consen 5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGD 61 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCC
Confidence 467888889999999999999999998753 2 1122 3445555555554443
No 94
>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=91.84 E-value=0.49 Score=24.15 Aligned_cols=48 Identities=10% Similarity=-0.053 Sum_probs=36.5
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
.-..+++...+.+..-.|.++++.|.+.|...+..|..--|+.+.+.|
T Consensus 9 ~R~~Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~G 56 (120)
T PF01475_consen 9 QRLAILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAG 56 (120)
T ss_dssp HHHHHHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCC
Confidence 345677777777778889999999998888888888777778877765
No 95
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=91.78 E-value=0.51 Score=30.33 Aligned_cols=50 Identities=12% Similarity=0.128 Sum_probs=38.4
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CCccHHHHHHHHHHHHhc
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKG-CKQDAFSHSILINGGSAR 68 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~p~~~~~~~li~~~~~~ 68 (71)
-...|+..|+.-.+..-++.|..+|-++++.| ..+++..++++|.-++..
T Consensus 396 ~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~ 446 (660)
T COG5107 396 LTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATG 446 (660)
T ss_pred hhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcC
Confidence 35677778887777777888888888888887 567788888888777653
No 96
>PRK11189 lipoprotein NlpI; Provisional
Probab=91.70 E-value=1.7 Score=25.62 Aligned_cols=64 Identities=17% Similarity=-0.065 Sum_probs=35.6
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc-HHHHHHHHHHHHhccc
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD-AFSHSILINGGSARIR 70 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~ 70 (71)
+|...|.+..+. .| +...|+.+=..+...|++++|...|+...+. .|+ ..+|..+-..+...|+
T Consensus 82 ~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~ 147 (296)
T PRK11189 82 LARNDFSQALAL--RPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIALYYGGR 147 (296)
T ss_pred HHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCC
Confidence 444555554433 34 4666777767777777777777777776653 342 3444444444444443
No 97
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=91.62 E-value=2.4 Score=27.18 Aligned_cols=65 Identities=12% Similarity=0.006 Sum_probs=36.7
Q ss_pred HHHHHHHHHHhcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 3 EANGLAELMIQRGVNPD-TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+|.+.++.+... .|+ ...+-.+=.++.+.|++.+|..+++.-... ..-|...|..|-.+|...|.
T Consensus 358 ~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~-~p~dp~~w~~LAqay~~~g~ 423 (484)
T COG4783 358 EAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFN-DPEDPNGWDLLAQAYAELGN 423 (484)
T ss_pred HHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhc-CCCCchHHHHHHHHHHHhCc
Confidence 455555555443 443 344444445566666666666666666543 13356677777777766553
No 98
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=91.60 E-value=0.28 Score=19.55 Aligned_cols=24 Identities=21% Similarity=0.383 Sum_probs=21.4
Q ss_pred Cc-CHHHHHHHHHHHHhcCCHHHHH
Q 042276 17 NP-DTSTCNALMDGFCLADRFDRAR 40 (71)
Q Consensus 17 ~p-~~~~~~~li~~~~~~g~~~~a~ 40 (71)
.| |...|+-+=..+.+.|++++|+
T Consensus 9 ~P~n~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 9 NPNNAEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred CCCCHHHHHHHHHHHHHCcCHHhhc
Confidence 56 7999999999999999999986
No 99
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=91.48 E-value=1.4 Score=24.13 Aligned_cols=59 Identities=14% Similarity=-0.031 Sum_probs=44.2
Q ss_pred HHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 10 LMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 10 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
.+++.|+.++..-- +++..+......-.|.++++.+.+.+..++..|..--|+.+.+.|
T Consensus 16 ~L~~~GlR~T~qR~-~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~G 74 (169)
T PRK11639 16 LCAQRNVRLTPQRL-EVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQG 74 (169)
T ss_pred HHHHcCCCCCHHHH-HHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCC
Confidence 34667877654443 566666666667789999999999988888888777788887765
No 100
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=91.33 E-value=1.3 Score=23.63 Aligned_cols=62 Identities=15% Similarity=0.006 Sum_probs=48.5
Q ss_pred HHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 7 LAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 7 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+...++++|++++.. --.+++.+.+.+..-.|.++++.+.+.+...+..|..--++.+.+.|
T Consensus 8 ~~~~lk~~glr~T~q-R~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~G 69 (145)
T COG0735 8 AIERLKEAGLRLTPQ-RLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAG 69 (145)
T ss_pred HHHHHHHcCCCcCHH-HHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCC
Confidence 445567788876543 45678888888888999999999999887788888777778887765
No 101
>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=91.23 E-value=2 Score=25.46 Aligned_cols=45 Identities=16% Similarity=0.173 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
+|...+++..+.. +.+...+..+-..+...|++++|...+++...
T Consensus 132 ~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~ 176 (355)
T cd05804 132 RAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRD 176 (355)
T ss_pred HHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhh
Confidence 4555555554432 22345555555566666666666666666544
No 102
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=91.22 E-value=2.2 Score=25.98 Aligned_cols=60 Identities=17% Similarity=0.062 Sum_probs=44.3
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
++|...++..... .| +...|..+-.+|.+.|++++|+..|+...+. .|+......++.-|
T Consensus 53 ~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l--~P~~~~~~~~l~~~ 113 (356)
T PLN03088 53 TEAVADANKAIEL--DPSLAKAYLRKGTACMKLEEYQTAKAALEKGASL--APGDSRFTKLIKEC 113 (356)
T ss_pred HHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence 5677777777654 45 6777888888899999999999999999875 45555555555444
No 103
>KOG4570 consensus Uncharacterized conserved protein [Function unknown]
Probab=91.15 E-value=0.27 Score=30.09 Aligned_cols=38 Identities=18% Similarity=0.101 Sum_probs=33.9
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.=++++++.++..-.+-|+-||.++++.+|+.+.+.+.
T Consensus 113 ky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n 150 (418)
T KOG4570|consen 113 KYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKEN 150 (418)
T ss_pred ccChHHHHHHHhCcchhccccchhhHHHHHHHHHhccc
Confidence 34678999999999999999999999999999998764
No 104
>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.
Probab=91.09 E-value=1.3 Score=23.08 Aligned_cols=43 Identities=9% Similarity=0.172 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVS 45 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~ 45 (71)
++..+|..|.++|+.- ...-|...-..+.+.|++.+|.++|+.
T Consensus 81 ~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~~ 124 (126)
T PF08311_consen 81 DPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQL 124 (126)
T ss_dssp HHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred CHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 4566777777666655 355555555556667777777777653
No 105
>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=91.09 E-value=1.1 Score=27.87 Aligned_cols=45 Identities=20% Similarity=0.188 Sum_probs=37.7
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
+.|.++.++..+. .| +..+|..|..+|.+.|+++.|+-.++.|.-
T Consensus 251 ~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm 296 (395)
T PF09295_consen 251 ELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCPM 296 (395)
T ss_pred HHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence 4677777777654 67 566999999999999999999999998874
No 106
>PRK14574 hmsH outer membrane protein; Provisional
Probab=90.96 E-value=2.9 Score=28.59 Aligned_cols=45 Identities=11% Similarity=0.126 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+|.++++++.+. .| +...+..+...+.+.++.++|++.++.....
T Consensus 120 ~Aiely~kaL~~--dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~ 165 (822)
T PRK14574 120 QALALWQSSLKK--DPTNPDLISGMIMTQADAGRGGVVLKQATELAER 165 (822)
T ss_pred HHHHHHHHHHhh--CCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc
Confidence 455555555443 22 2344444455555555555555555555443
No 107
>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]
Probab=90.83 E-value=1.7 Score=26.57 Aligned_cols=51 Identities=18% Similarity=0.042 Sum_probs=42.2
Q ss_pred CcCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 17 NPDTSTCNALMDGFCLA-----DRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
..|-.+|-+++.-|... +.++-....++.|.+-|++-|..+|+.||+.+=|
T Consensus 64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPK 119 (406)
T KOG3941|consen 64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPK 119 (406)
T ss_pred cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcc
Confidence 34778888888888754 5677777889999999999999999999998765
No 108
>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=90.64 E-value=1.8 Score=23.89 Aligned_cols=36 Identities=17% Similarity=0.152 Sum_probs=31.8
Q ss_pred cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 14 RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
....|+..+|..++..+...|+.++|.++..++..-
T Consensus 138 l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l 173 (193)
T PF11846_consen 138 LRRRPDPNVYQRYALALALLGDPEEARQWLARARRL 173 (193)
T ss_pred HHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 345899999999999999999999999999998754
No 109
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=90.62 E-value=0.28 Score=18.65 Aligned_cols=22 Identities=14% Similarity=0.214 Sum_probs=18.1
Q ss_pred HHHHhcCCHHHHHHHHHHHhhC
Q 042276 28 DGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 28 ~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
..+.+.|++++|.+.|++..+.
T Consensus 8 ~~~~~~g~~~~A~~~~~~~~~~ 29 (33)
T PF13174_consen 8 RCYYKLGDYDEAIEYFQRLIKR 29 (33)
T ss_dssp HHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHccCHHHHHHHHHHHHHH
Confidence 3466789999999999998765
No 110
>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]
Probab=90.46 E-value=2.5 Score=27.80 Aligned_cols=48 Identities=15% Similarity=0.122 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHh
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSA 67 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~ 67 (71)
..+|...|+.-.+..-+..|..+|.+.++.+..+ +++.++++|.-+|.
T Consensus 366 tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cs 414 (656)
T KOG1914|consen 366 TLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCS 414 (656)
T ss_pred ceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhc
Confidence 3455555555555555666666666666655555 55566666665553
No 111
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=90.41 E-value=2.7 Score=27.15 Aligned_cols=49 Identities=8% Similarity=-0.105 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
...|.++--.....|++++|...+++..... |+...|..+-+.+...|+
T Consensus 420 ~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~ 468 (517)
T PRK10153 420 PRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGD 468 (517)
T ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCC
Confidence 3444444333344455555555555555443 455555555555544443
No 112
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=90.26 E-value=2.8 Score=26.76 Aligned_cols=49 Identities=8% Similarity=-0.130 Sum_probs=23.4
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccH----HHHHHHHHHHHhcc
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDA----FSHSILINGGSARI 69 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~~ 69 (71)
+...|+.+=.+|.+.|++++|+..|++-.+. .||. .+|..+-.+|.+.|
T Consensus 74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LG 126 (453)
T PLN03098 74 TAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYRE 126 (453)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcC
Confidence 3444555555555555555555555554433 2332 23444444444444
No 113
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=90.19 E-value=4.1 Score=27.35 Aligned_cols=64 Identities=6% Similarity=-0.021 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc-HHHHHHHHHHHHhcc
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD-AFSHSILINGGSARI 69 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~ 69 (71)
++|....+..... .| +....+.+=.++.+.|+.++|..+|++.... .|+ ..++..+=.++-+.|
T Consensus 137 eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G 202 (694)
T PRK15179 137 EAGRAEIELYFSG--GSSSAREILLEAKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRG 202 (694)
T ss_pred HHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcC
Confidence 3444444444433 34 2333333344444566666666666666552 222 444444444444443
No 114
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=90.16 E-value=4.1 Score=27.34 Aligned_cols=28 Identities=18% Similarity=0.077 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
..+..+...+.+.|++++|...+++..+
T Consensus 84 ~a~~~la~~l~~~g~~~eA~~~l~~~l~ 111 (765)
T PRK10049 84 DYQRGLILTLADAGQYDEALVKAKQLVS 111 (765)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3334444444444455555544444443
No 115
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=90.15 E-value=2.7 Score=25.23 Aligned_cols=47 Identities=19% Similarity=0.152 Sum_probs=40.3
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|.-+|++|-++ ..|+..+-|.+..++...+++++|+.++++...+
T Consensus 190 qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k 236 (299)
T KOG3081|consen 190 QDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK 236 (299)
T ss_pred hhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence 5788899998642 5789999999999999999999999999998765
No 116
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=89.85 E-value=4.4 Score=27.20 Aligned_cols=46 Identities=17% Similarity=0.128 Sum_probs=28.7
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|..+++...+. .| +......+...+.+.+++++|+..+++....
T Consensus 103 ~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~ 149 (694)
T PRK15179 103 DEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG 149 (694)
T ss_pred HHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc
Confidence 5566666665543 55 4555666666666777777777766666655
No 117
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=89.84 E-value=2.4 Score=26.22 Aligned_cols=48 Identities=8% Similarity=0.047 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+.|.+.++...+.+-..-..+-..+..+|.+.|++++.+..+.++.+.
T Consensus 231 ~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~ 278 (389)
T COG2956 231 QKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET 278 (389)
T ss_pred HHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence 567778888877765556778888999999999999999999888765
No 118
>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=89.81 E-value=0.61 Score=17.26 Aligned_cols=21 Identities=29% Similarity=0.197 Sum_probs=17.1
Q ss_pred HHHHHHHHhcCCHHHHHHHHH
Q 042276 24 NALMDGFCLADRFDRARELLV 44 (71)
Q Consensus 24 ~~li~~~~~~g~~~~a~~~~~ 44 (71)
..+-..+...|++++|+.+++
T Consensus 5 ~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 5 LALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHcCCHHHHHHHHh
Confidence 345567889999999999876
No 119
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=89.66 E-value=5.3 Score=27.95 Aligned_cols=36 Identities=11% Similarity=-0.180 Sum_probs=18.2
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.|++++|...+++..+. .|+...|..+-..+.+.|+
T Consensus 589 ~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~ 624 (987)
T PRK09782 589 PGQPELALNDLTRSLNI--APSANAYVARATIYRQRHN 624 (987)
T ss_pred CCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCC
Confidence 35555555555555433 3444555555555444443
No 120
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=89.62 E-value=0.9 Score=20.75 Aligned_cols=30 Identities=13% Similarity=0.296 Sum_probs=23.8
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
|-.--=-+|.++.+.|++++|.++.+++..
T Consensus 22 D~~NhLqvI~gllqlg~~~~a~eYi~~~~~ 51 (62)
T PF14689_consen 22 DFLNHLQVIYGLLQLGKYEEAKEYIKELSK 51 (62)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 445555679999999999999999998864
No 121
>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=89.46 E-value=1.8 Score=22.22 Aligned_cols=34 Identities=15% Similarity=0.142 Sum_probs=26.0
Q ss_pred HHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 27 MDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 27 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
+..+.+.|++++|..+.+.+ +.||...|-.|-.+
T Consensus 46 lsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce~ 79 (115)
T TIGR02508 46 LSSLMNRGDYQSALQLGNKL----CYPDLEPWLALCEW 79 (115)
T ss_pred HHHHHccchHHHHHHhcCCC----CCchHHHHHHHHHH
Confidence 34566888888888877766 58999999887554
No 122
>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=89.46 E-value=1.2 Score=19.95 Aligned_cols=47 Identities=13% Similarity=0.036 Sum_probs=35.7
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|...+....... +.+..++..+...+...|+++.|...+....+.
T Consensus 51 ~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~ 97 (100)
T cd00189 51 EEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYEEALEAYEKALEL 97 (100)
T ss_pred HHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHHHHHHHHHHHHcc
Confidence 56777787776543 224568888888999999999999999887643
No 123
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=89.21 E-value=2.2 Score=22.81 Aligned_cols=64 Identities=8% Similarity=-0.133 Sum_probs=40.6
Q ss_pred hHHHHHHHHHHhcCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP--DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
++|...|+......-.| ...+|..+=..+.+.|++++|+..++...... .....++..+-..+.
T Consensus 52 ~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~i~~ 117 (168)
T CHL00033 52 AEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAVICH 117 (168)
T ss_pred HHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence 56777777775443222 23577777778888999999999988887541 122344555544444
No 124
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=89.13 E-value=3.6 Score=25.72 Aligned_cols=54 Identities=13% Similarity=-0.029 Sum_probs=40.2
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHH
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHS 59 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~ 59 (71)
.+|.+.|+.-..+ .|.+-||-.+-++|-+.++++.|+.+|.+-.+. .|-.+||-
T Consensus 240 r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l 293 (478)
T KOG1129|consen 240 RRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYL 293 (478)
T ss_pred hhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhh
Confidence 3556666655544 677888889999999999999999999887655 46556654
No 125
>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=89.10 E-value=2.4 Score=23.12 Aligned_cols=47 Identities=11% Similarity=0.139 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHhc-CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 042276 2 DEANGLAELMIQR-GVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 2 ~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g 50 (71)
+++..+++.|.-. =-.|...++-..| +.+.|++++|+++|++..+.+
T Consensus 27 ~D~e~lLdALrvLrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~ 74 (153)
T TIGR02561 27 YDAQAMLDALRVLRPNLKELDMFDGWL--LIARGNYDEAARILRELLSSA 74 (153)
T ss_pred HHHHHHHHHHHHhCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccC
Confidence 4667777777543 1122455666665 668999999999999998775
No 126
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=89.09 E-value=2 Score=22.23 Aligned_cols=28 Identities=7% Similarity=0.050 Sum_probs=13.9
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLA 33 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~ 33 (71)
...++.+...+ ..+....|.++..|++.
T Consensus 27 ~~yLe~~~~~~-~~~~~~~~~li~ly~~~ 54 (140)
T smart00299 27 IPYLESALKLN-SENPALQTKLIELYAKY 54 (140)
T ss_pred HHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence 33444444443 24555566666666554
No 127
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=89.06 E-value=2.1 Score=28.81 Aligned_cols=45 Identities=11% Similarity=0.087 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
...|++|-+-|-+.|.++.|.++|.+-...- ..+.-|+.+.++|+
T Consensus 248 g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya 292 (835)
T KOG2047|consen 248 GFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYA 292 (835)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHH
Confidence 6789999999999999999999999887652 24455667777665
No 128
>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=88.97 E-value=2.1 Score=23.56 Aligned_cols=35 Identities=11% Similarity=0.159 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~ 54 (71)
...+..+-+-|++.|+.+.|++.|.++......|.
T Consensus 36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~ 70 (177)
T PF10602_consen 36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPG 70 (177)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHH
Confidence 45677888889999999999999999987644443
No 129
>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=88.81 E-value=2.1 Score=25.92 Aligned_cols=48 Identities=10% Similarity=0.074 Sum_probs=34.6
Q ss_pred CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 17 NPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
-|+..-|-..|.++++.++|++-.++... ++ +++.|...+..|.+.|+
T Consensus 205 v~dkrfw~lki~aLa~~~~w~eL~~fa~s--kK----sPIGyepFv~~~~~~~~ 252 (319)
T PF04840_consen 205 VPDKRFWWLKIKALAENKDWDELEKFAKS--KK----SPIGYEPFVEACLKYGN 252 (319)
T ss_pred CcHHHHHHHHHHHHHhcCCHHHHHHHHhC--CC----CCCChHHHHHHHHHCCC
Confidence 46788888888888888888887776543 11 45777777777776664
No 130
>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=88.77 E-value=2.6 Score=23.14 Aligned_cols=60 Identities=15% Similarity=0.174 Sum_probs=38.5
Q ss_pred hHHHHHHHHHHhcCCCc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 2 DEANGLAELMIQRGVNP---DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
+++..+++.+... +| ...++-..+ +.+.|++.+|+++|++....+ |...--..|+..|..
T Consensus 27 ~D~e~lL~ALrvL--RP~~~e~~~~~~~l--~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~ 89 (160)
T PF09613_consen 27 DDAEALLDALRVL--RPEFPELDLFDGWL--HIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLY 89 (160)
T ss_pred HHHHHHHHHHHHh--CCCchHHHHHHHHH--HHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHH
Confidence 4667777777543 44 345555555 568999999999999987663 443334455555543
No 131
>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]
Probab=88.76 E-value=3.4 Score=28.56 Aligned_cols=65 Identities=20% Similarity=0.035 Sum_probs=47.6
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
++|..+++.....+.. |..|-.++-.+|-+.++.++|..++++.... .|+..-...+..+|++.+
T Consensus 60 ~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~ 124 (932)
T KOG2053|consen 60 DEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQK--YPSEELLYHLFMAYVREK 124 (932)
T ss_pred hhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHH
Confidence 4566666666544433 7888888888888888999998888887654 577777777777777644
No 132
>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=88.72 E-value=1.8 Score=21.08 Aligned_cols=41 Identities=5% Similarity=-0.010 Sum_probs=27.7
Q ss_pred hHHHHHHHHHHhcCCCc--CHHHHHHHHHHHHhcCCHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP--DTSTCNALMDGFCLADRFDRAREL 42 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~ 42 (71)
++|...|....++-..| --.+...++.+|+.-|++.+++++
T Consensus 23 ~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f 65 (80)
T PF10579_consen 23 QQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF 65 (80)
T ss_pred HHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677777776544333 245677778888888888887764
No 133
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=88.21 E-value=5.1 Score=25.81 Aligned_cols=65 Identities=18% Similarity=0.059 Sum_probs=46.3
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccH-HHHHHHHHHHHhccc
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDA-FSHSILINGGSARIR 70 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~~~ 70 (71)
++|...++++... .| |+.-+....+.+.+.++.++|.+.++.+... .|+. ..+-.+-..+.+.|+
T Consensus 323 d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~ 389 (484)
T COG4783 323 DEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGK 389 (484)
T ss_pred chHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCC
Confidence 5788888887654 55 6777777788899999999999999999876 4653 333334444444443
No 134
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=88.08 E-value=3.1 Score=26.12 Aligned_cols=48 Identities=13% Similarity=-0.092 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
-.+.++=.-|.+.+.+.+|.+.|+.-.+. .|+..+|+-+-.+|.+.|+
T Consensus 329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~--~~s~~~~~~la~~~~~~g~ 376 (400)
T COG3071 329 LLLSTLGRLALKNKLWGKASEALEAALKL--RPSASDYAELADALDQLGE 376 (400)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHHHHHhc--CCChhhHHHHHHHHHHcCC
Confidence 44444544566677777777777744433 5677777777666666554
No 135
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=88.01 E-value=7.1 Score=27.56 Aligned_cols=53 Identities=19% Similarity=0.039 Sum_probs=41.8
Q ss_pred CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 17 NPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+++...+..+-..+.+.|++++|++.|++..+.. ..+...+..+...+...|+
T Consensus 600 p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~ 652 (1157)
T PRK11447 600 PPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGD 652 (1157)
T ss_pred CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCC
Confidence 3466677778888999999999999999998762 2356788888888877765
No 136
>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=87.53 E-value=1.5 Score=18.77 Aligned_cols=25 Identities=28% Similarity=0.396 Sum_probs=21.5
Q ss_pred HHHHHHhcCCHHHHHHHHHHHhhCC
Q 042276 26 LMDGFCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 26 li~~~~~~g~~~~a~~~~~~m~~~g 50 (71)
+-.+|.+.|+.+.|.+++++....|
T Consensus 5 LA~ayie~Gd~e~Ar~lL~evl~~~ 29 (44)
T TIGR03504 5 LARAYIEMGDLEGARELLEEVIEEG 29 (44)
T ss_pred HHHHHHHcCChHHHHHHHHHHHHcC
Confidence 4568999999999999999998655
No 137
>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=87.49 E-value=1.1 Score=17.22 Aligned_cols=29 Identities=10% Similarity=0.076 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
.+|..+=..+...|++++|+..|++..+.
T Consensus 2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~ 30 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDYEEALEYYQRALEL 30 (34)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence 35677778899999999999999998754
No 138
>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=87.46 E-value=1.9 Score=20.12 Aligned_cols=37 Identities=19% Similarity=0.141 Sum_probs=24.5
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
.++.+.+.+++++....|..|.......+..+.-+-|
T Consensus 14 ~~d~~~~~~~~~~~l~~g~~~~~i~~~~l~p~m~~iG 50 (79)
T PF02607_consen 14 AGDEEEAEALLEEALAQGYPPEDIIEEILMPAMEEIG 50 (79)
T ss_dssp TT-CCHHHHHHHHHHHCSSSTTHHHHHTHHHHHHHHH
T ss_pred hCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 5677777777777777777777666666666655433
No 139
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=87.34 E-value=3.1 Score=22.37 Aligned_cols=52 Identities=4% Similarity=-0.245 Sum_probs=36.5
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc--HHHHHHHHHHHHhccc
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD--AFSHSILINGGSARIR 70 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~~~ 70 (71)
....+..+-..+.+.|++++|...|++..+..-.+. ...+..+-..+.+.|+
T Consensus 34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~ 87 (172)
T PRK02603 34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGE 87 (172)
T ss_pred hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCC
Confidence 455666677778889999999999999976532222 3566666666666665
No 140
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=87.33 E-value=4 Score=24.18 Aligned_cols=30 Identities=27% Similarity=0.189 Sum_probs=15.9
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
|...||.+=-+|-+.|++++|..-|.+..+
T Consensus 133 d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~ 162 (257)
T COG5010 133 DWEAWNLLGAALDQLGRFDEARRAYRQALE 162 (257)
T ss_pred ChhhhhHHHHHHHHccChhHHHHHHHHHHH
Confidence 455555555555555555555555555543
No 141
>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=87.27 E-value=0.19 Score=22.66 Aligned_cols=30 Identities=20% Similarity=0.287 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHh
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCL 32 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~ 32 (71)
+...+|..|.++..+|....||-.|.-|..
T Consensus 10 ~lI~vFK~~pSr~YD~~Tr~W~F~L~Dy~~ 39 (55)
T PF07443_consen 10 ELIAVFKQMPSRNYDPKTRKWNFSLEDYST 39 (55)
T ss_pred HHHHHHHcCcccccCccceeeeeeHHHHHH
Confidence 456778888888888877777777665543
No 142
>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=87.06 E-value=6.3 Score=25.59 Aligned_cols=60 Identities=12% Similarity=0.023 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHhcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNPD-TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
++|...+.+- ...-+| .......-..+.+.|+.++|..+++.+..++ |+...|-..+..+
T Consensus 21 ~~AL~~L~~~--~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~ 81 (517)
T PF12569_consen 21 EEALEHLEKN--EKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEA 81 (517)
T ss_pred HHHHHHHHhh--hhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHH
Confidence 3455555442 222344 4445555677889999999999999999884 6666665555444
No 143
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=87.00 E-value=6.1 Score=25.33 Aligned_cols=47 Identities=13% Similarity=0.091 Sum_probs=37.9
Q ss_pred ChHHHHHHHHHHhcCCCcCH----HHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 1 MDEANGLAELMIQRGVNPDT----STCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 1 ~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+++|...|+.-.+. .|+. .+|..+-.+|.+.|+.++|+..+++..+.
T Consensus 91 yeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 91 VKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred HHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 36788888877655 5653 46899999999999999999999998764
No 144
>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=86.27 E-value=2.7 Score=20.50 Aligned_cols=48 Identities=8% Similarity=-0.024 Sum_probs=36.2
Q ss_pred hHHHHHHHHHHhcC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRG--VNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|...|+...... ......++..+-..+.+.|++++|.+.+++..+.
T Consensus 56 ~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~ 105 (119)
T TIGR02795 56 ADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIKR 105 (119)
T ss_pred HHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence 56888888886542 1112456777777888999999999999999877
No 145
>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=86.15 E-value=3.1 Score=21.07 Aligned_cols=55 Identities=13% Similarity=-0.090 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHH
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHS 59 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~ 59 (71)
++|...++...... +.+...+..+-..+...|++++|...|+...+. .|+...+.
T Consensus 68 ~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~ 122 (135)
T TIGR02552 68 EEAIDAYALAAALD-PDDPRPYFHAAECLLALGEPESALKALDLAIEI--CGENPEYS 122 (135)
T ss_pred HHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--ccccchHH
Confidence 46677777765542 335677777777888999999999999988876 35555443
No 146
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=85.92 E-value=4.5 Score=24.36 Aligned_cols=66 Identities=14% Similarity=-0.026 Sum_probs=43.4
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHH----HHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNAL----MDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~l----i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
+-|.+.++.|.+-. +-.|-+-+ |+-..-.+...+|.-+|++|.++ ..|+..+.+-...++...|+|
T Consensus 154 d~A~~~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~ 223 (299)
T KOG3081|consen 154 DLAEKELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRY 223 (299)
T ss_pred HHHHHHHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCH
Confidence 34566666665432 34444434 44444456789999999999764 568888888887777766653
No 147
>PRK09462 fur ferric uptake regulator; Provisional
Probab=85.86 E-value=3.7 Score=21.80 Aligned_cols=60 Identities=8% Similarity=0.002 Sum_probs=43.3
Q ss_pred HHHHhcCCCcCHHHHHHHHHHHHhc-CCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 9 ELMIQRGVNPDTSTCNALMDGFCLA-DRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 9 ~~m~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+.+.+.|++++.. -..++..+... +..-.|.++++.+.+.+...+..|..-.|+.+.+.|
T Consensus 6 ~~l~~~glr~T~q-R~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~G 66 (148)
T PRK09462 6 TALKKAGLKVTLP-RLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAG 66 (148)
T ss_pred HHHHHcCCCCCHH-HHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCC
Confidence 3456677775543 34555666654 467799999999999887778888888888887765
No 148
>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=85.69 E-value=2.9 Score=20.37 Aligned_cols=58 Identities=21% Similarity=0.290 Sum_probs=39.9
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
..+++.+.+.|+ .|..-.-..-+...+.+.+.++++.+..+| ..+|....+++-..|+
T Consensus 19 ~~v~~~L~~~~V----lt~~~~e~I~~~~tr~~q~~~LLd~L~~RG----~~AF~~F~~aL~~~~~ 76 (84)
T cd08326 19 KYLWDHLLSRGV----FTPDMIEEIQAAGSRRDQARQLLIDLETRG----KQAFPAFLSALRETGQ 76 (84)
T ss_pred HHHHHHHHhcCC----CCHHHHHHHHcCCCHHHHHHHHHHHHHhcC----HHHHHHHHHHHHhcCc
Confidence 456777776653 333333333456677889999999999996 6778888888766654
No 149
>COG5210 GTPase-activating protein [General function prediction only]
Probab=85.37 E-value=7.5 Score=24.88 Aligned_cols=59 Identities=12% Similarity=0.006 Sum_probs=49.0
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILIN 63 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~ 63 (71)
-+++..|...++.+...++.-++..+.+.-.++.+.++++.+--.|+.-....+.+++.
T Consensus 362 p~l~~hl~~~~~~~~~~~~~w~l~lF~~~~p~e~~lriwD~lf~eg~~~l~~~~~~~l~ 420 (496)
T COG5210 362 PELYEHLLREGVVLLMFAFRWFLTLFVREFPLEYALRIWDCLFLEGSSMLFQLALAILK 420 (496)
T ss_pred HHHHHHHHHcCCchhhhhHHHHHHHHHhcCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 46788899999999999999999999999999999999999988876554444444443
No 150
>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=85.34 E-value=3.9 Score=21.50 Aligned_cols=16 Identities=38% Similarity=0.405 Sum_probs=7.5
Q ss_pred HHHHHHHHhhCCCCcc
Q 042276 39 ARELLVSMGSKGCKQD 54 (71)
Q Consensus 39 a~~~~~~m~~~g~~p~ 54 (71)
+.++|..|..+|+-..
T Consensus 82 p~~if~~L~~~~IG~~ 97 (125)
T smart00777 82 PRELFQFLYSKGIGTK 97 (125)
T ss_pred HHHHHHHHHHCCcchh
Confidence 3445555555544433
No 151
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=85.22 E-value=2.1 Score=27.76 Aligned_cols=45 Identities=13% Similarity=0.081 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHhcC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 2 DEANGLAELMIQRG-VNPDTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 2 ~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
+.|..+|-+..+.+ +.+++.+++++|.-++ .|++..|.++|+-=.
T Consensus 414 ~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl 459 (660)
T COG5107 414 EAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGL 459 (660)
T ss_pred HHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHH
Confidence 56788999998887 7889999999998777 466788888887543
No 152
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=85.14 E-value=8.1 Score=25.04 Aligned_cols=55 Identities=13% Similarity=-0.087 Sum_probs=43.0
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHH
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSI 60 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ 60 (71)
++|...++.....+ |+...|..+-..+...|++++|.+.+++.... .|...||..
T Consensus 437 ~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~~~ 491 (517)
T PRK10153 437 DEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTLYW 491 (517)
T ss_pred HHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchHHH
Confidence 57788888877664 78889999999999999999999999888654 344445543
No 153
>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=84.80 E-value=2.8 Score=19.45 Aligned_cols=51 Identities=12% Similarity=0.024 Sum_probs=39.5
Q ss_pred CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 16 VNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 16 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
+.|+...++-++...++..-.++++..+.+..++|. .+..+|---+..+++
T Consensus 4 v~~~~~l~~Ql~el~Aed~AieDtiy~L~~al~~g~-I~~d~~lK~vR~LaR 54 (65)
T PF09454_consen 4 VVAEDPLSNQLYELVAEDHAIEDTIYYLDRALQRGS-IDLDTFLKQVRSLAR 54 (65)
T ss_dssp EE-SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-S-HHHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHH
Confidence 356778899999999999999999999999999985 455666655555554
No 154
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=84.53 E-value=6.7 Score=23.62 Aligned_cols=60 Identities=12% Similarity=0.043 Sum_probs=43.5
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
.++..+|++.... +| |+.+-.-+=..+...|++.+|...++.|... -|....+..+|..-
T Consensus 210 a~a~~ll~~al~~--D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~--lp~~~~rr~~ie~~ 270 (287)
T COG4235 210 AKARALLRQALAL--DPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL--LPADDPRRSLIERS 270 (287)
T ss_pred HHHHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCCCchHHHHHHH
Confidence 3677888888755 66 4555555566788999999999999999876 34446666666543
No 155
>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]
Probab=84.48 E-value=4.4 Score=26.77 Aligned_cols=45 Identities=13% Similarity=0.070 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
..|..+|.+..+.+..+ ++.+++++|.-+|.. +.+.|.++|+-=.
T Consensus 383 kaaR~iF~kaR~~~r~~hhVfVa~A~mEy~csk-D~~~AfrIFeLGL 428 (656)
T KOG1914|consen 383 KAARKIFKKAREDKRTRHHVFVAAALMEYYCSK-DKETAFRIFELGL 428 (656)
T ss_pred HHHHHHHHHHhhccCCcchhhHHHHHHHHHhcC-ChhHHHHHHHHHH
Confidence 46788999998877777 899999999988854 5578888887543
No 156
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=84.37 E-value=8.3 Score=28.41 Aligned_cols=63 Identities=17% Similarity=-0.032 Sum_probs=44.3
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
.+++|+...+. +-.-..|..|..-|.+.+.+++|-++++.|.++= .-....|......+.++.
T Consensus 1516 l~kVFeRAcqy--cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~n 1578 (1710)
T KOG1070|consen 1516 LKKVFERACQY--CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQN 1578 (1710)
T ss_pred HHHHHHHHHHh--cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhccc
Confidence 45566655433 3345678888888999999999999999997651 245667777777776543
No 157
>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=84.31 E-value=3 Score=23.05 Aligned_cols=56 Identities=9% Similarity=-0.046 Sum_probs=45.7
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
+..+.+.+.++.|+...|..+|+.+.+.|+ ...+..+...++-||.......+-.+
T Consensus 15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~----~~~L~qllq~~Vi~DSk~lA~~LLs~ 70 (167)
T PF07035_consen 15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQ----FSQLHQLLQYHVIPDSKPLACQLLSL 70 (167)
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHHHHHcCC----HHHHHHHHhhcccCCcHHHHHHHHHh
Confidence 445556678999999999999999999997 78888998988888888777666443
No 158
>KOG4567 consensus GTPase-activating protein [General function prediction only]
Probab=84.06 E-value=7.7 Score=23.93 Aligned_cols=58 Identities=10% Similarity=0.001 Sum_probs=46.7
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
.++|+.|...++.|--.+|.=+.-.+.+.=.+.+++.+++.+...... |..|+..||.
T Consensus 263 ~EL~~~L~~~~i~PqfyaFRWitLLLsQEF~lpDvi~lWDsl~sD~~r-----fd~Ll~iCcs 320 (370)
T KOG4567|consen 263 EELWRHLEEKEIHPQFYAFRWITLLLSQEFPLPDVIRLWDSLLSDPQR-----FDFLLYICCS 320 (370)
T ss_pred HHHHHHHHhcCCCccchhHHHHHHHHhccCCchhHHHHHHHHhcChhh-----hHHHHHHHHH
Confidence 578899999999998888887777788888889999999998755332 7777777774
No 159
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=83.95 E-value=3.9 Score=26.68 Aligned_cols=53 Identities=11% Similarity=0.044 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHH
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
++|...|++..+. .||..+---++-++.-.|+.+...+.|..|..-...||..
T Consensus 293 ~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~ddd 345 (840)
T KOG2003|consen 293 DDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDD 345 (840)
T ss_pred hhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcc
Confidence 5677777777655 6776555555556666888888888999888765555443
No 160
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=83.73 E-value=9.7 Score=24.82 Aligned_cols=53 Identities=15% Similarity=0.046 Sum_probs=41.7
Q ss_pred cCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 14 RGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 14 ~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
..+.| |...|.+|=++|.+.+++++|++.|.+....|- .+...|..|-+.+-+
T Consensus 425 ~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~d-te~~~l~~LakLye~ 478 (559)
T KOG1155|consen 425 LELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGD-TEGSALVRLAKLYEE 478 (559)
T ss_pred HhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccc-cchHHHHHHHHHHHH
Confidence 44567 899999999999999999999999999987762 244667666666543
No 161
>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=83.63 E-value=1.8 Score=16.44 Aligned_cols=27 Identities=11% Similarity=0.019 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
+|..+=..+.+.|++++|.+.|++..+
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 455666778899999999999998764
No 162
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=83.36 E-value=7.7 Score=23.34 Aligned_cols=56 Identities=13% Similarity=0.122 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCC---HHHHHHHHHHHhhCCCCccHHHH
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADR---FDRARELLVSMGSKGCKQDAFSH 58 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g~~p~~~~~ 58 (71)
....+++.+...|+.. |..-+-+-|-+++.... ...+.++++.+.+.|+++....|
T Consensus 161 ~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~y 220 (297)
T PF13170_consen 161 RMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHY 220 (297)
T ss_pred HHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccc
Confidence 3444555555555544 33333333333333221 22455555555555555544443
No 163
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=83.08 E-value=2.8 Score=29.23 Aligned_cols=69 Identities=10% Similarity=-0.036 Sum_probs=49.6
Q ss_pred ChHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCccHHHHHHHHHHHHhccc
Q 042276 1 MDEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK-GCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 1 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~~~ 70 (71)
+.+|..+|.+..+... -+.-+|--+-++|...|++..|+++|+...+. .-.-+......|-.++.+.|+
T Consensus 662 ~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~ 731 (1018)
T KOG2002|consen 662 FSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGK 731 (1018)
T ss_pred chHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhh
Confidence 3578889999876543 13456667788899999999999999988654 433456666777676666554
No 164
>COG2405 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=82.33 E-value=4.9 Score=21.85 Aligned_cols=40 Identities=8% Similarity=0.003 Sum_probs=32.6
Q ss_pred HHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 26 LMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 26 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
++..+.+.|...+...++++|.++|+..+...|+-++.-.
T Consensus 115 vL~~ak~kgLisk~Kpild~LI~~GF~iS~~~~eeiL~~~ 154 (157)
T COG2405 115 VLALAKSKGLISKDKPILDELIEKGFRISRSILEEILRKL 154 (157)
T ss_pred HHHHHHHcCcccchHHHHHHHHHhcCcccHHHHHHHHHHh
Confidence 3444556788888999999999999999999998887643
No 165
>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=82.20 E-value=6.5 Score=21.73 Aligned_cols=28 Identities=11% Similarity=-0.070 Sum_probs=12.8
Q ss_pred HHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 42 LLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 42 ~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+.+.+.+.++.|+...|..+|+.+.+.|
T Consensus 16 YirSl~~~~i~~~~~L~~lli~lLi~~~ 43 (167)
T PF07035_consen 16 YIRSLNQHNIPVQHELYELLIDLLIRNG 43 (167)
T ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHcC
Confidence 3334444444444444444444444444
No 166
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=82.20 E-value=8.6 Score=23.08 Aligned_cols=50 Identities=16% Similarity=0.037 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
..+...++..+...|+.+.+.+.++++.... .-|...|..+|.+|.+.|+
T Consensus 153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~ 202 (280)
T COG3629 153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGR 202 (280)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCC
Confidence 4556667777888899999999999998762 3488999999999998875
No 167
>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=82.00 E-value=4.4 Score=19.67 Aligned_cols=35 Identities=23% Similarity=0.134 Sum_probs=21.9
Q ss_pred CCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 34 DRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+..+.+.+++..-.++.- ...|...|+.++.+.|+
T Consensus 44 ~~~eq~~~mL~~W~~r~g--~~AT~~~L~~aL~~~~~ 78 (86)
T cd08318 44 DIKMQAKQLLVAWQDREG--SQATPETLITALNAAGL 78 (86)
T ss_pred CHHHHHHHHHHHHHHhcC--ccccHHHHHHHHHHcCc
Confidence 345667777777765521 34677778877776653
No 168
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=81.82 E-value=8.4 Score=22.70 Aligned_cols=46 Identities=17% Similarity=0.085 Sum_probs=30.3
Q ss_pred hHHHHHHHHHHhcCCCcCH----HHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNPDT----STCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|...|+.+.+. .|+. ..+--+-..|...|++++|...|+...+.
T Consensus 160 ~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~ 209 (263)
T PRK10803 160 DDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN 209 (263)
T ss_pred HHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 4566677777654 3322 34444555677888888888888888754
No 169
>COG4003 Uncharacterized protein conserved in archaea [Function unknown]
Probab=81.27 E-value=4.4 Score=19.98 Aligned_cols=26 Identities=19% Similarity=0.295 Sum_probs=23.2
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhCC
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~g 50 (71)
++++-+.++.--++|+++++-|.++|
T Consensus 36 tV~D~L~rCdT~EEAlEii~yleKrG 61 (98)
T COG4003 36 TVIDFLRRCDTEEEALEIINYLEKRG 61 (98)
T ss_pred hHHHHHHHhCcHHHHHHHHHHHHHhC
Confidence 46777889999999999999999987
No 170
>PF09868 DUF2095: Uncharacterized protein conserved in archaea (DUF2095); InterPro: IPR018662 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=80.91 E-value=6.3 Score=20.66 Aligned_cols=39 Identities=13% Similarity=0.077 Sum_probs=28.8
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
++|+-.-++...++|+++.+-|.++| +.+...-+.|-..
T Consensus 66 tViD~lrRC~T~EEALEVInylek~G-EIt~e~A~eLr~~ 104 (128)
T PF09868_consen 66 TVIDYLRRCKTDEEALEVINYLEKRG-EITPEEAKELRSI 104 (128)
T ss_pred hHHHHHHHhCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence 46777889999999999999999988 3444444444333
No 171
>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=80.71 E-value=0.7 Score=23.99 Aligned_cols=38 Identities=13% Similarity=0.272 Sum_probs=25.3
Q ss_pred HHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 042276 7 LAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLV 44 (71)
Q Consensus 7 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~ 44 (71)
.++.+...+-.-+....+.++..|++.++.+..+++++
T Consensus 29 yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~ 66 (143)
T PF00637_consen 29 YLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK 66 (143)
T ss_dssp CHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred HHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence 34555544444567777888888888877777777766
No 172
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=80.53 E-value=8.3 Score=27.77 Aligned_cols=50 Identities=18% Similarity=0.075 Sum_probs=41.5
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
|...|.-+++...+.|.+++-.+.+.-.++...+|...+ .||-+|++.+|
T Consensus 1132 Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~--eLi~AyAkt~r 1181 (1666)
T KOG0985|consen 1132 DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDS--ELIFAYAKTNR 1181 (1666)
T ss_pred CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchH--HHHHHHHHhch
Confidence 778899999999999999999998888888877777654 67778887665
No 173
>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=80.06 E-value=6.2 Score=20.07 Aligned_cols=28 Identities=21% Similarity=0.224 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
.-|+.++.-|...|.-++|++++.+...
T Consensus 40 ~~~~eL~~lY~~kg~h~~AL~ll~~l~~ 67 (108)
T PF10366_consen 40 GKYQELVDLYQGKGLHRKALELLKKLAD 67 (108)
T ss_pred CCHHHHHHHHHccCccHHHHHHHHHHhc
Confidence 5689999999999999999999999987
No 174
>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=79.86 E-value=10 Score=22.38 Aligned_cols=29 Identities=17% Similarity=0.119 Sum_probs=12.6
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
+...|..-++.+.+.++.+.|..+|++..
T Consensus 69 ~~~~~~~Y~~~l~~~~d~~~aR~lfer~i 97 (280)
T PF05843_consen 69 DPDFWLEYLDFLIKLNDINNARALFERAI 97 (280)
T ss_dssp -HHHHHHHHHHHHHTT-HHHHHHHHHHHC
T ss_pred CHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence 34444444444444444444444444444
No 175
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=79.58 E-value=7.5 Score=20.74 Aligned_cols=52 Identities=4% Similarity=-0.238 Sum_probs=35.2
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc--HHHHHHHHHHHHhccc
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD--AFSHSILINGGSARIR 70 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~~~ 70 (71)
-...|..+...+...|++++|+..|+......-.|. ..+|..+-..+.+.|+
T Consensus 34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~ 87 (168)
T CHL00033 34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGE 87 (168)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCC
Confidence 456677777778889999999999999976532221 2356665555555543
No 176
>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=79.55 E-value=6.1 Score=19.70 Aligned_cols=29 Identities=14% Similarity=0.064 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
.|++.|+.++.+.+.-..|.++-+.+...
T Consensus 65 At~~~L~~aL~~~~~~~~Ae~I~~~l~~~ 93 (96)
T cd08315 65 ASVNTLLDALEAIGLRLAKESIQDELISS 93 (96)
T ss_pred cHHHHHHHHHHHcccccHHHHHHHHHHHc
Confidence 34455555555555444444444444433
No 177
>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=79.24 E-value=2.9 Score=15.74 Aligned_cols=28 Identities=11% Similarity=0.063 Sum_probs=21.1
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
.|..+=..+.+.|++++|++.|++..+.
T Consensus 3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l 30 (34)
T PF07719_consen 3 AWYYLGQAYYQLGNYEEAIEYFEKALEL 30 (34)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 3445556788999999999999988654
No 178
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=79.23 E-value=3.5 Score=25.72 Aligned_cols=49 Identities=14% Similarity=0.266 Sum_probs=33.2
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
++|.++++...+. .| ++...-.+-..|.-.++++-|++.++++.+.|+.
T Consensus 307 ~~a~~lYk~vlk~--~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~ 356 (478)
T KOG1129|consen 307 EDALQLYKLVLKL--HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ 356 (478)
T ss_pred HHHHHHHHHHHhc--CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC
Confidence 4566666666543 22 4444445555677788999999999999988865
No 179
>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]
Probab=79.13 E-value=12 Score=22.99 Aligned_cols=48 Identities=8% Similarity=-0.069 Sum_probs=35.1
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+.+..-..|..+|.+.+|.++.+...+.. +.+...|-.++..+...|+
T Consensus 281 llgkva~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD 328 (361)
T COG3947 281 LLGKVARAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGD 328 (361)
T ss_pred HHHHHHHHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhcc
Confidence 34444566778899999998888877653 4477778888888877665
No 180
>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=79.09 E-value=11 Score=22.27 Aligned_cols=66 Identities=14% Similarity=-0.025 Sum_probs=42.3
Q ss_pred hHHHHHHHHHHhcC-CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 2 DEANGLAELMIQRG-VNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 2 ~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+.|..+|....+.+ +..++....+.|..+ ..++.+.|.++|+...+. +..+..-|..-++-+.+.+
T Consensus 18 ~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~-~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~ 84 (280)
T PF05843_consen 18 EAARKVFKRARKDKRCTYHVYVAYALMEYY-CNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLN 84 (280)
T ss_dssp HHHHHHHHHHHCCCCS-THHHHHHHHHHHH-TCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHHHH-hCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhC
Confidence 56788898887543 344566666665433 346778899999999865 3446666777777666554
No 181
>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=78.21 E-value=3.8 Score=21.39 Aligned_cols=28 Identities=18% Similarity=0.294 Sum_probs=20.0
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHHHHHH
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAFSHSI 60 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ 60 (71)
.|+...|.++++.+...|.+|-...|..
T Consensus 10 ~G~~~ra~riL~~L~~Eg~ep~~lLw~L 37 (125)
T PF14840_consen 10 AGDAKRALRILQGLQAEGVEPPILLWAL 37 (125)
T ss_dssp TT-HHHHHHHHHHHHHTT--HHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHCCccHHHHHHHH
Confidence 6788888888888888888887776654
No 182
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=78.20 E-value=6.6 Score=25.51 Aligned_cols=46 Identities=24% Similarity=0.146 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHh---cCCCc----CHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 2 DEANGLAELMIQ---RGVNP----DTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 2 ~~a~~~~~~m~~---~~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
.+|..+|+++.. ..+.+ -..+++.|-..|.+.|++++|...+++..
T Consensus 258 ~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al 310 (508)
T KOG1840|consen 258 DEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERAL 310 (508)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHH
Confidence 456666666632 22333 34555556667999999999888777664
No 183
>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=78.20 E-value=6.6 Score=19.31 Aligned_cols=57 Identities=14% Similarity=0.116 Sum_probs=37.6
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
..+++.+.+.|+- |-.-.-..-+.....+.+.++++.+..+| ..+|..+.+++-..+
T Consensus 23 ~~v~~~L~~~gvl----t~~~~~~I~~~~t~~~k~~~Lld~L~~RG----~~AF~~F~~aL~~~~ 79 (90)
T cd08332 23 DELLIHLLQKDIL----TDSMAESIMAKPTSFSQNVALLNLLPKRG----PRAFSAFCEALRETS 79 (90)
T ss_pred HHHHHHHHHcCCC----CHHHHHHHHcCCCcHHHHHHHHHHHHHhC----hhHHHHHHHHHHhcC
Confidence 3566777766543 22222223335567788999999999986 677888888876544
No 184
>KOG1166 consensus Mitotic checkpoint serine/threonine protein kinase [Cell cycle control, cell division, chromosome partitioning]
Probab=78.19 E-value=15 Score=25.96 Aligned_cols=56 Identities=11% Similarity=0.099 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHhcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHH
Q 042276 2 DEANGLAELMIQRGVNPD-TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~ 57 (71)
+++..+|..|-..|+.+. ...|-..-..+.+.+.+.+|..+|+.-.++-.+|-...
T Consensus 95 ~d~~d~f~~m~~kgIg~~lalfYe~~a~~lE~k~~~keA~~v~q~Giq~~aeP~~rL 151 (974)
T KOG1166|consen 95 QDAEDFFSYLENKGIGTTLALFYEAYAKHLERKEYFKEAKEVFQLGIQNKAEPLERL 151 (974)
T ss_pred hhHHHHHHHHHhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHH
Confidence 567788888888888774 44444555556667778888888888777766665543
No 185
>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=77.62 E-value=12 Score=22.15 Aligned_cols=48 Identities=21% Similarity=0.120 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
....+-..+...|++++|++.+++..+.. ..+...+..+-.++...|+
T Consensus 116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~ 163 (355)
T cd05804 116 LLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGR 163 (355)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCC
Confidence 33444556778999999999999998763 2244556666666666655
No 186
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=77.49 E-value=19 Score=24.23 Aligned_cols=41 Identities=10% Similarity=-0.107 Sum_probs=21.7
Q ss_pred HHHHHhcCCHHHHHHHHHHHhhCCCCcc-HHHHHHHHHHHHhcc
Q 042276 27 MDGFCLADRFDRARELLVSMGSKGCKQD-AFSHSILINGGSARI 69 (71)
Q Consensus 27 i~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~ 69 (71)
...+...++.++|+..++++++. .|+ ...|..+-..|-+-|
T Consensus 564 ~~il~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~ 605 (638)
T KOG1126|consen 564 ASILFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLG 605 (638)
T ss_pred HHHHHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHc
Confidence 33444556666666666666544 343 344555555555444
No 187
>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=77.44 E-value=7.2 Score=19.34 Aligned_cols=43 Identities=30% Similarity=0.237 Sum_probs=33.0
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
++|+-....|+.-|...|..+++-..-.=-++...++++.|..
T Consensus 29 EL~ELa~~AGv~~dp~VFriildLL~~nVsP~AI~qmLK~m~s 71 (88)
T PF12926_consen 29 ELYELAQLAGVPMDPEVFRIILDLLRLNVSPDAIFQMLKSMCS 71 (88)
T ss_pred HHHHHHHHhCCCcChHHHHHHHHHHHcCCCHHHHHHHHHHHHc
Confidence 5666667788888888888888777777777888888888854
No 188
>PRK11189 lipoprotein NlpI; Provisional
Probab=77.34 E-value=12 Score=22.06 Aligned_cols=46 Identities=13% Similarity=0.143 Sum_probs=33.5
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|...|+...+. .| +..+|..+-..+...|++++|.+.|+...+.
T Consensus 115 ~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~ 161 (296)
T PRK11189 115 DAAYEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD 161 (296)
T ss_pred HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 4666777776643 45 4667777777788888889988888887764
No 189
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=76.57 E-value=20 Score=23.94 Aligned_cols=62 Identities=21% Similarity=0.151 Sum_probs=42.6
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
++|...++.-... .| |..++.++=-.|...|+++.|.+.|.+-. .+.||..+-+.+++.+..
T Consensus 472 ~eAI~~~q~aL~l--~~k~~~~~asig~iy~llgnld~Aid~fhKaL--~l~p~n~~~~~lL~~aie 534 (611)
T KOG1173|consen 472 EEAIDYYQKALLL--SPKDASTHASIGYIYHLLGNLDKAIDHFHKAL--ALKPDNIFISELLKLAIE 534 (611)
T ss_pred HHHHHHHHHHHHc--CCCchhHHHHHHHHHHHhcChHHHHHHHHHHH--hcCCccHHHHHHHHHHHH
Confidence 3455555554433 33 77788888777888889999888888765 346787777777776543
No 190
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=75.90 E-value=9.2 Score=19.82 Aligned_cols=48 Identities=21% Similarity=0.174 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHhcCCCcC--HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNPD--TSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|..+++.-...|...+ ...+-.+=..+...|++++|..+|++....
T Consensus 18 ~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~ 67 (120)
T PF12688_consen 18 EEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE 67 (120)
T ss_pred HHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 478888998888877664 233334455566889999999999988764
No 191
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=75.79 E-value=15 Score=23.00 Aligned_cols=17 Identities=18% Similarity=0.096 Sum_probs=7.2
Q ss_pred HhcCCHHHHHHHHHHHh
Q 042276 31 CLADRFDRARELLVSMG 47 (71)
Q Consensus 31 ~~~g~~~~a~~~~~~m~ 47 (71)
-+.|..+.|+++...+.
T Consensus 80 RsRGEvDRAIRiHQ~L~ 96 (389)
T COG2956 80 RSRGEVDRAIRIHQTLL 96 (389)
T ss_pred HhcchHHHHHHHHHHHh
Confidence 33444444444444443
No 192
>PF02840 Prp18: Prp18 domain; InterPro: IPR004098 The splicing factor Prp18 is required for the second step of pre-mRNA splicing. PRP18 appears to be primarily associated with the U5 snRNP. The structure of a large fragment of the Saccharomyces cerevisiae Prp18 is known []. This fragment is fully active in yeast splicing in vitro and includes the sequences of Prp18 that have been evolutionarily conserved. The core structure consists of five alpha-helices that adopt a novel fold. The most highly conserved region of Prp18, a nearly invariant stretch of 19 aa, forms part of a loop between two alpha-helices and may interact with the U5 small nuclear ribonucleoprotein particles [].; GO: 0008380 RNA splicing, 0005681 spliceosomal complex; PDB: 1DVK_A.
Probab=75.74 E-value=11 Score=20.47 Aligned_cols=45 Identities=11% Similarity=0.076 Sum_probs=35.1
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
-..+|..++...+++|...-=.-|--+++.+++.+|-+.|-+|.-
T Consensus 43 l~PL~~~Lk~~~l~~dil~~L~~Iv~~~q~r~y~~And~Yl~LsI 87 (144)
T PF02840_consen 43 LKPLFKKLKKRTLPEDILDSLATIVYHLQQREYVKANDAYLKLSI 87 (144)
T ss_dssp HHHHHHHHHCT-S-HHHHHHHHHHHHHHCCCGHHHHHHHHHHHHT
T ss_pred HHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence 356888888888888877766667778899999999999998853
No 193
>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=75.67 E-value=11 Score=20.60 Aligned_cols=44 Identities=11% Similarity=0.147 Sum_probs=21.9
Q ss_pred HHHHHHh-cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 042276 7 LAELMIQ-RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 7 ~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g 50 (71)
++..+.+ .|+.|...++.-++..+++.=.++.+.++++.+...|
T Consensus 153 l~~~l~~~~~i~~~~~~~~W~~~lF~~~~~~~~~~riwD~~l~eG 197 (199)
T smart00164 153 LYKHLKDKLGIDPSLYALRWFLTLFARELPLEIVLRIWDVLFAEG 197 (199)
T ss_pred HHHHHHHhcCCCchhHHHHHHHHHHHhhCCHHHHHHHHHHHHhcC
Confidence 3444443 4555555555555555555445555555555544433
No 194
>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=75.32 E-value=3.2 Score=14.32 Aligned_cols=27 Identities=15% Similarity=0.101 Sum_probs=21.4
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
.|..+-..+...++++.|...|+...+
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 455666778889999999999987764
No 195
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=75.14 E-value=4.7 Score=26.37 Aligned_cols=40 Identities=13% Similarity=-0.078 Sum_probs=25.1
Q ss_pred HHhcCCHHHHHHHHHHHhhCCCCcc-HHHHHHHHHHHHhcccC
Q 042276 30 FCLADRFDRARELLVSMGSKGCKQD-AFSHSILINGGSARIRK 71 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~~ 71 (71)
|.+.|.+++|++.+....+. .|| .+-|.-.-.+|...|+|
T Consensus 125 ~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~ 165 (606)
T KOG0547|consen 125 FFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDW 165 (606)
T ss_pred hhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhH
Confidence 55677777788877777655 566 45555555555555543
No 196
>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]
Probab=74.85 E-value=3.1 Score=26.14 Aligned_cols=40 Identities=5% Similarity=-0.041 Sum_probs=29.0
Q ss_pred HHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHhccc
Q 042276 29 GFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSARIR 70 (71)
Q Consensus 29 ~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~ 70 (71)
-|.+.|.+++|++.|..-... .| |.+++.---.+|.+..+
T Consensus 106 ~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~ 146 (536)
T KOG4648|consen 106 TYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKS 146 (536)
T ss_pred hhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHH
Confidence 377899999999988766543 45 77777777777766543
No 197
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=74.70 E-value=8.5 Score=26.88 Aligned_cols=23 Identities=17% Similarity=0.232 Sum_probs=13.1
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHH
Q 042276 23 CNALMDGFCLADRFDRARELLVS 45 (71)
Q Consensus 23 ~~~li~~~~~~g~~~~a~~~~~~ 45 (71)
++-.|++|.+.|+|+.|.++-.+
T Consensus 794 ~~dai~my~k~~kw~da~kla~e 816 (1636)
T KOG3616|consen 794 FKDAIDMYGKAGKWEDAFKLAEE 816 (1636)
T ss_pred hHHHHHHHhccccHHHHHHHHHH
Confidence 45555666666666666655443
No 198
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.54 E-value=11 Score=24.82 Aligned_cols=46 Identities=13% Similarity=0.024 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
++++..|++.+++ ++-.+..||-.-..+...++++.|.+.|+...+
T Consensus 445 ~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~ 490 (606)
T KOG0547|consen 445 AESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE 490 (606)
T ss_pred HHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence 4667777777644 344577788888888888888888888887764
No 199
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=74.01 E-value=16 Score=21.59 Aligned_cols=49 Identities=16% Similarity=-0.008 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccH----HHHHHHHHHHHhccc
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDA----FSHSILINGGSARIR 70 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~~~ 70 (71)
...|...+....+.|++++|...|+...+. .|+. ..+-.+-..|...|+
T Consensus 143 ~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~ 195 (263)
T PRK10803 143 NTDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGK 195 (263)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCC
Confidence 456777776667789999999999999876 3443 345555555555444
No 200
>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]
Probab=74.00 E-value=12 Score=20.18 Aligned_cols=56 Identities=13% Similarity=0.186 Sum_probs=41.0
Q ss_pred HHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 042276 7 LAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILIN 63 (71)
Q Consensus 7 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~ 63 (71)
-+..+..-.+.|+.-...+.+.++-+-+++..|.++|+..+.+ +.+-...|-.+++
T Consensus 71 glN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K-~g~~k~~Y~y~v~ 126 (149)
T KOG4077|consen 71 GLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK-CGAQKQVYPYYVK 126 (149)
T ss_pred HHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh-cccHHHHHHHHHH
Confidence 3444455667899999999999999999999999999999754 2222224554443
No 201
>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=73.90 E-value=9.3 Score=18.95 Aligned_cols=61 Identities=13% Similarity=0.060 Sum_probs=40.6
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+.++++.+.++|+- +....+.+..+--..|+.+.|.+++..+. +| .-.|...++++-+.|+
T Consensus 21 ~~~v~d~ll~~~il-T~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg----~~aF~~Fl~aLreT~~ 81 (88)
T cd08819 21 TRDVCDKCLEQGLL-TEEDRNRIEAATENHGNESGARELLKRIV-QK----EGWFSKFLQALRETEH 81 (88)
T ss_pred HHHHHHHHHhcCCC-CHHHHHHHHHhccccCcHHHHHHHHHHhc-cC----CcHHHHHHHHHHHcCc
Confidence 45677777777643 33333333333346789999999999998 64 4457778887766554
No 202
>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=73.80 E-value=13 Score=20.71 Aligned_cols=46 Identities=15% Similarity=0.023 Sum_probs=34.6
Q ss_pred hHHHHHHHHHHhcCCCcC----HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNPD----TSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|...|++.... .|+ ..++..+-..+.+.|++++|...+++..+.
T Consensus 50 ~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~ 99 (235)
T TIGR03302 50 TEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL 99 (235)
T ss_pred HHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 4677778877653 232 246677778888999999999999999764
No 203
>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=73.65 E-value=6.1 Score=18.24 Aligned_cols=21 Identities=19% Similarity=0.268 Sum_probs=16.7
Q ss_pred cCCHHHHHHHHHHHhhCCCCc
Q 042276 33 ADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p 53 (71)
.-+++.|...|.++...|-.|
T Consensus 38 ~Wd~~~Al~~F~~lk~~~~IP 58 (63)
T smart00804 38 NWDYERALKNFTELKSEGSIP 58 (63)
T ss_pred CCCHHHHHHHHHHHHhcCCCC
Confidence 448999999999998765444
No 204
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=73.56 E-value=17 Score=21.68 Aligned_cols=52 Identities=15% Similarity=-0.030 Sum_probs=42.5
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
|...-+.......+.|++.+|+..|++.... -.+|..+|+.+=-+|-+.|+.
T Consensus 99 d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~ 150 (257)
T COG5010 99 DRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRF 150 (257)
T ss_pred cHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccCh
Confidence 4555566888889999999999999998654 467999999998888888863
No 205
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=73.11 E-value=21 Score=26.60 Aligned_cols=50 Identities=14% Similarity=0.081 Sum_probs=38.7
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~ 54 (71)
.+..+|+..... .| -.-.|+..|++-.++|+.+.+.++|++....+..|-
T Consensus 1618 RGRtlfEgll~a--yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1618 RGRTLFEGLLSA--YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred hhHHHHHHHHhh--CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence 455677777643 33 466899999999999999999999999988876664
No 206
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=72.83 E-value=14 Score=20.34 Aligned_cols=46 Identities=11% Similarity=-0.049 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
++|.++|+..... .| +..-|-.+=-++-..|++++|+..|......
T Consensus 52 ~~A~~~f~~L~~~--Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L 98 (157)
T PRK15363 52 AGAARLFQLLTIY--DAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI 98 (157)
T ss_pred HHHHHHHHHHHHh--CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 5666677666543 44 3333333333444567777777777776654
No 207
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=72.23 E-value=31 Score=24.23 Aligned_cols=59 Identities=19% Similarity=0.198 Sum_probs=37.9
Q ss_pred HHHHHhcCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 8 AELMIQRGVNP--DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 8 ~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
.....+..+.| +.-.|--+-+++.+.|.+++|+++|.........-+...|--+-.+|-
T Consensus 400 l~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~ 460 (895)
T KOG2076|consen 400 LHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM 460 (895)
T ss_pred HHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence 33344454333 566777777888888888888888888877655555555555544443
No 208
>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=72.21 E-value=15 Score=20.53 Aligned_cols=45 Identities=7% Similarity=-0.157 Sum_probs=32.6
Q ss_pred HHHHHhcCCHHHHHHHHHHHhhCC-CCc-cHHHHHHHHHHHHhcccC
Q 042276 27 MDGFCLADRFDRARELLVSMGSKG-CKQ-DAFSHSILINGGSARIRK 71 (71)
Q Consensus 27 i~~~~~~g~~~~a~~~~~~m~~~g-~~p-~~~~~~~li~~~~~~~~~ 71 (71)
-..+.+.|++.+|...++...+.. -.| ....+..+..++.+.|++
T Consensus 173 a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~ 219 (235)
T TIGR03302 173 ARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLK 219 (235)
T ss_pred HHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCH
Confidence 345778899999999999987652 112 356778888888777763
No 209
>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=71.88 E-value=16 Score=20.84 Aligned_cols=48 Identities=17% Similarity=0.054 Sum_probs=31.7
Q ss_pred hHHHHHHHHHHhcCCCc--CHH-----HHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNP--DTS-----TCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p--~~~-----~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+.|..+|+.+.+.--.| -.- .=-..+-+|.+.|.+++|.++++.....
T Consensus 86 ESAl~v~~~I~~E~~~~~~lhe~i~~lik~~aV~VCm~~g~Fk~A~eiLkr~~~d 140 (200)
T cd00280 86 ESALMVLESIEKEFSLPETLHEEIRKLIKEQAVAVCMENGEFKKAEEVLKRLFSD 140 (200)
T ss_pred HHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHhcC
Confidence 56788887775432222 111 1223355688999999999999998764
No 210
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=71.50 E-value=22 Score=24.39 Aligned_cols=50 Identities=10% Similarity=-0.120 Sum_probs=34.9
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHhccc
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSARIR 70 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~~~ 70 (71)
-..+|+-+-+.+-..|++++|+.+++.|.+. .| ....|.-+-.++...|+
T Consensus 115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~ 165 (966)
T KOG4626|consen 115 GAEAYSNLANILKERGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGD 165 (966)
T ss_pred HHHHHHHHHHHHHHhchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCC
Confidence 4567777778888888888888888888765 34 44566666666655543
No 211
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.45 E-value=21 Score=21.87 Aligned_cols=58 Identities=10% Similarity=0.023 Sum_probs=40.0
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHH
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILI 62 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li 62 (71)
...+.+..+..-+.+...-+.+...-.+.|+.+.|...|++-.+..-..|..+.+.++
T Consensus 197 ~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V 254 (366)
T KOG2796|consen 197 VDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMV 254 (366)
T ss_pred HHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHH
Confidence 3445555554434477778888888889999999999999877654445555555443
No 212
>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=71.43 E-value=17 Score=22.07 Aligned_cols=49 Identities=10% Similarity=-0.075 Sum_probs=39.5
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
...+-+..|.-+...|+...|.++-.+.. .|+..-|-+.+.++++.++|
T Consensus 176 ~~~Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w 224 (319)
T PF04840_consen 176 VGLSLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDW 224 (319)
T ss_pred hcCCHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCH
Confidence 34566666777888899888888877764 58999999999999999886
No 213
>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=71.31 E-value=27 Score=23.06 Aligned_cols=38 Identities=11% Similarity=-0.032 Sum_probs=17.7
Q ss_pred hcCCHHHHHHHHHHHhhC-CCCccHHHHHHHHHHHHhcc
Q 042276 32 LADRFDRARELLVSMGSK-GCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 32 ~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~~ 69 (71)
+.|+.++|.+.|++|.+. ...-+.-....|+.++...+
T Consensus 271 klGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq 309 (539)
T PF04184_consen 271 KLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQ 309 (539)
T ss_pred HhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcC
Confidence 456666666666666432 11112223444555554433
No 214
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=71.24 E-value=14 Score=19.91 Aligned_cols=65 Identities=12% Similarity=0.028 Sum_probs=45.9
Q ss_pred hHHHHHHHHHHhcC-CCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCccHHHHHHHHHHHHh
Q 042276 2 DEANGLAELMIQRG-VNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK-GCKQDAFSHSILINGGSA 67 (71)
Q Consensus 2 ~~a~~~~~~m~~~~-~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~ 67 (71)
++|.+.|+.+..+= ..| ....-=-++.+|.+.+++++|...+++..+. .-.|+ +.|...+.|++.
T Consensus 27 ~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL~~ 94 (142)
T PF13512_consen 27 EEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGLSY 94 (142)
T ss_pred HHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHHHH
Confidence 46777888876531 111 4566667888999999999999999998765 34454 667777777654
No 215
>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=70.81 E-value=15 Score=20.02 Aligned_cols=43 Identities=14% Similarity=0.097 Sum_probs=27.4
Q ss_pred HHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 7 LAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 7 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+|+.+....+..++..-=.-|....+.++++.|.++...+...
T Consensus 77 Lfd~ln~g~Ls~~v~~~L~~L~~aL~~~d~~~A~~Ih~~L~t~ 119 (157)
T PF07304_consen 77 LFDHLNNGKLSKPVVDKLHQLAQALQARDYDAADEIHVDLMTD 119 (157)
T ss_dssp HHHHHHHT-S-HHHHHHHHHHHHHHHHT-HHHHHHHHHHHHHS
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence 4555554445555555445556666889999999999999754
No 216
>PF04269 DUF440: Protein of unknown function, DUF440; InterPro: IPR007376 This entry represents hypothetical proteins such as HI1450, which is believed to act as a putative dsDNA mimic. HI1450 is an acidic protein with a core structure consisting of alpha(2)-beta(4), where the alpha-helices are packed against the side of an anti-parallel 4-stranded beta meander. As such, it has some similarity to the dsDNA mimics uracil-DNA glycosylase inhibitor and nuclease A inhibitor (NuiA), including the distribution of surface charges and the position of the hydrophobic cavity []. DNA mimics act to inhibit or regulate dsDNA-binding proteins. ; PDB: 1NNV_A.
Probab=70.74 E-value=3.3 Score=21.09 Aligned_cols=24 Identities=21% Similarity=0.257 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNA 25 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~ 25 (71)
+.|..+|-+|-..++.| |...||.
T Consensus 11 d~AYDiFLE~A~dNL~paDi~lF~~ 35 (103)
T PF04269_consen 11 DQAYDIFLELAPDNLDPADILLFNL 35 (103)
T ss_dssp HHHHHHHHHH-STTS-HHHHHHHHH
T ss_pred HHHHHHHHHHhhhcCCHHHHHHHHH
Confidence 45777777777777777 5666653
No 217
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=70.48 E-value=6 Score=25.85 Aligned_cols=25 Identities=4% Similarity=0.072 Sum_probs=14.2
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELL 43 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~ 43 (71)
|.+.|+-=..+|++.|++++|++=-
T Consensus 35 nhvlySnrsaa~a~~~~~~~al~da 59 (539)
T KOG0548|consen 35 NHVLYSNRSAAYASLGSYEKALKDA 59 (539)
T ss_pred ccchhcchHHHHHHHhhHHHHHHHH
Confidence 5555555555666666666555433
No 218
>PRK05094 dsDNA-mimic protein; Reviewed
Probab=70.35 E-value=4.2 Score=20.86 Aligned_cols=30 Identities=13% Similarity=0.148 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFC 31 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~ 31 (71)
+.|..+|-+|-..++.| |+..||.-..-.+
T Consensus 14 d~AYDiFLE~A~dNL~paDi~lFnlqFeerG 44 (107)
T PRK05094 14 EQAYDIFLELAADNLDPADILLFNLQFEERG 44 (107)
T ss_pred HHHHHHHHHhhhhcCCHHHHHHHHHHHHhcC
Confidence 57889999998888888 7888887655433
No 219
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=69.78 E-value=6.9 Score=27.79 Aligned_cols=36 Identities=14% Similarity=0.199 Sum_probs=31.3
Q ss_pred cCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 14 RGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 14 ~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
..+.| |...|..+..+|..+|.+..|.++|.+....
T Consensus 589 LR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L 625 (1238)
T KOG1127|consen 589 LRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL 625 (1238)
T ss_pred hcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence 34566 8999999999999999999999999887654
No 220
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=69.57 E-value=14 Score=19.23 Aligned_cols=47 Identities=15% Similarity=0.114 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhcCCCcC---HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 042276 3 EANGLAELMIQRGVNPD---TSTCNALMDGFCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g 50 (71)
.+...++.+.+.. +.+ ....=.+-..+...|++++|...|+......
T Consensus 29 ~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~ 78 (145)
T PF09976_consen 29 KAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA 78 (145)
T ss_pred HHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC
Confidence 3445566666541 112 2222223466778999999999999999876
No 221
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=69.41 E-value=14 Score=19.05 Aligned_cols=47 Identities=11% Similarity=0.007 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
.-...+|..+.+.+.+.....+++.+...+. .+....|.++..|++.
T Consensus 8 ~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~ 54 (140)
T smart00299 8 IDVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKY 54 (140)
T ss_pred CCHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHH
Confidence 3445677777778888888888888877763 6777888888888764
No 222
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=69.16 E-value=5.6 Score=14.47 Aligned_cols=29 Identities=14% Similarity=0.013 Sum_probs=17.3
Q ss_pred CCHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 042276 34 DRFDRARELLVSMGSKGCKQDAFSHSILIN 63 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g~~p~~~~~~~li~ 63 (71)
|+++.|.++|+++.... .-+...|...+.
T Consensus 1 ~~~~~~r~i~e~~l~~~-~~~~~~W~~y~~ 29 (33)
T smart00386 1 GDIERARKIYERALEKF-PKSVELWLKYAE 29 (33)
T ss_pred CcHHHHHHHHHHHHHHC-CCChHHHHHHHH
Confidence 45677788888876542 234555555443
No 223
>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=69.00 E-value=12 Score=18.20 Aligned_cols=36 Identities=19% Similarity=0.095 Sum_probs=28.8
Q ss_pred CcCHHHHHHHHHHHHhcC----CHHHHHHHHHHHhhCCCC
Q 042276 17 NPDTSTCNALMDGFCLAD----RFDRARELLVSMGSKGCK 52 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g----~~~~a~~~~~~m~~~g~~ 52 (71)
-|+.++-+-+++.+.+.. ..++|..+-+.|.+.|+-
T Consensus 26 ~p~~F~GsdlVdWL~~~~~~~~~R~eAv~~g~~Ll~~G~i 65 (84)
T cd04438 26 IPNSFIGSDLVDWLLSHVEGLTDRREARKYASSLLKLGYI 65 (84)
T ss_pred CCccccchHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCcE
Confidence 456777788899888833 678999999999998853
No 224
>KOG2058 consensus Ypt/Rab GTPase activating protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.87 E-value=27 Score=22.48 Aligned_cols=56 Identities=11% Similarity=0.000 Sum_probs=41.8
Q ss_pred HHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 7 LAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 7 ~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
++..+...|+..+..+++-+|..+...+..+.++++++.+--.|. ...+...+.++
T Consensus 304 l~~~l~~~~~~~~l~t~~wfLt~f~d~lP~~t~LrIwD~~f~eGs---kvlfr~Alai~ 359 (436)
T KOG2058|consen 304 LSLHLEGNGVDASLETLPWFLTLFVDILPSETVLRIWDCLFYEGS---KVLFRVALAIL 359 (436)
T ss_pred HHHhhhhcCCCeeeeehhhhHHHhcccccHHHHHHHHHHHHhccc---HHHHHHHHHHH
Confidence 344445566667899999999999999999999999999987773 44443444333
No 225
>PF09543 DUF2379: Protein of unknown function (DUF2379); InterPro: IPR011753 This family consists of at least 7 paralogs in Myxococcus xanthus, a member of the Deltaproteobacteria. The function is unknown.
Probab=68.69 E-value=15 Score=19.27 Aligned_cols=52 Identities=17% Similarity=0.091 Sum_probs=36.1
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHH--hcCCHHHHHHHHHHHhhCCCCc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFC--LADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~g~~p 53 (71)
+.|..++.++..+--.-+....+++..++. ..|+++.|.+.+++.....+.|
T Consensus 54 ~~A~~LL~ei~rRIr~GS~RL~~al~r~~~~~daGD~dgARq~m~dvLAVEvVP 107 (121)
T PF09543_consen 54 EGAAALLREIRRRIRDGSRRLSRALHRMYRLRDAGDLDGARQEMRDVLAVEVVP 107 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCHHHHHHHHHHHHhhccCH
Confidence 356677777754322335666677776665 5899999999999988766555
No 226
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=68.48 E-value=32 Score=22.93 Aligned_cols=60 Identities=20% Similarity=0.166 Sum_probs=35.2
Q ss_pred HHHHHHHH-HhcC--CCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHHHHHh
Q 042276 4 ANGLAELM-IQRG--VNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILINGGSA 67 (71)
Q Consensus 4 a~~~~~~m-~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~ 67 (71)
..++|-++ .+.+ ++||+.+--.+| |--.|.++.|.+.|+..... .| |-..||-|=..++.
T Consensus 413 i~~~fLeaa~~~~~~~DpdvQ~~LGVL--y~ls~efdraiDcf~~AL~v--~Pnd~~lWNRLGAtLAN 476 (579)
T KOG1125|consen 413 IQELFLEAARQLPTKIDPDVQSGLGVL--YNLSGEFDRAVDCFEAALQV--KPNDYLLWNRLGATLAN 476 (579)
T ss_pred HHHHHHHHHHhCCCCCChhHHhhhHHH--HhcchHHHHHHHHHHHHHhc--CCchHHHHHHhhHHhcC
Confidence 44556666 3455 455554444444 55677788888888877654 45 44667766544443
No 227
>cd06182 CYPOR_like NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. CYPOR has a C-terminal ferredoxin reducatase (FNR)- like FAD and NAD binding module, an FMN-binding domain, and an additional conecting domain (inserted within the FAD binding region) that orients the FNR and FMN binding domains. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria and participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-t
Probab=68.23 E-value=12 Score=21.87 Aligned_cols=37 Identities=14% Similarity=0.001 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 35 RFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
..+.+.+.+.++...+..++...+...++-+-+.|||
T Consensus 226 m~~~v~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 262 (267)
T cd06182 226 MAKDVEDALVKIIAKAGGVDESDAEEYLKELEDEGRY 262 (267)
T ss_pred chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCe
Confidence 5556677777777777788888888899888888875
No 228
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=68.12 E-value=37 Score=23.45 Aligned_cols=65 Identities=14% Similarity=-0.035 Sum_probs=36.6
Q ss_pred hHHHHHHHHHHhcCCCcC-HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 2 DEANGLAELMIQRGVNPD-TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+-|...++...+. .|+ ...||-|-.++...|++.+|++.+....... .--..+.+-|-+++-+.|
T Consensus 303 dlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~ 368 (966)
T KOG4626|consen 303 DLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQG 368 (966)
T ss_pred HHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhc
Confidence 3444555544433 554 5677777777777777777777777765431 112234444444444433
No 229
>PF00610 DEP: Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP); InterPro: IPR000591 This entry represents the DEP (Dishevelled, Egl-10 and Pleckstrin) domain, a globular domain of about 80 residues that is found in over 50 proteins involved in G-protein signalling pathways. It was named after the three proteins it was initially found in: Dishevelled (Dsh and Dvl), which play a key role in the transduction of the Wg/Wnt signal from the cell surface to the nucleus; it is a segment polarity protein required to establish coherent arrays of polarized cells and segments in embryos, and plays a role in wingless signalling. Egl-10, which regulates G-protein signalling in the central nervous system. Pleckstrin, the major substrate of protein kinase C in platelets; Pleckstrin contains two PH domains flanking the DEP domain. Mammalian regulators of G-protein signalling also contain these domains, and regulate signal transduction by increasing the GTPase activity of G-protein alpha subunits, thereby driving them into their inactive GDP-bound form. It has been proposed that the DEP domain could play a selective role in targeting DEP domain-containing proteins to specific subcellular membranous sites, perhaps even to specific G protein-coupled signaling pathways [, ]. Nuclear magnetic resonance spectroscopy has revealed that the DEP domain comprises a three-helix bundle, a beta-hairpin 'arm' composed of two beta-strands and two short beta-strands in the C-terminal region [].; GO: 0035556 intracellular signal transduction; PDB: 1UHW_A 1V3F_A 2YSR_A 2CSO_A 1W4M_A 2PBI_C 1O7F_A 2BYV_E 1FSH_A 3ML6_D ....
Probab=68.01 E-value=11 Score=17.33 Aligned_cols=34 Identities=18% Similarity=0.112 Sum_probs=27.3
Q ss_pred cCHHHHHHHHHHHHh-----cCCHHHHHHHHHHHhhCCC
Q 042276 18 PDTSTCNALMDGFCL-----ADRFDRARELLVSMGSKGC 51 (71)
Q Consensus 18 p~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~g~ 51 (71)
|+..+-..+++.+.+ ....++|..+-+.|.+.|+
T Consensus 15 ~~~F~G~e~v~WL~~~~~~~~~~r~eA~~l~q~Ll~~g~ 53 (74)
T PF00610_consen 15 PNCFTGSEAVDWLMDNFEGFVRDREEAVQLGQELLDHGF 53 (74)
T ss_dssp CCEEEHHHHHHHHHHTSCTSTSSHHHHHHHHHHHHHCTS
T ss_pred CCEeEhHHHHHHHHHhccccccCHHHHHHHHHHHHHCCC
Confidence 466677777888774 5688999999999999884
No 230
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=67.92 E-value=29 Score=22.20 Aligned_cols=29 Identities=3% Similarity=0.166 Sum_probs=14.6
Q ss_pred CHHHHHHHH-HHHHhcCCHHHHHHHHHHHh
Q 042276 19 DTSTCNALM-DGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 19 ~~~~~~~li-~~~~~~g~~~~a~~~~~~m~ 47 (71)
|..+|.+++ .+|.+.+.++.|++++-.+.
T Consensus 426 n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~ 455 (557)
T KOG3785|consen 426 NKILYKSMLARCYIRNKKPQLAWDMMLKTN 455 (557)
T ss_pred hhHHHHHHHHHHHHhcCCchHHHHHHHhcC
Confidence 444554443 33445555555555555543
No 231
>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=67.70 E-value=22 Score=20.75 Aligned_cols=55 Identities=18% Similarity=0.129 Sum_probs=34.5
Q ss_pred CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC----CCCccHHHHHHHHHHHHhcccC
Q 042276 17 NPDTSTCNALMDGFCLADRFDRARELLVSMGSK----GCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----g~~p~~~~~~~li~~~~~~~~~ 71 (71)
.|-...-..+++..-+....++...+++.+... |..|+....+.++.+++..|.+
T Consensus 8 ~P~~~~a~~l~~~ir~k~~~eei~~~l~~i~~~~~~~~~~~~~~~i~v~~q~ll~~GSk 66 (253)
T PF09090_consen 8 LPFHALAQKLLDLIRKKAPPEEISELLEEIEEPAEEHGSDFDKFVIDVFVQCLLHIGSK 66 (253)
T ss_dssp STTHHHHHHHHHHHHTT--HHHHHHHHTTS------------HHHHHHHHHHHHHHTTT
T ss_pred CccHHHHHHHHHHHHcCCCHHHHHHHHHhccccccccccchhhHHHHHHHHHHHHhcCc
Confidence 455666677777777777777888888877643 3356778888899988887754
No 232
>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=67.44 E-value=21 Score=20.47 Aligned_cols=69 Identities=10% Similarity=-0.141 Sum_probs=49.1
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh---CCCCccHHHHHHHHHHHHhcccC
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGS---KGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
++|...|-.+...+.--++..--++-.-|. ..+.+.+..++....+ .+-.+|+..+.+|.+.+-+.|++
T Consensus 123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~ 194 (203)
T PF11207_consen 123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY 194 (203)
T ss_pred HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence 367777777766555545555555555555 6678999998887764 24478999999999999887753
No 233
>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=67.25 E-value=18 Score=19.47 Aligned_cols=38 Identities=11% Similarity=0.160 Sum_probs=25.4
Q ss_pred HHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 042276 26 LMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILIN 63 (71)
Q Consensus 26 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~ 63 (71)
+|....+.+....+.++.+.+.+.|+..+..|.+-.+.
T Consensus 6 ~i~~Li~~~~i~tqeeL~~~L~~~G~~vsqaTIsRdL~ 43 (146)
T TIGR01529 6 RIKEIITEEKISTQEELVALLKAEGIEVTQATVSRDLR 43 (146)
T ss_pred HHHHHHHcCCCCCHHHHHHHHHHhCCCcCHHHHHHHHH
Confidence 44555566666777777777777777777666665544
No 234
>KOG2223 consensus Uncharacterized conserved protein, contains TBC domain [Signal transduction mechanisms; General function prediction only]
Probab=66.70 E-value=33 Score=22.40 Aligned_cols=45 Identities=13% Similarity=0.101 Sum_probs=29.1
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g 50 (71)
++|.++++..+.||...+--+...|.+.=-++-|-++++.-...|
T Consensus 460 ~L~~Hl~kl~l~PDiylidwiftlyskslpldlacRIwDvy~rdg 504 (586)
T KOG2223|consen 460 KLFTHLKKLELTPDIYLIDWIFTLYSKSLPLDLACRIWDVYCRDG 504 (586)
T ss_pred HHHHHHHhccCCCchhhHHHHHHHHhccCChHHhhhhhheeeecc
Confidence 456666677777777777777777776666666666655544433
No 235
>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=66.24 E-value=20 Score=19.64 Aligned_cols=45 Identities=22% Similarity=0.228 Sum_probs=35.6
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g 50 (71)
.+++..+.+.|+.|....++-++..+++.=..+.+.++++-+. .|
T Consensus 149 P~l~~~l~~~~~~~~~~~~~w~~~lF~~~l~~~~~~~lwD~l~-~g 193 (214)
T PF00566_consen 149 PELYNHLKQLGVDPEIYAFPWFLTLFSRSLPFDDVLRLWDFLL-EG 193 (214)
T ss_dssp HHHHHHHHHTT-GGHHHHHHHHHTTTTTTS-HHHHHHHHHHHH-HC
T ss_pred hhhhhhhhhhhhhhhhhhhhhhHhhcCCcCCHHHHHHHHHHHH-cC
Confidence 3567778888999999999999999998888899999999444 44
No 236
>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=66.17 E-value=12 Score=17.08 Aligned_cols=40 Identities=20% Similarity=0.182 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHH-----hcCCHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFC-----LADRFDRAREL 42 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~-----~~g~~~~a~~~ 42 (71)
+|-+++++.-...-.|....+-.+|.... +.|++..|.++
T Consensus 17 EaHEvlE~~W~~~~~~~~~~lqglIq~A~a~~h~~~gn~~gA~~l 61 (62)
T PF03745_consen 17 EAHEVLEELWKAAPGPERDFLQGLIQLAVALYHLRRGNPRGARRL 61 (62)
T ss_dssp HHHHHHHHHCCCT-CCHHHHHHHHHHHHHHHHHHHCTSHHHHHHH
T ss_pred HhHHHHHHHHHHCCcchHHHHHHHHHHHHHHHHHHhCCHHHHHHh
Confidence 34455555543222334455555554433 45666665554
No 237
>cd04445 DEP_PLEK1 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in pleckstrin 1-like proteins. Pleckstrin 1 plays a role in cell spreading and reorganization of actin cytoskeleton in platelets and leukocytes. Its activity is highly regulated by phosphorylation, mainly by protein kinase C. Pleckstrin-like proteins contain a central DEP domain, flanked by 2 PH (pleckstrin homology) domains.
Probab=65.39 E-value=17 Score=18.47 Aligned_cols=46 Identities=15% Similarity=0.036 Sum_probs=34.3
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCC---HHHHHHHHHHHhhCC
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADR---FDRARELLVSMGSKG 50 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~g 50 (71)
.+.........+-|+.+|-+.+++++.+... -.+|+.+-..+.+.|
T Consensus 16 Ik~~~~~~~~tv~~hcftGsdVVdWLv~~~~v~~r~EAl~las~Ll~eG 64 (99)
T cd04445 16 IKELNLEKDKKVFNHCFTGSCVIDWLVSNQSVRNRQEGLMLASSLLNEG 64 (99)
T ss_pred hhhhhHHHhhccccceecccHHHHHHHHhhcccchHHHHHHHHHHHHcC
Confidence 3344444555667788999999999998764 458888888888877
No 238
>KOG1125 consensus TPR repeat-containing protein [General function prediction only]
Probab=65.23 E-value=36 Score=22.72 Aligned_cols=47 Identities=21% Similarity=0.104 Sum_probs=38.7
Q ss_pred ChHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 1 MDEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 1 ~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+++|...|+...+. .| |...||-+=..++...+-++|+..|++..+.
T Consensus 446 fdraiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL 493 (579)
T KOG1125|consen 446 FDRAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQL 493 (579)
T ss_pred HHHHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc
Confidence 35677777777644 66 8999999999999999999999999998765
No 239
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=65.16 E-value=22 Score=19.83 Aligned_cols=43 Identities=12% Similarity=0.008 Sum_probs=26.2
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHHHHH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSILIN 63 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~li~ 63 (71)
|...|..+-..|...|++++|...|++..+.. | |...+..+-.
T Consensus 72 ~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~--P~~~~~~~~lA~ 115 (198)
T PRK10370 72 NSEQWALLGEYYLWRNDYDNALLAYRQALQLR--GENAELYAALAT 115 (198)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence 56667766667777777777777777666542 3 3344444433
No 240
>KOG2911 consensus Uncharacterized conserved protein [Function unknown]
Probab=64.01 E-value=25 Score=22.59 Aligned_cols=50 Identities=12% Similarity=0.033 Sum_probs=25.7
Q ss_pred hHHHHHHHHHHhcCCCc----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 2 DEANGLAELMIQRGVNP----DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
++|..++.++.+.++-. -++|||.+-+-|... ..||..|..+++...+..
T Consensus 148 eka~~~~~~ll~~~~~~~~t~~Vvt~nef~tlc~~~-----------------~~~~~~t~~l~l~~l~~~ 201 (439)
T KOG2911|consen 148 EKALDVYAELLHEEVLSECTGAVVTLNEFQTLCSNL-----------------GKPDEETKDLVLCWLAYQ 201 (439)
T ss_pred HHHHHHHHHHHhhhhhhccCceeeeHHHHHHHhccC-----------------CCCcHHHHHHHHHHHHhh
Confidence 34555665555443322 255666665555544 345555555555555443
No 241
>cd04450 DEP_RGS7-like DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in RGS (regulator of G-protein signaling) proteins of the subfamily R7. This subgroup contains RGS7, RGS6, RGS9 and RGS11. They share a common domain architecture, containing, beside the RGS domain, a DEP domain and a GGL (G-protein gamma subunit-like ) domain. RGS proteins are GTPase-activating (GAP) proteins of heterotrimeric G proteins by increasing the rate of GTP hydrolysis of the alpha subunit. The fungal homologs, like yeast Sst2, share a related common domain architecture, containing RGS and DEP domains. Sst2 has been identified as the principal regulator of mating pheromone signaling and recently the DEP domain of Sst2 has been shown to be necessary and sufficient to mediate receptor interaction.
Probab=64.00 E-value=16 Score=17.75 Aligned_cols=35 Identities=17% Similarity=0.019 Sum_probs=29.2
Q ss_pred CcCHHHHHHHHHHHHhc---CCHHHHHHHHHHHhhCCC
Q 042276 17 NPDTSTCNALMDGFCLA---DRFDRARELLVSMGSKGC 51 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~g~ 51 (71)
-|+.++-..+++.+++. .+.++|.++-..+.+.|.
T Consensus 25 ~~~~F~G~~~v~WL~~~~~~~~~~EA~~~~~~ll~~gl 62 (88)
T cd04450 25 VPYAFTGKAIVQWLMDCTDVVDPSEALEIAALFVKYGL 62 (88)
T ss_pred cCceeEhHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCC
Confidence 56778888888888876 578899999999998884
No 242
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. 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-associati
Probab=62.72 E-value=16 Score=17.47 Aligned_cols=33 Identities=12% Similarity=-0.044 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 36 FDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.+.+.+++..-.++. ....|...|+.++-+.|+
T Consensus 44 ~eq~~~mL~~W~~r~--g~~at~~~L~~AL~~i~r 76 (84)
T cd08317 44 AQQAQAMLKLWLERE--GKKATGNSLEKALKKIGR 76 (84)
T ss_pred HHHHHHHHHHHHHhc--CCcchHHHHHHHHHHcCh
Confidence 466777777776652 235777888888877665
No 243
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=62.33 E-value=38 Score=21.56 Aligned_cols=51 Identities=14% Similarity=0.064 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~ 54 (71)
.+|.+.|+.- ....|+..+|+-+-+++.+.|++.+|.+++++-...-..|+
T Consensus 345 ~kA~~~leaA--l~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~ 395 (400)
T COG3071 345 GKASEALEAA--LKLRPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPN 395 (400)
T ss_pred HHHHHHHHHH--HhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCC
Confidence 4677777733 44589999999999999999999999999888764444443
No 244
>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=62.16 E-value=25 Score=23.06 Aligned_cols=43 Identities=14% Similarity=0.126 Sum_probs=33.6
Q ss_pred cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHH
Q 042276 14 RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSIL 61 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l 61 (71)
..+.|++.+|.-+=-+.....++.+|+.+|..+. ||..++++=
T Consensus 489 ~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP-----~n~~~~dsk 531 (549)
T PF07079_consen 489 TKIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP-----PNERMRDSK 531 (549)
T ss_pred HHhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC-----CchhhHHHH
Confidence 4578999999988777778889999999999875 555665543
No 245
>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=61.92 E-value=8.2 Score=15.24 Aligned_cols=21 Identities=24% Similarity=0.094 Sum_probs=13.6
Q ss_pred HHHHHHHHHHhhCCCCccHHH
Q 042276 37 DRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 37 ~~a~~~~~~m~~~g~~p~~~~ 57 (71)
+.|.++..-+.+.|-.|+-++
T Consensus 12 d~a~rv~~f~~~ngRlPnyV~ 32 (33)
T PF09373_consen 12 DMASRVNNFYESNGRLPNYVS 32 (33)
T ss_pred HHHHHHHHHHHHcCCCCCeee
Confidence 445666667777777777543
No 246
>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=61.78 E-value=17 Score=17.45 Aligned_cols=39 Identities=15% Similarity=0.117 Sum_probs=31.0
Q ss_pred cCCCcCHHHHHHHHHHHHhc----CCHHHHHHHHHHHhhCCCC
Q 042276 14 RGVNPDTSTCNALMDGFCLA----DRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~g~~ 52 (71)
.+..|+.++-.-+++...+. ...++|..+.+.|.+.|+-
T Consensus 23 ~~~~~~cF~G~e~VdWL~~~~~~~~~r~eAv~lgq~Ll~~g~I 65 (83)
T cd04449 23 KGLPSNCFIGSEAVSWLINNFEDVDTREEAVELGQELMNEGLI 65 (83)
T ss_pred CccCCcceEhHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCCE
Confidence 34466888888899988875 3677999999999998853
No 247
>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=61.67 E-value=39 Score=21.67 Aligned_cols=42 Identities=24% Similarity=0.235 Sum_probs=20.1
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHH-HHhcCCHHHHHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDG-FCLADRFDRARELLVSM 46 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~a~~~~~~m 46 (71)
.|.++++.+.++ -|+...|..+-.- +...|++++|++.|+..
T Consensus 251 ~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a 293 (468)
T PF10300_consen 251 EAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERA 293 (468)
T ss_pred HHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHh
Confidence 345555555443 4555554444322 22345555555555543
No 248
>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=61.38 E-value=35 Score=20.88 Aligned_cols=56 Identities=23% Similarity=0.217 Sum_probs=38.1
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHH
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSI 60 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ 60 (71)
+|..+++....+ .| |...=--++..|...|....|.+.|..+.-+.+.-|+..|..
T Consensus 201 ~Ai~lLE~~l~~--s~~n~~~~LlLvrlY~~LG~~~~A~~~~~~L~iK~IQ~DTL~h~~ 257 (365)
T PF09797_consen 201 QAIALLEHALKK--SPHNYQLKLLLVRLYSLLGAGSLALEHYESLDIKNIQLDTLGHLI 257 (365)
T ss_pred HHHHHHHHHHHc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHhcChHHHHHHHhHHHH
Confidence 344555555443 34 444444568889999999999999999987766666655544
No 249
>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=61.14 E-value=19 Score=17.66 Aligned_cols=33 Identities=15% Similarity=0.368 Sum_probs=26.4
Q ss_pred CCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 15 GVNPDTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 15 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
.+.|+...||-+++...+.+...-|-.++.+..
T Consensus 11 ~F~pt~~~yn~yiN~~~~~nkVaPa~n~L~r~V 43 (83)
T PF10963_consen 11 TFNPTPTAYNKYINEMAMDNKVAPAHNYLMRIV 43 (83)
T ss_pred EeccCHHHHHHHHHHhccCCCchHHHHHHHHHc
Confidence 467899999999999988888777777666654
No 250
>cd04441 DEP_2_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=61.06 E-value=18 Score=17.71 Aligned_cols=36 Identities=14% Similarity=0.024 Sum_probs=29.0
Q ss_pred CcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCC
Q 042276 17 NPDTSTCNALMDGFCLAD---RFDRARELLVSMGSKGCK 52 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~ 52 (71)
-|+..+-+-+++.+.+.+ ..++|..+-+.+.+.|+-
T Consensus 29 y~~cF~GsElVdWL~~~~~~~sR~eAv~lgq~Ll~~gii 67 (85)
T cd04441 29 YERTFVGSEFIDWLLQEGEAESRREAVQLCRRLLEHGII 67 (85)
T ss_pred cCCEeEchHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCE
Confidence 356677788899888877 567899999999988854
No 251
>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=61.05 E-value=17 Score=17.22 Aligned_cols=31 Identities=16% Similarity=0.303 Sum_probs=18.9
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc
Q 042276 23 CNALMDGFCLADRFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 23 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~ 54 (71)
...++..+. .++++++...+.++...|+.++
T Consensus 8 i~~i~~~~~-~~~~~~~~~~~~~l~~~G~s~~ 38 (89)
T PF08542_consen 8 IEEILESCL-NGDFKEARKKLYELLVEGYSAS 38 (89)
T ss_dssp HHHHHHHHH-HTCHHHHHHHHHHHHHTT--HH
T ss_pred HHHHHHHHH-hCCHHHHHHHHHHHHHcCCCHH
Confidence 334444443 3588888888888877776554
No 252
>cd08316 Death_FAS_TNFRSF6 Death domain of FAS or TNF receptor superfamily member 6. Death Domain (DD) found in the FS7-associated cell surface antigen (FAS). FAS, also known as TNFRSF6 (TNF receptor superfamily member 6), APT1, CD95, FAS1, or APO-1, together with FADD (Fas-associating via Death Domain) and caspase 8, is an integral part of the death inducing signalling complex (DISC), which plays an important role in the induction of apoptosis and is activated by binding of the ligand FasL to FAS. FAS also plays a critical role in self-tolerance by eliminating cell types (autoreactive T and B cells) that contribute to autoimmunity. 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 sign
Probab=60.96 E-value=20 Score=17.97 Aligned_cols=20 Identities=15% Similarity=0.213 Sum_probs=8.5
Q ss_pred HHHHHHHHHhcCCHHHHHHH
Q 042276 23 CNALMDGFCLADRFDRAREL 42 (71)
Q Consensus 23 ~~~li~~~~~~g~~~~a~~~ 42 (71)
+++++.++-+.+.-.-|..+
T Consensus 69 ~~~Li~aLr~~~l~~~Ad~I 88 (97)
T cd08316 69 YRTLIKTLRKAKLCTKADKI 88 (97)
T ss_pred HHHHHHHHHHccchhHHHHH
Confidence 44444444444443333333
No 253
>cd04443 DEP_GPR155 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in GPR155-like proteins. GRP155-like proteins, also known as PGR22, contain an N-terminal permease domain, a central transmembrane region and a C-terminal DEP domain. They are orphan receptors of the class B G protein-coupled receptors. Their function is unknown.
Probab=60.88 E-value=19 Score=17.52 Aligned_cols=37 Identities=8% Similarity=-0.167 Sum_probs=29.9
Q ss_pred CCcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCC
Q 042276 16 VNPDTSTCNALMDGFCLAD---RFDRARELLVSMGSKGCK 52 (71)
Q Consensus 16 ~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~ 52 (71)
.-|+..+-+-+++.+.+.+ ..++|..+-+.+.+.|+-
T Consensus 26 ~y~~cF~GselVdWL~~~~~~~sR~eAv~lg~~Ll~~G~i 65 (83)
T cd04443 26 TYKGVFCGCDLVSWLIEVGLAQDRGEAVLYGRRLLQGGVL 65 (83)
T ss_pred eccccccHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCE
Confidence 4567888888999988754 567899999999998853
No 254
>PF00531 Death: Death domain; InterPro: IPR000488 The death domain (DD) is a homotypic protein interaction module composed of a bundle of six alpha-helices. DD is related in sequence and structure to the death effector domain (DED, see IPR001875 from INTERPRO) and the caspase recruitment domain (CARD, see IPR001315 from INTERPRO), which work in similar pathways and show similar interaction properties []. DD bind each other forming oligomers. Mammals have numerous and diverse DD-containing proteins []. Within these proteins, the DD domains can be found in combination with other domains, including: CARDs, DEDs, ankyrin repeats (IPR002110 from INTERPRO), caspase-like folds, kinase domains, leucine zippers (IPR002158 from INTERPRO), leucine-rich repeats (LRR) (IPR001611 from INTERPRO), TIR domains (IPR000157 from INTERPRO), and ZU5 domains (IPR000906 from INTERPRO) []. Some DD-containing proteins are involved in the regulation of apoptosis and inflammation through their activation of caspases and NF-kappaB, which typically involves interactions with TNF (tumour necrosis factor) cytokine receptors [, ]. In humans, eight of the over 30 known TNF receptors contain DD in their cytoplasmic tails; several of these TNF receptors use caspase activation as a signalling mechanism. The DD mediates self-association of these receptors, thus giving the signal to downstream events that lead to apoptosis. Other DD-containing proteins, such as ankyrin, MyD88 and pelle, are probably not directly involved in cell death signalling. DD-containing proteins also have links to innate immunity, communicating with Toll family receptors through bipartite adapter proteins such as MyD88 [].; GO: 0005515 protein binding, 0007165 signal transduction; PDB: 3OQ9_L 3EZQ_F 1E41_A 1E3Y_A 2GF5_A 2OF5_L 3EWV_E 3G5B_A 3MOP_L 2A9I_A ....
Probab=60.60 E-value=17 Score=16.86 Aligned_cols=31 Identities=13% Similarity=0.056 Sum_probs=14.7
Q ss_pred HHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 37 DRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 37 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+.+.+++...... .+...|...|+.++-+.|
T Consensus 41 ~~~~~~L~~W~~~--~~~~at~~~L~~aL~~~~ 71 (83)
T PF00531_consen 41 EQTYEMLQRWRQR--EGPNATVDQLIQALRDIG 71 (83)
T ss_dssp HHHHHHHHHHHHH--HGSTSSHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHh--cCCCCcHHHHHHHHHHCC
Confidence 3444555555444 223345555555555444
No 255
>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=60.51 E-value=10 Score=19.82 Aligned_cols=18 Identities=11% Similarity=0.165 Sum_probs=14.7
Q ss_pred HHHHHHHHhhCCCCccHH
Q 042276 39 ARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 39 a~~~~~~m~~~g~~p~~~ 56 (71)
=..+.++|..+|..||..
T Consensus 54 H~lv~~EM~~RGY~~~~~ 71 (120)
T TIGR02328 54 HLLVMEEMATRGYHVSKQ 71 (120)
T ss_pred HHHHHHHHHHcCCCCChh
Confidence 456889999999999873
No 256
>PF13606 Ank_3: Ankyrin repeat
Probab=60.36 E-value=10 Score=14.38 Aligned_cols=26 Identities=4% Similarity=0.041 Sum_probs=14.8
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhCCCCcc
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~ 54 (71)
+.+...++.|+++-+. .+.+.|..||
T Consensus 4 T~Lh~A~~~g~~e~v~----~Ll~~gadvn 29 (30)
T PF13606_consen 4 TPLHLAASNGNIEIVK----YLLEHGADVN 29 (30)
T ss_pred CHHHHHHHhCCHHHHH----HHHHcCCCCC
Confidence 3455667778755544 4444565554
No 257
>cd04439 DEP_1_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and by the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=60.02 E-value=19 Score=17.37 Aligned_cols=35 Identities=11% Similarity=0.048 Sum_probs=27.9
Q ss_pred CcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCC
Q 042276 17 NPDTSTCNALMDGFCLAD---RFDRARELLVSMGSKGC 51 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~ 51 (71)
-|+..+-+-+++.+.+.+ +.++|..+-+.+.+.|+
T Consensus 25 ~~~cF~GselVdWL~~~~~~~~r~eAv~lg~~Ll~~G~ 62 (81)
T cd04439 25 FPKCFLGNEFVSWLLEIGEISKPEEGVNLGQALLENGI 62 (81)
T ss_pred cCceeEhHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Confidence 567778888888888765 45789999999998874
No 258
>PF05944 Phage_term_smal: Phage small terminase subunit; InterPro: IPR010270 This entry is represented by Bacteriophage P2, GpM. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage small terminase subunit proteins as well as some related bacterial sequences []. M protein is probably an endonuclease which directs cos cleavage. The Q, P and M proteins are needed to package DNA into proheads and for the conversion of proheads to capsids.; GO: 0003677 DNA binding, 0004519 endonuclease activity, 0019069 viral capsid assembly
Probab=60.00 E-value=25 Score=18.71 Aligned_cols=35 Identities=17% Similarity=0.087 Sum_probs=27.0
Q ss_pred CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 042276 17 NPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
.+|. ++..++-.....|+++.|+++.+-..++|..
T Consensus 46 ~qd~-Vl~~~mvW~~D~Gd~~~AL~~a~yAi~~~l~ 80 (132)
T PF05944_consen 46 AQDD-VLMTVMVWLFDVGDFDGALDIAEYAIEHGLP 80 (132)
T ss_pred CcCc-hHHhhHhhhhcccCHHHHHHHHHHHHHcCCC
Confidence 3454 3345566899999999999999999988743
No 259
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=59.53 E-value=48 Score=21.80 Aligned_cols=47 Identities=13% Similarity=0.045 Sum_probs=33.5
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh----C--CCCccHHHHHHHHHHH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGS----K--GCKQDAFSHSILINGG 65 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~--g~~p~~~~~~~li~~~ 65 (71)
...+|..|...|-..|+++.|+++...... + +-.|+..........+
T Consensus 449 ~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 501 (508)
T KOG1840|consen 449 VTYTYLNLAALYRAQGNYEAAEELEEKVLNAREQRLGTASPTVEDEKLRLADL 501 (508)
T ss_pred hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHcCCCCCcchhHHHHhhhHH
Confidence 467889999999999999999999887763 1 2445555555444433
No 260
>cd08784 Death_DRs Death Domain of Death Receptors. Death domain (DD) found in death receptor proteins. Death receptors are members of the tumor necrosis factor (TNF) receptor superfamily, characterized by having a cytoplasmic DD. Known members of the family are Fas (CD95/APO-1), TNF-receptor 1 (TNFR1/TNFRSF1A/p55/CD120a), TNF-related apoptosis-inducing ligand receptor 1 (TRAIL-R1 /DR4), and receptor 2 (TRAIL-R2/DR5/APO-2/KILLER), as well as Death Receptor 3 (DR3/APO-3/TRAMP/WSL-1/LARD). They are involved in apoptosis signaling pathways. 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=59.39 E-value=19 Score=17.13 Aligned_cols=33 Identities=24% Similarity=0.100 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 36 FDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
-+.+.+++..-.+.. ....|+..|+.++-+.|.
T Consensus 39 ~eq~~~mL~~W~~k~--G~~At~~~L~~aL~~~~~ 71 (79)
T cd08784 39 RDRVYELLRIWRNKE--GRKATLNTLIKALKDLDQ 71 (79)
T ss_pred HHHHHHHHHHHHhcc--CcCcHHHHHHHHHHHccc
Confidence 355666666666541 235678888888876653
No 261
>PF08986 DUF1889: Domain of unknown function (DUF1889); InterPro: IPR015079 This family consist of hypothetical bacterial proteins. ; PDB: 2JN8_A 2ES9_A.
Probab=58.85 E-value=23 Score=17.99 Aligned_cols=52 Identities=17% Similarity=0.110 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHhcCCCc---CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc
Q 042276 2 DEANGLAELMIQRGVNP---DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p 53 (71)
++|..+...|..+.-.| |..|-..+++.+-..|-+..|.++..+-.+.|-.|
T Consensus 26 dKALDFIggMntSas~P~sMdESTAKGi~KyL~elGvPasa~dv~aRg~qeGWn~ 80 (119)
T PF08986_consen 26 DKALDFIGGMNTSASVPHSMDESTAKGIFKYLKELGVPASAADVTARGEQEGWNP 80 (119)
T ss_dssp HHHHHHHHTS-TT-SS--HCCCHHHHHHHHHHHHCT----HHHHHHHHHHCT--H
T ss_pred HHHHHHhcccccCCCCCCccchHHHHHHHHHHHHcCCCCCHHHHHHhcccccCCh
Confidence 56777777775544444 67888888888888898888888887777776544
No 262
>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=58.82 E-value=33 Score=22.52 Aligned_cols=49 Identities=14% Similarity=0.068 Sum_probs=35.8
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh----CCCCccHHHHHHHHHHHHh
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGS----KGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~~~~~~~li~~~~~ 67 (71)
|..--+...+.+-..|.++++..++++|.. +.+.-|..+|+-++=.+++
T Consensus 127 df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsr 179 (549)
T PF07079_consen 127 DFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSR 179 (549)
T ss_pred HHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhH
Confidence 344445667777789999999999888875 4455788999886655544
No 263
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (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. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=58.77 E-value=18 Score=16.66 Aligned_cols=33 Identities=21% Similarity=0.147 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 36 FDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.+.+.+++....... ++..|...|+.++-+.++
T Consensus 38 ~~~~~~mL~~W~~~~--~~~at~~~L~~aL~~~~~ 70 (79)
T cd01670 38 REQAYQLLLKWEERE--GDNATVGNLIEALREIGR 70 (79)
T ss_pred HHHHHHHHHHHHhcc--CcCcHHHHHHHHHHHcCH
Confidence 456666777666552 235667777777766553
No 264
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=58.60 E-value=36 Score=24.09 Aligned_cols=59 Identities=12% Similarity=0.098 Sum_probs=38.5
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
.+|..+++.+..+.. -.--|.-+-+-|+..|+++.|+++|.+-- -++-.|..|.++|+|
T Consensus 749 ~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw 807 (1636)
T KOG3616|consen 749 KKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW 807 (1636)
T ss_pred hhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence 345666666654422 23446677788999999999999987642 244456666666665
No 265
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=58.55 E-value=49 Score=21.63 Aligned_cols=41 Identities=15% Similarity=0.183 Sum_probs=28.8
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHS 59 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~ 59 (71)
+......+++.....+....|+.++.+|.+.|..|..+...
T Consensus 247 ~~~~~~~l~~si~~~d~~~~al~~l~~l~~~G~d~~~~~~~ 287 (484)
T PRK14956 247 GIEFLTSFIKSLIDPDNHSKSLEILESLYQEGQDIYKFLWD 287 (484)
T ss_pred CHHHHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 33344555665555556678999999999999888766543
No 266
>TIGR02710 CRISPR-associated protein, TIGR02710 family. Members of this family are found, exclusively in the vicinity of CRISPR repeats and other CRISPR-associated (cas) genes, in Methanothermobacter thermautotrophicus (Archaea), Thermus thermophilus (Deinococcus-Thermus), Chloroflexus aurantiacus (Chloroflexi), and Thermomicrobium roseum (Thermomicrobia).
Probab=58.26 E-value=45 Score=21.09 Aligned_cols=38 Identities=8% Similarity=-0.213 Sum_probs=27.9
Q ss_pred HHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 29 GFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 29 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
-+.+.+++..|.++|.++..+...|+...+-..+..+|
T Consensus 139 ~l~n~~dy~aA~~~~~~L~~r~l~~~~~~~~~~~~~l~ 176 (380)
T TIGR02710 139 RAINAFDYLFAHARLETLLRRLLSAVNHTFYEAMIKLT 176 (380)
T ss_pred HHHHhcChHHHHHHHHHHHhcccChhhhhHHHHHHHHH
Confidence 46678999999999999998866666655544444444
No 267
>PRK14700 recombination factor protein RarA; Provisional
Probab=58.19 E-value=39 Score=20.66 Aligned_cols=44 Identities=16% Similarity=0.090 Sum_probs=31.9
Q ss_pred HHHHHHHHHHh---cCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 22 TCNALMDGFCL---ADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 22 ~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
.+--+|+++-| -++++.|+-.+.+|.+.|..|.-..--.++-+.
T Consensus 125 ~HYd~iSAf~KSiRGSDpDAAlYyLArml~~GEDp~~IaRRLii~As 171 (300)
T PRK14700 125 EFYEQLSAFHKSVRGTDPDAAIFWLSVMLDNGVDPLVIARRMLCIAS 171 (300)
T ss_pred hhHHHHHHHHHHhhcCCccHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 33345666665 579999999999999999888766665555443
No 268
>PF12816 Vps8: Golgi CORVET complex core vacuolar protein 8
Probab=58.18 E-value=32 Score=19.40 Aligned_cols=47 Identities=13% Similarity=0.233 Sum_probs=34.5
Q ss_pred cCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 18 PDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 18 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
.+......++.-|.+.|+.+..+++.-.|--. ..-.+.+++.|-+.|
T Consensus 20 lpp~v~k~lv~~y~~~~~~~~lE~lI~~LD~~-----~LDidq~i~lC~~~~ 66 (196)
T PF12816_consen 20 LPPEVFKALVEHYASKGRLERLEQLILHLDPS-----SLDIDQVIKLCKKHG 66 (196)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHH-----hcCHHHHHHHHHHCC
Confidence 36789999999999999999999988777433 333455566665544
No 269
>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=58.00 E-value=17 Score=16.07 Aligned_cols=34 Identities=15% Similarity=0.133 Sum_probs=24.6
Q ss_pred HHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHH
Q 042276 28 DGFCLADRFDRARELLVSMGSKGCKQDAFSHSILIN 63 (71)
Q Consensus 28 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~ 63 (71)
-++.+.|++++|.+..+.+.+. +|+..-.-.|-.
T Consensus 9 ig~ykl~~Y~~A~~~~~~lL~~--eP~N~Qa~~L~~ 42 (53)
T PF14853_consen 9 IGHYKLGEYEKARRYCDALLEI--EPDNRQAQSLKE 42 (53)
T ss_dssp HHHHHTT-HHHHHHHHHHHHHH--TTS-HHHHHHHH
T ss_pred HHHHHhhhHHHHHHHHHHHHhh--CCCcHHHHHHHH
Confidence 3678999999999999999876 677655555443
No 270
>COG3294 HD supefamily hydrolase [General function prediction only]
Probab=57.88 E-value=9.5 Score=22.49 Aligned_cols=20 Identities=20% Similarity=0.218 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhCCCCccHHH
Q 042276 38 RARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 38 ~a~~~~~~m~~~g~~p~~~~ 57 (71)
.|+.+|+.+.+.|++||..+
T Consensus 68 ~Al~i~~lL~~~Gv~ps~v~ 87 (269)
T COG3294 68 SALAIYKLLLEKGVKPSGVT 87 (269)
T ss_pred hHHHHHHHHHhcCCCccccc
Confidence 59999999999999998764
No 271
>PF14744 WASH-7_mid: WASH complex subunit 7
Probab=57.68 E-value=10 Score=23.49 Aligned_cols=30 Identities=10% Similarity=0.155 Sum_probs=22.9
Q ss_pred ChHHHHHHHHHHhcCCCcCHHHHHHHHHHH
Q 042276 1 MDEANGLAELMIQRGVNPDTSTCNALMDGF 30 (71)
Q Consensus 1 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~ 30 (71)
++.|.++.+++++.|+.+|..||=-.....
T Consensus 282 ~erAekf~k~irkLG~~~dG~sylD~FR~L 311 (350)
T PF14744_consen 282 YERAEKFNKGIRKLGLSDDGQSYLDQFRQL 311 (350)
T ss_pred HHHHHHHHHHHHHcCCCCCcchHHHHHHHH
Confidence 367888899999999988888875554443
No 272
>cd08325 CARD_CASP1-like Caspase activation and recruitment domain found in Caspase-1 and related proteins. Caspase activation and recruitment domain (CARD) similar to those found in Caspase-1 (CASP1, ICE) and related proteins, including CARD-only proteins such as ICEBERG or CARD18, INCA (CARD17), CARD16 (COP1, PSEUDO-ICE), CARD8 (DACAR, NDPP1, TUCAN), and CARD12 (NLRC4), as well as ICE-like caspases such as CASP12, CASP5 (ICH-3) and CASP4 (TX, ICH-2). Caspases are aspartate-specific cysteine proteases with functions in apoptosis and immune signaling. CASP1 plays a central role in the cellular response to a wide variety of microbial and non-microbial stimuli, being activated by the inflammasome or the pyroptosome. CARD8 binds itself and the initiator caspase-9, interfering with the binding of APAF-1 and suppressing caspase-9 activation. CARD12 is a Nod-like receptor (NLR) that plays an important role in the innate immune response to Gram-negative bacteria. Caspase-4 (CASP4), -5 (CASP5),
Probab=57.67 E-value=21 Score=17.19 Aligned_cols=57 Identities=23% Similarity=0.204 Sum_probs=37.1
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhc-CCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLA-DRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
..+++.+.+. ++.+..-+=...... -..+.|..+.+...++| ..+..++++++.+.+
T Consensus 19 ~~llD~Ll~~----~Vl~~~E~e~i~~~~~t~~dkar~Lid~v~~KG----~~A~~iF~~~L~~~d 76 (83)
T cd08325 19 NGLLDDLLEK----NVLNEEEMEKIKEENNTIMDKARVLVDSVTEKG----QEAGQIFIKHLLNRD 76 (83)
T ss_pred HHHHHHHHHc----CCCCHHHHHHHHhccCCHHHHHHHHHHHHHHHh----HHHHHHHHHHHHhcC
Confidence 3556666665 344444333333433 36888999999999886 677788888777654
No 273
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=57.58 E-value=17 Score=24.48 Aligned_cols=40 Identities=18% Similarity=0.146 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc-cHHHHHH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ-DAFSHSI 60 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ 60 (71)
...+|.++=+.|.-.++-+.|++.|++..+. .| ..++|+.
T Consensus 420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTL 460 (638)
T KOG1126|consen 420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTL 460 (638)
T ss_pred CcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhh
Confidence 5788888888888888888899888888765 33 3445443
No 274
>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]
Probab=57.24 E-value=39 Score=20.11 Aligned_cols=61 Identities=21% Similarity=0.184 Sum_probs=39.0
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC--CCCccHHHHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK--GCKQDAFSHSILING 64 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~ 64 (71)
+|....++=++. -+.|.-+-..+++-+|-.|++++|..-++-.-+. ...+-...|..+|.+
T Consensus 19 dai~~a~~qVka-kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~ 81 (273)
T COG4455 19 DAIGLARDQVKA-KPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC 81 (273)
T ss_pred HHHHHHHHHHhc-CCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence 344444433322 1337888889999999999999998766555432 334555667766654
No 275
>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=57.09 E-value=29 Score=21.17 Aligned_cols=33 Identities=18% Similarity=0.081 Sum_probs=23.8
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhC-CCCccHHH
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSK-GCKQDAFS 57 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~ 57 (71)
.+++.|.+.|.+++|+++....++- -..|+...
T Consensus 111 ~Lm~~ci~~g~y~eALel~~~~~~L~~~~~~~~l 144 (338)
T PF04124_consen 111 QLMDTCIRNGNYSEALELSAHVRRLQSRFPNIPL 144 (338)
T ss_pred HHHHHHHhcccHhhHHHHHHHHHHHHHhccCchh
Confidence 5688999999999999988776542 22355433
No 276
>PLN02789 farnesyltranstransferase
Probab=56.73 E-value=43 Score=20.40 Aligned_cols=60 Identities=2% Similarity=-0.114 Sum_probs=40.8
Q ss_pred HHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 4 ANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 4 a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
+..+.+.+.+. .| |..+|+----.+.+.|+++++++.+.++.+... -|..+|+.....+.
T Consensus 127 el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~ 187 (320)
T PLN02789 127 ELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVIT 187 (320)
T ss_pred HHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHH
Confidence 44555555533 44 788888887778888899999999999987642 24566666554443
No 277
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=56.65 E-value=49 Score=21.24 Aligned_cols=66 Identities=12% Similarity=0.086 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH-Hhcc
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG-SARI 69 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~-~~~~ 69 (71)
++....+..+.+-=..-|.+.+| +-.+.+..|.+.+|+++|-....-.+ -|..+|-+++.-| .+++
T Consensus 376 ddVl~YlnSi~sYF~NdD~Fn~N-~AQAk~atgny~eaEelf~~is~~~i-kn~~~Y~s~LArCyi~nk 442 (557)
T KOG3785|consen 376 DDVLTYLNSIESYFTNDDDFNLN-LAQAKLATGNYVEAEELFIRISGPEI-KNKILYKSMLARCYIRNK 442 (557)
T ss_pred HHHHHHHHHHHHHhcCcchhhhH-HHHHHHHhcChHHHHHHHhhhcChhh-hhhHHHHHHHHHHHHhcC
Confidence 34444444444433344666666 45678889999999999877653322 3667777777655 4443
No 278
>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=56.47 E-value=32 Score=18.83 Aligned_cols=34 Identities=18% Similarity=0.142 Sum_probs=17.7
Q ss_pred cCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 042276 18 PDTSTCNALMDGFCLADRFDRARELLVSMGSKGC 51 (71)
Q Consensus 18 p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~ 51 (71)
+++..--.+-.+|.+.|+..++-+++++.-++|.
T Consensus 118 ~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~ 151 (161)
T PF09205_consen 118 INPEFLVKIANAYKKLGNTREANELLKEACEKGL 151 (161)
T ss_dssp S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred CCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence 3444444455566666666666666666655553
No 279
>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=56.21 E-value=14 Score=14.71 Aligned_cols=24 Identities=21% Similarity=0.216 Sum_probs=17.1
Q ss_pred CHHHHHHHHHHHhhCCCCccHHHHHH
Q 042276 35 RFDRARELLVSMGSKGCKQDAFSHSI 60 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~~p~~~~~~~ 60 (71)
.++.|..+|+..... .|++.+|-.
T Consensus 2 E~dRAR~IyeR~v~~--hp~~k~Wik 25 (32)
T PF02184_consen 2 EFDRARSIYERFVLV--HPEVKNWIK 25 (32)
T ss_pred hHHHHHHHHHHHHHh--CCCchHHHH
Confidence 367788888888764 577777653
No 280
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=56.21 E-value=22 Score=16.80 Aligned_cols=34 Identities=12% Similarity=0.029 Sum_probs=20.1
Q ss_pred CHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 35 RFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
..+.+..+++.-.... +...|...|+.++.+.|+
T Consensus 45 ~~~~~~~lL~~W~~~~--g~~at~~~L~~aL~~~~~ 78 (88)
T smart00005 45 LAEQSVQLLRLWEQRE--GKNATLGTLLEALRKMGR 78 (88)
T ss_pred HHHHHHHHHHHHHHcc--chhhHHHHHHHHHHHcCh
Confidence 3456666666665542 234567777777766654
No 281
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=56.06 E-value=32 Score=18.75 Aligned_cols=47 Identities=11% Similarity=0.150 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHhcCCCc--CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRGVNP--DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
+++..+++++.+ .-.| .-..---+--++.+.++++.++++.+.+.+.
T Consensus 52 ~~GI~iLe~l~~-~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~ 100 (149)
T KOG3364|consen 52 QEGIVILEDLLK-SAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLET 100 (149)
T ss_pred HHhHHHHHHHhh-hcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhh
Confidence 456677777765 2233 2222233444678889999999988888765
No 282
>cd08810 CARD_BCL10 Caspase activation and recruitment domain of B-cell lymphoma 10. Caspase activation and recruitment domain (CARD) similar to that found in BCL10 (B-cell lymphoma 10). BCL10 and Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1) are the integral components of CBM signalosomes. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells) and with CARMA1 to form L-CBM (CBM complex in lymphoid immune cells), to mediate activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. Both CARMA1 and CARD9 associate with BCL10 via 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 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 asso
Probab=55.75 E-value=24 Score=17.26 Aligned_cols=56 Identities=14% Similarity=0.090 Sum_probs=39.7
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
+..+++.+.+.| +.+..-.-...+.....+.|..+++-+. +| ..+|.++++++-..
T Consensus 18 ~~~l~d~L~s~~----ILt~~d~EeI~~~~t~~~qa~~LLdiL~-rG----p~Af~~F~esL~~~ 73 (84)
T cd08810 18 ADRHFDYLRSKR----ILTRDDCEEISCRTTSRKQAGKLLDILA-EN----PKGLDALIESIRRE 73 (84)
T ss_pred HHHHHHHHHHcC----CCCHHHHHHHhccCCcHHHHHHHHHHHh-hC----chHHHHHHHHHHHc
Confidence 345777887775 3444455555667788899999999998 75 67788888777543
No 283
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=55.58 E-value=58 Score=21.54 Aligned_cols=55 Identities=13% Similarity=0.107 Sum_probs=32.4
Q ss_pred HHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC-CC-ccHHHHHHHHH
Q 042276 9 ELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKG-CK-QDAFSHSILIN 63 (71)
Q Consensus 9 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g-~~-p~~~~~~~li~ 63 (71)
+...+.|+.-+...-+-.-.+.-...++++|+.+|++..+.. .+ -|..+|+-++-
T Consensus 251 e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LY 307 (559)
T KOG1155|consen 251 ERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLY 307 (559)
T ss_pred HHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHH
Confidence 333444544343333333333445679999999999998762 22 25677776653
No 284
>COG3099 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.40 E-value=2.6 Score=21.08 Aligned_cols=26 Identities=23% Similarity=0.257 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALM 27 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li 27 (71)
+.|..+|-+|...++.| |+..||...
T Consensus 15 d~AYDIFLEmA~dNLdPADiiLFnlQF 41 (108)
T COG3099 15 DQAYDIFLEMAADNLDPADILLFNLQF 41 (108)
T ss_pred HHHHHHHHHHccccCChhHeEEEeeee
Confidence 56788888888777777 666666543
No 285
>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=54.77 E-value=5.7 Score=17.44 Aligned_cols=21 Identities=14% Similarity=0.188 Sum_probs=14.8
Q ss_pred cCCHHHHHHHHHHHhhCCCCc
Q 042276 33 ADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p 53 (71)
.-+++.|...|..+...|-.|
T Consensus 26 ~Wd~~~A~~~F~~l~~~~~IP 46 (51)
T PF03943_consen 26 NWDYERALQNFEELKAQGKIP 46 (51)
T ss_dssp TT-CCHHHHHHHHCCCTT-S-
T ss_pred CCCHHHHHHHHHHHHHcCCCC
Confidence 448889999999998776444
No 286
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=54.75 E-value=41 Score=19.52 Aligned_cols=61 Identities=11% Similarity=0.097 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHH---HHHHHHHhcCCHHHHHHHHHHHhhC-CCCccHHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCN---ALMDGFCLADRFDRARELLVSMGSK-GCKQDAFSHSILINGG 65 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~ 65 (71)
++|.+.|+++... .| +..... -+..++.+.+++++|...|++..+. .-.|+ ..|...+.|.
T Consensus 49 ~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~-~~~a~Y~~g~ 114 (243)
T PRK10866 49 KQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPN-IDYVLYMRGL 114 (243)
T ss_pred HHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCc-hHHHHHHHHH
Confidence 5678888888764 34 233332 2345667889999999999998765 33333 3444444443
No 287
>PF12554 MOZART1: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR022214 This family of proteins is found in eukaryotes. Proteins in this family are typically between 71 and 105 amino acids in length. There is a single completely conserved residue L that may be functionally important.
Probab=54.07 E-value=20 Score=15.70 Aligned_cols=26 Identities=4% Similarity=0.087 Sum_probs=17.9
Q ss_pred HHHhcCCHHHHHHHHHHHhhCCCCcc
Q 042276 29 GFCLADRFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 29 ~~~~~g~~~~a~~~~~~m~~~g~~p~ 54 (71)
-+.+.|--.+++++.-++.+.|+.|.
T Consensus 13 ~lLntgLd~etL~ici~L~e~GVnPe 38 (48)
T PF12554_consen 13 DLLNTGLDRETLSICIELCENGVNPE 38 (48)
T ss_pred HHHcCCCCHHHHHHHHHHHHCCCCHH
Confidence 34456666777777777777777654
No 288
>COG1608 Predicted archaeal kinase [General function prediction only]
Probab=53.82 E-value=9.7 Score=22.52 Aligned_cols=46 Identities=13% Similarity=0.114 Sum_probs=28.0
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHH-HHHHHHHhhCCCCc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRA-RELLVSMGSKGCKQ 53 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a-~~~~~~m~~~g~~p 53 (71)
..+-+.|.+.|+.|-...-.+.+ +..|++... .+.+.++.++|+.|
T Consensus 84 ~~V~~~l~~~Gv~av~~~P~s~~---~~~gr~~~~~l~~i~~~l~~gfvP 130 (252)
T COG1608 84 SIVVDALLDAGVRAVSVVPISFS---TFNGRILYTYLEAIKDALEKGFVP 130 (252)
T ss_pred HHHHHHHHhcCCccccccCccee---ecCCceeechHHHHHHHHHcCCEe
Confidence 34455566677666321111111 566777777 88888888888776
No 289
>COG3898 Uncharacterized membrane-bound protein [Function unknown]
Probab=53.44 E-value=29 Score=22.42 Aligned_cols=37 Identities=19% Similarity=0.228 Sum_probs=30.1
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC-CCCccH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSK-GCKQDA 55 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-g~~p~~ 55 (71)
-...+.+.+...|..|+++.|+++.+.-+.. -+++|+
T Consensus 187 l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~ 224 (531)
T COG3898 187 LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDV 224 (531)
T ss_pred CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhh
Confidence 4678889999999999999999999987654 345554
No 290
>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain. These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....
Probab=53.38 E-value=24 Score=16.40 Aligned_cols=44 Identities=7% Similarity=0.237 Sum_probs=23.1
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccH
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDA 55 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~ 55 (71)
++++.+.+.+...+. -++.+...+..|+.+ +++.+.+.|..++.
T Consensus 11 ~~~~~ll~~~~~~~~--~~~~l~~A~~~~~~~----~~~~Ll~~g~~~~~ 54 (89)
T PF12796_consen 11 EILKFLLEKGADINL--GNTALHYAAENGNLE----IVKLLLENGADINS 54 (89)
T ss_dssp HHHHHHHHTTSTTTS--SSBHHHHHHHTTTHH----HHHHHHHTTTCTT-
T ss_pred HHHHHHHHCcCCCCC--CCCHHHHHHHcCCHH----HHHHHHHhcccccc
Confidence 455666666555544 333566666777743 33444445555544
No 291
>TIGR02267 Myxococcus xanthus paralogous family TIGR02267. This family consists of at least 7 paralogs in Myxococcus xanthus, a member of the Deltaproteobacteria. The function is unknown.
Probab=53.02 E-value=33 Score=18.02 Aligned_cols=51 Identities=22% Similarity=0.133 Sum_probs=33.2
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHH--hcCCHHHHHHHHHHHhhCCCCc
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFC--LADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~--~~g~~~~a~~~~~~m~~~g~~p 53 (71)
.|..++.+...+--.-+....+++..++- +.|+++.|.+.+++.....+.|
T Consensus 57 ~A~~LL~e~~rRir~GS~RL~~Al~r~~~~~daGDldgARq~m~dvLAVEVVP 109 (123)
T TIGR02267 57 SALALLKEISRRIRVGSRRLSRALTEAIRHRDAGDLDGARALLLDVLAVEVVP 109 (123)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccChHHHHHHHHHHHHHhhhH
Confidence 45566666643222225667777777765 5799999999888876554444
No 292
>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=51.98 E-value=68 Score=21.30 Aligned_cols=60 Identities=8% Similarity=0.081 Sum_probs=43.1
Q ss_pred hHHHHHHHHHHh-cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc--HHHHHHHH
Q 042276 2 DEANGLAELMIQ-RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD--AFSHSILI 62 (71)
Q Consensus 2 ~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~--~~~~~~li 62 (71)
++|.+.|++|.+ ....-+..+...+|.++...+.+.++..++.+-.+.. .|+ ..+|+..+
T Consensus 276 ~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~-lpkSAti~YTaAL 338 (539)
T PF04184_consen 276 REAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDIS-LPKSATICYTAAL 338 (539)
T ss_pred HHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcccc-CCchHHHHHHHHH
Confidence 578999999964 3222256688889999999999999999999875432 233 35566544
No 293
>PF14066 DUF4256: Protein of unknown function (DUF4256)
Probab=51.90 E-value=7.9 Score=21.42 Aligned_cols=37 Identities=11% Similarity=-0.017 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHS 59 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~ 59 (71)
...|..+-.-+-. + .+-+..+.+|...|-+||++.|.
T Consensus 18 ~l~W~~V~~kL~~--~-p~kLwsL~eME~TgGEPDVv~~d 54 (173)
T PF14066_consen 18 GLEWAKVQAKLEA--N-PEKLWSLNEMERTGGEPDVVGYD 54 (173)
T ss_pred CCcHHHHHHHHHc--C-hHHHHHHHHHHHhCCCCCeeeec
Confidence 3455554433322 2 34455678999999999998775
No 294
>PLN03025 replication factor C subunit; Provisional
Probab=51.85 E-value=51 Score=19.79 Aligned_cols=37 Identities=14% Similarity=0.158 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~ 57 (71)
......+++... .++++.|+..+.+|...|..|....
T Consensus 225 ~~~i~~~i~~~~-~~~~~~a~~~l~~ll~~g~~~~~Il 261 (319)
T PLN03025 225 PLHVKNIVRNCL-KGKFDDACDGLKQLYDLGYSPTDII 261 (319)
T ss_pred HHHHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCHHHHH
Confidence 334444555444 5789999999999999998887443
No 295
>cd08304 DD_superfamily The Death Domain Superfamily of protein-protein interaction domains. The Death Domain (DD) superfamily includes the DD, Pyrin, CARD (Caspase activation and recruitment domain) and DED (Death Effector Domain) families. 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. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes. They are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways including those that impact innate immunity, inflammation, differentiation, and cancer.
Probab=51.32 E-value=26 Score=16.23 Aligned_cols=29 Identities=21% Similarity=-0.001 Sum_probs=19.6
Q ss_pred HHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 38 RARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 38 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.+.+++..+..+| ..++..++.++.+.|+
T Consensus 34 ~a~~ll~~l~~~~----~~a~~~~~~vL~~~~~ 62 (69)
T cd08304 34 AANELLNILESQY----NHTLQLLFALFEDLGL 62 (69)
T ss_pred HHHHHHHHHHHhC----cchHHHHHHHHHHcCC
Confidence 6777888887776 4566666666665553
No 296
>cd04442 DEP_1_DEP6 DEP (Dishevelled, Egl-10, and Pleckstrin) domain 1 found in DEP6-like proteins. DEP6 proteins contain two DEP and a PDZ domain. Their function is unknown.
Probab=50.75 E-value=30 Score=16.81 Aligned_cols=36 Identities=11% Similarity=0.095 Sum_probs=27.9
Q ss_pred CcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCC
Q 042276 17 NPDTSTCNALMDGFCLAD---RFDRARELLVSMGSKGCK 52 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~ 52 (71)
-|+.++-+.+++.+.+.+ ..++|..+-+.+.+.|+-
T Consensus 25 y~~cF~GselVdWL~~~~~~~sR~eAv~lgq~Ll~~gvi 63 (82)
T cd04442 25 YPNCFVGKELIDWLIEHKEASDRETAIKIMQKLLDHSII 63 (82)
T ss_pred cCceeEcHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCE
Confidence 456667777888888766 577899999999988853
No 297
>cd08323 CARD_APAF1 Caspase activation and recruitment domain similar to that found in Apoptotic Protease-Activating Factor 1. Caspase activation and recruitment domain (CARD) similar to that found in apoptotic protease-activating factor 1 (APAF-1), which is an activator of caspase-9. APAF-1 contains WD-40 repeats, a CARD, and an ATPase domain. Upon stimulation, APAF-1, together with caspase-9, forms the heptameric 'apoptosome', which leads to the processing and activation of caspase-9, starting a caspase cascade which leads to apoptosis. 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 DED (Death Effect
Probab=50.71 E-value=31 Score=16.90 Aligned_cols=57 Identities=18% Similarity=0.071 Sum_probs=35.3
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
+..+++.+.+.|+ .|-.-.-..-.+....+.|..+++....+| ..+|.+..+++-+.
T Consensus 16 v~~ild~L~~~gv----lt~~~~e~I~~~~t~~~qa~~Lld~L~trG----~~Af~~F~~aL~~~ 72 (86)
T cd08323 16 TSYIMDHMISDGV----LTLDEEEKVKSKATQKEKAVMLINMILTKD----NHAYVSFYNALLHE 72 (86)
T ss_pred HHHHHHHHHhcCC----CCHHHHHHHHcCCChHHHHHHHHHHHHhcC----HHHHHHHHHHHHhc
Confidence 3456777776653 222222223335667888999999888886 56666666666543
No 298
>cd04448 DEP_PIKfyve DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGEF (GDP/GTP exchange factor) PIKfyve-like proteins. PIKfyve contains N-terminal Fyve finger and DEP domains, a central chaperonin-like domain and a C-terminal PIPK (phosphatidylinositol phosphate kinase) domain. PIKfyve-like proteins are important phosphatidylinositol (3)-monophosphate (PtdIns(3)P)-5-kinases, producing PtdIns(3,5)P2, which plays a major role in multivesicular body (MVB) sorting and control of retrograde traffic from the vacuole back to the endosome and/or Golgi. PIKfyve itself has been shown to be play a role in regulating early-endosome-to-trans-Golgi network (TGN) retrograde trafficking.
Probab=50.66 E-value=29 Score=16.67 Aligned_cols=36 Identities=8% Similarity=-0.056 Sum_probs=28.7
Q ss_pred CcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCC
Q 042276 17 NPDTSTCNALMDGFCLAD---RFDRARELLVSMGSKGCK 52 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~ 52 (71)
-|+.++-+-+++.+.+.+ ..++|..+-+.+.+.|+-
T Consensus 25 y~~cF~GselVdWL~~~~~~~~R~eAv~~gq~Ll~~g~i 63 (81)
T cd04448 25 YTNCILGKELVNWLIRQGKAATRVQAIAIGQALLDAGWI 63 (81)
T ss_pred cCcccChHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCE
Confidence 456778888999998754 567899999999988853
No 299
>PF00244 14-3-3: 14-3-3 protein; InterPro: IPR023410 The 14-3-3 proteins are a large family of approximately 30kDa acidic proteins which exist primarily as homo- and heterodimeric within all eukaryotic cells [, ]. There is a high degree of sequence identity and conservation between all the 14-3-3 isotypes, particularly in the regions which form the dimer interface or line the central ligand binding channel of the dimeric molecule. Each 14-3-3 protein sequence can be roughly divided into three sections: a divergent amino terminus, the conserved core region and a divergent carboxyl terminus. The conserved middle core region of the 14-3-3s encodes an amphipathic groove that forms the main functional domain, a cradle for interacting with client proteins. The monomer consists of nine helices organised in an antiparallel manner, forming an L-shaped structure. The interior of the L-structure is composed of four helices: H3 and H5, which contain many charged and polar amino acids, and H7 and H9, which contain hydrophobic amino acids. These four helices form the concave amphipathic groove that interacts with target peptides. 14-3-3 proteins mainly bind proteins containing phosphothreonine or phosphoserine motifs however exceptions to this rule do exist. Extensive investigation of the 14-3-3 binding site of the mammalian serine/threonine kinase Raf-1 has produced a consensus sequence for 14-3-3-binding, RSxpSxP (in the single-letter amino-acid code, where x denotes any amino acid and p indicates that the next residue is phosphorylated). 14-3-3 proteins appear to effect intracellular signalling in one of three ways - by direct regulation of the catalytic activity of the bound protein, by regulating interactions between the bound protein and other molecules in the cell by sequestration or modification or by controlling the subcellular localisation of the bound ligand. Proteins appear to initially bind to a single dominant site and then subsequently to many, much weaker secondary interaction sites. The 14-3-3 dimer is capable of changing the conformation of its bound ligand whilst itself undergoing minimal structural alteration. This entry represents the structural domain found in 14-3-3 proteins.; PDB: 2O8P_A 3AXY_D 2C74_A 2C63_A 4DX0_A 1YWT_A 3P1O_A 3P1N_A 4DAU_A 3U9X_A ....
Probab=50.28 E-value=50 Score=19.19 Aligned_cols=38 Identities=13% Similarity=0.018 Sum_probs=19.2
Q ss_pred HHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 28 DGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 28 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
+..-+.++++++.+.++++...+..++..--|.+-.+|
T Consensus 9 klaeq~eRy~dmv~~mk~~~~~~~eLt~eERnLlsvay 46 (236)
T PF00244_consen 9 KLAEQAERYDDMVEYMKQLIEMNPELTEEERNLLSVAY 46 (236)
T ss_dssp HHHHHTTHHHHHHHHHHHHHHTSS---HHHHHHHHHHH
T ss_pred HHHHHhcCHHHHHHHHHHHHccCCCCCHHHHHHHHHHH
Confidence 33445566666666666666555555554444444444
No 300
>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=50.25 E-value=14 Score=20.45 Aligned_cols=20 Identities=10% Similarity=0.170 Sum_probs=15.7
Q ss_pred HHHHHHHHHHhhCCCCccHH
Q 042276 37 DRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 37 ~~a~~~~~~m~~~g~~p~~~ 56 (71)
+.+.+...++++.|+.||.+
T Consensus 51 ~av~~a~~~L~~~Gf~PDvI 70 (171)
T PF12000_consen 51 QAVARAARQLRAQGFVPDVI 70 (171)
T ss_pred HHHHHHHHHHHHcCCCCCEE
Confidence 45677788888889999975
No 301
>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=49.82 E-value=32 Score=16.92 Aligned_cols=27 Identities=7% Similarity=0.148 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
..|..+++++...++.+++..+|+++.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~l~ 29 (88)
T TIGR02531 3 ELLDELFDAILTLKNREECYRFFDDIA 29 (88)
T ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHhC
Confidence 356777888888888888887777663
No 302
>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]
Probab=49.81 E-value=55 Score=19.54 Aligned_cols=49 Identities=12% Similarity=-0.073 Sum_probs=37.4
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 22 TCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 22 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
|-+..+..+.+.+++.+|+...++=.+.. ..|..+--.+++.+|-.|+|
T Consensus 3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw 51 (273)
T COG4455 3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDW 51 (273)
T ss_pred chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchH
Confidence 34556778889999999999888876652 33667777888888888875
No 303
>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=49.77 E-value=2.8 Score=20.58 Aligned_cols=22 Identities=9% Similarity=0.332 Sum_probs=10.5
Q ss_pred hcCCCcCHHHHHHHHHHHHhcC
Q 042276 13 QRGVNPDTSTCNALMDGFCLAD 34 (71)
Q Consensus 13 ~~~~~p~~~~~~~li~~~~~~g 34 (71)
+-.+.-+..+|.++|++|++.|
T Consensus 17 QYeLsk~~~vyRvFiNgYar~g 38 (88)
T PF11491_consen 17 QYELSKNEAVYRVFINGYARNG 38 (88)
T ss_dssp HHTTTTTTTB------TTSS--
T ss_pred HHHhhcccceeeeeecccccce
Confidence 3445668889999999999987
No 304
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=49.45 E-value=28 Score=16.02 Aligned_cols=9 Identities=33% Similarity=0.420 Sum_probs=4.4
Q ss_pred HHHHHhhCC
Q 042276 42 LLVSMGSKG 50 (71)
Q Consensus 42 ~~~~m~~~g 50 (71)
.++.|.+.|
T Consensus 38 rLr~me~~G 46 (66)
T PF08461_consen 38 RLRAMERDG 46 (66)
T ss_pred HHHHHHHCC
Confidence 445554444
No 305
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=48.92 E-value=65 Score=21.42 Aligned_cols=39 Identities=10% Similarity=-0.183 Sum_probs=21.4
Q ss_pred HHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 30 FCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
+.+.|++..|..-+.++.++. .-|...|+-.--+|.+.|
T Consensus 368 ~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~ 406 (539)
T KOG0548|consen 368 AFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLG 406 (539)
T ss_pred HHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHh
Confidence 445666777777777766553 224455555444444433
No 306
>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]
Probab=48.77 E-value=26 Score=21.86 Aligned_cols=53 Identities=11% Similarity=0.039 Sum_probs=29.1
Q ss_pred HHHHhcCCCcC---HHHHHHHHHHHHhcCCHH-HHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 9 ELMIQRGVNPD---TSTCNALMDGFCLADRFD-RARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 9 ~~m~~~~~~p~---~~~~~~li~~~~~~g~~~-~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
++|+..+++-. .+.|+++|++---..+-+ -|.+.++. ..+|.-|++++|.+|+
T Consensus 280 ee~k~~nlPe~eVi~ivWs~iMsaveWnKkeelva~qalrh---------lK~yaPLL~af~s~g~ 336 (412)
T KOG2297|consen 280 EEMKRNNLPETEVIGIVWSGIMSAVEWNKKEELVAEQALRH---------LKQYAPLLAAFCSQGQ 336 (412)
T ss_pred HHHHhcCCCCceEEeeeHhhhhHHHhhchHHHHHHHHHHHH---------HHhhhHHHHHHhcCCh
Confidence 45555554332 456777776654432211 14444443 3567888888887775
No 307
>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=48.29 E-value=54 Score=21.89 Aligned_cols=43 Identities=14% Similarity=0.071 Sum_probs=29.8
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
++|--|.++|++++|.++..+.... .......+...++.+..+
T Consensus 116 a~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s 158 (613)
T PF04097_consen 116 ALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASS 158 (613)
T ss_dssp HHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTT
T ss_pred HHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhC
Confidence 4666788999999999999666533 344456677777777654
No 308
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=47.73 E-value=59 Score=19.36 Aligned_cols=43 Identities=16% Similarity=-0.038 Sum_probs=27.5
Q ss_pred HHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 4 ANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 4 a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
|+.-+++-.+. +| +..+|.++-..|-+.|..+.|.+-|+...+
T Consensus 54 A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls 97 (250)
T COG3063 54 AKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDLADESYRKALS 97 (250)
T ss_pred HHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhhHHHHHHHHHh
Confidence 44444444443 55 466777777777777777777777777654
No 309
>cd08329 CARD_BIRC2_BIRC3 Caspase activation and recruitment domain found in Baculoviral IAP repeat-containing proteins, BIRC2 (c-IAP1) and BIRC3 (c-IAP2). Caspase activation and recruitment domain (CARD) similar to those found in Baculoviral IAP repeat (BIR)-containing protein 2 (BIRC2) or cellular Inhibitor of Apoptosis Protein 1 (c-IAP1), and BIRC3 (or c-IAP2). IAPs are anti-apoptotic proteins that contain at least one BIR domain. Most IAPs also contain a C-terminal RING domain. In addition, both BIRC2 and BIRC3 contain a CARD. BIRC2 and BIRC3, through their binding with TRAF (TNF receptor-associated factor) 2, are recruited to TNFR-1/2 signaling complexes, where they regulate caspase-8 activity. They also play important roles in pro-survival NF-kB signaling pathways. 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 interac
Probab=47.59 E-value=36 Score=16.85 Aligned_cols=56 Identities=14% Similarity=0.035 Sum_probs=34.9
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
..+++.+.+.|+- +..-+. ..-+..-..+.|.++++....+| ..++.++++++.+.
T Consensus 26 ~~ilD~Ll~~~Vl-t~ee~e---~I~~~~t~~~qAr~Lld~l~~KG----~~A~~~F~~~L~e~ 81 (94)
T cd08329 26 LPILDSLLSANVI-TEQEYD---VIKQKTQTPLQARELIDTVLVKG----NAAAEVFRNCLKKN 81 (94)
T ss_pred HHHHHHHHHcCCC-CHHHHH---HHHcCCChHHHHHHHHHHHHhhh----HHHHHHHHHHHHhc
Confidence 3467777776533 222222 22334445688999999988886 67777777776543
No 310
>smart00049 DEP Domain found in Dishevelled, Egl-10, and Pleckstrin. Domain of unknown function present in signalling proteins that contain PH, rasGEF, rhoGEF, rhoGAP, RGS, PDZ domains. DEP domain in Drosophila dishevelled is essential to rescue planar polarity defects and induce JNK signalling (Cell 94, 109-118).
Probab=47.55 E-value=30 Score=15.93 Aligned_cols=36 Identities=19% Similarity=0.071 Sum_probs=27.8
Q ss_pred CCcCHHHHHHHHHHHHhc---CCHHHHHHHHHHHhhCCC
Q 042276 16 VNPDTSTCNALMDGFCLA---DRFDRARELLVSMGSKGC 51 (71)
Q Consensus 16 ~~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~g~ 51 (71)
..|+..+-..+++...+. ...++|..+-+.|.+.|+
T Consensus 16 ~~~~~F~G~e~v~wL~~~~~~~~r~eA~~l~~~ll~~g~ 54 (77)
T smart00049 16 TYPNCFTGSELVDWLMDNLEIIDREEAVHLGQLLLDEGL 54 (77)
T ss_pred ECcceeEcHHHHHHHHHcCCcCCHHHHHHHHHHHHHCCC
Confidence 345677777788877765 466899999999998885
No 311
>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=47.54 E-value=19 Score=19.10 Aligned_cols=25 Identities=24% Similarity=0.254 Sum_probs=12.1
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHH
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDG 29 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~ 29 (71)
..+.+||..+|..|+..-++.+...
T Consensus 66 ~~l~~EM~~RGY~~~~~~~~~~~~~ 90 (130)
T PF03013_consen 66 QLLMAEMQRRGYKPNSPWFDDLDQW 90 (130)
T ss_dssp HHHHHHHHHTT---S--S----TTS
T ss_pred HHHHHHHHHcCCCCChhhhhccccc
Confidence 3578899999999988777755544
No 312
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=46.96 E-value=78 Score=20.52 Aligned_cols=38 Identities=8% Similarity=0.136 Sum_probs=27.2
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHH
Q 042276 24 NALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILI 62 (71)
Q Consensus 24 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li 62 (71)
..++++. +.++++.|+.++.+|...|..|....-..+.
T Consensus 248 ~~li~si-~~~d~~~Al~~l~~ll~~Gedp~~i~r~l~~ 285 (472)
T PRK14962 248 RDYINAI-FNGDVKRVFTVLDDVYYSGKDYEVLIQQAIE 285 (472)
T ss_pred HHHHHHH-HcCCHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 3344433 5689999999999999999888765444333
No 313
>COG2987 HutU Urocanate hydratase [Amino acid transport and metabolism]
Probab=46.75 E-value=16 Score=23.76 Aligned_cols=40 Identities=23% Similarity=0.490 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhcCCCcCHH----HHHHHHHHHHhcC-CHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDTS----TCNALMDGFCLAD-RFDRAREL 42 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~----~~~~li~~~~~~g-~~~~a~~~ 42 (71)
.|.+++.++.++|+.||.. +.+..+++|+=.| .++++.++
T Consensus 243 Naaei~~~l~~r~~~pD~vtDQTsaHdp~~GY~P~G~s~ee~~~l 287 (561)
T COG2987 243 NAAEILPELLRRGIRPDLVTDQTSAHDPLNGYLPVGYTVEEADEL 287 (561)
T ss_pred cHHHHHHHHHHcCCCCceecccccccCcccCcCCCcCCHHHHHHH
Confidence 4678999999999999654 4666788887666 44554443
No 314
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=46.68 E-value=45 Score=17.65 Aligned_cols=30 Identities=13% Similarity=0.104 Sum_probs=14.5
Q ss_pred HHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 37 DRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 37 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
..+.+++...... .++...|..+||+-+++
T Consensus 21 ~t~~eI~~~l~~~-~ews~sTV~TLl~RL~K 50 (123)
T COG3682 21 ATVREIIEELPAD-REWSYSTVKTLLNRLVK 50 (123)
T ss_pred ccHHHHHHHHhhc-ccccHHHHHHHHHHHHh
Confidence 3444455554443 34445555555555444
No 315
>KOG2127 consensus Calmodulin-binding protein CRAG, contains DENN domain [Signal transduction mechanisms]
Probab=46.62 E-value=52 Score=23.65 Aligned_cols=54 Identities=13% Similarity=-0.014 Sum_probs=44.0
Q ss_pred cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 14 RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
.+..|+...|.++...+...+...+.....-+|+..|+.++..++.-+.++..+
T Consensus 413 ~~~~p~~~~~r~l~~l~~~~~~g~~~V~~~~~~k~s~~~~~~i~~~~l~~~vke 466 (1020)
T KOG2127|consen 413 ESDVPTEYCYRSLMRLSEHEWAGVESVPGHIEMKLSGIESNAHTQGVLNDHVKE 466 (1020)
T ss_pred ccccchHHHHHHHHhhcccccchhHHHHHHHHHHhcccccccccchhhhhhhhh
Confidence 455689999999999988888887777777788888999999998887766543
No 316
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=46.31 E-value=61 Score=19.06 Aligned_cols=30 Identities=17% Similarity=0.214 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
..++.-+...+.+.|++++|.++|++....
T Consensus 155 ~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~ 184 (282)
T PF14938_consen 155 AECLLKAADLYARLGRYEEAIEIYEEVAKK 184 (282)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 456667777889999999999999998764
No 317
>PF08967 DUF1884: Domain of unknown function (DUF1884); InterPro: IPR014418 This group represents an uncharacterised conserved protein.; PDB: 2PK8_A.
Probab=45.66 E-value=30 Score=16.99 Aligned_cols=21 Identities=14% Similarity=0.216 Sum_probs=11.2
Q ss_pred HHHHHHHHHHhhCCCCccHHH
Q 042276 37 DRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 37 ~~a~~~~~~m~~~g~~p~~~~ 57 (71)
+...+..++++..|++||..-
T Consensus 12 ~~ie~~inELk~dG~ePDivL 32 (85)
T PF08967_consen 12 ELIEEKINELKEDGFEPDIVL 32 (85)
T ss_dssp HHHHHHHHHHHHTT----EEE
T ss_pred HHHHHHHHHHHhcCCCCCEEE
Confidence 344556778888899998743
No 318
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=45.44 E-value=1.3e+02 Score=22.50 Aligned_cols=46 Identities=13% Similarity=0.010 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcccC
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIRK 71 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~~ 71 (71)
...|+-+-++=.+.|...+|.+-|-+.- |+..|.-+++...+.|.|
T Consensus 1104 p~vWsqlakAQL~~~~v~dAieSyikad------Dps~y~eVi~~a~~~~~~ 1149 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKAD------DPSNYLEVIDVASRTGKY 1149 (1666)
T ss_pred hHHHHHHHHHHHhcCchHHHHHHHHhcC------CcHHHHHHHHHHHhcCcH
Confidence 3455555555556666666655543332 566778888887777764
No 319
>cd08785 CARD_CARD9-like Caspase activation and recruitment domain of CARD9 and related proteins. Caspase activation and recruitment domain (CARD) found in CARD9, CARD14 (CARMA2), CARD10 (CARMA3), CARD11 (CARMA1) and BCL10. BCL10 (B-cell lymphoma 10), together with Malt1 (mucosa-associated lymphoid tissue-lymphoma-translocation gene 1), are integral components of the CBM signalosome. They associate with CARD9 to form M-CBM (CBM complex in myeloid immune cells), and with CARD11 to form L-CBM (CBM complex in lymphoid immune cells), which mediates activation of NF-kB and MAPK by ITAM-coupled receptors expressed on immune cells. BCL10/Malt1 also associates with CARD10, which is more widely expressed and is not restricted to hematopoietic cells, to play a role in GPCR-induced NF-kB activation. CARD14 has also been shown to associate with BCL10. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inf
Probab=45.30 E-value=39 Score=16.57 Aligned_cols=52 Identities=12% Similarity=0.013 Sum_probs=32.2
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCH---HHHHHHHHHHhhCCCCccHHHHH
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRF---DRARELLVSMGSKGCKQDAFSHS 59 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~g~~p~~~~~~ 59 (71)
+..+++.+.+.| +.+-.-.-...++.... +.|..+++-+..+|-..-..-++
T Consensus 18 ~~~l~d~L~q~~----VLt~~d~EeI~~~~t~~~r~~ka~~LLdiL~~rG~~Af~~F~~ 72 (86)
T cd08785 18 PSRLTPYLRQCK----VLDEQDEEEVLSSPRLPIRANRTGRLLDILATRGKRGYVAFLE 72 (86)
T ss_pred HHHHHHHHHhcC----CCCHHHHHHHhCCCccccHHHHHHHHHHHHHhcCcchHHHHHH
Confidence 345777777775 33444444445555544 88999999999997443333333
No 320
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=45.19 E-value=1.1e+02 Score=21.78 Aligned_cols=43 Identities=14% Similarity=0.234 Sum_probs=31.8
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSM 46 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m 46 (71)
++|.+++.|..+. .| +...|-++=..|-+.|+.+.+...+--.
T Consensus 156 eeA~~i~~EvIkq--dp~~~~ay~tL~~IyEqrGd~eK~l~~~llA 199 (895)
T KOG2076|consen 156 EEAEEILMEVIKQ--DPRNPIAYYTLGEIYEQRGDIEKALNFWLLA 199 (895)
T ss_pred HHHHHHHHHHHHh--CccchhhHHHHHHHHHHcccHHHHHHHHHHH
Confidence 5788888888755 34 6788888888888888888877755444
No 321
>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=44.93 E-value=89 Score=20.60 Aligned_cols=52 Identities=10% Similarity=-0.081 Sum_probs=36.8
Q ss_pred CcCHHHH--HHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc-HHHHHHHHHHHHhccc
Q 042276 17 NPDTSTC--NALMDGFCLADRFDRARELLVSMGSKGCKQD-AFSHSILINGGSARIR 70 (71)
Q Consensus 17 ~p~~~~~--~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~~ 70 (71)
.|+...| .-+-..|-..|++++|+++.++..++ .|+ +.-|..--..+-+.|+
T Consensus 189 ~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~ 243 (517)
T PF12569_consen 189 PPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGD 243 (517)
T ss_pred CchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCC
Confidence 3445445 44455577899999999999998877 454 5667777777777765
No 322
>COG0292 RplT Ribosomal protein L20 [Translation, ribosomal structure and biogenesis]
Probab=44.53 E-value=48 Score=17.35 Aligned_cols=43 Identities=14% Similarity=0.308 Sum_probs=31.4
Q ss_pred CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 17 NPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
..+..+|+-+|+++-+.| .+-=.+++.+|--+ |+..|+.+++.
T Consensus 70 R~~GlsYS~fi~gLkkA~-I~inRKvLadlAi~----d~~aF~~lv~~ 112 (118)
T COG0292 70 RENGLSYSRFINGLKKAG-IEIDRKVLADLAIN----DPAAFAALVEK 112 (118)
T ss_pred HHcCCcHHHHHHHHHHcC-chhhHHHHHHHHhc----CHHHHHHHHHH
Confidence 457789999999988877 24446677777655 77888887765
No 323
>cd04444 DEP_PLEK2 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in pleckstrin 2-like proteins. Pleckstrin 2 is found in a wide variety of cell types, which suggest a more general role in signaling than pleckstrin 1. Pleckstrin-like proteins contain a central DEP domain, flanked by 2 PH (pleckstrin homology) domains.
Probab=44.42 E-value=47 Score=17.20 Aligned_cols=37 Identities=16% Similarity=-0.039 Sum_probs=28.9
Q ss_pred CCcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCC
Q 042276 16 VNPDTSTCNALMDGFCLAD---RFDRARELLVSMGSKGCK 52 (71)
Q Consensus 16 ~~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~ 52 (71)
.-++-++-+.+++.+.+.+ ...+|..+-+.+.+.|+-
T Consensus 27 ~y~~CF~Gse~VDWLv~~~~~i~R~EAv~l~q~Lmd~gli 66 (109)
T cd04444 27 TYKKTFLGSALVDWLISNSFAASRLEAVTLASMLMEENFL 66 (109)
T ss_pred cccccccchHHHHHHHHCCCCCCHHHHHHHHHHHHhCCch
Confidence 4567788888999888764 677899998888887743
No 324
>cd04371 DEP DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is present. New studies show that the DEP domain of Sst2, a yeast RGS protein is necessary and sufficient for receptor interaction.
Probab=44.25 E-value=35 Score=15.76 Aligned_cols=36 Identities=22% Similarity=0.097 Sum_probs=27.6
Q ss_pred CcCHHHHHHHHHHHHhc---CCHHHHHHHHHHHhhCCCC
Q 042276 17 NPDTSTCNALMDGFCLA---DRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~g~~ 52 (71)
.++.++-..+++...+. ...++|.++.+.|.+.|+-
T Consensus 25 ~~~~F~G~e~v~WL~~~~~~~~r~ea~~~~~~ll~~g~i 63 (81)
T cd04371 25 YPNCFTGSELVDWLLDNLEAITREEAVELGQALLKHGLI 63 (81)
T ss_pred CCceeEcHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCCE
Confidence 44666777777777764 5788999999999988753
No 325
>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]
Probab=43.68 E-value=83 Score=19.91 Aligned_cols=65 Identities=20% Similarity=0.158 Sum_probs=42.3
Q ss_pred hHHHHHHHHHHh---cCCCcCHHHHHH--HHHHHHhcCCHHHHHHHHHHHhh-----CCCCccHHH-HHHHHHHHH
Q 042276 2 DEANGLAELMIQ---RGVNPDTSTCNA--LMDGFCLADRFDRARELLVSMGS-----KGCKQDAFS-HSILINGGS 66 (71)
Q Consensus 2 ~~a~~~~~~m~~---~~~~p~~~~~~~--li~~~~~~g~~~~a~~~~~~m~~-----~g~~p~~~~-~~~li~~~~ 66 (71)
++|.+.+++++. .--.|+.+.|-. +...+...|+..++.+++.+.++ .|+.|++.+ |+.+=+-|.
T Consensus 92 ~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~Vh~~fY~lssqYy 167 (380)
T KOG2908|consen 92 DEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNVHSSFYSLSSQYY 167 (380)
T ss_pred HHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhhhhhHHHHHHHHH
Confidence 456777777743 223556665544 44555678999999999998887 678776643 555544443
No 326
>PF07864 DUF1651: Protein of unknown function (DUF1651); InterPro: IPR012447 The proteins in this entry have not been characterised.
Probab=43.17 E-value=23 Score=16.68 Aligned_cols=14 Identities=29% Similarity=0.252 Sum_probs=6.5
Q ss_pred HHHHHHHHHHhcCC
Q 042276 3 EANGLAELMIQRGV 16 (71)
Q Consensus 3 ~a~~~~~~m~~~~~ 16 (71)
+|.+.+.+|.+.|-
T Consensus 54 ~A~e~W~~L~~~GW 67 (75)
T PF07864_consen 54 EARELWKELQKTGW 67 (75)
T ss_pred HHHHHHHHHHHcCC
Confidence 44444444444443
No 327
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=42.95 E-value=33 Score=22.69 Aligned_cols=29 Identities=21% Similarity=0.211 Sum_probs=20.6
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLA 33 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~ 33 (71)
+++-.+-.-+-+.|...||.+++..|.+.
T Consensus 545 kQlASQ~ilq~lHPh~~twGSlLriYGr~ 573 (650)
T KOG4334|consen 545 KQLASQRILQKLHPHLLTWGSLLRIYGRL 573 (650)
T ss_pred HHHHHHHHHHHhCHHhhhHHHHHHHhhhh
Confidence 33333333345589999999999999976
No 328
>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=42.48 E-value=45 Score=16.47 Aligned_cols=12 Identities=17% Similarity=0.227 Sum_probs=5.5
Q ss_pred HHHHHHHHhhCC
Q 042276 39 ARELLVSMGSKG 50 (71)
Q Consensus 39 a~~~~~~m~~~g 50 (71)
...++..+.+.+
T Consensus 56 ~~~Ll~~L~~~~ 67 (113)
T PF02847_consen 56 YSKLLSHLCKRK 67 (113)
T ss_dssp HHHHHHHHHHTT
T ss_pred HHHHHHHHHhcC
Confidence 444455554443
No 329
>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]
Probab=42.24 E-value=1.2e+02 Score=21.38 Aligned_cols=45 Identities=22% Similarity=0.161 Sum_probs=30.1
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhC--CCCccHHHHHHHHHHHHhcc
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSK--GCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~~ 69 (71)
+++.+|...|++-.+.++++..... |-..=...||.-|..+.+.|
T Consensus 33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~ 79 (1117)
T COG5108 33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRG 79 (1117)
T ss_pred HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcC
Confidence 6778888888888888888877643 33333445666666666554
No 330
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=42.11 E-value=67 Score=18.39 Aligned_cols=51 Identities=16% Similarity=0.098 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHhcCCCc----CHHHHHHHHHHH-HhcCCHHHHHHHHHHHhhCCCC
Q 042276 2 DEANGLAELMIQRGVNP----DTSTCNALMDGF-CLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p----~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
..|...|.+-.+..-.| +..+.--||.-+ -+.|+.++|.+.|......+-.
T Consensus 142 ~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~ 197 (214)
T PF09986_consen 142 RKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKA 197 (214)
T ss_pred HHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCC
Confidence 46777788776544333 333433344443 3689999999999999876533
No 331
>PF15595 Imm31: Immunity protein 31
Probab=41.54 E-value=48 Score=16.92 Aligned_cols=28 Identities=11% Similarity=0.063 Sum_probs=21.9
Q ss_pred HHhcCCCcCHHHHHHHHHHHHhcCCHHH
Q 042276 11 MIQRGVNPDTSTCNALMDGFCLADRFDR 38 (71)
Q Consensus 11 m~~~~~~p~~~~~~~li~~~~~~g~~~~ 38 (71)
+.+.|...|...|-+++.+|.+...++-
T Consensus 30 ~ee~g~egnGY~W~~l~~~~l~~~~p~l 57 (107)
T PF15595_consen 30 FEEIGFEGNGYDWEALARVYLRENAPEL 57 (107)
T ss_pred HHhcCCCCCCccHHHHHHHHHHHhChhH
Confidence 3445888899999999999998776544
No 332
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=41.53 E-value=81 Score=19.16 Aligned_cols=37 Identities=16% Similarity=0.325 Sum_probs=23.5
Q ss_pred CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc
Q 042276 17 NPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~ 54 (71)
.|.......|+..| ..+++++|.+++.+.=+.|..|.
T Consensus 236 ~PhP~~v~~ml~~~-~~~~~~~A~~il~~lw~lgysp~ 272 (333)
T KOG0991|consen 236 EPHPLLVKKMLQAC-LKRNIDEALKILAELWKLGYSPE 272 (333)
T ss_pred CCChHHHHHHHHHH-HhccHHHHHHHHHHHHHcCCCHH
Confidence 45555555666543 34567777777777777777664
No 333
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.51 E-value=84 Score=19.80 Aligned_cols=37 Identities=8% Similarity=0.021 Sum_probs=29.1
Q ss_pred HhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 31 CLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 31 ~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
.+.|+.++|.+=|....+-|---....||..+..|.+
T Consensus 155 ykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy~~ 191 (459)
T KOG4340|consen 155 YKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHYSS 191 (459)
T ss_pred eccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHHhh
Confidence 3789999999999998776444445889998888765
No 334
>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=41.48 E-value=33 Score=20.13 Aligned_cols=42 Identities=14% Similarity=0.281 Sum_probs=26.7
Q ss_pred HHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 6 GLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 6 ~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
++++...+.|+.. -.+.|+++|+--.-.-++++..+++..++
T Consensus 193 ~I~~i~ldaGv~kviPHIYssiIDk~tG~TrpedV~~l~~~~k 235 (236)
T TIGR03581 193 EIVQIALDAGVEKVIPHVYSSIIDKETGNTRVEDVKQLLAIVK 235 (236)
T ss_pred HHHHHHHHcCCCeeccccceeccccccCCCCHHHHHHHHHHhh
Confidence 4445555566544 46677777766655667777777776654
No 335
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. 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 adaptor
Probab=41.18 E-value=44 Score=15.97 Aligned_cols=30 Identities=17% Similarity=0.144 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 37 DRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 37 ~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+.+..+++.-..+ ++ .|...|+.++-+.||
T Consensus 40 ~p~~~lL~~W~~r---~~-ATv~~L~~aL~~i~R 69 (77)
T cd08311 40 SPVRTLLADWSAQ---EG-ATLDALCTALRRIQR 69 (77)
T ss_pred hHHHHHHHHHHHC---cC-chHHHHHHHHHHcCh
Confidence 5566666666654 33 777777777776664
No 336
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=41.18 E-value=1.2e+02 Score=21.16 Aligned_cols=43 Identities=14% Similarity=0.074 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
...|--.|.+|+..|+-..|..+.++-.++ .||..-|..+-+.
T Consensus 424 lemw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv 466 (777)
T KOG1128|consen 424 LEMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDV 466 (777)
T ss_pred HHHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhh
Confidence 355666777777777777777777777663 5666666666544
No 337
>cd04440 DEP_2_P-Rex DEP (Dishevelled, Egl-10, and Pleckstrin) domain 2 found in P-Rex-like proteins. The P-Rex family is the guanine-nucleotide exchange factor (GEF) for the small GTPase Rac that contains an N-terminal RhoGEF domain, two DEP and PDZ domains. Rac-GEF activity is stimulated by phosphatidylinositol (3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second messenger, and the G beta-gamma subunits of heterotrimeric G proteins. The DEP domains are not involved in mediating these stimuli, but may be of importance for basal and stimulated levels Rac-GEF activity.
Probab=41.07 E-value=49 Score=16.55 Aligned_cols=36 Identities=17% Similarity=0.111 Sum_probs=28.6
Q ss_pred CcCHHHHHHHHHHHHhcC---CHHHHHHHHHHHhhCCCC
Q 042276 17 NPDTSTCNALMDGFCLAD---RFDRARELLVSMGSKGCK 52 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~ 52 (71)
-|+.+.-+-+++.+.+.| ..++|..+-+.+.+.|+-
T Consensus 34 y~~cFvGsElVdWLi~~g~~~tR~eAv~~gq~Ll~~gii 72 (93)
T cd04440 34 YKSVVPASKLVDWLLAQGDCRTREEAVILGVGLCNNGFM 72 (93)
T ss_pred cccccchhHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCE
Confidence 456677788899988755 778899999999888753
No 338
>PF05131 Pep3_Vps18: Pep3/Vps18/deep orange family; InterPro: IPR007810 This region is found in a number of proteins identified as being involved in Golgi function and vacuolar sorting. The molecular function of this region is unknown. Proteins containing this domain also contain a C-terminal ring finger domain.
Probab=41.05 E-value=44 Score=18.04 Aligned_cols=20 Identities=15% Similarity=0.137 Sum_probs=15.7
Q ss_pred HHHHHHhcCCHHHHHHHHHH
Q 042276 26 LMDGFCLADRFDRARELLVS 45 (71)
Q Consensus 26 li~~~~~~g~~~~a~~~~~~ 45 (71)
+...|++.|++++|+++.+.
T Consensus 109 vWk~yl~~~~fd~Al~~~~~ 128 (147)
T PF05131_consen 109 VWKIYLDKGDFDEALQYCKT 128 (147)
T ss_pred HHHHHHhcCcHHHHHHHccC
Confidence 45567788999999988665
No 339
>cd01056 Euk_Ferritin eukaryotic ferritins. Eukaryotic Ferritin (Euk_Ferritin) domain. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary role, negatively charged r
Probab=41.00 E-value=38 Score=18.22 Aligned_cols=18 Identities=22% Similarity=0.206 Sum_probs=12.1
Q ss_pred hHHHHHHHHHHhcCCCcC
Q 042276 2 DEANGLAELMIQRGVNPD 19 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~ 19 (71)
+.|.++++.+..+|..|+
T Consensus 52 ~HA~~l~~~i~~rgg~~~ 69 (161)
T cd01056 52 EHAEKLIKYQNKRGGRVV 69 (161)
T ss_pred HHHHHHHHHHHHcCCeee
Confidence 356777777777776553
No 340
>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=40.90 E-value=54 Score=16.96 Aligned_cols=26 Identities=27% Similarity=0.268 Sum_probs=19.4
Q ss_pred hcCCHHHHHHHHHHHhhCCCCccHHH
Q 042276 32 LADRFDRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 32 ~~g~~~~a~~~~~~m~~~g~~p~~~~ 57 (71)
-.|+..++++.++++.+.|..|....
T Consensus 26 ~~~d~~~~l~~~~~l~~~G~d~~~~l 51 (143)
T PF12169_consen 26 LEGDAAEALELLNELLEQGKDPKQFL 51 (143)
T ss_dssp HTT-HHHHHHHHHHHHHCT--HHHHH
T ss_pred HcCCHHHHHHHHHHHHHhCCCHHHHH
Confidence 57888999999999999998876554
No 341
>PF09397 Ftsk_gamma: Ftsk gamma domain; InterPro: IPR018541 This domain directs oriented DNA translocation and forms a winged helix structure []. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding []. ; PDB: 2VE9_B 2VE8_E 2J5O_A 2J5P_A.
Probab=40.41 E-value=42 Score=15.57 Aligned_cols=27 Identities=15% Similarity=0.311 Sum_probs=19.3
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
++|+--.+.| +..|-++.++|.+.|+.
T Consensus 24 S~lQR~~rIG-ynrAariid~LE~~GiV 50 (65)
T PF09397_consen 24 SLLQRKFRIG-YNRAARIIDQLEEEGIV 50 (65)
T ss_dssp HHHHHHHT---HHHHHHHHHHHHHCTSB
T ss_pred HHHHHHhCCC-HHHHHHHHHHHHHCCCC
Confidence 4566666666 57899999999999865
No 342
>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=40.30 E-value=28 Score=16.77 Aligned_cols=21 Identities=10% Similarity=0.123 Sum_probs=15.6
Q ss_pred CCHHHHHHHHHHHhhCC-CCcc
Q 042276 34 DRFDRARELLVSMGSKG-CKQD 54 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g-~~p~ 54 (71)
.....+.++|.+|.+.| +.|+
T Consensus 36 e~~~s~l~lf~~Lek~~~l~~~ 57 (81)
T cd08340 36 AKDKSFLELVLELEKLNLVSPN 57 (81)
T ss_pred cccCCHHHHHHHHHhcCCCCCc
Confidence 34567899999999887 4453
No 343
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=40.22 E-value=1.2e+02 Score=20.61 Aligned_cols=64 Identities=16% Similarity=0.059 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHh--cCCCc----CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 2 DEANGLAELMIQ--RGVNP----DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 2 ~~a~~~~~~m~~--~~~~p----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
++|...|+.-.. ..+.+ -..+++-+=..+.+.+.+++|+..|++-... ..-|..+++++=-.+.
T Consensus 431 ~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l-~~k~~~~~asig~iy~ 500 (611)
T KOG1173|consen 431 PEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLL-SPKDASTHASIGYIYH 500 (611)
T ss_pred HHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHc-CCCchhHHHHHHHHHH
Confidence 466777766642 22222 2334666667788999999999999998755 2336666666544443
No 344
>cd01041 Rubrerythrin Rubrerythrin, ferritin-like diiron-binding domain. Rubrerythrin domain is a nonheme iron binding domain found in many air-sensitive bacteria and archaea and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The homodimeric rubrerythrin protein contains a binuclear metal center located within a four helix bundle. Many, but not all, rubrerythrin proteins have a second domain with a rubredoxin-like hexacoordinated iron center. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system but its function is still poorly understood.
Probab=40.11 E-value=56 Score=16.89 Aligned_cols=15 Identities=27% Similarity=0.253 Sum_probs=6.7
Q ss_pred HHHHHHHHHhcCCCc
Q 042276 4 ANGLAELMIQRGVNP 18 (71)
Q Consensus 4 a~~~~~~m~~~~~~p 18 (71)
|..+++.+...|..|
T Consensus 50 A~~~~~~l~~l~g~~ 64 (134)
T cd01041 50 AKGHFKLLKGLGGGD 64 (134)
T ss_pred HHHHHHHHhcCCCCC
Confidence 344444444444443
No 345
>PF07720 TPR_3: Tetratricopeptide repeat; InterPro: IPR011716 This entry includes tetratricopeptide-like repeats found in the LcrH/SycD-like chaperones [].; PDB: 3KS2_O 3GZ2_A 3GZ1_A 3GYZ_A 4AM9_A 2VGX_A 2VGY_A.
Probab=39.82 E-value=31 Score=13.85 Aligned_cols=16 Identities=19% Similarity=0.434 Sum_probs=11.8
Q ss_pred HHHhcCCHHHHHHHHH
Q 042276 29 GFCLADRFDRARELLV 44 (71)
Q Consensus 29 ~~~~~g~~~~a~~~~~ 44 (71)
.+-..|+.++|+++|.
T Consensus 10 ~~y~~~ky~~A~~~~~ 25 (36)
T PF07720_consen 10 NFYQKGKYDEAIHFFQ 25 (36)
T ss_dssp HHHHTT-HHHHHHHHH
T ss_pred HHHHHhhHHHHHHHHH
Confidence 4557899999999944
No 346
>cd08330 CARD_ASC_NALP1 Caspase activation and recruitment domain found in Human ASC, NALP1, and similar proteins. Caspase activation and recruitment domain (CARD) similar to those found in human ASC (Apoptosis-associated speck-like protein containing a CARD) and NALP1 (CARD7, NLRP1). ASC, an adaptor molecule, and NALP1, a member of the Nod-like receptor (NLR) family, are involved in the assembly of the 'inflammasome', a multiprotein platform, which is responsible for caspase-1 activation and regulation of IL-1beta maturation. In general, CARDs are death domains (DDs) 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 DED (Death Effector Domain). They se
Probab=39.63 E-value=48 Score=15.93 Aligned_cols=56 Identities=13% Similarity=0.102 Sum_probs=35.8
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
...+++.+.+.|+- +..-|..+- ++.-..+.|.++++....+| ..++..+.+++-+
T Consensus 17 v~~ilD~L~~~~Vi-t~e~~~~I~---a~~T~~~kar~Lld~l~~kG----~~A~~~F~~~L~e 72 (82)
T cd08330 17 VDPILDKLHGKKVI-TQEQYSEVR---AEKTNQEKMRKLFSFVRSWG----ASCKDIFYQILRE 72 (82)
T ss_pred HHHHHHHHHHCCCC-CHHHHHHHH---cCCCcHHHHHHHHHHHHccC----HHHHHHHHHHHHH
Confidence 34567777766533 333333333 34567888999999998886 5666666666643
No 347
>PRK10304 ferritin; Provisional
Probab=39.55 E-value=54 Score=17.98 Aligned_cols=18 Identities=17% Similarity=0.287 Sum_probs=12.6
Q ss_pred hHHHHHHHHHHhcCCCcC
Q 042276 2 DEANGLAELMIQRGVNPD 19 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~ 19 (71)
+.|.++++.+..+|..|.
T Consensus 52 ~HA~kl~~~i~~rgg~~~ 69 (165)
T PRK10304 52 THMQRLFDYLTDTGNLPR 69 (165)
T ss_pred HHHHHHHHHHHHcCCCee
Confidence 356778888877776664
No 348
>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]
Probab=39.47 E-value=1.4e+02 Score=21.38 Aligned_cols=64 Identities=14% Similarity=0.127 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHH--HHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDG--FCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.|.+....+.++ .||. .|..++.+ ..+.|+.++|..+++....-+.. |..|...+-..|-+.++
T Consensus 27 kal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~ 92 (932)
T KOG2053|consen 27 KALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGK 92 (932)
T ss_pred HHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhh
Confidence 344444444332 3443 23334444 45789999999888888766544 88898888888876654
No 349
>TIGR03236 dnd_assoc_1 dnd system-associated protein 1. A DNA sulfur modification system, dnd (degradation during electrophoresis), is sparsely and sporadically distributed among the bacteria. Members of this protein family are strictly limited to species with the dnd operon, and are found close to the dnd operon on the chromosomes of Bacillus cereus E33L, Hahella chejuensis KCTC 2396, and Pseudoalteromonas haloplanktis TAC12.
Probab=39.42 E-value=58 Score=20.53 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=18.5
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHH
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFD 37 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~ 37 (71)
++|.+..++|+-.|..+=..+|.-|-+.|.++
T Consensus 317 ~L~~eFekRGvffD~~SkqeiI~fyEkin~lE 348 (363)
T TIGR03236 317 RLIEEFSKRGVAFDRQSQQMLIEFYERHGNLE 348 (363)
T ss_pred HHHHHHHhcCceeCchhHHHHHHHHHHhCccc
Confidence 45555566666666666666666555555443
No 350
>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=38.82 E-value=61 Score=16.95 Aligned_cols=58 Identities=17% Similarity=0.161 Sum_probs=30.8
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
++|..+.+.+.+.+. -...+-=+-+..+.+.|++++|+. .......||...|-+|-.+
T Consensus 23 ~EA~tIa~wL~~~~~-~~E~v~lIr~~sLmNrG~Yq~ALl----~~~~~~~pdL~p~~AL~a~ 80 (116)
T PF09477_consen 23 QEANTIADWLEQEGE-MEEVVALIRLSSLMNRGDYQEALL----LPQCHCYPDLEPWAALCAW 80 (116)
T ss_dssp HHHHHHHHHHHHTTT-THHHHHHHHHHHHHHTT-HHHHHH----HHTTS--GGGHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCc-HHHHHHHHHHHHHHhhHHHHHHHH----hcccCCCccHHHHHHHHHH
Confidence 456666666665543 122222222445668889888821 1233457898888877544
No 351
>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=38.80 E-value=31 Score=16.65 Aligned_cols=29 Identities=7% Similarity=0.108 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
-.-..|+..|....-++-+.++|+.|...
T Consensus 46 dla~lLv~~y~~~~A~~vt~~il~~in~~ 74 (82)
T cd08321 46 DLVDKMVQFYGEEYAVEVTVKILRKMNQN 74 (82)
T ss_pred HHHHHHHHHcChhHHHHHHHHHHHHhcch
Confidence 34556666666666777778888877543
No 352
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=38.80 E-value=59 Score=16.76 Aligned_cols=25 Identities=12% Similarity=0.191 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLV 44 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~ 44 (71)
.......+....+.|+++.|.+++.
T Consensus 70 ~~~~~~~~~~~l~~g~~~~a~~ll~ 94 (115)
T PF12793_consen 70 EELLEQQAEELLEQGKYEQALQLLD 94 (115)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 4455666777889999999999988
No 353
>COG0320 LipA Lipoate synthase [Coenzyme metabolism]
Probab=38.73 E-value=32 Score=20.96 Aligned_cols=44 Identities=25% Similarity=0.262 Sum_probs=29.9
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGC 51 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~ 51 (71)
...+++..++. .|++.|=+.+|-++.. ..++..+++++++..|+
T Consensus 199 SL~~L~~~k~~--~P~i~TKSgiMlGLGE--t~~Ev~e~m~DLr~~gv 242 (306)
T COG0320 199 SLSLLERAKEL--GPDIPTKSGLMVGLGE--TDEEVIEVMDDLRSAGV 242 (306)
T ss_pred HHHHHHHHHHh--CCCcccccceeeecCC--cHHHHHHHHHHHHHcCC
Confidence 34455554433 7778888888766654 35678888888888775
No 354
>PRK02492 deoxyhypusine synthase-like protein; Provisional
Probab=38.49 E-value=61 Score=20.28 Aligned_cols=35 Identities=11% Similarity=0.152 Sum_probs=27.0
Q ss_pred cCCCcCHHHHHHHHHHHHhc----CCHHHHHHHHHHHhh
Q 042276 14 RGVNPDTSTCNALMDGFCLA----DRFDRARELLVSMGS 48 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~ 48 (71)
.++..+..++..+++.+.+. +++.+|.+++.+|.+
T Consensus 17 ~~~~~~~~~v~~Lv~~~~~~gF~A~~L~~A~~i~~~Ml~ 55 (347)
T PRK02492 17 EHIDIKSFDAVPIIDAMGKMAFQSRDLARAADIYDMMLQ 55 (347)
T ss_pred cCCCCCCCCHHHHHHHHHHhCccHHHHHHHHHHHHHHHh
Confidence 33443445999999999874 488899999999974
No 355
>PTZ00445 p36-lilke protein; Provisional
Probab=38.42 E-value=34 Score=19.96 Aligned_cols=57 Identities=12% Similarity=0.105 Sum_probs=34.1
Q ss_pred HHHHHHHHHhcCCCc-CHHHHHHHHHH----HHhcC---------CHHHHHHHHHHHhhCCCCccHHHHHH
Q 042276 4 ANGLAELMIQRGVNP-DTSTCNALMDG----FCLAD---------RFDRARELLVSMGSKGCKQDAFSHSI 60 (71)
Q Consensus 4 a~~~~~~m~~~~~~p-~~~~~~~li~~----~~~~g---------~~~~a~~~~~~m~~~g~~p~~~~~~~ 60 (71)
|..+.+.+++.|+.. -.--=|++|.. +.+.. -..+...++..|.+.|+..-++||+.
T Consensus 31 ~~~~v~~L~~~GIk~Va~D~DnTlI~~HsgG~~~~~~~~~~~~~~~tpefk~~~~~l~~~~I~v~VVTfSd 101 (219)
T PTZ00445 31 ADKFVDLLNECGIKVIASDFDLTMITKHSGGYIDPDNDDIRVLTSVTPDFKILGKRLKNSNIKISVVTFSD 101 (219)
T ss_pred HHHHHHHHHHcCCeEEEecchhhhhhhhcccccCCCcchhhhhccCCHHHHHHHHHHHHCCCeEEEEEccc
Confidence 444455556788765 12233555652 33332 23446778889989998887777764
No 356
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=38.33 E-value=1.2e+02 Score=19.99 Aligned_cols=37 Identities=11% Similarity=0.065 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~ 57 (71)
....-.++++.. .++.+.++.++++|...|..|....
T Consensus 246 ~~~i~~ll~al~-~~d~~~~l~~~~~l~~~g~~~~~il 282 (509)
T PRK14958 246 PLLLFDILEALA-AKAGDRLLGCVTRLVEQGVDFSNAL 282 (509)
T ss_pred HHHHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCHHHHH
Confidence 333344455444 4889999999999999998876443
No 357
>PF00317 Ribonuc_red_lgN: Ribonucleotide reductase, all-alpha domain; InterPro: IPR013509 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The reduction of ribonucleotides to deoxyribonucleotides involves the transfer of free radicals, the function of each metallocofactor is to generate an active site thiyl radical. This thiyl radical then initiates the nucleotide reduction process by hydrogen atom abstraction from the ribonucleotide []. The radical-based reaction involves five cysteines: two of these are located at adjacent anti-parallel strands in a new type of ten-stranded alpha/beta-barrel; two others reside at the carboxyl end in a flexible arm; and the fifth, in a loop in the centre of the barrel, is positioned to initiate the radical reaction []. There are several regions of similarity in the sequence of the large chain of prokaryotes, eukaryotes and viruses spread across 3 domains: an N-terminal domain common to the mammalian and bacterial enzymes; a C-terminal domain common to the mammalian and viral ribonucleotide reductases; and a central domain common to all three [].; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0005524 ATP binding, 0006260 DNA replication, 0055114 oxidation-reduction process; PDB: 1PEM_A 2BQ1_E 1PEU_A 1PEQ_A 1PEO_A 1XJN_A 1XJK_A 3O0O_B 1XJF_A 3O0Q_A ....
Probab=38.33 E-value=39 Score=16.11 Aligned_cols=26 Identities=19% Similarity=0.197 Sum_probs=20.9
Q ss_pred CCHHHHHHHHHHHhhCCCCccHHHHH
Q 042276 34 DRFDRARELLVSMGSKGCKQDAFSHS 59 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g~~p~~~~~~ 59 (71)
++.+.+.++|+-|.+..+.|+.-++.
T Consensus 51 ~~~~~~~~fy~~l~~~~f~patP~l~ 76 (83)
T PF00317_consen 51 DRMEWAEEFYDLLSNQKFIPATPTLS 76 (83)
T ss_dssp THHHHHHHHHHHHHTTSEEE-HHHHH
T ss_pred CHHHHHHHHHHHHHcCCeecCCHHHh
Confidence 66788999999999988889887654
No 358
>PF09288 UBA_3: Fungal ubiquitin-associated domain ; InterPro: IPR015368 This C-terminal domain is found in ubiquitin binding proteins, it adopts a structure consisting of a three alpha-helix bundle. This domain is predominantly found in fungi []. ; PDB: 1TTE_A.
Probab=38.29 E-value=43 Score=15.10 Aligned_cols=42 Identities=21% Similarity=0.234 Sum_probs=25.0
Q ss_pred HHHHHHHhcC-CHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHH
Q 042276 25 ALMDGFCLAD-RFDRARELLVSMGSKGCK-QDAFSHSILINGGS 66 (71)
Q Consensus 25 ~li~~~~~~g-~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~ 66 (71)
.+++-+...| ..+...++|+.+.-.+.. -|..|-+.++.-+.
T Consensus 11 ~lVd~F~~mGF~~dkVvevlrrlgik~~n~~dn~t~~~ilEELL 54 (55)
T PF09288_consen 11 DLVDQFENMGFERDKVVEVLRRLGIKSMNGVDNETENKILEELL 54 (55)
T ss_dssp HHHHHHHHHT--HHHHHHHHHHS--SS--SS--HHHHHHHHHHT
T ss_pred HHHHHHHHcCCcHHHHHHHHHHhCCCCCCCccchhHHHHHHHHh
Confidence 3566677777 566788899988766655 35677777776553
No 359
>PF05261 Tra_M: TraM protein, DNA-binding; InterPro: IPR007925 The TraM protein is an essential part of the DNA transfer machinery of the conjugative resistance plasmid R1 (IncFII). On the basis of mutational analyses, it was shown that the essential transfer protein TraM has at least two functions. First, a functional TraM protein was found to be required for normal levels of transfer gene expression. Second, experimental evidence was obtained that TraM stimulates efficient site-specific single-stranded DNA cleavage at the oriT, in vivo. Furthermore, a specific interaction of the cytoplasmic TraM protein with the membrane protein TraD was demonstrated, suggesting that the TraM protein creates a physical link between the relaxosomal nucleoprotein complex and the membrane-bound DNA transfer apparatus [].; GO: 0003677 DNA binding, 0000746 conjugation; PDB: 3ON0_A 3OMY_B 1DP3_A 2G9E_A 3D8A_B 2G7O_A.
Probab=37.72 E-value=52 Score=17.52 Aligned_cols=54 Identities=13% Similarity=0.067 Sum_probs=31.9
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCC-HHHHHHHHHHHhhCCCCccHHHHHHHH
Q 042276 4 ANGLAELMIQRGVNPDTSTCNALMDGFCLADR-FDRARELLVSMGSKGCKQDAFSHSILI 62 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~~li 62 (71)
-..+..+=++.|-.+.-++|++...++...|. +-++ +|.+.+-..|..-|+-++
T Consensus 16 I~~iVe~r~qeGA~~~dvs~SSv~smLlELGLrVY~~-----Q~E~k~s~Fnq~eFnk~l 70 (127)
T PF05261_consen 16 INDIVEERRQEGATEKDVSFSSVSSMLLELGLRVYEA-----QMERKESGFNQEEFNKVL 70 (127)
T ss_dssp HHHHHHHHHCCT-TTTT--HHHHHHHHHHCCCCHHHH-----CCHHCSSS--HHHHHHHH
T ss_pred HHHHHHHHHHcCCCcccccHHHHHHHHHHHhHHHHHH-----HHhhccCCCCHHHHHHHH
Confidence 34455555678888888899999999888884 2222 455455556777777543
No 360
>COG4397 Mu-like prophage major head subunit gpT [General function prediction only]
Probab=37.62 E-value=56 Score=19.39 Aligned_cols=23 Identities=39% Similarity=0.455 Sum_probs=12.4
Q ss_pred HHHHH-HhcCCCcCHHHHHHHHHH
Q 042276 7 LAELM-IQRGVNPDTSTCNALMDG 29 (71)
Q Consensus 7 ~~~~m-~~~~~~p~~~~~~~li~~ 29 (71)
+|+|| +..++.||...|-++-++
T Consensus 102 l~~EmGRAaav~pDELVFaaL~~g 125 (308)
T COG4397 102 LFQEMGRAAAVQPDELVFAALRDG 125 (308)
T ss_pred HHHHHhHhhccCchHHHHHHHHhh
Confidence 45555 345556666666555433
No 361
>PF14044 NETI: NETI protein
Probab=37.22 E-value=35 Score=15.53 Aligned_cols=16 Identities=19% Similarity=0.270 Sum_probs=11.5
Q ss_pred HHHHHHHHHhhCCCCc
Q 042276 38 RARELLVSMGSKGCKQ 53 (71)
Q Consensus 38 ~a~~~~~~m~~~g~~p 53 (71)
...+.+.+|.+.|..|
T Consensus 9 TI~~CL~RM~~eGY~P 24 (57)
T PF14044_consen 9 TISDCLARMKKEGYMP 24 (57)
T ss_pred cHHHHHHHHHHcCCCc
Confidence 3456788888888766
No 362
>PF13963 Transpos_assoc: Transposase-associated domain
Probab=36.99 E-value=32 Score=16.27 Aligned_cols=25 Identities=4% Similarity=0.076 Sum_probs=18.7
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHHH
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~~ 57 (71)
........++...+...|+.|+=..
T Consensus 47 N~~~~~~~~V~~HL~~~Gf~~~Y~~ 71 (77)
T PF13963_consen 47 NEKRQSRDDVHEHLVCRGFMPNYTV 71 (77)
T ss_pred cCccCCHHHHHHHHHHhCCCCCCCe
Confidence 3455678889999999999887433
No 363
>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=36.97 E-value=58 Score=16.33 Aligned_cols=19 Identities=26% Similarity=0.281 Sum_probs=15.6
Q ss_pred HHhcCCHHHHHHHHHHHhh
Q 042276 30 FCLADRFDRARELLVSMGS 48 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~ 48 (71)
.++.|++++|.+.+++-.+
T Consensus 25 ~a~~g~fe~A~~~l~ea~~ 43 (97)
T cd00215 25 AAKEGDFAEAEELLEEAND 43 (97)
T ss_pred HHHcCCHHHHHHHHHHHHH
Confidence 5689999999998887654
No 364
>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=36.71 E-value=63 Score=16.51 Aligned_cols=34 Identities=21% Similarity=0.138 Sum_probs=20.8
Q ss_pred CHHHHHHHHHH-HHh----cCCHHHHHHHHHHHhhCCCC
Q 042276 19 DTSTCNALMDG-FCL----ADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 19 ~~~~~~~li~~-~~~----~g~~~~a~~~~~~m~~~g~~ 52 (71)
|.-+|..++.. +.+ .=...++..+++.|...|..
T Consensus 2 ddd~YR~~L~~~~Gk~S~k~lt~~el~~vl~~l~~~G~k 40 (119)
T PF06252_consen 2 DDDTYRALLQRVTGKSSSKDLTEAELEKVLDELKRLGFK 40 (119)
T ss_pred CHHHHHHHHHHHhChhhHHHCCHHHHHHHHHHHHHccCc
Confidence 34566666654 222 22556777788888877763
No 365
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=36.70 E-value=1.2e+02 Score=19.54 Aligned_cols=35 Identities=9% Similarity=-0.046 Sum_probs=22.1
Q ss_pred HHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 29 GFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 29 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
++...|+++.|+..|+.+.+. .|+...-..=|..|
T Consensus 300 A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l 334 (397)
T KOG0543|consen 300 ALLALGEYDLARDDFQKALKL--EPSNKAARAELIKL 334 (397)
T ss_pred HHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHH
Confidence 345567788888888888765 56555544444443
No 366
>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=36.61 E-value=42 Score=16.52 Aligned_cols=24 Identities=4% Similarity=0.174 Sum_probs=13.1
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHH
Q 042276 23 CNALMDGFCLADRFDRARELLVSM 46 (71)
Q Consensus 23 ~~~li~~~~~~g~~~~a~~~~~~m 46 (71)
|..++.+.....+.+++..+|..+
T Consensus 3 ~~~l~~~i~~l~~~ee~~~f~~dL 26 (87)
T PF01371_consen 3 WDELFEAILSLKDEEECYDFFEDL 26 (87)
T ss_dssp HHHHHHHHHCHHCHHCHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHh
Confidence 444555555555555555555544
No 367
>cd08334 DED_Caspase_8_10_repeat2 Death effector domain, repeat 2, of initator caspases 8 and 10. Death Effector Domain (DED) found in caspase-8 and caspase-10, repeat 2. 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-8 and -10 are the initiators of death receptor mediated apoptosis, and they play partially redundant roles. Together with FADD and the pseudo-caspase c-FLIP, they form the death-inducing signaling complex (DISC), whose formation is triggered by the activation of type 1 tumor necrosis factor (TNF) receptors such as Fas, TNF receptor 1, and TRAIL receptor. Caspase-8 and -10 also play important functions in cell adhesion and motility. They contain two N-terminal DED domains and a C-terminal caspase domain. DEDs comprise a subfamily of the Death Domain (DD) superfamily. DDs are protein-protein interaction domains foun
Probab=36.55 E-value=36 Score=16.49 Aligned_cols=29 Identities=10% Similarity=0.155 Sum_probs=18.2
Q ss_pred CHHHHHHHHHHHhhCC-CCc-cHHHHHHHHH
Q 042276 35 RFDRARELLVSMGSKG-CKQ-DAFSHSILIN 63 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g-~~p-~~~~~~~li~ 63 (71)
+...+.++|..|.+.| +.| |......++.
T Consensus 38 ~~~s~ldlf~~Lek~~~l~~~nl~~L~elL~ 68 (83)
T cd08334 38 DNKTLLDVFVEMEKQGLLGEDNLDELKRILK 68 (83)
T ss_pred ccCCHHHHHHHHHHcCCCCCccHHHHHHHHH
Confidence 4456899999999886 445 3333444443
No 368
>smart00843 Ftsk_gamma This domain directs oriented DNA translocation and forms a winged helix structure. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding.
Probab=36.45 E-value=50 Score=15.29 Aligned_cols=27 Identities=19% Similarity=0.319 Sum_probs=20.2
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
++|+--.+.| +..|-++.++|.+.|+.
T Consensus 23 S~lQR~~~IG-ynrAariid~lE~~GiV 49 (63)
T smart00843 23 SLLQRRLRIG-YNRAARLIDQLEEEGIV 49 (63)
T ss_pred HHHHHHHhcc-hhHHHHHHHHHHHCcCC
Confidence 4555566666 47889999999998854
No 369
>PRK10162 acetyl esterase; Provisional
Probab=36.36 E-value=18 Score=21.65 Aligned_cols=46 Identities=13% Similarity=0.094 Sum_probs=31.9
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcC-CHHHHHHHHHHHh
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDGFCLAD-RFDRARELLVSMG 47 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~a~~~~~~m~ 47 (71)
+++..+.+.+.+.|+......|..+.+++.... ..+++.+.++++.
T Consensus 263 de~~~~~~~L~~aGv~v~~~~~~g~~H~f~~~~~~~~~a~~~~~~~~ 309 (318)
T PRK10162 263 DDSRLLYQTLAAHQQPCEFKLYPGTLHAFLHYSRMMDTADDALRDGA 309 (318)
T ss_pred ChHHHHHHHHHHcCCCEEEEEECCCceehhhccCchHHHHHHHHHHH
Confidence 466777777777888777777777777777653 4566666666653
No 370
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=36.22 E-value=59 Score=16.53 Aligned_cols=19 Identities=21% Similarity=0.144 Sum_probs=15.7
Q ss_pred HHhcCCHHHHHHHHHHHhh
Q 042276 30 FCLADRFDRARELLVSMGS 48 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~ 48 (71)
.++.|++++|.+.+++-.+
T Consensus 30 ~ak~gdf~~A~~~l~eA~~ 48 (104)
T PRK09591 30 AMREGNFDLAEQKLNQSNE 48 (104)
T ss_pred HHHcCCHHHHHHHHHHHHH
Confidence 5688999999999887754
No 371
>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=36.01 E-value=61 Score=16.31 Aligned_cols=19 Identities=32% Similarity=0.412 Sum_probs=15.6
Q ss_pred HHhcCCHHHHHHHHHHHhh
Q 042276 30 FCLADRFDRARELLVSMGS 48 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~ 48 (71)
.++.|++++|.+.+++-.+
T Consensus 27 ~a~~gdfe~A~~~l~eA~~ 45 (99)
T TIGR00823 27 AAKAGDFAKARALVEQAGM 45 (99)
T ss_pred HHHcCCHHHHHHHHHHHHH
Confidence 5689999999998887654
No 372
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=35.77 E-value=1.5e+02 Score=20.55 Aligned_cols=33 Identities=21% Similarity=0.112 Sum_probs=25.8
Q ss_pred hcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 32 LADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 32 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
+.++++.|+..+.+|.+.|..|.-..-..++-+
T Consensus 270 rgsD~daAl~~la~ml~~Gedp~~I~Rrl~~~a 302 (725)
T PRK13341 270 RGSDPDAALYWLARMVEAGEDPRFIFRRMLIAA 302 (725)
T ss_pred hcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 468999999999999999988876655544443
No 373
>cd08775 DED_Caspase-like_repeat2 Death effector domain, repeat 2, of initator caspase-like proteins. Death Effector Domain (DED), second repeat, found in initator caspase-like proteins like caspase-8, -10 and c-FLIP. 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-8 and -10 are the initiators of death receptor mediated apoptosis. Together with FADD and the pseudo-caspase c-FLIP, they form the death-inducing signaling complex (DISC), whose formation is triggered by the activation of type 1 tumor necrosis factor (TNF) receptors such as Fas, TNF receptor 1, and TRAIL receptor. Caspase-8 and -10 also play important functions in cell adhesion and motility. 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 DISC.
Probab=35.74 E-value=37 Score=16.43 Aligned_cols=20 Identities=10% Similarity=0.074 Sum_probs=14.9
Q ss_pred CCHHHHHHHHHHHhhCC-CCc
Q 042276 34 DRFDRARELLVSMGSKG-CKQ 53 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g-~~p 53 (71)
.....+.++|.+|.+.| +.|
T Consensus 36 e~~~s~ldlf~~Lek~~lL~~ 56 (81)
T cd08775 36 DDDMNFLDIVIEMENRVLLGP 56 (81)
T ss_pred cccCCHHHHHHHHHHcCCCCC
Confidence 34455899999999887 445
No 374
>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]. Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].
Probab=35.63 E-value=1.1e+02 Score=19.03 Aligned_cols=48 Identities=15% Similarity=0.054 Sum_probs=34.1
Q ss_pred CHHHHHHH---HHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 19 DTSTCNAL---MDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 19 ~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
|..-|-++ |..+.+.|.+..|+++.+-+....-.-|...--.+|+-|+
T Consensus 99 NR~fflal~r~i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~A 149 (360)
T PF04910_consen 99 NRQFFLALFRYIQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYA 149 (360)
T ss_pred chHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHH
Confidence 55555555 5667789999999999998887654446666666666664
No 375
>PF03235 DUF262: Protein of unknown function DUF262; InterPro: IPR004919 This entry is found in prokaryotic proteins of unknown function.
Probab=35.52 E-value=60 Score=17.78 Aligned_cols=22 Identities=32% Similarity=0.350 Sum_probs=19.0
Q ss_pred CCHHHHHHHHHHHhhCCCCccH
Q 042276 34 DRFDRARELLVSMGSKGCKQDA 55 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g~~p~~ 55 (71)
++.+.|.++|..|-..|...+.
T Consensus 191 ~~~~~~~~iF~~lN~~G~~Ls~ 212 (221)
T PF03235_consen 191 DDEDDAFEIFERLNSRGKPLSA 212 (221)
T ss_pred CCHhHHHHHHHHhcCCCCCCCH
Confidence 6788999999999999987664
No 376
>cd08313 Death_TNFR1 Death domain of Tumor Necrosis Factor Receptor 1. Death Domain (DD) found in tumor necrosis factor receptor-1 (TNFR-1). TNFR-1 has many names including TNFRSF1A, CD120a, p55, p60, and TNFR60. It activates two major intracellular signaling pathways that lead to the activation of the transcription factor NF-kB and the induction of cell death. Upon binding of its ligand TNF, TNFR-1 trimerizes which leads to the recruitment of an adaptor protein named TNFR-associated death domain protein (TRADD) through a DD/DD interaction. Mutations in the TNFRSF1A gene causes TNFR-associated periodic syndrome (TRAPS), a rare disorder characterized recurrent fever, myalgia, abdominal pain, conjunctivitis and skin eruptions. 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 a
Probab=35.29 E-value=59 Score=15.71 Aligned_cols=32 Identities=9% Similarity=-0.079 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHhhCCCCcc-HHHHHHHHHHHHhcc
Q 042276 36 FDRARELLVSMGSKGCKQD-AFSHSILINGGSARI 69 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~~ 69 (71)
-+...++++.-.+. .+. ..|++.|++++-+.+
T Consensus 39 ~Eq~yqmL~~W~~~--~g~~~At~~~L~~aLr~~~ 71 (80)
T cd08313 39 RDAQYQMLKVWKER--GPRPYATLQHLLSVLRDME 71 (80)
T ss_pred HHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHcC
Confidence 34455555555543 122 567778887776544
No 377
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=35.19 E-value=32 Score=14.70 Aligned_cols=15 Identities=27% Similarity=0.372 Sum_probs=9.3
Q ss_pred HHHHHHHhcCCCcCH
Q 042276 6 GLAELMIQRGVNPDT 20 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~ 20 (71)
++..++.+.|+.|-.
T Consensus 10 eL~~~L~~~G~~~gP 24 (44)
T smart00540 10 ELRAELKQYGLPPGP 24 (44)
T ss_pred HHHHHHHHcCCCCCC
Confidence 456666777776633
No 378
>PF08356 EF_assoc_2: EF hand associated; InterPro: IPR013567 This region predominantly appears near EF-hands (IPR002048 from INTERPRO) in GTP-binding proteins. It is found in all three eukaryotic kingdoms.
Probab=35.18 E-value=63 Score=16.04 Aligned_cols=43 Identities=21% Similarity=0.259 Sum_probs=28.2
Q ss_pred HHHHHHHHhcCCCcCHHHHHHH---HHHHHhcCCHHHHHHHHHHHh
Q 042276 5 NGLAELMIQRGVNPDTSTCNAL---MDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~ 47 (71)
+.+..+-...|+..+..|...+ -..|.+.|+.+..+.+++...
T Consensus 13 k~~v~~~~~~gv~~~GiT~~GFl~L~~lfierGR~ETtW~vLR~Fg 58 (89)
T PF08356_consen 13 KKVVRENIPDGVNDNGITLDGFLFLNKLFIERGRHETTWTVLRKFG 58 (89)
T ss_pred HHHHHHHCCCCcCCCccchhhHHHHHHHHHHhCcchHHHHHHHHcC
Confidence 3344444445666665555444 445779999999999988764
No 379
>COG0619 CbiQ ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]
Probab=34.88 E-value=94 Score=17.98 Aligned_cols=52 Identities=21% Similarity=0.278 Sum_probs=34.6
Q ss_pred hHHHHHHHHHHhcCCCcCHHH--HHHHH--HHHHhcCCHHHHHHHHHHHhhCCCCc
Q 042276 2 DEANGLAELMIQRGVNPDTST--CNALM--DGFCLADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~--~~~li--~~~~~~g~~~~a~~~~~~m~~~g~~p 53 (71)
+++..+.+..+.+|+..+... +.++. -...=...++.|+++...|..+|..+
T Consensus 160 ~e~~~i~~Aq~~Rg~~~~~~~~~~~~~~~li~pL~i~sl~rae~la~AMe~RGy~~ 215 (252)
T COG0619 160 EELQRIRRAQRARGLDLSSGKRRIKSLGALIIPLLIRSLRRAEELAIAMEARGFRG 215 (252)
T ss_pred HHHHHHHHHHHHhCcCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 566777777777887664322 33332 22333557889999999999998776
No 380
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=34.69 E-value=1.6e+02 Score=20.71 Aligned_cols=65 Identities=14% Similarity=-0.031 Sum_probs=39.0
Q ss_pred HHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHH--HHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 3 EANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARE--LLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~--~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
+|++.|..-. -+.| ++.+-+++=..+.+.|+..-|.. ++.++.+.+ .-+...|--+=..+-+.|+
T Consensus 702 EA~~af~~Al--~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd 769 (799)
T KOG4162|consen 702 EAKEAFLVAL--ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGD 769 (799)
T ss_pred HHHHHHHHHH--hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccc
Confidence 4444444333 3355 46667777777777777766666 777776654 3355666666555555443
No 381
>TIGR01228 hutU urocanate hydratase. This model represents the second of four enzymes involved in the degradation of histidine to glutamate.
Probab=34.39 E-value=34 Score=22.57 Aligned_cols=40 Identities=23% Similarity=0.472 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhcCCCcCH----HHHHHHHHHHHhcC-CHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDT----STCNALMDGFCLAD-RFDRAREL 42 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g-~~~~a~~~ 42 (71)
.|..+|.++.++|+.||. .+-+..+.+|+=.| .++++.++
T Consensus 234 Naadv~~~l~~r~i~pDlvtDQTSaHdp~~GY~P~g~t~ee~~~l 278 (545)
T TIGR01228 234 NAAEVLPELLKRGVVPDVVTDQTSAHDPLNGYIPEGYTVEDADKL 278 (545)
T ss_pred cHHHHHHHHHHcCCCCCCcCCCCcccCcccccCCCCCCHHHHHHH
Confidence 467899999999999954 44556676777666 56665554
No 382
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=34.29 E-value=83 Score=19.14 Aligned_cols=27 Identities=19% Similarity=0.122 Sum_probs=22.0
Q ss_pred HHhcCCHHHHHHHHHHHhhCCCCccHH
Q 042276 30 FCLADRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
....|++..|..+++++...|..|=..
T Consensus 218 ail~g~~~~a~~~l~~L~~~ge~p~~i 244 (334)
T COG1466 218 ALLKGDVKKALRLLRDLLLEGEEPLKL 244 (334)
T ss_pred HHHCCCHHHHHHHHHHHHHcCCcHHHH
Confidence 445799999999999999988776443
No 383
>PF11768 DUF3312: Protein of unknown function (DUF3312); InterPro: IPR024511 This is a eukaryotic family of uncharacterised proteins that contain WD40 repeats.
Probab=34.15 E-value=54 Score=21.83 Aligned_cols=25 Identities=28% Similarity=0.429 Sum_probs=22.0
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 23 CNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 23 ~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
-..++.-|.+.+++++|..++..|.
T Consensus 411 ~~eL~~~yl~~~qi~eAi~lL~smn 435 (545)
T PF11768_consen 411 LVELISQYLRCDQIEEAINLLLSMN 435 (545)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHhCC
Confidence 3467789999999999999999995
No 384
>PRK10454 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA; Provisional
Probab=34.00 E-value=65 Score=16.76 Aligned_cols=19 Identities=11% Similarity=0.102 Sum_probs=15.7
Q ss_pred HHhcCCHHHHHHHHHHHhh
Q 042276 30 FCLADRFDRARELLVSMGS 48 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~ 48 (71)
.++.|++++|.+.+++-.+
T Consensus 41 ~Ak~gdfe~A~~~l~eA~e 59 (115)
T PRK10454 41 QAKQGDFAAAKAMMDQSRM 59 (115)
T ss_pred HHHhCCHHHHHHHHHHHHH
Confidence 5688999999999887764
No 385
>cd08792 DED_Caspase_8_10_repeat1 Death effector domain, repeat 1, of initator caspases 8 and 10. Death Effector Domain (DED) found in caspase-8 and caspase-10, repeat 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-8 and -10 are the initiators of death receptor mediated apoptosis, and they play partially redundant roles. Together with FADD and the pseudo-caspase c-FLIP, they form the death-inducing signaling complex (DISC), whose formation is triggered by the activation of type 1 tumor necrosis factor (TNF) receptors such as Fas, TNF receptor 1, and TRAIL receptor. Caspase-8 and -10 also play important functions in cell adhesion and motility. They contain two N-terminal DED domains and a C-terminal caspase domain. DEDs comprise a subfamily of the Death Domain (DD) superfamily. DDs are protein-protein interaction domains foun
Probab=34.00 E-value=52 Score=15.64 Aligned_cols=17 Identities=18% Similarity=0.483 Sum_probs=13.1
Q ss_pred CHHHHHHHHHHHhhCCC
Q 042276 35 RFDRARELLVSMGSKGC 51 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~ 51 (71)
....+.++|..|.+.|.
T Consensus 35 ~~~s~ldlf~~Le~~~~ 51 (77)
T cd08792 35 TVSSGKDLFLQLEEKGL 51 (77)
T ss_pred ccCCHHHHHHHHHHcCC
Confidence 44468899999998873
No 386
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.83 E-value=1.1e+02 Score=21.46 Aligned_cols=24 Identities=8% Similarity=0.080 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHH
Q 042276 21 STCNALMDGFCLADRFDRARELLV 44 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~ 44 (71)
.-|--++.+|.+.|+.++|.+++-
T Consensus 745 IGy~PFVe~c~~~~n~~EA~KYip 768 (829)
T KOG2280|consen 745 IGYLPFVEACLKQGNKDEAKKYIP 768 (829)
T ss_pred CCchhHHHHHHhcccHHHHhhhhh
Confidence 334444444444444444444443
No 387
>PRK05414 urocanate hydratase; Provisional
Probab=33.42 E-value=37 Score=22.52 Aligned_cols=40 Identities=23% Similarity=0.505 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhcCCCcCHH----HHHHHHHHHHhcC-CHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDTS----TCNALMDGFCLAD-RFDRAREL 42 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~----~~~~li~~~~~~g-~~~~a~~~ 42 (71)
.+..+|.++.++|+.||.. +-+..+.+|+=.| .++++.++
T Consensus 243 Naadv~~~l~~~~i~pDlvtDQTSaHdp~~GY~P~G~t~ee~~~l 287 (556)
T PRK05414 243 NAADVLPELVRRGIRPDLVTDQTSAHDPLNGYLPVGWTLEEAAEL 287 (556)
T ss_pred cHHHHHHHHHHcCCCCCccCcCccccCcccccCCCCCCHHHHHHH
Confidence 4678999999999999544 4555566777666 56666554
No 388
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=33.28 E-value=1.4e+02 Score=20.91 Aligned_cols=33 Identities=18% Similarity=0.160 Sum_probs=21.2
Q ss_pred Cc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 17 NP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 17 ~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
.| +...||.+-.+|.+.++-.+|...+.+..+.
T Consensus 549 ~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKc 582 (777)
T KOG1128|consen 549 EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKC 582 (777)
T ss_pred CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhc
Confidence 44 4566777776776666666666666666544
No 389
>PHA01754 hypothetical protein
Probab=33.26 E-value=58 Score=15.03 Aligned_cols=16 Identities=13% Similarity=0.102 Sum_probs=11.1
Q ss_pred HHHHHHHHHhhCCCCc
Q 042276 38 RARELLVSMGSKGCKQ 53 (71)
Q Consensus 38 ~a~~~~~~m~~~g~~p 53 (71)
+..++.++|++..+.|
T Consensus 48 EViKvvkemrr~~vkp 63 (69)
T PHA01754 48 EVVKVVKEMRRLQVKP 63 (69)
T ss_pred HHHHHHHHHHHcccCc
Confidence 4566788888776655
No 390
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=33.26 E-value=1.3e+02 Score=19.10 Aligned_cols=45 Identities=18% Similarity=0.048 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHhh----CCCCccHHHHHHHHHHH
Q 042276 21 STCNALMDGFCLADRFDRARELLVSMGS----KGCKQDAFSHSILINGG 65 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~~~~~m~~----~g~~p~~~~~~~li~~~ 65 (71)
..+-..-.-||+.|+-+.|++.++...+ .|...|++-+.+-+.-+
T Consensus 105 ea~~~kaeYycqigDkena~~~~~~t~~ktvs~g~kiDVvf~~iRlglf 153 (393)
T KOG0687|consen 105 EAMLRKAEYYCQIGDKENALEALRKTYEKTVSLGHKIDVVFYKIRLGLF 153 (393)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHh
Confidence 3445556679999999999998877654 47777877666555443
No 391
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=33.25 E-value=1.8e+02 Score=20.60 Aligned_cols=36 Identities=25% Similarity=0.342 Sum_probs=20.8
Q ss_pred HHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 042276 8 AELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSM 46 (71)
Q Consensus 8 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m 46 (71)
+++|+++|-.|+...-- +.++-.|.+.+|-++|.+-
T Consensus 623 L~~~k~rge~P~~iLlA---~~~Ay~gKF~EAAklFk~~ 658 (1081)
T KOG1538|consen 623 LEERKKRGETPNDLLLA---DVFAYQGKFHEAAKLFKRS 658 (1081)
T ss_pred HHHHHhcCCCchHHHHH---HHHHhhhhHHHHHHHHHHc
Confidence 45667788778765322 2344455666666665544
No 392
>PF09435 DUF2015: Fungal protein of unknown function (DUF2015); InterPro: IPR018559 This entry represents uncharacterised proteins found in fungi.
Probab=32.92 E-value=73 Score=17.01 Aligned_cols=20 Identities=30% Similarity=0.446 Sum_probs=9.7
Q ss_pred CHHHHHHHHHHH--hhCCCCcc
Q 042276 35 RFDRARELLVSM--GSKGCKQD 54 (71)
Q Consensus 35 ~~~~a~~~~~~m--~~~g~~p~ 54 (71)
.+++|..++.+- .++|+-||
T Consensus 100 ~FDeARliy~~~~f~~NgI~pd 121 (128)
T PF09435_consen 100 NFDEARLIYTERRFKKNGIGPD 121 (128)
T ss_pred CHHHHHHHHHHHHHHHcCCCCC
Confidence 455555554432 34455554
No 393
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.88 E-value=2e+02 Score=21.10 Aligned_cols=42 Identities=7% Similarity=0.056 Sum_probs=34.5
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
.+|..+.+.-+.|...-.=.-|..+.+.+++++|..+...|.
T Consensus 983 ~L~~~L~~~~LSp~~~~~L~~la~~i~~~~y~~a~~i~~~ia 1024 (1049)
T KOG0307|consen 983 ILFDKLRDGTLSPPITDGLHQLAQSIKNRDYSEALQIHAQIA 1024 (1049)
T ss_pred HHHHHHhcCCcChHHHHHHHHHHHHHhhccHHHHHHHHHHHh
Confidence 355555656688888888788888899999999999999998
No 394
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=32.87 E-value=95 Score=17.38 Aligned_cols=28 Identities=18% Similarity=0.399 Sum_probs=10.5
Q ss_pred HHHHHHhcCCCcCHHHHHHHHHHHHhcC
Q 042276 7 LAELMIQRGVNPDTSTCNALMDGFCLAD 34 (71)
Q Consensus 7 ~~~~m~~~~~~p~~~~~~~li~~~~~~g 34 (71)
++++....|..|.....+.+..+.-+-|
T Consensus 16 ~v~~~l~~g~~~~~i~~~~l~p~m~~vG 43 (201)
T cd02070 16 LVKKALEAGIDPQDIIEEGLAPGMDIVG 43 (201)
T ss_pred HHHHHHHcCCCHHHHHHHHHHHHHHHHH
Confidence 3333333443333333333333333333
No 395
>cd04437 DEP_Epac DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by cyclic AMP, a second messenger that plays a role in the control of diverse cellular processes, such as cell adhesion and insulin secretion. Epac-like proteins share a common domain architecture, containing RasGEF, DEP and CAP-effector (cAMP binding) domains. The DEP domain is involved in membrane localization.
Probab=32.84 E-value=82 Score=16.65 Aligned_cols=36 Identities=11% Similarity=0.042 Sum_probs=28.7
Q ss_pred CcCHHHHHHHHHHHHhcC----CHHHHHHHHHHHhhCCCC
Q 042276 17 NPDTSTCNALMDGFCLAD----RFDRARELLVSMGSKGCK 52 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~~g----~~~~a~~~~~~m~~~g~~ 52 (71)
-|+.++-+-+++++.+.+ ..++|..+-+.+.+.|+-
T Consensus 27 y~~cF~GsElVdWLl~~~~~v~sR~eAv~lgq~Ll~~gvi 66 (125)
T cd04437 27 YRQCCVGTELVDWLLQQSPCVQSRSQAVGMWQVLLEEGVL 66 (125)
T ss_pred CCcccccHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCe
Confidence 456777788999998875 458899999999988854
No 396
>PRK13342 recombination factor protein RarA; Reviewed
Probab=32.76 E-value=1.3e+02 Score=18.92 Aligned_cols=43 Identities=16% Similarity=0.091 Sum_probs=30.8
Q ss_pred HHHHHHHHHHh---cCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 22 TCNALMDGFCL---ADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 22 ~~~~li~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
.+-.++.++.+ .++++.|+..+..|.+.|..|....--.++.+
T Consensus 229 ~~~~~isa~~ks~rgsd~~aal~~l~~~l~~G~d~~~i~rrl~~~a 274 (413)
T PRK13342 229 EHYDLISALHKSIRGSDPDAALYYLARMLEAGEDPLFIARRLVIIA 274 (413)
T ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 34445555555 47999999999999999988876665555444
No 397
>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=32.50 E-value=71 Score=15.81 Aligned_cols=20 Identities=15% Similarity=0.298 Sum_probs=8.5
Q ss_pred HHHHHhcCCHHHHHHHHHHH
Q 042276 27 MDGFCLADRFDRARELLVSM 46 (71)
Q Consensus 27 i~~~~~~g~~~~a~~~~~~m 46 (71)
+.-|...+++++|.+-+.++
T Consensus 9 l~ey~~~~D~~ea~~~l~~L 28 (113)
T smart00544 9 IEEYLSSGDTDEAVHCLLEL 28 (113)
T ss_pred HHHHHHcCCHHHHHHHHHHh
Confidence 33344444444444444443
No 398
>PRK05907 hypothetical protein; Provisional
Probab=32.49 E-value=60 Score=19.75 Aligned_cols=25 Identities=24% Similarity=0.123 Sum_probs=20.8
Q ss_pred hcCCHHHHHHHHHHHhhC-CCCccHH
Q 042276 32 LADRFDRARELLVSMGSK-GCKQDAF 56 (71)
Q Consensus 32 ~~g~~~~a~~~~~~m~~~-g~~p~~~ 56 (71)
-.|+...|++++++|... |-.|-..
T Consensus 216 ~~~~~~~Al~il~~Ll~~~ge~p~~I 241 (311)
T PRK05907 216 LRRDRVEGHSLLRSLLSDMGEDPLGI 241 (311)
T ss_pred HccCHHHHHHHHHHHHHhcCCChHHH
Confidence 367889999999999998 8877644
No 399
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=32.48 E-value=1.5e+02 Score=19.60 Aligned_cols=36 Identities=11% Similarity=0.057 Sum_probs=30.5
Q ss_pred cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 14 RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
..++-|+..-.++-+.+...|+.++|+..|++-...
T Consensus 226 ~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~ 261 (564)
T KOG1174|consen 226 TTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA 261 (564)
T ss_pred ccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC
Confidence 345558999999999999999999999999987754
No 400
>KOG2808 consensus U5 snRNP-associated RNA splicing factor [RNA processing and modification]
Probab=32.41 E-value=1.3e+02 Score=18.82 Aligned_cols=44 Identities=14% Similarity=0.223 Sum_probs=33.8
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
..+|..++..++.+|+.--=+-|--++...++-.|-+.|-+|.-
T Consensus 228 ~pLf~~lr~~~Lp~DI~~sLa~Ic~~~~~reyl~AndaYlklAI 271 (341)
T KOG2808|consen 228 KPLFRLLRRKNLPADIRQSLADICYLCQKREYLKANDAYLKLAI 271 (341)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHc
Confidence 45788888888888876655556567888888899998888853
No 401
>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=32.30 E-value=50 Score=14.05 Aligned_cols=20 Identities=10% Similarity=0.202 Sum_probs=13.6
Q ss_pred CHHHHHHHHHHHhhCCCCcc
Q 042276 35 RFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~~p~ 54 (71)
..+...++.+-+.+.|..||
T Consensus 27 s~~tr~rI~~~a~~lgY~pN 46 (46)
T PF00356_consen 27 SEETRERILEAAEELGYRPN 46 (46)
T ss_dssp THHHHHHHHHHHHHHTB-SS
T ss_pred CHHHHHHHHHHHHHHCCCCC
Confidence 34456668888888888886
No 402
>PRK05629 hypothetical protein; Validated
Probab=32.12 E-value=67 Score=19.28 Aligned_cols=26 Identities=15% Similarity=0.029 Sum_probs=21.7
Q ss_pred HhcCCHHHHHHHHHHHhhCCCCccHH
Q 042276 31 CLADRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 31 ~~~g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
.-.|+...|..+++++...|..|-..
T Consensus 204 v~~g~~~~Al~~l~~l~~~g~~pi~i 229 (318)
T PRK05629 204 ACAGQVSKAVASTRRALQLGVSPVAL 229 (318)
T ss_pred HHcCCHHHHHHHHHHHHHcCCCcHHH
Confidence 34688999999999999999888544
No 403
>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=32.06 E-value=57 Score=14.62 Aligned_cols=18 Identities=33% Similarity=0.268 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHhhCCCCc
Q 042276 36 FDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~~p 53 (71)
.+...++|+-|.++|-.|
T Consensus 44 ~~~~~~l~~~m~~kGwY~ 61 (64)
T PF07875_consen 44 QQMQYELFNYMNQKGWYQ 61 (64)
T ss_pred HHHHHHHHHHHHHcCCcC
Confidence 455778888888888543
No 404
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=31.99 E-value=69 Score=15.56 Aligned_cols=34 Identities=12% Similarity=0.083 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 36 FDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
-+.+.+++..-.++.- ....|...|+.++.+.|+
T Consensus 43 ~eq~~~mL~~W~~r~g-~~~ATv~~L~~aL~~~~r 76 (86)
T cd08777 43 KEKVHQMLHKWKMKEG-SKGATVGKLAQALEGCIK 76 (86)
T ss_pred HHHHHHHHHHHHHccC-CCCcHHHHHHHHHHHcch
Confidence 4567777777765421 123567777777776654
No 405
>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)
Probab=31.92 E-value=1.3e+02 Score=18.81 Aligned_cols=20 Identities=10% Similarity=0.124 Sum_probs=13.0
Q ss_pred HHhcCCHHHHHHHHHHHhhC
Q 042276 30 FCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~~ 49 (71)
+.+.+++..|.++|.++..+
T Consensus 141 l~n~~~y~aA~~~l~~l~~r 160 (379)
T PF09670_consen 141 LFNRYDYGAAARILEELLRR 160 (379)
T ss_pred HHhcCCHHHHHHHHHHHHHh
Confidence 33666777777777777665
No 406
>TIGR02120 GspF general secretion pathway protein F. This membrane protein is a component of the terminal branch complex of the general secretion pathway (GSP), also known as the"Type II" secretion pathway. The GSP transports proteins (generally virulence-associated cell wall hydrolases) across the outer membrase of the bacterial cell. Transport across the inner membrane is often, but not exclusively handled by the Sec system. This model was constructed from the broader subfamily model, pfam00482 which includes components of pilin complexes (PilC) as well as other related genes. GspF is nearly always gene clustered with other GSP subunits. Some genes from Xylella and Xanthomonas strains score below the trusted cutoff due to excessive divergence from the family such that a sequence from Deinococcus which does not appear to be GspF scores higher.
Probab=31.78 E-value=91 Score=19.35 Aligned_cols=40 Identities=10% Similarity=0.070 Sum_probs=25.2
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHh
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
.+-+.+.+.++-|+ ....++..--+.|+++++++-+.+..
T Consensus 315 sls~al~~~~~fp~--~~~~mi~~GE~sG~L~~~L~~~a~~~ 354 (399)
T TIGR02120 315 SLSRALRATGLFPP--LLVHMIASGEKSGQLETMLERAADNQ 354 (399)
T ss_pred cHHHHHhcCCCCCH--HHHHHHHHHhhhccHHHHHHHHHHHH
Confidence 34444444554444 55567877788899988777655554
No 407
>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]
Probab=31.74 E-value=1.2e+02 Score=20.11 Aligned_cols=31 Identities=13% Similarity=0.260 Sum_probs=23.4
Q ss_pred HHHHHHHHHH--HHhcCCHHHHHHHHHHHhhCC
Q 042276 20 TSTCNALMDG--FCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 20 ~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~g 50 (71)
..++...+.+ +|+.|+......+|+...+.|
T Consensus 15 ~SCleLalEGERLck~gdcraGv~ff~aA~qvG 47 (639)
T KOG1130|consen 15 RSCLELALEGERLCKMGDCRAGVDFFKAALQVG 47 (639)
T ss_pred hHHHHHHHHHHHHHhccchhhhHHHHHHHHHhc
Confidence 3445555544 788999999999999998886
No 408
>smart00535 RIBOc Ribonuclease III family.
Probab=31.69 E-value=77 Score=15.98 Aligned_cols=30 Identities=20% Similarity=0.305 Sum_probs=24.4
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
-..++.+++.+..-.+.++++.+++.++..
T Consensus 94 ~a~~~eAliGAi~ld~g~~~~~~~i~~~~~ 123 (129)
T smart00535 94 LADVFEALIGAIYLDSGLEAAREFIRDLLG 123 (129)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 456888889888877778999999988764
No 409
>cd08813 DED_Caspase_8_repeat2 Death Effector Domain, repeat 2, of Caspase-8. Death effector domain (DED) found in caspase-8 (CASP8, FLICE), repeat 2. 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-8 is an initiator of death receptor mediated apoptosis. Together with FADD, caspase-10, and the pseudo-caspase c-FLIP, it forms the death-inducing signaling complex (DISC), whose formation is triggered by the activation of type 1 tumor necrosis factor (TNF) receptors such as Fas, TNF receptor 1, and TRAIL receptor. Caspase-8 also plays many important non-apoptotic functions including roles in embryonic development, cell adhesion and motility, immune cell proliferation and differentiation, T-cell activation, and NFkappaB signaling. It contains two N-terminal DED domains and a C-terminal caspase domain. DEDs comprise a subfamily of the
Probab=31.58 E-value=56 Score=15.96 Aligned_cols=21 Identities=19% Similarity=0.354 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHhhCC-CCccHH
Q 042276 36 FDRARELLVSMGSKG-CKQDAF 56 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g-~~p~~~ 56 (71)
....+++|.+|.+.+ +.||..
T Consensus 39 ~~s~Ldlf~eLEk~~~l~~dnl 60 (83)
T cd08813 39 ETTLLDIFIEMEKKGILGEDNL 60 (83)
T ss_pred hccHHHHHHHHHhhCCCCCchH
Confidence 445889999998876 455543
No 410
>PF08785 Ku_PK_bind: Ku C terminal domain like; InterPro: IPR014893 The non-homologous end joining (NHEJ) pathway is one method by which double stranded breaks in chromosomal DNA are repaired. Ku is a component of a multi-protein complex that is involved in the NHEJ. Ku has affinity for DNA ends and recruits the DNA-dependent protein kinase catalytic subunit (DNA-PKcs). This domain is found at the C-terminal of Ku which binds to DNA-PKcs []. ; GO: 0016817 hydrolase activity, acting on acid anhydrides; PDB: 1RW2_A 1Q2Z_A 3ISM_C.
Probab=31.57 E-value=64 Score=16.62 Aligned_cols=41 Identities=10% Similarity=0.152 Sum_probs=27.4
Q ss_pred HHHHHhcC---CHHHHHHHHHHHhhCCCCcc-HHHHHHHHHHHHh
Q 042276 27 MDGFCLAD---RFDRARELLVSMGSKGCKQD-AFSHSILINGGSA 67 (71)
Q Consensus 27 i~~~~~~g---~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~ 67 (71)
|.-+.+.+ .+..|.+.+..|++.-+.-+ +..||..|.-+-+
T Consensus 31 I~~Lv~~s~~~~y~kalecl~~lR~~~i~~~ep~~yN~Fl~~LK~ 75 (120)
T PF08785_consen 31 IEQLVSDSGDQNYDKALECLRALREECIEEEEPDEYNDFLRKLKK 75 (120)
T ss_dssp HHHHHHCSHCHHHHHHHHHHHHHHHHHHHHT-CHHHHHHHHHHHH
T ss_pred HHHHHhccCcchHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 44444443 67788888888887654444 6778888877643
No 411
>cd08338 DED_PEA15 Death Effector Domain of Astrocyte phosphoprotein PEA-15. Death Effector Domain (DED) similar to that found in PEA-15 (Astrocyte phosphoprotein PEA-15). PEA-15 is a multifunctional phosphoprotein that modulates signaling pathways, like the ERK MAP kinase cascade by binding to ERK and changing its subcellular localization. It has been implicated in apoptosis, cell proliferation, and glucose metabolism. It does not possess enzymatic activity and mainly acts as an adaptor protein. PEA-15 contains an N-terminal DED domain and a C-terminal disordered region. 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-association or heterodimers by associating with other members of the DD superfamily including PYRIN and CARD (Caspase activation and recruitment domain). They serve as adaptors in signaling pathways and they can
Probab=31.55 E-value=50 Score=16.09 Aligned_cols=20 Identities=15% Similarity=0.258 Sum_probs=14.7
Q ss_pred CHHHHHHHHHHHhhCC-CCcc
Q 042276 35 RFDRARELLVSMGSKG-CKQD 54 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g-~~p~ 54 (71)
....+.++|..|.+.| +.||
T Consensus 37 ~~~s~ldlf~~Lek~~~L~~d 57 (84)
T cd08338 37 EITSGRDWFSFLEKHDKLSQD 57 (84)
T ss_pred ccCCHHHHHHHHHHcCCCCCc
Confidence 4556889999999887 4453
No 412
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=31.33 E-value=92 Score=17.09 Aligned_cols=30 Identities=7% Similarity=0.135 Sum_probs=15.5
Q ss_pred HHHHHHHHhhCC--CCccHHHHHHHHHHHHhc
Q 042276 39 ARELLVSMGSKG--CKQDAFSHSILINGGSAR 68 (71)
Q Consensus 39 a~~~~~~m~~~g--~~p~~~~~~~li~~~~~~ 68 (71)
|-++|..++..| ..|-..--|-+|+++|+.
T Consensus 26 aakIfaGLR~~Gny~Lp~~aD~NeVLkALc~e 57 (150)
T PF05687_consen 26 AAKIFAGLRAHGNYKLPKHADNNEVLKALCRE 57 (150)
T ss_pred HHHHHHHHHHhcCCCCCCcCCHHHHHHHHHHh
Confidence 445566665554 234444455566555543
No 413
>PF02937 COX6C: Cytochrome c oxidase subunit VIc; InterPro: IPR004204 Cytochrome c oxidase, a 13 subunit complex, 1.9.3.1 from EC is the terminal oxidase in the mitochondrial electron transport chain. This family is composed of cytochrome c oxidase subunit VIc.; GO: 0004129 cytochrome-c oxidase activity; PDB: 3AG4_I 2DYS_V 3ASO_I 2EIK_V 2EIM_I 1OCC_V 1V54_V 1OCO_V 3ASN_V 2EIL_I ....
Probab=31.22 E-value=59 Score=15.49 Aligned_cols=17 Identities=18% Similarity=0.085 Sum_probs=10.9
Q ss_pred HHHHHHHHHhhCCCCcc
Q 042276 38 RARELLVSMGSKGCKQD 54 (71)
Q Consensus 38 ~a~~~~~~m~~~g~~p~ 54 (71)
++.+-|++|.+.|+--+
T Consensus 55 D~~k~fe~M~~~G~fqS 71 (73)
T PF02937_consen 55 DPMKDFEEMRKAGIFQS 71 (73)
T ss_dssp -HHHHHHHHHHTT--SS
T ss_pred ChHHHHHHHHhcCCccc
Confidence 36778899998886433
No 414
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=31.06 E-value=25 Score=15.33 Aligned_cols=24 Identities=13% Similarity=0.201 Sum_probs=16.9
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHH
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
.+.+.-+.++|+.+.+.|+.++..
T Consensus 11 ~~~~~~~~~if~~l~~~~i~v~~i 34 (62)
T cd04890 11 NGEVGFLRKIFEILEKHGISVDLI 34 (62)
T ss_pred CcccCHHHHHHHHHHHcCCeEEEE
Confidence 355667778888888887766554
No 415
>PF14669 Asp_Glu_race_2: Putative aspartate racemase
Probab=30.96 E-value=89 Score=18.27 Aligned_cols=27 Identities=19% Similarity=0.090 Sum_probs=22.7
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVS 45 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~ 45 (71)
-=...|.....|.+.|.++.|+.++++
T Consensus 180 rCqivn~AaEiFL~sgsidGA~~vLre 206 (233)
T PF14669_consen 180 RCQIVNIAAEIFLKSGSIDGALWVLRE 206 (233)
T ss_pred hhhhHHHHHHHHHHcCCchHHHHHHhc
Confidence 345678888889999999999999984
No 416
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=30.77 E-value=1e+02 Score=17.14 Aligned_cols=48 Identities=19% Similarity=0.143 Sum_probs=33.2
Q ss_pred hHHHHHHHHHHhcC-CCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 2 DEANGLAELMIQRG-VNP-DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 2 ~~a~~~~~~m~~~~-~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
.+|...|+.+...- ..| -....-.+..++-+.|+++.|...+++..+.
T Consensus 22 ~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~ 71 (203)
T PF13525_consen 22 EEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL 71 (203)
T ss_dssp HHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 47888888887531 111 2344445677788999999999999998764
No 417
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=30.59 E-value=74 Score=15.44 Aligned_cols=33 Identities=12% Similarity=-0.002 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 36 FDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.+.+..+++.-.++. ....|...|+.++-+.||
T Consensus 44 ~~q~~~lL~~W~~r~--g~~At~~~L~~aL~~i~R 76 (84)
T cd08803 44 IAQSFMLLKKWVTRD--GKNATTDALTSVLTKINR 76 (84)
T ss_pred HHHHHHHHHHHHHhh--CCCcHHHHHHHHHHHCCc
Confidence 356677777666542 134667777777777665
No 418
>cd08341 DED_Caspase_10_repeat1 Death effector domain, repeat 1, of Caspase-10. Death effector domain (DED) found in caspase-10, repeat 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-10 is an initiator of death receptor mediated apoptosis. Together with FADD, caspase-8 and the pseudo-caspase c-FLIP, it forms the death-inducing signaling complex (DISC), whose formation is triggered by the activation of type 1 tumor necrosis factor (TNF) receptors such as Fas, TNF receptor 1, and TRAIL receptor. It contains two N-terminal DED domains and a C-terminal 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-association or heterodimers by associating with other m
Probab=30.44 E-value=74 Score=15.43 Aligned_cols=20 Identities=5% Similarity=0.227 Sum_probs=14.7
Q ss_pred CHHHHHHHHHHHhhCC-CCcc
Q 042276 35 RFDRARELLVSMGSKG-CKQD 54 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g-~~p~ 54 (71)
+...+.++|.+|.+.| +.|+
T Consensus 37 ~~~s~ldlf~~Le~~~~L~~d 57 (82)
T cd08341 37 SVQSGHDLFQHLMDEDLLNEE 57 (82)
T ss_pred hhCCHHHHHHHHHHcCCCCcc
Confidence 4456889999999876 4453
No 419
>PF07218 RAP1: Rhoptry-associated protein 1 (RAP-1); InterPro: IPR009864 This family consists of several rhoptry-associated protein 1 (RAP-1) sequences which appear to be specific to Plasmodium falciparum [].
Probab=30.35 E-value=63 Score=21.91 Aligned_cols=41 Identities=22% Similarity=0.353 Sum_probs=26.3
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
++.+||++|.+- -+....++.-|.+.|+--| ..+++|+.-.
T Consensus 619 N~iIYNaVISgI-----heqmK~lmkl~PR~~iL~D-iHF~aLL~K~ 659 (782)
T PF07218_consen 619 NMIIYNAVISGI-----HEQMKNLMKLMPRKPILKD-IHFEALLNKE 659 (782)
T ss_pred hhHhHHHHHHHH-----HHHHHHHHHhCCCcchhHH-HHHHHHhhhc
Confidence 788888888653 3456667777776665444 5566665543
No 420
>PF13281 DUF4071: Domain of unknown function (DUF4071)
Probab=30.29 E-value=1.5e+02 Score=18.85 Aligned_cols=34 Identities=12% Similarity=0.033 Sum_probs=26.8
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
.|+.++|++++.......-.++..||..+=..|.
T Consensus 195 ~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyK 228 (374)
T PF13281_consen 195 PGDREKALQILLPVLESDENPDPDTLGLLGRIYK 228 (374)
T ss_pred CCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHH
Confidence 8999999999999666655678888877766554
No 421
>COG1447 CelC Phosphotransferase system cellobiose-specific component IIA [Carbohydrate transport and metabolism]
Probab=30.29 E-value=86 Score=16.14 Aligned_cols=19 Identities=21% Similarity=0.319 Sum_probs=15.5
Q ss_pred HHhcCCHHHHHHHHHHHhh
Q 042276 30 FCLADRFDRARELLVSMGS 48 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~ 48 (71)
+++.|++++|.....+-.+
T Consensus 29 ~Ak~g~f~~A~~~i~eA~~ 47 (105)
T COG1447 29 AAKEGDFEEAEELIQEAND 47 (105)
T ss_pred HHHcCCHHHHHHHHHHHHH
Confidence 6789999999998877653
No 422
>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=30.25 E-value=71 Score=15.15 Aligned_cols=28 Identities=21% Similarity=0.310 Sum_probs=19.2
Q ss_pred CHHHHHHH--HHHHHhcCCHHHHHHHHHHHh
Q 042276 19 DTSTCNAL--MDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 19 ~~~~~~~l--i~~~~~~g~~~~a~~~~~~m~ 47 (71)
+.+.||++ |...+..+ .+++.++...+.
T Consensus 11 PHFl~NtLn~I~~l~~~~-~~~~~~~i~~ls 40 (82)
T PF06580_consen 11 PHFLFNTLNSISWLARID-PEKASEMILSLS 40 (82)
T ss_pred hHHHHHHHHHHHHHHHcC-HHHHHHHHHHHH
Confidence 45778887 66677777 787777655543
No 423
>PRK13808 adenylate kinase; Provisional
Probab=29.89 E-value=1.4e+02 Score=18.54 Aligned_cols=46 Identities=24% Similarity=0.273 Sum_probs=26.5
Q ss_pred HHHhcCCCcCHHHHHHHHHHHHhc---------C---CHHHHHHHHHHHhhCCCCccH
Q 042276 10 LMIQRGVNPDTSTCNALMDGFCLA---------D---RFDRARELLVSMGSKGCKQDA 55 (71)
Q Consensus 10 ~m~~~~~~p~~~~~~~li~~~~~~---------g---~~~~a~~~~~~m~~~g~~p~~ 55 (71)
.|..-+..||..+-+.+..-..+. | ..++|..+...+...|+.||.
T Consensus 52 ~~~~G~lVPdeiv~~li~e~l~~~~~~~G~ILDGFPRt~~QA~~L~~ll~~~gi~PDl 109 (333)
T PRK13808 52 IMASGGLVPDEVVVGIISDRIEQPDAANGFILDGFPRTVPQAEALDALLKDKQLKLDA 109 (333)
T ss_pred HHHcCCCCCHHHHHHHHHHHHhcccccCCEEEeCCCCCHHHHHHHHHHHHhcCCCcCe
Confidence 344455677776655554444321 2 445666666666667777764
No 424
>PF15601 Imm42: Immunity protein 42
Probab=29.86 E-value=22 Score=19.07 Aligned_cols=41 Identities=17% Similarity=0.160 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHh----cCCHHHHHHHHHHHhh--CCCCccHHHHHHH
Q 042276 21 STCNALMDGFCL----ADRFDRARELLVSMGS--KGCKQDAFSHSIL 61 (71)
Q Consensus 21 ~~~~~li~~~~~----~g~~~~a~~~~~~m~~--~g~~p~~~~~~~l 61 (71)
.-|-.+++-+.+ ..+.+.|.+-+++.++ ....|+.+.|.+-
T Consensus 36 skfP~Lm~~LY~g~L~~~~~~~A~~eL~~I~~~l~~~~p~~ViWD~~ 82 (134)
T PF15601_consen 36 SKFPLLMNELYRGYLRYEELEKALKELEEIRKELKKFPPSEVIWDIE 82 (134)
T ss_pred CcchHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHhcCChhhheechh
Confidence 344455544433 3344445555555543 3677888887653
No 425
>PRK07914 hypothetical protein; Reviewed
Probab=29.86 E-value=1e+02 Score=18.52 Aligned_cols=26 Identities=19% Similarity=0.088 Sum_probs=21.2
Q ss_pred HhcCCHHHHHHHHHHHhhCCCCccHH
Q 042276 31 CLADRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 31 ~~~g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
.-.|+..+|..+++++...|..|-..
T Consensus 206 i~~g~~~~A~~~l~~L~~~ge~p~~i 231 (320)
T PRK07914 206 AVAGDVAGAAEALRWAMMRGEPHVVL 231 (320)
T ss_pred HHCCCHHHHHHHHHHHHHCCCchHHH
Confidence 34688999999999999998777544
No 426
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=29.71 E-value=1.1e+02 Score=22.26 Aligned_cols=31 Identities=16% Similarity=0.180 Sum_probs=28.2
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhC
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~ 49 (71)
-...|-.+|..+....++..|-+.+.+|..+
T Consensus 1329 ~~~~~a~lie~~v~~k~y~~AyRal~el~~k 1359 (1416)
T KOG3617|consen 1329 CTRLFALLIEDHVSRKNYKPAYRALTELQKK 1359 (1416)
T ss_pred hHHHHHHHHHHHHhhhhccHHHHHHHHHhhc
Confidence 4678889999999999999999999999876
No 427
>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase. Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo.
Probab=29.71 E-value=1.4e+02 Score=18.36 Aligned_cols=47 Identities=6% Similarity=-0.016 Sum_probs=30.9
Q ss_pred HHHHHHHhcCCCc---CHHHHH-HHHHHHHhcCCHHHHHHHHHHHhhCCCC
Q 042276 6 GLAELMIQRGVNP---DTSTCN-ALMDGFCLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 6 ~~~~~m~~~~~~p---~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
+.++.|++.|+.. .+.+++ ..++...+....+++.+.++.+++.|+.
T Consensus 101 e~l~~l~~~Gv~risiGvqS~~~~~l~~lgR~~~~~~~~~ai~~l~~~G~~ 151 (360)
T TIGR00539 101 EWCKGLKGAGINRLSLGVQSFRDDKLLFLGRQHSAKNIAPAIETALKSGIE 151 (360)
T ss_pred HHHHHHHHcCCCEEEEecccCChHHHHHhCCCCCHHHHHHHHHHHHHcCCC
Confidence 3455666555432 455554 4566666777888888888888887763
No 428
>COG2040 MHT1 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]
Probab=29.63 E-value=1.1e+02 Score=18.88 Aligned_cols=55 Identities=15% Similarity=0.090 Sum_probs=40.3
Q ss_pred HHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCC-ccHHHHHHHHHHHHh
Q 042276 9 ELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCK-QDAFSHSILINGGSA 67 (71)
Q Consensus 9 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~~~ 67 (71)
.||..+|...+...|++.... ..++...+++.+-...|.. .++.||-.-..++.+
T Consensus 19 tELe~rG~~l~~plWSa~~l~----~~peiv~~vh~df~~aGa~ii~T~TYqa~~~~~~e 74 (300)
T COG2040 19 TELERRGCDLSDPLWSALALV----DEPEIVRNVHADFLRAGADIITTATYQATPEGFAE 74 (300)
T ss_pred HHHHhcCCCCCchhhhhhhcc----cCHHHHHHHHHHHHHhcCcEEeehhhhcCHHHHHH
Confidence 567778888877788877643 3488889999998888643 477788777666654
No 429
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. 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
Probab=29.57 E-value=77 Score=15.33 Aligned_cols=14 Identities=7% Similarity=-0.185 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHhcc
Q 042276 56 FSHSILINGGSARI 69 (71)
Q Consensus 56 ~~~~~li~~~~~~~ 69 (71)
.|...|+.++.+.|
T Consensus 61 atv~~L~~AL~~~g 74 (86)
T cd08779 61 DAVGKLVTALEESG 74 (86)
T ss_pred hHHHHHHHHHHHcC
Confidence 34455555554444
No 430
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=29.55 E-value=1.3e+02 Score=17.98 Aligned_cols=36 Identities=14% Similarity=0.061 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFS 57 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~ 57 (71)
..+|. ++++... |+...|.++++.+...|..|-...
T Consensus 201 ~~if~-l~dai~~-~~~~~A~~~l~~L~~~g~~p~~il 236 (326)
T PRK07452 201 QNSLQ-LADALLQ-GNTGKALALLDDLLDANEPALRIV 236 (326)
T ss_pred CcHHH-HHHHHHC-CCHHHHHHHHHHHHHCCCcHHHHH
Confidence 34554 6666654 889999999999999887765443
No 431
>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]
Probab=29.55 E-value=1.7e+02 Score=20.31 Aligned_cols=36 Identities=8% Similarity=0.053 Sum_probs=25.7
Q ss_pred HHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 27 MDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 27 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
-+-+.+.+++++|..+++.+..+ .||..-|.-.+.-
T Consensus 226 a~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~ 261 (700)
T KOG1156|consen 226 ADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEK 261 (700)
T ss_pred HHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHH
Confidence 34466778888888888888877 4777766655443
No 432
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.45 E-value=1.4e+02 Score=18.25 Aligned_cols=29 Identities=14% Similarity=0.141 Sum_probs=14.6
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHHHHHHHH
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAFSHSILI 62 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~li 62 (71)
.|++++|+++++...+.. +.|.++|---+
T Consensus 99 ~~~~~~A~e~y~~lL~dd-pt~~v~~KRKl 127 (289)
T KOG3060|consen 99 TGNYKEAIEYYESLLEDD-PTDTVIRKRKL 127 (289)
T ss_pred hhchhhHHHHHHHHhccC-cchhHHHHHHH
Confidence 455666666666665543 22444444333
No 433
>KOG2229 consensus Protein required for actin cytoskeleton organization and cell cycle progression [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=29.42 E-value=1.8e+02 Score=19.64 Aligned_cols=51 Identities=10% Similarity=0.077 Sum_probs=38.4
Q ss_pred cCHHHHHHHHHHHHhcCC--HHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 18 PDTSTCNALMDGFCLADR--FDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 18 p~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
.+..+-+.+..++-+.+. -.-|..+..++-+++++-|..|.++++.+|...
T Consensus 97 lnkslq~~~fsml~~~d~~~ak~a~~~~~eL~kr~iW~d~~tV~i~~~acf~~ 149 (616)
T KOG2229|consen 97 LNKSLQAFMFSMLDQSDSTAAKMALDTMIELYKRNIWNDSKTVNIITTACFSK 149 (616)
T ss_pred HHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcccccchhHHHHHHHHhcc
Confidence 366677777777666553 344777788888899999999999999997653
No 434
>cd08327 CARD_RAIDD Caspase activation and recruitment domain of RIP-associated ICH-1 homologous protein with a death domain. Caspase activation and recruitment domain (CARD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal CARD, which interacts with the caspase-2 CARD, and a C-terminal Death domain (DD), which interacts with the DD of PIDD. In general, CARDs are DDs 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 heterodime
Probab=29.38 E-value=83 Score=15.67 Aligned_cols=42 Identities=12% Similarity=0.044 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHH
Q 042276 20 TSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGG 65 (71)
Q Consensus 20 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~ 65 (71)
+.|.+-.-..-+..-..+.|.++++-+..+| ..+|....+++
T Consensus 35 IlT~~~~e~I~a~~T~~~k~~~LLdiLp~RG----~~AF~~F~~aL 76 (94)
T cd08327 35 ILTESHVEEIESQTTSRRKTMKLLDILPSRG----PKAFHAFLDSL 76 (94)
T ss_pred CCCHHHHHHHHccCChHHHHHHHHHHHHhhC----hhHHHHHHHHH
Confidence 3444444444556778889999999999886 45555555554
No 435
>PF04123 DUF373: Domain of unknown function (DUF373); InterPro: IPR007254 This archaeal family of unknown function is predicted to be an integral membrane protein with six transmembrane regions.
Probab=29.10 E-value=93 Score=19.46 Aligned_cols=39 Identities=13% Similarity=0.170 Sum_probs=28.7
Q ss_pred cCCCcCHHHHHHHHHHHHhcC--CHH--------HHHHHHHHHhhCCCC
Q 042276 14 RGVNPDTSTCNALMDGFCLAD--RFD--------RARELLVSMGSKGCK 52 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~g--~~~--------~a~~~~~~m~~~g~~ 52 (71)
.|++..+.-+...+++-.+.+ +|+ +|.++++++++.|-.
T Consensus 18 aGi~tPVvGre~vl~AA~~l~laDPeDSD~N~if~avkiydeL~~~Ged 66 (344)
T PF04123_consen 18 AGIKTPVVGREAVLDAAVKLALADPEDSDVNAIFGAVKIYDELKAEGED 66 (344)
T ss_pred cCCCCCcccHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHhcCCC
Confidence 467777788888888877654 333 489999999988753
No 436
>cd04914 ACT_AKi-DapG-BS_1 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the N-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) strain 168), Clostridia, and Actinobacteria, bacterial species. In B. subtilis, the regulation of the diaminopimelate-lysine biosynthetic pathway involves dual control by diaminopimelate and lysine, effected through separate diaminopimelate- and lysine-sensitive aspartokinase isoenzymes. AKI activity is invariant during the exponential and stationary phases of growth and is not altered by addition of amino acids to the growth medium. The role of this isoenzyme is most likely to provide a constant level of aspartyl-beta-phosphate for the biosynthesis of diaminopimelate for peptidoglycan synthesis and dipicolinate during sporulation. The B. subtilis AKI is tetrameric consisting of two alpha and
Probab=29.07 E-value=7.8 Score=17.71 Aligned_cols=44 Identities=14% Similarity=0.154 Sum_probs=24.3
Q ss_pred HHHHHHHHHhcCCCcCHHHHHHH-HHHHHhcCCHHHHHHHHHHHh
Q 042276 4 ANGLAELMIQRGVNPDTSTCNAL-MDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~ 47 (71)
+.++|..+.+.|+..|..+.+.- +.-.....+.+.+.+++++|.
T Consensus 16 ~a~if~~La~~~InvDmI~~~~~~isFtv~~~d~~~~~~il~~~~ 60 (67)
T cd04914 16 QQRVFKALANAGISVDLINVSPEEVIFTVDGEVAEKAVDILEKMG 60 (67)
T ss_pred HHHHHHHHHHcCCcEEEEEecCCCEEEEEchhhHHHHHHHHHHcC
Confidence 45688888888888876622100 111123355666666655553
No 437
>PRK03971 putative deoxyhypusine synthase; Provisional
Probab=28.79 E-value=1.2e+02 Score=18.99 Aligned_cols=29 Identities=7% Similarity=0.171 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHhcC----CHHHHHHHHHHHhh
Q 042276 20 TSTCNALMDGFCLAD----RFDRARELLVSMGS 48 (71)
Q Consensus 20 ~~~~~~li~~~~~~g----~~~~a~~~~~~m~~ 48 (71)
..++..+++.|.+.| ++.+|.+++.+|.+
T Consensus 28 ~~~~~~l~~~~~~~gF~A~~l~~A~~i~~~M~~ 60 (334)
T PRK03971 28 DIDLEEVLDYYAKIGFQATHLGKAIKIWKKIEE 60 (334)
T ss_pred CCCHHHHHHHHHHcCccHHHHHHHHHHHHHHHh
Confidence 458899999998754 88899999999974
No 438
>PF13925 Katanin_con80: con80 domain of Katanin
Probab=28.79 E-value=64 Score=17.60 Aligned_cols=25 Identities=20% Similarity=0.244 Sum_probs=16.1
Q ss_pred HHHHHHhcCCHHHHHHHHHHHhhCC
Q 042276 26 LMDGFCLADRFDRARELLVSMGSKG 50 (71)
Q Consensus 26 li~~~~~~g~~~~a~~~~~~m~~~g 50 (71)
.+..+...+++..|++...+|...+
T Consensus 20 ~v~~~W~~~~~k~ai~~~~~~~D~s 44 (164)
T PF13925_consen 20 VVRTFWRRNDIKGAIEYAVRMNDPS 44 (164)
T ss_pred HHHHHHhcCcHHHHHHHHHhcCCch
Confidence 3445556777777777777775443
No 439
>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=28.67 E-value=1.8e+02 Score=19.26 Aligned_cols=63 Identities=13% Similarity=-0.057 Sum_probs=31.4
Q ss_pred HHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 6 GLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 6 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
...++...+--..+...-.-++..|.+.|..+.|.++.+.+..+-. ..--|..-+..+.++|+
T Consensus 391 ~~i~~lL~~~p~~t~~~~~k~l~iC~~~~L~~~a~~I~~~~~~~~~--~~~~~g~AL~~~~ra~d 453 (566)
T PF07575_consen 391 ERIEELLPRVPLDTNDDAEKLLEICAELGLEDVAREICKILGQRLL--KEGRYGEALSWFIRAGD 453 (566)
T ss_dssp HHHHHHGGG----SHHHHHHHHHHHHHHT-HHHHHHHHHHHHHHHH--HHHHHHHHHHHHH----
T ss_pred HHHHHHHhhCCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHH--HCCCHHHHHHHHHHCCC
Confidence 3344444332222445556667777777777777777777754421 23345555666665554
No 440
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 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 domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=28.59 E-value=48 Score=15.21 Aligned_cols=22 Identities=23% Similarity=0.401 Sum_probs=16.3
Q ss_pred CHHHHHHHHHHHhhCCCCccHH
Q 042276 35 RFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
..++.++...++.+.|..|+..
T Consensus 29 ~~~eVe~~I~klakkG~tpSqI 50 (60)
T PF08069_consen 29 SPEEVEELIVKLAKKGLTPSQI 50 (60)
T ss_dssp -HHHHHHHHHHHCCTTHCHHHH
T ss_pred CHHHHHHHHHHHHHcCCCHHHh
Confidence 4577888888888888877653
No 441
>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=28.52 E-value=55 Score=16.51 Aligned_cols=18 Identities=6% Similarity=0.254 Sum_probs=14.8
Q ss_pred HHHHHHHHHHhhCCCCcc
Q 042276 37 DRARELLVSMGSKGCKQD 54 (71)
Q Consensus 37 ~~a~~~~~~m~~~g~~p~ 54 (71)
+.-+.+|+++.+.|..|.
T Consensus 75 EKPl~lFk~L~~~g~~P~ 92 (98)
T cd01786 75 EKPVIIFKNLKQQGLHPA 92 (98)
T ss_pred ccHHHHHHHHHHcCCCCe
Confidence 457789999999998875
No 442
>PRK13754 conjugal transfer fertility inhibition protein FinO; Provisional
Probab=28.47 E-value=1.1e+02 Score=17.40 Aligned_cols=32 Identities=6% Similarity=-0.051 Sum_probs=21.0
Q ss_pred HHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 39 ARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 39 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
-.++|.++..++...+....-.-|..|.++-+
T Consensus 101 ~eDL~qDi~~r~~~lSk~~LR~ALr~yT~S~r 132 (186)
T PRK13754 101 REVLLEDVAQRNIPLSHKKLRRALKAITRSES 132 (186)
T ss_pred HHHHHHHHHhccCCCCHHHHHHHHHHHhCCHH
Confidence 34556777666767777777777777766544
No 443
>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=28.44 E-value=1.3e+02 Score=17.49 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=18.6
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHh
Q 042276 25 ALMDGFCLADRFDRARELLVSMG 47 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~ 47 (71)
-+=.-|.+.|++++|.++|+.+.
T Consensus 183 ~~A~ey~~~g~~~~A~~~l~~~~ 205 (247)
T PF11817_consen 183 EMAEEYFRLGDYDKALKLLEPAA 205 (247)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHH
Confidence 34455778999999999999985
No 444
>PF02255 PTS_IIA: PTS system, Lactose/Cellobiose specific IIA subunit; InterPro: IPR003188 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIA PTS system enzymes. This family of proteins normally function as a homotrimer, stabilised by a centrally located metal ion []. Separation into subunits is thought to occur after phosphorylation.; GO: 0005351 sugar:hydrogen symporter activity, 0006810 transport, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016020 membrane; PDB: 3L8R_D 2E2A_B 1E2A_C 3K1S_C 2LRK_C 2LRL_A 2WY2_A 1WCR_A 2WWV_C.
Probab=28.37 E-value=88 Score=15.59 Aligned_cols=19 Identities=26% Similarity=0.324 Sum_probs=13.7
Q ss_pred HHhcCCHHHHHHHHHHHhh
Q 042276 30 FCLADRFDRARELLVSMGS 48 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~ 48 (71)
.++.|++++|.+.+++-.+
T Consensus 24 ~a~~~~fe~A~~~l~~a~~ 42 (96)
T PF02255_consen 24 AAREGDFEEAEELLKEADE 42 (96)
T ss_dssp HHHTT-HHHHHHHHHHHHH
T ss_pred HHHhCCHHHHHHHHHHHHH
Confidence 3578999999988876643
No 445
>PHA00099 minor capsid protein
Probab=28.31 E-value=47 Score=17.81 Aligned_cols=17 Identities=18% Similarity=0.428 Sum_probs=8.3
Q ss_pred HHHHHHHhcCCHHHHHH
Q 042276 25 ALMDGFCLADRFDRARE 41 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~ 41 (71)
.|++.+.+..++++|..
T Consensus 94 eml~~L~dp~NydEa~~ 110 (147)
T PHA00099 94 EMLDFLSDPENYDEAKA 110 (147)
T ss_pred HHHHHHcChhhHHHHHh
Confidence 34444445555555544
No 446
>CHL00165 ftrB ferredoxin thioreductase subunit beta; Validated
Probab=28.28 E-value=1e+02 Score=16.22 Aligned_cols=35 Identities=11% Similarity=0.171 Sum_probs=22.4
Q ss_pred CHHHHHHHHHHHhh-CC--CCccHHHHHHHHHHHHhcc
Q 042276 35 RFDRARELLVSMGS-KG--CKQDAFSHSILINGGSARI 69 (71)
Q Consensus 35 ~~~~a~~~~~~m~~-~g--~~p~~~~~~~li~~~~~~~ 69 (71)
.++...+..+...+ .| +.||......+|.|+++..
T Consensus 12 ~~e~m~~f~ekya~~~G~~fnpD~~vt~~Vi~GLa~nK 49 (116)
T CHL00165 12 SLEAMRKFAETYAKRTNTFFCSDLSITAVVIEGLARHK 49 (116)
T ss_pred hHHHHHHHHHHHHHHhCCeeCCCHHHHHHHHHHHHHHH
Confidence 34444445555443 34 6688888888888888754
No 447
>PRK15331 chaperone protein SicA; Provisional
Probab=28.26 E-value=1.2e+02 Score=16.97 Aligned_cols=15 Identities=27% Similarity=0.479 Sum_probs=7.0
Q ss_pred hcCCHHHHHHHHHHH
Q 042276 32 LADRFDRARELLVSM 46 (71)
Q Consensus 32 ~~g~~~~a~~~~~~m 46 (71)
..+++++|...|...
T Consensus 83 ~~k~y~~Ai~~Y~~A 97 (165)
T PRK15331 83 LKKQFQKACDLYAVA 97 (165)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344555555544443
No 448
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking.; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....
Probab=28.12 E-value=71 Score=14.43 Aligned_cols=17 Identities=24% Similarity=0.188 Sum_probs=12.9
Q ss_pred hcCCHHHHHHHHHHHhh
Q 042276 32 LADRFDRARELLVSMGS 48 (71)
Q Consensus 32 ~~g~~~~a~~~~~~m~~ 48 (71)
+.|++++|++.+.+-.+
T Consensus 17 ~~g~~~~A~~~Y~~ai~ 33 (69)
T PF04212_consen 17 EAGNYEEALELYKEAIE 33 (69)
T ss_dssp HTTSHHHHHHHHHHHHH
T ss_pred HCCCHHHHHHHHHHHHH
Confidence 57899998888876543
No 449
>PF13998 MgrB: MgrB protein
Probab=28.07 E-value=51 Score=12.81 Aligned_cols=11 Identities=0% Similarity=-0.067 Sum_probs=5.3
Q ss_pred HHHHHHHHhcc
Q 042276 59 SILINGGSARI 69 (71)
Q Consensus 59 ~~li~~~~~~~ 69 (71)
...++.+|.+|
T Consensus 3 llald~~CDQg 13 (29)
T PF13998_consen 3 LLALDSYCDQG 13 (29)
T ss_pred HHHHHHHhcCC
Confidence 34455555544
No 450
>PF07223 DUF1421: Protein of unknown function (DUF1421); InterPro: IPR010820 This family represents a conserved region approximately 350 residues long within a number of plant proteins of unknown function.
Probab=27.96 E-value=1.4e+02 Score=18.85 Aligned_cols=36 Identities=17% Similarity=0.274 Sum_probs=29.5
Q ss_pred CHHHHHHHHHHHHhcC-CHHHHHHHHHHHhhCCCCcc
Q 042276 19 DTSTCNALMDGFCLAD-RFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~g~~p~ 54 (71)
+.+-|+-+|+-.+.-| .-|.++.+.++|.++|--.|
T Consensus 317 ~~~p~ddvidKv~~MGf~rDqV~a~v~rl~E~GQ~vD 353 (358)
T PF07223_consen 317 NRHPYDDVIDKVASMGFRRDQVRATVRRLTENGQPVD 353 (358)
T ss_pred ccCcHHHHHHHHHHcCCcHHHHHHHHHHHHhcCCccc
Confidence 5677999999999999 45668889999999985544
No 451
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=27.85 E-value=62 Score=13.70 Aligned_cols=22 Identities=27% Similarity=0.377 Sum_probs=17.1
Q ss_pred HHHHHhcCCHHHHHHHHHHHhh
Q 042276 27 MDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 27 i~~~~~~g~~~~a~~~~~~m~~ 48 (71)
|.-....|+++.|++.......
T Consensus 8 i~~~i~~g~~~~a~~~~~~~~~ 29 (58)
T smart00668 8 IRELILKGDWDEALEWLSSLKP 29 (58)
T ss_pred HHHHHHcCCHHHHHHHHHHcCH
Confidence 4455678999999999888764
No 452
>PF00382 TFIIB: Transcription factor TFIIB repeat; InterPro: IPR013150 Cyclins are eukaryotic proteins that play an active role in controlling nuclear cell division cycles [], and regulate cyclin dependent kinases (CDKs). Cyclins, together with the p34 (cdc2) or cdk2 kinases, form the Maturation Promoting Factor (MPF). There are two main groups of cyclins, G1/S cyclins, which are essential for the control of the cell cycle at the G1/S (start) transition, and G2/M cyclins, which are essential for the control of the cell cycle at the G2/M (mitosis) transition. G2/M cyclins accumulate steadily during G2 and are abruptly destroyed as cells exit from mitosis (at the end of the M-phase). In most species, there are multiple forms of G1 and G2 cyclins. For example, in vertebrates, there are two G2 cyclins, A and B, and at least three G1 cyclins, C, D, and E. Cyclin homologues have been found in various viruses, including Saimiriine herpesvirus 2 (Herpesvirus saimiri) and Human herpesvirus 8 (HHV-8) (Kaposi's sarcoma-associated herpesvirus). These viral homologues differ from their cellular counterparts in that the viral proteins have gained new functions and eliminated others to harness the cell and benefit the virus []. In eukaryotes, transcription initiation of all protein encoding genes involves the polymerase II system. This sytem is modulated by both general and specific transcription factors. The general factors (which include TFIIA, TFIIB, TFIID, TFIIE, TFIIF, TFIIG and TFIIH) operate through common promoter elements, such as the TATA box. Transcription factor IIB (TFIIB) is of central importance in transcription of class II genes. It associates with TFIID-TFIIA bound to DNA (the DA complex) to form a ternary TFIID-IIA-IBB (DAB) complex, which is recognised by RNA polymerase II [, ]. TFIIB comprises ~315-340 residues and contains an imperfect C-terminal repeat of a 75-residue domain that may contribute to the symmetry of the folded protein. The basal archaeal transcription machinery resembles that of the eukaryotic polymerase II system and includes a homologue of TFIIB []. This entry represents a cyclin-like domain which is found repeated in the C-terminal region of a variety of eukaryotic TFIIB's and their archaeal counterparts. These domains individually form the typical cyclin fold, and in the transcription complex they straddle the C-terminal region of the TATA-binding protein - an interaction essential for the formation of the transcription initiation complex [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2PHG_A 1C9B_Q 1TFB_A 1VOL_A 3K7A_M 1AIS_B 1D3U_B.
Probab=27.71 E-value=73 Score=14.45 Aligned_cols=32 Identities=13% Similarity=0.256 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhhC----CCCccHHHHHHHHHHHHhc
Q 042276 37 DRARELLVSMGSK----GCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 37 ~~a~~~~~~m~~~----g~~p~~~~~~~li~~~~~~ 68 (71)
+.|.++++.+.+. |..|+...=.++.-+|-..
T Consensus 16 ~~A~~i~~~~~~~~~~~Gr~~~~iaAA~iY~acr~~ 51 (71)
T PF00382_consen 16 ERAKEIYKKAQERGLLKGRSPESIAAACIYLACRLN 51 (71)
T ss_dssp HHHHHHHHHHHHTTTSTTS-HHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHcCCcccCCHHHHHHHHHHHHHHHc
Confidence 4577788887654 4556666666666555443
No 453
>PRK08207 coproporphyrinogen III oxidase; Provisional
Probab=27.53 E-value=1.5e+02 Score=19.44 Aligned_cols=46 Identities=15% Similarity=0.143 Sum_probs=30.8
Q ss_pred HHHHHHHhcCCC---cCHHHHH-HHHHHHHhcCCHHHHHHHHHHHhhCCC
Q 042276 6 GLAELMIQRGVN---PDTSTCN-ALMDGFCLADRFDRARELLVSMGSKGC 51 (71)
Q Consensus 6 ~~~~~m~~~~~~---p~~~~~~-~li~~~~~~g~~~~a~~~~~~m~~~g~ 51 (71)
+.++.|++.|+. .++.+++ ..++...+...++++.+.++.+++.|+
T Consensus 270 e~L~~Lk~~Gv~RISIGvQS~~d~vLk~igR~ht~e~v~~ai~~ar~~Gf 319 (488)
T PRK08207 270 EKLEVLKKYGVDRISINPQTMNDETLKAIGRHHTVEDIIEKFHLAREMGF 319 (488)
T ss_pred HHHHHHHhcCCCeEEEcCCcCCHHHHHHhCCCCCHHHHHHHHHHHHhCCC
Confidence 345566665543 2455555 456666777788888888888888876
No 454
>cd00045 DED The Death Effector Domain: a protein-protein interaction domain. Death Effector Domains comprise a subfamily of the Death Domain (DD) superfamily. DED-containing proteins include Fas-Associated via Death Domain (FADD), Astrocyte phosphoprotein PEA-15, the initiator caspases (caspase-8 and -10), and FLICE-inhibitory protein (FLIP), among others. These proteins are prominent components of the programmed cell death (apoptosis) pathway. Some members also have non-apoptotic functions such as regulation of insulin signaling (DEDD and PEA15) and cell cycle progression (DEDD). 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 CARD (Caspase activation and recruitment domain). They serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes.
Probab=27.51 E-value=80 Score=14.88 Aligned_cols=20 Identities=15% Similarity=0.406 Sum_probs=14.5
Q ss_pred CHHHHHHHHHHHhhCC-CCcc
Q 042276 35 RFDRARELLVSMGSKG-CKQD 54 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g-~~p~ 54 (71)
+...+.++|..|.+.| +.|+
T Consensus 35 ~~~s~l~lf~~Le~~~~l~~~ 55 (77)
T cd00045 35 KIKTPFDLFLVLERQGKLGED 55 (77)
T ss_pred ccCCHHHHHHHHHHcCCCCCc
Confidence 4556889999998876 4453
No 455
>PF01522 Polysacc_deac_1: Polysaccharide deacetylase; InterPro: IPR002509 This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase []. It also includes chitin deacetylase from yeast [], and endoxylanases which hydrolyses glucosidic bonds in xylan [].; GO: 0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, 0005975 carbohydrate metabolic process; PDB: 2IW0_A 2CC0_B 2VYO_A 2J13_A 2C71_A 2C79_A 1W1A_1 1W1B_1 1W17_A 1NY1_B ....
Probab=27.47 E-value=41 Score=16.61 Aligned_cols=40 Identities=15% Similarity=0.248 Sum_probs=19.8
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p 53 (71)
..++..+.+.+++.+...-...+ +.-.+.+++|.+.|.+.
T Consensus 21 ~~~~~~l~~~~i~at~fv~~~~~---------~~~~~~l~~l~~~G~ei 60 (123)
T PF01522_consen 21 DRLLPLLKKYGIPATFFVIGSWV---------ERYPDQLRELAAAGHEI 60 (123)
T ss_dssp HHHHHHHHHTT--EEEEE-HHHH---------HHHHHHHHHHHHTT-EE
T ss_pred HHHHHHHHhcccceeeeeccccc---------ccccccchhHHHHHHHH
Confidence 34555666666665544444432 22266677777666443
No 456
>KOG1642 consensus Ribonuclease, T2 family [RNA processing and modification]
Probab=27.45 E-value=95 Score=18.69 Aligned_cols=26 Identities=23% Similarity=0.299 Sum_probs=17.5
Q ss_pred CHHHHHHHHHHHhhCCCCccHHHHHH
Q 042276 35 RFDRARELLVSMGSKGCKQDAFSHSI 60 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~~p~~~~~~~ 60 (71)
.+.+-..++.-+.+.|+.||.-.|+.
T Consensus 148 ~l~~k~~l~~~L~~~gI~p~~~~y~l 173 (263)
T KOG1642|consen 148 KLKQKLDLLSILKKAGIKPDDNFYSL 173 (263)
T ss_pred HHHHHHhHHHHHHHcCCCCCCCceeH
Confidence 44445556666778899998766654
No 457
>PF07723 LRR_2: Leucine Rich Repeat; InterPro: IPR013101 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. This entry includes some LRRs that fail to be detected by IPR001611 from INTERPRO [, ].
Probab=27.39 E-value=30 Score=12.74 Aligned_cols=12 Identities=33% Similarity=0.296 Sum_probs=6.2
Q ss_pred cHHHHHHHHHHH
Q 042276 54 DAFSHSILINGG 65 (71)
Q Consensus 54 ~~~~~~~li~~~ 65 (71)
|..++..+|++|
T Consensus 14 ~~~~l~~LlS~C 25 (26)
T PF07723_consen 14 DEDSLERLLSGC 25 (26)
T ss_pred ChhHHHHhhccC
Confidence 444555555544
No 458
>PF11894 DUF3414: Protein of unknown function (DUF3414); InterPro: IPR021827 This family of proteins are functionally uncharacterised. This protein is found in eukaryotes. Proteins in this family are typically between 764 to 2011 amino acids in length. This protein has a conserved LLG sequence motif.
Probab=27.30 E-value=2.9e+02 Score=21.26 Aligned_cols=51 Identities=10% Similarity=0.085 Sum_probs=36.9
Q ss_pred cCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCC---CCccHHHHHHHHHHHH
Q 042276 14 RGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKG---CKQDAFSHSILINGGS 66 (71)
Q Consensus 14 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g---~~p~~~~~~~li~~~~ 66 (71)
..-.|-..+|.-|+.+.+. ..+.|..+|+-+...+ ......+|..+...+.
T Consensus 490 ~~~~~l~~af~~ML~sLs~--g~~~A~~a~~~L~~~~~~~~~~~~~SW~~if~~L~ 543 (1691)
T PF11894_consen 490 RNPSPLVSAFLEMLASLSS--GPECASAAFNFLKDNSGKGRRSSSVSWDQIFQSLQ 543 (1691)
T ss_pred cCCchhHHHHHHHHHHHcC--ChHHHHHHHHHHhhcccCCCCCCcccHHHHHHHHH
Confidence 4445567788888888776 5688888888887665 3345788888887764
No 459
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=27.22 E-value=43 Score=15.81 Aligned_cols=20 Identities=15% Similarity=0.305 Sum_probs=14.9
Q ss_pred HHhcCCHHHHHHHHHHHhhC
Q 042276 30 FCLADRFDRARELLVSMGSK 49 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~~ 49 (71)
+.+..+.++|.++.++|+..
T Consensus 37 l~~~~~~~eA~eiVrklQ~e 56 (68)
T PF09082_consen 37 LARAENAEEASEIVRKLQEE 56 (68)
T ss_dssp BS--SSHHHHHHHHHHHSS-
T ss_pred EEecCCHHHHHHHHHHHHHH
Confidence 45678999999999999754
No 460
>COG5053 CDC33 Translation initiation factor 4E (eIF-4E) [Translation, ribosomal structure and biogenesis]
Probab=27.16 E-value=1.4e+02 Score=17.37 Aligned_cols=46 Identities=7% Similarity=0.101 Sum_probs=39.5
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHH
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILING 64 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~ 64 (71)
....|+-++..-+...-.++-+-+++.....+..|-...|+..-++
T Consensus 54 g~esw~dlLk~I~tf~Tveefwyi~~~I~~a~~lprksdynvFreG 99 (217)
T COG5053 54 GLESWSDLLKSIITFETVEEFWYILHNISDASRLPRKSDYNVFREG 99 (217)
T ss_pred chhHHHHHHhhheeeecHHHHHHHHhcCCcccccchhhhHHHHHcC
Confidence 4566999999999999999999999999999888888888876544
No 461
>PF01846 FF: FF domain; InterPro: IPR002713 The FF domain may be involved in protein-protein interaction []. It often occurs as multiple copies and often accompanies WW domains IPR001202 from INTERPRO. PRP40 from yeast encodes a novel, essential splicing component that associates with the yeast U1 small nuclear ribonucleoprotein particle [].; PDB: 3HFH_B 2KIS_A 2DOD_A 2JUC_A 2LKS_A 1UZC_A 2KZG_A 2L9V_A 2DOF_A 2KFD_A ....
Probab=27.14 E-value=63 Score=13.56 Aligned_cols=26 Identities=12% Similarity=0.207 Sum_probs=11.3
Q ss_pred HHHHHHHHHh-cCCCcCHHHHHHHHHHH
Q 042276 4 ANGLAELMIQ-RGVNPDTSTCNALMDGF 30 (71)
Q Consensus 4 a~~~~~~m~~-~~~~p~~~~~~~li~~~ 30 (71)
|..-|.+|.. ..+.|+ .+|..+...+
T Consensus 2 a~~~F~~lL~e~~i~~~-s~W~~~~~~l 28 (51)
T PF01846_consen 2 AREAFKELLKEHKITPY-SSWEEVKPKL 28 (51)
T ss_dssp HHHHHHHHHHHTTS-TT-SSHHHHHHHH
T ss_pred HHHHHHHHHHhCCCCCC-CcHHHHHHHH
Confidence 4455555543 333332 3555444444
No 462
>PF13495 Phage_int_SAM_4: Phage integrase, N-terminal SAM-like domain; PDB: 2A3V_A.
Probab=26.93 E-value=78 Score=14.54 Aligned_cols=49 Identities=10% Similarity=0.129 Sum_probs=30.3
Q ss_pred HHHHHHHhcCCCc-CHHHHHHHHHHHHhcC--------CHHHHHHHHHHHh-hCCCCcc
Q 042276 6 GLAELMIQRGVNP-DTSTCNALMDGFCLAD--------RFDRARELLVSMG-SKGCKQD 54 (71)
Q Consensus 6 ~~~~~m~~~~~~p-~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~-~~g~~p~ 54 (71)
+....|...|..| +..+|..-+..+.+.= ..+.....+..+. +.|+.|+
T Consensus 4 ~f~~~l~~~~~s~~Ti~~Y~~~l~~f~~~~~~~~~~~it~~~i~~y~~~l~~~~~~s~~ 62 (85)
T PF13495_consen 4 EFLEYLRLKGLSEKTIKNYRYHLKRFLRFLGNKPPDEITPEDIEQYLNYLQNERGLSPS 62 (85)
T ss_dssp HHHHHHHHTT--HHHHHHHHHHHHHHHTTSSS--GGG--HHHHHHHHHHHHTTT---HH
T ss_pred HHHHHHHHcCCCHHHHHHHHHHHHHHHHHcccCccchhHHHHHHHHHHHHHHhcCCCHH
Confidence 4566777788888 6788888888877532 2445777888887 6666553
No 463
>PRK00805 putative deoxyhypusine synthase; Provisional
Probab=26.73 E-value=1.3e+02 Score=18.69 Aligned_cols=26 Identities=12% Similarity=0.227 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhc----CCHHHHHHHHHHHh
Q 042276 22 TCNALMDGFCLA----DRFDRARELLVSMG 47 (71)
Q Consensus 22 ~~~~li~~~~~~----g~~~~a~~~~~~m~ 47 (71)
++..+++.|.+. +++.+|.+++++|.
T Consensus 13 ~~~~lv~~~~~~gF~A~~l~~A~~i~~~Ml 42 (329)
T PRK00805 13 SISELLDAMADTGFQGRKLGESVRVWTEML 42 (329)
T ss_pred CHHHHHHHHHHhCccHHHHHHHHHHHHHHH
Confidence 788888888864 48888999999996
No 464
>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=26.57 E-value=1.9e+02 Score=18.78 Aligned_cols=41 Identities=15% Similarity=0.088 Sum_probs=27.6
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHH
Q 042276 25 ALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 25 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
.+-.+-...+.+.++++-|+.+...+ +|.......++..|.
T Consensus 61 vly~a~~hi~~L~~~Le~~d~~~~~~-~~~~~~~~~v~~~c~ 101 (445)
T PF10428_consen 61 VLYNANSHIDQLVEALERFDSSSRED-EPSPRVNENVIRACQ 101 (445)
T ss_pred HHhhHHhhHHHHHHHHHHHhcccccC-CcchhhHHHHHHHHH
Confidence 33344445667778888888887776 677666666666664
No 465
>PF05119 Terminase_4: Phage terminase, small subunit; InterPro: IPR006448 This entry is represented by Streptococcus phage 7201, Orf21. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This group of sequences describe the distinct family of phage (and integrated prophage) putative terminase small subunit sequnces. Members tend to be encoded by the gene adjacent to the phage terminase large subunit gene.
Probab=26.45 E-value=89 Score=15.06 Aligned_cols=30 Identities=17% Similarity=0.245 Sum_probs=18.2
Q ss_pred CcCHHHHHHHHHHHHh-cCCHHHHHHHHHHH
Q 042276 17 NPDTSTCNALMDGFCL-ADRFDRARELLVSM 46 (71)
Q Consensus 17 ~p~~~~~~~li~~~~~-~g~~~~a~~~~~~m 46 (71)
..-......+|..||. ...+.++.+.+.+.
T Consensus 16 ~~l~~~D~~~l~~yc~~~~~~~~~~~~l~~~ 46 (100)
T PF05119_consen 16 GILSNLDVPLLERYCEAYSRYREAEKELKKE 46 (100)
T ss_pred CCCcHhHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3345566677777775 45666666665553
No 466
>TIGR02530 flg_new flagellar operon protein. Members of this family are found in a subset of bacterial flagellar operons, generally between genes designated flgD and flgE, in species as diverse as Bacillus halodurans and various other Firmicutes, Geobacter sulfurreducens, and Bdellovibrio bacteriovorus. The specific molecular function is unknown.
Probab=26.43 E-value=1e+02 Score=15.63 Aligned_cols=31 Identities=10% Similarity=0.068 Sum_probs=21.2
Q ss_pred HHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 39 ARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 39 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
.--..++|.++|+..+...|.-+-++.-++.
T Consensus 18 SkHA~~RL~~R~I~l~~~~~~~i~~av~~A~ 48 (96)
T TIGR02530 18 SKHALERMRERNISINPDDWKKLLEAVEEAE 48 (96)
T ss_pred cHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 3445567778888888888877777665443
No 467
>PF05734 DUF832: Herpesvirus protein of unknown function (DUF832); InterPro: IPR008550 This entry contains BRRF2 from Epstein-Barr virus. This protein family is restricted to the gammaherpesvirus's; it's function is not known. The protein is phosphorylated and is associated with the viral tegument [].
Probab=26.22 E-value=1.5e+02 Score=17.50 Aligned_cols=30 Identities=7% Similarity=0.102 Sum_probs=26.7
Q ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 19 DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 19 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
+...|+.+++.|...+++..+...+++.-.
T Consensus 14 ~~~~w~~i~~~F~~~~~v~~~~~~l~r~f~ 43 (228)
T PF05734_consen 14 NEEEWRNILSNFSTHGNVSATLRSLRRIFK 43 (228)
T ss_pred hHHHHHHHHHHhhcCCCHHHHHHHHHHHhc
Confidence 678899999999999999999988887765
No 468
>PF09384 UTP15_C: UTP15 C terminal; InterPro: IPR018983 This entry represents the C-terminal domain of the U3 small nucleolar RNA-associated protein 15 (UTP15). This protein is involved in nucleolar processing of pre-18S ribosomal RNA, and is required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs). UTP15 is a component of the ribosomal small subunit (SSU) processome, which is a large ribonucleoprotein (RNP) required for processing of precursors to the small subunit RNA, the 18S, of the ribosome [, ]. This domain is found C-terminal to the WD40 repeat (IPR001680 from INTERPRO). UTP15 associates with U3 snoRNA, which is ubiquitous in eukaryotes and is required for nucleolar processing of pre-18S ribosomal RNA []. ; GO: 0006364 rRNA processing, 0005730 nucleolus
Probab=26.05 E-value=1.2e+02 Score=16.30 Aligned_cols=47 Identities=11% Similarity=-0.008 Sum_probs=27.2
Q ss_pred HHHHHHHHHHH-hcCCHHHHHHHHHHHhhCCC------CccHHHHHHHHHHHHh
Q 042276 21 STCNALMDGFC-LADRFDRARELLVSMGSKGC------KQDAFSHSILINGGSA 67 (71)
Q Consensus 21 ~~~~~li~~~~-~~g~~~~a~~~~~~m~~~g~------~p~~~~~~~li~~~~~ 67 (71)
+-|...++... ....++....+++++..+|- .-|..+...+++.+++
T Consensus 32 F~y~~ALD~aL~~~~~p~~~vavl~EL~~R~~L~~AL~~Rde~~L~piL~Fl~k 85 (148)
T PF09384_consen 32 FRYKKALDAALVKNKSPEVVVAVLEELIRRGALRAALAGRDEESLEPILKFLIK 85 (148)
T ss_pred CCHHHHHHHHHhcCCChHHHHHHHHHHHHccHHHHHHHhCCHHHHHHHHHHHHH
Confidence 33555555555 66677777777777776651 2344555555554443
No 469
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=26.05 E-value=1.5e+02 Score=18.62 Aligned_cols=43 Identities=12% Similarity=0.030 Sum_probs=30.0
Q ss_pred HHHHhcCCHHHHHHHHHHHhhCCCCccHHHH-------HHHHHHHHhccc
Q 042276 28 DGFCLADRFDRARELLVSMGSKGCKQDAFSH-------SILINGGSARIR 70 (71)
Q Consensus 28 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-------~~li~~~~~~~~ 70 (71)
+-..+..++++|+..+.+....|...|..+. .-+.+.|.+.|+
T Consensus 11 ~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~ 60 (421)
T COG5159 11 NNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGD 60 (421)
T ss_pred HHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCC
Confidence 3455778999999999999888877666543 345555555554
No 470
>cd08790 DED_DEDD Death Effector Domain of DEDD. Death Effector Domain (DED) found in DEDD. DEDD has been shown to block mitotic progression by inhibiting Cdk1 and to be involved in regulating the insulin signaling cascade. DEDD can bind to itself, to DEDD2, and to the two tandem DED-containing caspases, caspase-8 and -10. In general, 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-association or heterodimers by associating with other members of the DD superfamily including PYRIN and CARD (Caspase activation and recruitment domain). They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=26.03 E-value=1e+02 Score=15.63 Aligned_cols=22 Identities=14% Similarity=0.247 Sum_probs=14.9
Q ss_pred HhcCCHHHHHHHHHHHhhCCCC
Q 042276 31 CLADRFDRARELLVSMGSKGCK 52 (71)
Q Consensus 31 ~~~g~~~~a~~~~~~m~~~g~~ 52 (71)
.+..++..|.++|..+.+.|..
T Consensus 35 ~~~e~i~s~~~Lf~~Lee~gll 56 (97)
T cd08790 35 YERGLIRSGRDFLLALERQGRC 56 (97)
T ss_pred hhccCcCcHHHHHHHHHHcCCC
Confidence 4455677777777777777643
No 471
>PF02361 CbiQ: Cobalt transport protein; InterPro: IPR003339 Cobalt transport proteins are most often found in cobalamin (vitamin B12) biosynthesis operons. Salmonella typhimurium synthesizes cobalamin (vitamin B12) de novo under anaerobic conditions. Not all Salmonella and Pseudomonas cobalamin synthetic genes have apparent homologs in the other species suggesting that the cobalamin biosynthetic pathways differ between the two organisms [].; GO: 0015087 cobalt ion transmembrane transporter activity, 0006824 cobalt ion transport, 0009236 cobalamin biosynthetic process
Probab=25.76 E-value=1.3e+02 Score=16.64 Aligned_cols=51 Identities=24% Similarity=0.281 Sum_probs=33.8
Q ss_pred hHHHHHHHHHHhcCCCc---CH----HHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCc
Q 042276 2 DEANGLAELMIQRGVNP---DT----STCNALMDGFCLADRFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p---~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p 53 (71)
++..++.+.++.+|..+ +. .++-.++-... ..-.+.|+++-..|..+|...
T Consensus 160 ~~~~~i~~A~~~Rg~~~~~~~~~~~~~~~~~~~~pll-~~al~~a~~la~Am~~RGf~~ 217 (224)
T PF02361_consen 160 EEFKRIREAQRLRGVGIGRGGIRNRLRSLGPLLVPLL-IRALRRAEELAEAMEARGFGG 217 (224)
T ss_pred HHHHHHHHHHHHcCCCccCCcHhHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCCC
Confidence 46667777778888887 22 22222322222 337889999999999998765
No 472
>PF14162 YozD: YozD-like protein
Probab=25.62 E-value=79 Score=14.14 Aligned_cols=18 Identities=11% Similarity=0.034 Sum_probs=11.6
Q ss_pred HHHHHHHHhhCCCCccHH
Q 042276 39 ARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 39 a~~~~~~m~~~g~~p~~~ 56 (71)
|.-.|.++.++|..|+..
T Consensus 14 AefFy~eL~kRGyvP~e~ 31 (57)
T PF14162_consen 14 AEFFYHELVKRGYVPTEE 31 (57)
T ss_pred HHHHHHHHHHccCCCcHH
Confidence 555667777777777653
No 473
>COG2979 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.60 E-value=1.5e+02 Score=17.40 Aligned_cols=38 Identities=11% Similarity=0.214 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHhcCCHHHHHH--HHHHHhhCCCCccHHHH
Q 042276 21 STCNALMDGFCLADRFDRARE--LLVSMGSKGCKQDAFSH 58 (71)
Q Consensus 21 ~~~~~li~~~~~~g~~~~a~~--~~~~m~~~g~~p~~~~~ 58 (71)
....+||.+....|.+|+.++ +-.+..+.|..|....|
T Consensus 112 ~ll~AmIaAAkaDGhIDe~ERa~I~~~l~esG~d~e~~~~ 151 (225)
T COG2979 112 TLLRAMIAAAKADGHIDEKERARIMQKLQESGVDPEAQAF 151 (225)
T ss_pred HHHHHHHHHHhhcCCcCHHHHHHHHHHHHHcCCCHHHHHH
Confidence 345567777777888888776 66667778877766554
No 474
>KOG4555 consensus TPR repeat-containing protein [Function unknown]
Probab=25.60 E-value=1.3e+02 Score=16.61 Aligned_cols=45 Identities=20% Similarity=0.099 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHhcCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 2 DEANGLAELMIQRGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
+.|.+.|.+-.. +.| ....||-=-.++--.|+.++|++=+.+..+
T Consensus 60 d~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~Ale 105 (175)
T KOG4555|consen 60 DGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALE 105 (175)
T ss_pred HHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHH
Confidence 456666665543 244 677788888888888888888877666654
No 475
>PF13034 DUF3895: Protein of unknown function (DUF3895)
Probab=25.52 E-value=96 Score=15.08 Aligned_cols=31 Identities=16% Similarity=0.176 Sum_probs=24.6
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHHhhCCCCcc
Q 042276 24 NALMDGFCLADRFDRARELLVSMGSKGCKQD 54 (71)
Q Consensus 24 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~ 54 (71)
-.+|..|.+.+..-.|.++-+.+.++|--||
T Consensus 6 ~~~i~~yi~n~~~Isa~elcE~LI~~~~~~~ 36 (78)
T PF13034_consen 6 KEFINWYIQNEEEISARELCEYLIENGGSPN 36 (78)
T ss_pred HHHHHHHHhccccccHHHHHHHHHHcCCCcc
Confidence 3567778888888889999999988876655
No 476
>cd04934 ACT_AK-Hom3_1 CT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydro
Probab=25.51 E-value=75 Score=14.77 Aligned_cols=24 Identities=4% Similarity=-0.040 Sum_probs=17.4
Q ss_pred cCCHHHHHHHHHHHhhCCCCccHH
Q 042276 33 ADRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 33 ~g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
.+.+.-+.++|+.+.+.|+.+|..
T Consensus 12 ~~~~g~~~~If~~la~~~I~vd~I 35 (73)
T cd04934 12 SLSHGFLARIFAILDKYRLSVDLI 35 (73)
T ss_pred ccccCHHHHHHHHHHHcCCcEEEE
Confidence 455667778888888888776654
No 477
>PF05089 NAGLU: Alpha-N-acetylglucosaminidase (NAGLU) tim-barrel domain; InterPro: IPR024733 Alpha-N-acetylglucosaminidase is a lysosomal enzyme that is required for the stepwise degradation of heparan sulphate []. Mutations on the alpha-N-acetylglucosaminidase gene can lead to mucopolysaccharidosis type IIIB (MPS IIIB; or Sanfilippo syndrome type B), characterised by neurological dysfunction but relatively mild somatic manifestations []. Alpha-N-acetylglucosaminidase is composed of three domains. This entry represents the central domain, which has a tim barrel fold [].; PDB: 4A4A_A 2VC9_A 2VCC_A 2VCB_A 2VCA_A.
Probab=25.49 E-value=38 Score=21.01 Aligned_cols=19 Identities=16% Similarity=0.249 Sum_probs=14.9
Q ss_pred CHHHHHHHHHHHhhCCCCc
Q 042276 35 RFDRARELLVSMGSKGCKQ 53 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~~p 53 (71)
+.+-..+++++|++.|+.|
T Consensus 93 q~~Lq~kIl~RmreLGm~P 111 (333)
T PF05089_consen 93 QAELQKKILDRMRELGMTP 111 (333)
T ss_dssp HHHHHHHHHHHHHHHT-EE
T ss_pred HHHHHHHHHHHHHHcCCcc
Confidence 5566888999999988776
No 478
>cd00927 Cyt_c_Oxidase_VIc Cytochrome c oxidase subunit VIc. 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. The VIc subunit is found only in eukaryotes and its specific function remains unclear. It has been reported that the relative concentrations of some nuclear encoded CcO subunits, including subunit VIc, compared to those of the mitochondrial encoded subunits, are altered significantly during the progression of prostate cancer.
Probab=25.36 E-value=52 Score=15.64 Aligned_cols=14 Identities=21% Similarity=0.064 Sum_probs=11.3
Q ss_pred HHHHHHHHhhCCCC
Q 042276 39 ARELLVSMGSKGCK 52 (71)
Q Consensus 39 a~~~~~~m~~~g~~ 52 (71)
+.+-|++|++.|+-
T Consensus 54 ~~kdFerM~~~G~f 67 (70)
T cd00927 54 AMKDFERMRKAGLF 67 (70)
T ss_pred hHHHHHHHHHcCCc
Confidence 67789999988864
No 479
>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]
Probab=25.25 E-value=2.1e+02 Score=19.05 Aligned_cols=55 Identities=22% Similarity=0.192 Sum_probs=35.9
Q ss_pred hHHHHHHHHHHhcCCCcCHHHHHHHHHH--------------HHhcCCHHHHHHHHHHHhhCCCCccHHHH
Q 042276 2 DEANGLAELMIQRGVNPDTSTCNALMDG--------------FCLADRFDRARELLVSMGSKGCKQDAFSH 58 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p~~~~~~~li~~--------------~~~~g~~~~a~~~~~~m~~~g~~p~~~~~ 58 (71)
.++..++++....+- ..++...+.++ ..-.++..+++..++++.+.|..|....-
T Consensus 215 RDalslLDq~i~~~~--~~It~~~v~~~lG~~~~~~~~~~~~~i~~~d~~~~~~~~~~l~~~G~~~~~~l~ 283 (515)
T COG2812 215 RDALSLLDQAIAFGE--GEITLESVRDMLGLTDIEKLLSLLEAILKGDAKEALRLINELIEEGKDPEAFLE 283 (515)
T ss_pred hhHHHHHHHHHHccC--CcccHHHHHHHhCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcCHHHHHH
Confidence 467788888876542 22233222222 22367899999999999999988876543
No 480
>PF11426 Tn7_TnsC_Int: Tn7 transposition regulator TnsC; InterPro: IPR021542 TnsC is a molecular switch that regulates transposition and interacts with TnsA which is a component of the transposase. The two proteins interact via the residues 504-555 on TnsC. The TnsA/TnsC interaction is very important in Tn7 transposition []. ; PDB: 1T0F_C.
Probab=25.21 E-value=76 Score=13.85 Aligned_cols=18 Identities=11% Similarity=0.069 Sum_probs=10.6
Q ss_pred HHHHHHhhCCCCccHHHH
Q 042276 41 ELLVSMGSKGCKQDAFSH 58 (71)
Q Consensus 41 ~~~~~m~~~g~~p~~~~~ 58 (71)
.+++.+...|...|...|
T Consensus 26 ~~y~~Lk~~Glifdl~~~ 43 (48)
T PF11426_consen 26 SVYEALKQNGLIFDLEDW 43 (48)
T ss_dssp -HHHHHHHTTSB--HHHH
T ss_pred HHHHHHHHCCeeeeHHHH
Confidence 677788888877665543
No 481
>cd00904 Ferritin Ferritin iron storage proteins. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Bacterial non-heme ferritins are composed only of H chains. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary rol
Probab=24.61 E-value=1.3e+02 Score=16.22 Aligned_cols=17 Identities=18% Similarity=0.212 Sum_probs=11.6
Q ss_pred hHHHHHHHHHHhcCCCc
Q 042276 2 DEANGLAELMIQRGVNP 18 (71)
Q Consensus 2 ~~a~~~~~~m~~~~~~p 18 (71)
+.|..+++.+..+|..|
T Consensus 52 ~HA~~l~~yi~~rgg~~ 68 (160)
T cd00904 52 EHAEKFYKYQNERGGRV 68 (160)
T ss_pred HHHHHHHHHHHHCCCcc
Confidence 35677777777777655
No 482
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=24.59 E-value=63 Score=14.41 Aligned_cols=18 Identities=28% Similarity=0.636 Sum_probs=13.9
Q ss_pred HHhcCCHHHHHHHHHHHh
Q 042276 30 FCLADRFDRARELLVSMG 47 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~ 47 (71)
+....++++|.++++++.
T Consensus 49 ~V~~~d~~~A~~il~~~~ 66 (67)
T PF09413_consen 49 YVPEEDYERAREILEEFE 66 (67)
T ss_dssp EEEGGGHHHHHHHHHHTT
T ss_pred EECHHHHHHHHHHHHHhc
Confidence 445678999999998865
No 483
>PF01175 Urocanase: Urocanase; InterPro: IPR023637 Urocanase [] (also known as imidazolonepropionate hydrolase or urocanate hydratase) is the enzyme that catalyzes the second step in the degradation of histidine, the hydration of urocanate into imidazolonepropionate. urocanate + H2O = 4,5-dihydro-4-oxo-5-imidazolepropanoate Urocanase is found in some bacteria (gene hutU), in the liver of many vertebrates and has also been found in the plant Trifolium repens (white clover). Urocanase is a protein of about 60 Kd, it binds tightly to NAD+ and uses it as an electrophil cofactor. A conserved cysteine has been found to be important for the catalytic mechanism and could be involved in the binding of the NAD+. This enzyme is a symmetric homodimer with tightly bound NAD+ cofactors. Each subunit consists of a typical NAD-binding domain inserted into a larger core domain that forms the dimer interface []. This entry represents the Urocanase subunit structural domain.; GO: 0016153 urocanate hydratase activity; PDB: 2V7G_A 1UWK_A 1UWL_B 1W1U_B 2FKN_C 1X87_B.
Probab=24.52 E-value=46 Score=22.05 Aligned_cols=41 Identities=32% Similarity=0.558 Sum_probs=21.7
Q ss_pred HHHHHHHHHHhcCCCcCHH----HHHHHHHHHHhcC-CHHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDTS----TCNALMDGFCLAD-RFDRARELL 43 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~----~~~~li~~~~~~g-~~~~a~~~~ 43 (71)
.+..+|+++.++|+.||.. +-+..+.+|.=.| .++++.++.
T Consensus 233 N~ad~~~~l~~~~i~pDl~tDQTS~Hdp~~GY~P~g~t~eea~~l~ 278 (546)
T PF01175_consen 233 NAADLWEELVERGIIPDLVTDQTSAHDPLNGYYPAGLTFEEANELR 278 (546)
T ss_dssp -HHHHHHHHHHTT---SEE---SSTT-TTTS---TT--HHHHHHHH
T ss_pred cHHHHHHHHHHcCCCCCcccCCCccccccccCCCCCCCHHHHHHHH
Confidence 4678999999999998543 4445555777666 566665553
No 484
>cd04935 ACT_AKiii-DAPDC_1 ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. This CD includes the first of two ACT domains of a bifunctional AKIII (LysC)-like aspartokinase/meso-diaminopimelate decarboxylase (DAPDC) bacterial protein. Aspartokinase (AK) is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The lysA gene encodes the enzyme DAPDC, a pyridoxal-5'-phosphate (PLP)-dependent enzyme which catalyzes the final step in the lysine biosynthetic pathway converting meso-diaminopimelic acid (DAP) to l-lysine. Tandem ACT domains are positioned centrally with the AK catalytic domain N-terminal and the DAPDC domains C-terminal. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.48 E-value=75 Score=14.80 Aligned_cols=23 Identities=9% Similarity=0.214 Sum_probs=16.4
Q ss_pred CCHHHHHHHHHHHhhCCCCccHH
Q 042276 34 DRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
+.+.-+.++|+.+.+.|+.+|..
T Consensus 13 ~~~g~~~~IF~~La~~~I~vDmI 35 (75)
T cd04935 13 QQVGFLADVFAPFKKHGVSVDLV 35 (75)
T ss_pred CccCHHHHHHHHHHHcCCcEEEE
Confidence 44566778888888888776654
No 485
>PF14430 Imm1: Immunity protein Imm1
Probab=24.46 E-value=52 Score=17.03 Aligned_cols=18 Identities=22% Similarity=0.348 Sum_probs=7.5
Q ss_pred HHHHHHHHHhcCCCcCHH
Q 042276 4 ANGLAELMIQRGVNPDTS 21 (71)
Q Consensus 4 a~~~~~~m~~~~~~p~~~ 21 (71)
+.+...+..+.|-+|+.+
T Consensus 105 ~~~A~~eF~~tg~rP~~v 122 (127)
T PF14430_consen 105 ARQALREFLATGARPDCV 122 (127)
T ss_pred HHHHHHHHHHhCCCCCCc
Confidence 344444444444444433
No 486
>cd04933 ACT_AK1-AT_1 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the first of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine. This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. Like the Escherichia coli AKIII (LysC), Arabidopsis AK1 binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. A loop in common is involved in the binding of both Lys and S-adenosylmethionine providing an explanation for the synergistic inhibition by these effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.43 E-value=77 Score=15.07 Aligned_cols=23 Identities=9% Similarity=0.193 Sum_probs=17.1
Q ss_pred CCHHHHHHHHHHHhhCCCCccHH
Q 042276 34 DRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
+.+.-+.++|+.+.+.|+.+|..
T Consensus 13 ~~~g~~a~IF~~La~~~InVDmI 35 (78)
T cd04933 13 GQYGFLAKVFSIFETLGISVDVV 35 (78)
T ss_pred CccCHHHHHHHHHHHcCCcEEEE
Confidence 45566788888888888777654
No 487
>smart00031 DED Death effector domain.
Probab=24.33 E-value=95 Score=14.66 Aligned_cols=16 Identities=13% Similarity=0.301 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHhhCCC
Q 042276 36 FDRARELLVSMGSKGC 51 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~ 51 (71)
...+.++|..|.+.|.
T Consensus 37 ~~~~ldlf~~Le~~~~ 52 (79)
T smart00031 37 IKTFLDLFSALEEQGL 52 (79)
T ss_pred cCCHHHHHHHHHHcCC
Confidence 4678999999988763
No 488
>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=24.28 E-value=1.6e+02 Score=17.21 Aligned_cols=46 Identities=13% Similarity=0.022 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHhcC---CHHHHHHH---------HHHHhhCCCCccHHHHHHHHHHHH
Q 042276 21 STCNALMDGFCLAD---RFDRAREL---------LVSMGSKGCKQDAFSHSILINGGS 66 (71)
Q Consensus 21 ~~~~~li~~~~~~g---~~~~a~~~---------~~~m~~~g~~p~~~~~~~li~~~~ 66 (71)
.+.++++++|++.+ +-..|... ++.+......|+..-....|++|.
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 45667788888643 22233332 333333344577777777777764
No 489
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.26 E-value=2.5e+02 Score=19.38 Aligned_cols=38 Identities=13% Similarity=-0.053 Sum_probs=31.1
Q ss_pred HHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhc
Q 042276 30 FCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSAR 68 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~ 68 (71)
-.+.|+-++|..+++++.+.. .+|..+...++.+|++.
T Consensus 468 ~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~ 505 (652)
T KOG2376|consen 468 KLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL 505 (652)
T ss_pred HHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc
Confidence 346799999999999998742 57889999999998863
No 490
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=24.19 E-value=2.8e+02 Score=20.04 Aligned_cols=45 Identities=11% Similarity=0.135 Sum_probs=33.8
Q ss_pred cCCCc-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHH
Q 042276 14 RGVNP-DTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSI 60 (71)
Q Consensus 14 ~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ 60 (71)
.+..| +...|-.|+..+-..+++++|.++.+.-.+. .|+...+--
T Consensus 24 ~~~~p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy 69 (906)
T PRK14720 24 NNYSLSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALY 69 (906)
T ss_pred ccCCcchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHH
Confidence 45566 6888999999999999999999999866544 455544333
No 491
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=24.14 E-value=1.1e+02 Score=15.36 Aligned_cols=11 Identities=18% Similarity=0.280 Sum_probs=4.5
Q ss_pred HHHHHHHHHHh
Q 042276 37 DRARELLVSMG 47 (71)
Q Consensus 37 ~~a~~~~~~m~ 47 (71)
-.+.++.+.+.
T Consensus 18 ~t~~eI~~~l~ 28 (115)
T PF03965_consen 18 ATVREIHEALP 28 (115)
T ss_dssp EEHHHHHHHHC
T ss_pred CCHHHHHHHHH
Confidence 33444444443
No 492
>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=23.87 E-value=24 Score=20.95 Aligned_cols=25 Identities=28% Similarity=0.252 Sum_probs=16.9
Q ss_pred CHHHHHHHHHHHhhCCCCccHHHHH
Q 042276 35 RFDRARELLVSMGSKGCKQDAFSHS 59 (71)
Q Consensus 35 ~~~~a~~~~~~m~~~g~~p~~~~~~ 59 (71)
.+..+.++++.|.++|+.|....|+
T Consensus 124 ~~~~~~~~~~~~~e~Gi~pe~ev~d 148 (272)
T PF05853_consen 124 TPADARELARRMRERGIKPEIEVFD 148 (272)
T ss_dssp -HHHHHHHHHHHHHTT-EEEEEESS
T ss_pred CHHHHHHHHHHHHHcCCeEEEEEEc
Confidence 3566778888888888887665543
No 493
>PF10073 DUF2312: Uncharacterized protein conserved in bacteria (DUF2312); InterPro: IPR018753 This entry is represented by Azospirillum phage Cd, Gp10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family of hypothetical bacterial proteins have no known function.
Probab=23.84 E-value=98 Score=14.88 Aligned_cols=24 Identities=4% Similarity=0.133 Sum_probs=15.1
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHH
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMD 28 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~ 28 (71)
+-..+|.+.+..|+++ -+...+|.
T Consensus 26 dikdVyaEAK~~GfD~--K~lr~ii~ 49 (74)
T PF10073_consen 26 DIKDVYAEAKGNGFDT--KALRQIIR 49 (74)
T ss_pred HHHHHHHHHHhCCCCH--HHHHHHHH
Confidence 4567888888887754 33444443
No 494
>TIGR03829 YokU_near_AblA uncharacterized protein, YokU family. Members of this protein family occur in various species of the genus Bacillus, always next to the gene (kamA or ablA) for lysine 2,3-aminomutase. Members have a pair of CXXC motifs, and share homology to the amino-terminal region of a family of putative transcription factors for which the C-terminal is modeled by pfam01381, a helix-turn-helix domain model. This family, however, is shorter and lacks the helix-turn-helix region. The function of this protein family is unknown, but a regulatory role in compatible solute biosynthesis is suggested by local genome context.
Probab=23.73 E-value=43 Score=16.69 Aligned_cols=26 Identities=12% Similarity=-0.003 Sum_probs=16.3
Q ss_pred HHHHHHHHh--hCCCCccHHHHHHHHHH
Q 042276 39 ARELLVSMG--SKGCKQDAFSHSILING 64 (71)
Q Consensus 39 a~~~~~~m~--~~g~~p~~~~~~~li~~ 64 (71)
+.++-+.+. ...-.|+..||..||+-
T Consensus 51 ~~eIE~~l~l~~~~~~p~~~~y~~lm~~ 78 (89)
T TIGR03829 51 VKEIEDQLLLVDTKKLPDETTYEELMKM 78 (89)
T ss_pred HHHHHhhhEEeecccCCccccHHHHhhc
Confidence 444444442 23467999999998863
No 495
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=23.54 E-value=1.1e+02 Score=14.94 Aligned_cols=33 Identities=15% Similarity=0.029 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhccc
Q 042276 36 FDRARELLVSMGSKGCKQDAFSHSILINGGSARIR 70 (71)
Q Consensus 36 ~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~~ 70 (71)
.+.+..++..-.++. ....|...|+.++-+.+|
T Consensus 44 ~~Q~~~~L~~W~~r~--g~~At~~~L~~AL~~i~R 76 (84)
T cd08805 44 LEQSTALLNLWVDRE--GENAKMSPLYPALYSIDR 76 (84)
T ss_pred HHHHHHHHHHHHHhc--CccchHHHHHHHHHHCCh
Confidence 455666666665541 144556666666655544
No 496
>cd04932 ACT_AKiii-LysC-EC_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=23.50 E-value=85 Score=14.65 Aligned_cols=23 Identities=4% Similarity=-0.018 Sum_probs=16.6
Q ss_pred CCHHHHHHHHHHHhhCCCCccHH
Q 042276 34 DRFDRARELLVSMGSKGCKQDAF 56 (71)
Q Consensus 34 g~~~~a~~~~~~m~~~g~~p~~~ 56 (71)
+.+.-+.++|..+.+.|+.+|..
T Consensus 13 ~~~g~~~~IF~~La~~~I~VDmI 35 (75)
T cd04932 13 HAQGFLAKVFGILAKHNISVDLI 35 (75)
T ss_pred CCcCHHHHHHHHHHHcCCcEEEE
Confidence 45566778888888888776654
No 497
>COG2206 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]
Probab=23.49 E-value=1.9e+02 Score=17.80 Aligned_cols=36 Identities=22% Similarity=0.126 Sum_probs=25.5
Q ss_pred HHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHh
Q 042276 30 FCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSA 67 (71)
Q Consensus 30 ~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~ 67 (71)
|-+.-.+++|++.+.+ ..|...|...+..+++.+.+
T Consensus 278 Ykka~s~~~Al~~l~~--~~~~~fDp~vv~~~~~~~~~ 313 (344)
T COG2206 278 YKKAKSPEEALEELRK--NSGGKFDPKVVDAFLKALSK 313 (344)
T ss_pred CcccCCHHHHHHHHHH--hcCCCCCHHHHHHHHHHHhh
Confidence 3445566667666666 56778899999988887764
No 498
>PF11740 KfrA_N: Plasmid replication region DNA-binding N-term; InterPro: IPR021104 The KfrA family of protiens are encoded on plasmids, generally in or near gene clusters invloved in stable inheritance functions. These proteins are thought to form an all-helical structure, consisting of an N-terminal helix-turn-helix DNA binding domain and an extended coiled-coil tail. The best-characterised KfrA protein, encoded on the broad host-range Plasmid RK2, is a site-specific DNA-binding protein whose operator overlaps its own promoter. The DNA-binding domain is essential for function, while the coiled-coil domain is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning []. This entry represents the N-terminal DNA-binding domain.
Probab=23.40 E-value=1.2e+02 Score=15.27 Aligned_cols=42 Identities=10% Similarity=0.170 Sum_probs=31.1
Q ss_pred HHHHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Q 042276 3 EANGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGS 48 (71)
Q Consensus 3 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~ 48 (71)
+....-+.+...|..|++......+. .|.+......++....
T Consensus 5 ~V~~Aa~~L~~~G~~pT~~~Vr~~lG----~GS~~ti~~~l~~w~~ 46 (120)
T PF11740_consen 5 DVIEAADELLAAGKKPTVRAVRERLG----GGSMSTISKHLKEWRE 46 (120)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHC----CCCHHHHHHHHHHHHH
Confidence 44556677888999997776666664 7888888888887764
No 499
>cd01671 CARD Caspase activation and recruitment domain: a protein-protein interaction domain. Caspase activation and recruitment domains (CARDs) are death domains (DDs) found associated with caspases. Caspases are aspartate-specific cysteine proteases with functions in apoptosis, immune signaling, inflammation, and host-defense mechanisms. In addition to caspases, proteins containing CARDs include adaptor proteins such as RAIDD, CARD9, and RIG-I-like helicases, which can form mutliprotein complexes and play important roles in mediating the signals to induce immune and 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 PYRIN and DED (Death Effector Domain). They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=23.39 E-value=94 Score=14.24 Aligned_cols=57 Identities=18% Similarity=0.187 Sum_probs=33.7
Q ss_pred HHHHHHHHhcCCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhCCCCccHHHHHHHHHHHHhcc
Q 042276 5 NGLAELMIQRGVNPDTSTCNALMDGFCLADRFDRARELLVSMGSKGCKQDAFSHSILINGGSARI 69 (71)
Q Consensus 5 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~~ 69 (71)
..+++.+.++|+- +..-+.. ........+.+.++++.+..+| ..+|..++.++-+.+
T Consensus 16 ~~il~~L~~~~vl-t~~e~~~---i~~~~~~~~k~~~Lld~l~~kg----~~af~~F~~~L~~~~ 72 (80)
T cd01671 16 EDVLDHLLSDGVL-TEEEYEK---IRSESTRQDKARKLLDILPRKG----PKAFQSFLQALQETD 72 (80)
T ss_pred HHHHHHHHHcCCC-CHHHHHH---HHcCCChHHHHHHHHHHHHhcC----hHHHHHHHHHHHhcC
Confidence 4466666666433 2222222 2223346778888888888875 667777777765543
No 500
>PF07840 FadR_C: FadR C-terminal domain; InterPro: IPR008920 Bacteria regulate membrane fluidity by manipulating the relative levels of saturated and unsaturated fatty acids within the phospholipids of their membrane bilayers. In Escherichia coli, the transcription factor, FadR, functions as a switch that co-ordinately regulates the machinery required for fatty acid beta-oxidation and the expression of a key enzyme in fatty acid biosynthesis. This single repressor controls the transcription of the whole fad regulon []. Binding of fadR is specifically inhibited by long chain fatty acyl-CoA compounds. The crystal structure of FadR reveals a two domain dimeric molecule where the N-terminal winged-helix domain binds DNA (IPR000524 from INTERPRO), and the C-terminal domain binds acyl-CoA []. The binding of acyl-CoA to the C-terminal domain results in a conformational change that affects the DNA binding affinity of the N-terminal domain []. FadR is a member of the GntR family of bacterial transcription regulators. The DNA-binding domain is well conserved for this family, whereas the C-terminal effector-binding domain (IPR011711 from INTERPRO) is more variable, and is consequently used to define the GntR subfamilies []. The FadR group is the largest subgroup, and is characterised by an all-helical C-terminal domain composed of 6 to 7 alpha helices []. This entry represents the C-terminal domain of FadR.; GO: 0000062 fatty-acyl-CoA binding, 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0019217 regulation of fatty acid metabolic process; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A.
Probab=23.37 E-value=92 Score=17.33 Aligned_cols=9 Identities=11% Similarity=-0.009 Sum_probs=4.4
Q ss_pred HHHHHHHHh
Q 042276 39 ARELLVSMG 47 (71)
Q Consensus 39 a~~~~~~m~ 47 (71)
|.+.++++.
T Consensus 118 a~~fY~~L~ 126 (164)
T PF07840_consen 118 ALNFYRELL 126 (164)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 444555554
Done!