Query 042815
Match_columns 87
No_of_seqs 133 out of 1515
Neff 10.0
Searched_HMMs 46136
Date Fri Mar 29 09:46:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042815.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042815hhsearch_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 1.1E-22 2.3E-27 97.3 6.3 50 5-54 1-50 (50)
2 PLN03081 pentatricopeptide (PP 99.9 1E-21 2.2E-26 133.6 6.8 84 1-86 385-470 (697)
3 PLN03077 Protein ECB2; Provisi 99.8 2.6E-20 5.6E-25 129.0 6.9 81 4-86 551-633 (857)
4 PLN03081 pentatricopeptide (PP 99.8 3.4E-20 7.3E-25 126.2 6.8 83 1-86 284-368 (697)
5 PLN03077 Protein ECB2; Provisi 99.8 9.6E-20 2.1E-24 126.2 7.4 83 1-86 247-331 (857)
6 PLN03218 maturation of RBCL 1; 99.8 2.3E-18 5.1E-23 121.3 8.0 79 4-85 716-796 (1060)
7 PLN03218 maturation of RBCL 1; 99.8 2.3E-18 5E-23 121.3 7.8 78 5-85 470-549 (1060)
8 PF12854 PPR_1: PPR repeat 99.5 3.2E-14 6.9E-19 62.7 3.3 32 3-34 3-34 (34)
9 PF13041 PPR_2: PPR repeat fam 99.5 3.1E-14 6.7E-19 67.7 2.9 44 40-86 1-46 (50)
10 TIGR00756 PPR pentatricopeptid 99.4 1.8E-13 3.8E-18 60.0 3.9 35 8-42 1-35 (35)
11 PF13812 PPR_3: Pentatricopept 99.3 4.4E-12 9.5E-17 55.4 4.1 34 7-40 1-34 (34)
12 PF01535 PPR: PPR repeat; Int 99.2 8.8E-12 1.9E-16 53.3 3.2 31 8-38 1-31 (31)
13 PF12854 PPR_1: PPR repeat 99.2 2.4E-11 5.3E-16 53.3 3.0 32 36-67 1-34 (34)
14 KOG4422 Uncharacterized conser 98.9 4.8E-09 1E-13 68.8 5.6 79 5-86 205-320 (625)
15 TIGR00756 PPR pentatricopeptid 98.5 1.1E-07 2.4E-12 41.0 2.3 33 43-78 1-35 (35)
16 PF08579 RPM2: Mitochondrial r 98.5 9.5E-07 2.1E-11 48.5 5.9 73 11-86 29-112 (120)
17 PF13812 PPR_3: Pentatricopept 98.4 2.6E-07 5.6E-12 39.8 2.4 32 42-76 1-34 (34)
18 PF01535 PPR: PPR repeat; Int 98.2 1.8E-06 3.9E-11 36.3 2.6 27 43-69 1-29 (31)
19 KOG4422 Uncharacterized conser 98.0 4.1E-05 8.8E-10 50.9 6.5 57 4-60 270-330 (625)
20 PF06239 ECSIT: Evolutionarily 97.9 5.5E-05 1.2E-09 46.0 6.0 82 3-87 43-147 (228)
21 PF08579 RPM2: Mitochondrial r 97.8 8.2E-05 1.8E-09 41.0 5.0 54 2-55 56-117 (120)
22 PF10037 MRP-S27: Mitochondria 97.8 5.5E-05 1.2E-09 50.1 5.1 61 9-69 105-167 (429)
23 PF06239 ECSIT: Evolutionarily 97.6 0.00024 5.2E-09 43.3 5.6 57 4-60 84-156 (228)
24 PF12921 ATP13: Mitochondrial 97.6 0.00056 1.2E-08 38.3 6.5 78 6-85 1-95 (126)
25 PRK11788 tetratricopeptide rep 97.5 0.00037 8E-09 44.9 5.9 57 9-67 251-309 (389)
26 KOG4318 Bicoid mRNA stability 97.4 0.0001 2.2E-09 52.5 2.3 50 4-54 22-71 (1088)
27 PRK11788 tetratricopeptide rep 97.4 0.0006 1.3E-08 43.9 5.7 70 5-79 280-354 (389)
28 PF10037 MRP-S27: Mitochondria 97.1 0.0015 3.3E-08 43.5 5.1 51 5-55 136-186 (429)
29 PF14559 TPR_19: Tetratricopep 97.0 0.0047 1E-07 30.2 5.2 51 18-69 2-54 (68)
30 PF03704 BTAD: Bacterial trans 96.9 0.0089 1.9E-07 33.7 6.7 71 9-80 64-138 (146)
31 KOG4318 Bicoid mRNA stability 96.6 0.0074 1.6E-07 43.5 5.7 73 4-82 201-275 (1088)
32 PF12921 ATP13: Mitochondrial 96.5 0.021 4.6E-07 32.0 6.2 56 4-59 49-105 (126)
33 KOG3941 Intermediate in Toll s 96.4 0.02 4.3E-07 36.8 6.1 79 4-85 64-165 (406)
34 TIGR02917 PEP_TPR_lipo putativ 96.4 0.019 4.2E-07 39.9 6.6 51 9-60 839-889 (899)
35 PF13176 TPR_7: Tetratricopept 96.0 0.024 5.3E-07 24.5 3.8 26 9-34 1-26 (36)
36 TIGR02917 PEP_TPR_lipo putativ 95.9 0.06 1.3E-06 37.6 7.0 53 7-60 601-653 (899)
37 PF13428 TPR_14: Tetratricopep 95.8 0.039 8.4E-07 24.9 4.0 28 9-36 3-30 (44)
38 PF13432 TPR_16: Tetratricopep 95.6 0.071 1.5E-06 25.7 4.8 53 14-68 4-59 (65)
39 KOG2003 TPR repeat-containing 95.5 0.094 2E-06 35.9 6.6 58 2-60 654-712 (840)
40 PF03704 BTAD: Bacterial trans 95.5 0.038 8.3E-07 31.1 4.2 41 5-45 94-139 (146)
41 PF13374 TPR_10: Tetratricopep 95.3 0.073 1.6E-06 23.1 4.0 29 7-35 2-30 (42)
42 PRK15359 type III secretion sy 95.0 0.23 4.9E-06 28.2 6.4 62 5-67 56-119 (144)
43 PF13424 TPR_12: Tetratricopep 94.7 0.099 2.1E-06 26.1 4.0 59 8-66 6-72 (78)
44 PF13414 TPR_11: TPR repeat; P 94.7 0.23 4.9E-06 24.1 5.9 59 6-66 2-64 (69)
45 PF14559 TPR_19: Tetratricopep 94.5 0.11 2.4E-06 25.1 3.9 42 6-49 24-65 (68)
46 cd00189 TPR Tetratricopeptide 94.3 0.28 6.1E-06 23.8 5.6 57 10-67 3-61 (100)
47 PF11663 Toxin_YhaV: Toxin wit 94.2 0.1 2.3E-06 29.7 3.6 33 19-53 107-139 (140)
48 PF13429 TPR_15: Tetratricopep 94.2 0.28 6.1E-06 30.5 5.9 61 5-67 144-207 (280)
49 KOG3941 Intermediate in Toll s 94.0 0.26 5.5E-06 31.9 5.4 57 4-60 104-176 (406)
50 PLN03098 LPA1 LOW PSII ACCUMUL 93.6 0.65 1.4E-05 31.6 7.0 62 5-68 73-140 (453)
51 TIGR02552 LcrH_SycD type III s 93.5 0.45 9.7E-06 26.0 5.4 60 7-67 17-78 (135)
52 cd00189 TPR Tetratricopeptide 93.5 0.43 9.3E-06 23.1 5.8 61 6-67 33-95 (100)
53 PRK10564 maltose regulon perip 93.3 0.26 5.7E-06 31.7 4.6 42 9-50 259-300 (303)
54 COG3629 DnrI DNA-binding trans 93.2 0.77 1.7E-05 29.3 6.5 73 9-82 155-231 (280)
55 TIGR02552 LcrH_SycD type III s 93.1 0.8 1.7E-05 25.0 7.4 64 5-69 49-114 (135)
56 PF12895 Apc3: Anaphase-promot 92.9 0.13 2.9E-06 26.1 2.5 52 7-60 25-76 (84)
57 COG3629 DnrI DNA-binding trans 92.9 0.81 1.8E-05 29.2 6.3 51 4-54 184-239 (280)
58 PF14689 SPOB_a: Sensor_kinase 92.8 0.21 4.5E-06 24.5 3.0 24 12-35 28-51 (62)
59 PF00515 TPR_1: Tetratricopept 92.6 0.38 8.1E-06 19.9 4.0 29 8-36 2-30 (34)
60 PF05843 Suf: Suppressor of fo 92.6 0.42 9E-06 30.2 4.8 62 8-69 2-65 (280)
61 TIGR02521 type_IV_pilW type IV 92.5 1.2 2.7E-05 25.8 6.6 61 7-68 135-197 (234)
62 TIGR02521 type_IV_pilW type IV 92.4 1.3 2.9E-05 25.7 7.0 24 10-33 68-91 (234)
63 cd00923 Cyt_c_Oxidase_Va Cytoc 92.3 0.5 1.1E-05 25.5 4.2 46 24-69 24-71 (103)
64 TIGR02795 tol_pal_ybgF tol-pal 92.2 0.98 2.1E-05 23.8 6.4 60 9-68 41-104 (119)
65 PF13371 TPR_9: Tetratricopept 91.8 0.83 1.8E-05 22.2 5.5 54 15-69 3-58 (73)
66 PF02284 COX5A: Cytochrome c o 91.8 0.41 8.9E-06 26.1 3.5 45 25-69 28-74 (108)
67 PF13429 TPR_15: Tetratricopep 91.4 0.93 2E-05 28.2 5.4 65 5-69 108-175 (280)
68 PF13431 TPR_17: Tetratricopep 91.4 0.21 4.6E-06 21.3 1.8 25 4-28 10-34 (34)
69 TIGR03504 FimV_Cterm FimV C-te 90.9 0.65 1.4E-05 21.2 3.3 25 13-37 5-29 (44)
70 PF13174 TPR_6: Tetratricopept 90.9 0.31 6.7E-06 19.8 2.1 24 13-36 6-29 (33)
71 PF13762 MNE1: Mitochondrial s 90.8 1.1 2.4E-05 25.8 4.9 52 5-56 77-129 (145)
72 PF10366 Vps39_1: Vacuolar sor 90.8 1.7 3.6E-05 23.7 5.4 28 8-35 40-67 (108)
73 PF02607 B12-binding_2: B12 bi 90.5 1.2 2.7E-05 22.3 4.6 43 18-60 12-54 (79)
74 PF11848 DUF3368: Domain of un 90.5 1 2.2E-05 20.8 4.8 37 15-51 10-46 (48)
75 PRK02603 photosystem I assembl 90.3 2.3 5E-05 24.6 6.4 63 6-68 34-100 (172)
76 TIGR00540 hemY_coli hemY prote 90.2 2.5 5.4E-05 28.0 6.8 58 9-66 337-396 (409)
77 PRK15359 type III secretion sy 90.0 2.2 4.9E-05 24.1 6.7 58 10-68 27-86 (144)
78 KOG4570 Uncharacterized conser 89.9 1 2.2E-05 29.6 4.6 42 19-60 112-153 (418)
79 TIGR00990 3a0801s09 mitochondr 89.9 2.3 5.1E-05 29.6 6.7 23 10-32 402-424 (615)
80 PLN03088 SGT1, suppressor of 89.8 3.1 6.7E-05 27.2 6.9 62 5-68 34-98 (356)
81 PF12895 Apc3: Anaphase-promot 89.6 0.71 1.5E-05 23.4 3.2 46 20-65 2-50 (84)
82 PF07721 TPR_4: Tetratricopept 89.5 0.79 1.7E-05 18.1 2.7 22 11-32 5-26 (26)
83 COG5107 RNA14 Pre-mRNA 3'-end 88.9 1.5 3.2E-05 30.3 4.9 60 8-67 398-459 (660)
84 PF13432 TPR_16: Tetratricopep 88.9 1.6 3.4E-05 20.7 4.6 31 6-36 30-60 (65)
85 PRK10747 putative protoheme IX 88.7 4.4 9.5E-05 26.8 7.1 58 6-65 327-386 (398)
86 PF07719 TPR_2: Tetratricopept 88.3 1.1 2.4E-05 18.2 4.0 28 9-36 3-30 (34)
87 PF10602 RPN7: 26S proteasome 88.2 2.6 5.7E-05 24.9 5.3 53 8-60 37-91 (177)
88 PRK12370 invasion protein regu 88.2 4.8 0.0001 27.9 7.2 27 9-35 374-400 (553)
89 PF04733 Coatomer_E: Coatomer 88.0 2.8 6.1E-05 26.8 5.6 53 5-58 199-251 (290)
90 PF09295 ChAPs: ChAPs (Chs5p-A 87.5 5 0.00011 27.0 6.7 60 6-67 233-295 (395)
91 PF11846 DUF3366: Domain of un 87.5 1.6 3.4E-05 25.9 4.1 32 4-35 141-172 (193)
92 PF09205 DUF1955: Domain of un 87.3 3.6 7.7E-05 23.8 5.2 62 10-75 89-152 (161)
93 PRK15174 Vi polysaccharide exp 87.2 6.2 0.00013 28.1 7.4 61 6-68 283-346 (656)
94 CHL00033 ycf3 photosystem I as 87.2 4 8.7E-05 23.4 6.7 61 7-67 35-99 (168)
95 KOG1914 mRNA cleavage and poly 87.0 3.3 7.1E-05 29.2 5.7 62 5-69 18-82 (656)
96 PRK11189 lipoprotein NlpI; Pro 86.7 6.1 0.00013 25.1 7.2 53 6-60 97-150 (296)
97 PF07443 HARP: HepA-related pr 86.7 0.17 3.7E-06 24.3 -0.2 35 21-55 6-40 (55)
98 PF12688 TPR_5: Tetratrico pep 86.5 4 8.6E-05 22.7 5.2 53 16-68 10-66 (120)
99 PF13181 TPR_8: Tetratricopept 85.9 1.6 3.6E-05 17.8 3.9 27 9-35 3-29 (34)
100 PF04184 ST7: ST7 protein; In 85.8 5.7 0.00012 27.7 6.3 68 16-85 268-338 (539)
101 TIGR02795 tol_pal_ybgF tol-pal 85.7 3.6 7.9E-05 21.5 6.5 59 9-69 4-68 (119)
102 PF13170 DUF4003: Protein of u 85.7 6.9 0.00015 25.2 6.5 48 23-70 78-133 (297)
103 COG2956 Predicted N-acetylgluc 85.1 2.9 6.2E-05 27.7 4.6 63 17-80 224-288 (389)
104 KOG1173 Anaphase-promoting com 85.0 4.5 9.8E-05 28.5 5.6 68 9-82 457-526 (611)
105 PRK10370 formate-dependent nit 84.9 4.7 0.0001 24.2 5.2 64 5-69 105-173 (198)
106 KOG2047 mRNA splicing factor [ 84.8 2.1 4.6E-05 30.7 4.1 48 8-57 249-296 (835)
107 cd07153 Fur_like Ferric uptake 84.5 4.6 0.0001 21.7 4.8 49 12-60 5-53 (116)
108 COG5010 TadD Flp pilus assembl 84.4 8.2 0.00018 24.5 7.1 54 6-60 99-152 (257)
109 PF02847 MA3: MA3 domain; Int 83.9 4.8 0.00011 21.5 4.8 57 11-69 6-66 (113)
110 KOG2002 TPR-containing nuclear 83.9 0.94 2E-05 33.5 2.2 64 5-69 644-709 (1018)
111 PRK12370 invasion protein regu 83.8 12 0.00026 26.0 7.5 56 12-68 411-469 (553)
112 TIGR00990 3a0801s09 mitochondr 83.7 10 0.00023 26.5 7.1 51 9-60 367-417 (615)
113 PRK10153 DNA-binding transcrip 83.6 13 0.00027 26.0 8.2 60 6-67 419-480 (517)
114 KOG1173 Anaphase-promoting com 83.4 4.9 0.00011 28.3 5.3 52 2-55 484-535 (611)
115 COG4003 Uncharacterized protei 83.2 1.8 3.8E-05 22.7 2.5 39 2-40 25-65 (98)
116 smart00028 TPR Tetratricopepti 83.1 1.9 4.1E-05 16.2 3.0 27 9-35 3-29 (34)
117 PRK15174 Vi polysaccharide exp 83.0 9.2 0.0002 27.2 6.7 26 8-33 145-170 (656)
118 KOG1155 Anaphase-promoting com 82.8 10 0.00023 26.4 6.5 56 4-60 429-484 (559)
119 PRK14574 hmsH outer membrane p 82.8 10 0.00022 28.0 7.0 54 14-68 109-164 (822)
120 KOG4077 Cytochrome c oxidase, 82.7 5.1 0.00011 22.9 4.4 51 30-84 72-124 (149)
121 KOG0547 Translocase of outer m 81.0 3.4 7.3E-05 28.8 3.8 44 15-60 123-167 (606)
122 PF01475 FUR: Ferric uptake re 80.9 4.5 9.7E-05 22.0 3.8 49 12-60 12-60 (120)
123 KOG1915 Cell cycle control pro 80.4 10 0.00022 26.7 5.9 63 4-68 171-235 (677)
124 PRK14574 hmsH outer membrane p 80.2 9.9 0.00021 28.1 6.1 60 9-68 329-395 (822)
125 PRK09782 bacteriophage N4 rece 79.8 23 0.00051 26.8 8.0 61 5-67 607-670 (987)
126 PF12554 MOZART1: Mitotic-spin 79.6 4.5 9.8E-05 18.9 3.0 30 14-43 11-40 (48)
127 PRK11447 cellulose synthase su 79.5 14 0.0003 28.1 6.9 61 6-68 636-699 (1157)
128 PRK10370 formate-dependent nit 78.7 12 0.00025 22.5 7.2 64 4-69 70-139 (198)
129 COG4783 Putative Zn-dependent 78.2 20 0.00043 24.9 6.7 25 10-34 343-367 (484)
130 PF04840 Vps16_C: Vps16, C-ter 78.2 13 0.00028 24.2 5.8 50 5-60 206-255 (319)
131 PF13512 TPR_18: Tetratricopep 78.0 9.5 0.00021 22.0 4.6 47 12-58 52-98 (142)
132 KOG0985 Vesicle coat protein c 77.9 8.9 0.00019 29.5 5.3 63 8-78 1105-1168(1666)
133 KOG1840 Kinesin light chain [C 77.5 18 0.00039 25.3 6.5 60 8-67 410-477 (508)
134 PF09976 TPR_21: Tetratricopep 77.4 10 0.00023 21.2 5.5 55 13-67 54-112 (145)
135 PRK11639 zinc uptake transcrip 77.4 8.5 0.00018 22.6 4.4 49 12-60 30-78 (169)
136 PRK10747 putative protoheme IX 77.0 19 0.00041 23.9 7.2 54 14-69 160-216 (398)
137 PRK10049 pgaA outer membrane p 76.9 24 0.00051 25.7 7.2 56 9-67 85-143 (765)
138 PF04124 Dor1: Dor1-like famil 76.9 6 0.00013 25.8 4.0 39 12-50 111-150 (338)
139 TIGR03302 OM_YfiO outer membra 76.9 14 0.00029 22.2 6.9 63 5-69 31-99 (235)
140 COG3071 HemY Uncharacterized e 76.8 20 0.00044 24.2 7.0 68 2-69 182-258 (400)
141 PRK15179 Vi polysaccharide bio 76.8 25 0.00053 25.6 7.2 59 8-68 155-216 (694)
142 cd05804 StaR_like StaR_like; a 76.6 17 0.00037 23.2 6.3 59 8-66 149-212 (355)
143 COG3947 Response regulator con 76.6 19 0.00041 23.7 6.1 48 9-57 281-328 (361)
144 PRK11447 cellulose synthase su 76.2 26 0.00055 26.8 7.4 63 6-68 670-739 (1157)
145 PF09295 ChAPs: ChAPs (Chs5p-A 76.2 3.3 7.2E-05 27.8 2.7 30 6-35 267-296 (395)
146 TIGR00540 hemY_coli hemY prote 76.1 20 0.00043 23.8 7.6 54 14-69 160-216 (409)
147 KOG1914 mRNA cleavage and poly 75.9 14 0.00031 26.2 5.6 59 9-67 368-428 (656)
148 PRK10049 pgaA outer membrane p 75.8 23 0.00049 25.8 6.9 62 6-69 48-112 (765)
149 TIGR01529 argR_whole arginine 75.4 13 0.00028 21.4 4.7 43 12-54 5-47 (146)
150 smart00804 TAP_C C-terminal do 75.4 4.7 0.0001 19.9 2.6 23 20-42 38-61 (63)
151 PF04840 Vps16_C: Vps16, C-ter 75.2 11 0.00024 24.5 4.9 54 9-66 179-233 (319)
152 COG0735 Fur Fe2+/Zn2+ uptake r 74.8 11 0.00024 21.5 4.4 49 12-60 25-73 (145)
153 KOG2076 RNA polymerase III tra 74.6 19 0.00041 26.9 6.2 63 6-68 413-477 (895)
154 COG5108 RPO41 Mitochondrial DN 74.5 11 0.00023 27.7 4.9 49 12-60 33-83 (1117)
155 TIGR02508 type_III_yscG type I 74.2 2.5 5.5E-05 23.1 1.5 48 15-68 47-96 (115)
156 cd05804 StaR_like StaR_like; a 74.2 20 0.00043 22.9 6.9 59 9-68 116-176 (355)
157 PF14840 DNA_pol3_delt_C: Proc 73.8 3.8 8.3E-05 22.9 2.2 27 20-46 10-36 (125)
158 COG3071 HemY Uncharacterized e 73.2 17 0.00038 24.5 5.4 58 8-67 329-388 (400)
159 PF09613 HrpB1_HrpK: Bacterial 73.0 16 0.00035 21.5 4.7 43 8-54 47-89 (160)
160 PF05734 DUF832: Herpesvirus p 72.8 20 0.00044 22.4 5.4 33 3-35 11-43 (228)
161 PLN03088 SGT1, suppressor of 72.7 19 0.00041 23.7 5.5 46 5-52 68-113 (356)
162 TIGR02561 HrpB1_HrpK type III 72.6 9 0.00019 22.4 3.6 43 7-54 46-88 (153)
163 PRK05094 dsDNA-mimic protein; 71.9 6.9 0.00015 21.4 2.8 44 23-66 13-58 (107)
164 COG3063 PilF Tfp pilus assembl 71.7 17 0.00038 22.9 4.9 45 14-60 42-87 (250)
165 PRK10803 tol-pal system protei 71.4 20 0.00043 22.7 5.3 60 8-69 144-209 (263)
166 KOG3785 Uncharacterized conser 71.4 7.3 0.00016 26.4 3.4 28 5-32 425-453 (557)
167 KOG3785 Uncharacterized conser 71.4 16 0.00034 24.9 4.9 52 6-59 393-445 (557)
168 COG4455 ImpE Protein of avirul 71.3 23 0.0005 22.4 5.6 71 9-85 3-79 (273)
169 PF10579 Rapsyn_N: Rapsyn N-te 70.7 13 0.00029 19.3 4.5 42 19-60 18-61 (80)
170 PF05843 Suf: Suppressor of fo 70.1 25 0.00054 22.3 5.8 45 22-67 51-97 (280)
171 TIGR03302 OM_YfiO outer membra 70.0 21 0.00046 21.4 5.9 57 13-69 172-232 (235)
172 PF02284 COX5A: Cytochrome c o 69.9 16 0.00035 20.0 5.6 47 5-52 43-89 (108)
173 KOG0553 TPR repeat-containing 69.4 28 0.00061 22.7 5.5 72 5-83 113-187 (304)
174 KOG2003 TPR repeat-containing 69.2 6.7 0.00015 27.4 2.9 55 13-69 282-338 (840)
175 KOG4570 Uncharacterized conser 69.0 16 0.00035 24.3 4.5 33 5-37 133-165 (418)
176 smart00299 CLH Clathrin heavy 68.9 18 0.00038 20.0 6.0 52 6-58 6-57 (140)
177 PF04733 Coatomer_E: Coatomer 66.3 32 0.00069 22.0 6.3 45 22-67 182-228 (290)
178 KOG1127 TPR repeat-containing 65.5 9.9 0.00021 28.9 3.3 34 3-36 592-625 (1238)
179 KOG3081 Vesicle coat complex C 65.1 31 0.00067 22.4 5.1 46 21-67 187-234 (299)
180 PRK09782 bacteriophage N4 rece 65.0 57 0.0012 24.9 7.1 62 5-68 641-705 (987)
181 PF11207 DUF2989: Protein of u 65.0 26 0.00057 21.5 4.6 49 12-60 145-196 (203)
182 cd04439 DEP_1_P-Rex DEP (Dishe 64.2 17 0.00037 18.7 3.3 34 5-38 26-62 (81)
183 PF07720 TPR_3: Tetratricopept 63.7 12 0.00025 16.1 3.0 22 10-31 4-25 (36)
184 PF11491 DUF3213: Protein of u 63.7 0.85 1.8E-05 23.8 -1.6 19 5-23 22-40 (88)
185 COG2405 Predicted nucleic acid 63.6 27 0.00059 20.3 4.4 34 17-50 119-152 (157)
186 PF14853 Fis1_TPR_C: Fis1 C-te 62.9 15 0.00034 17.3 4.3 33 13-47 7-39 (53)
187 COG3294 HD supefamily hydrolas 62.7 7.4 0.00016 24.4 2.0 21 24-44 67-87 (269)
188 COG5010 TadD Flp pilus assembl 62.5 38 0.00082 21.6 7.2 63 3-67 130-195 (257)
189 KOG1129 TPR repeat-containing 62.4 46 0.00099 22.5 6.2 53 11-65 227-281 (478)
190 PRK11189 lipoprotein NlpI; Pro 62.0 38 0.00083 21.5 6.7 59 8-68 65-126 (296)
191 COG5107 RNA14 Pre-mRNA 3'-end 62.0 37 0.00079 23.9 5.3 62 5-67 40-103 (660)
192 PF14938 SNAP: Soluble NSF att 61.5 29 0.00062 21.9 4.6 59 8-67 156-223 (282)
193 PF00637 Clathrin: Region in C 61.5 4.3 9.4E-05 22.5 0.9 48 6-60 41-88 (143)
194 cd00280 TRFH Telomeric Repeat 61.3 30 0.00064 21.2 4.3 40 13-55 117-156 (200)
195 TIGR02531 yecD_yerC TrpR-relat 60.8 22 0.00048 18.7 3.4 27 8-34 3-29 (88)
196 KOG1129 TPR repeat-containing 60.1 11 0.00024 25.3 2.6 62 6-68 323-386 (478)
197 PRK15179 Vi polysaccharide bio 60.0 66 0.0014 23.5 6.5 62 6-69 119-183 (694)
198 PF14744 WASH-7_mid: WASH comp 59.6 10 0.00023 25.1 2.4 30 21-50 280-309 (350)
199 PF09454 Vps23_core: Vps23 cor 59.5 21 0.00045 17.6 3.6 51 4-55 5-55 (65)
200 PLN02789 farnesyltranstransfer 59.3 47 0.001 21.7 5.4 50 4-54 139-188 (320)
201 COG4783 Putative Zn-dependent 58.5 58 0.0013 22.8 5.7 53 7-60 374-426 (484)
202 KOG1840 Kinesin light chain [C 58.4 52 0.0011 23.1 5.6 64 3-67 196-268 (508)
203 KOG1128 Uncharacterized conser 58.4 24 0.00053 25.9 4.1 63 6-69 552-616 (777)
204 PF11817 Foie-gras_1: Foie gra 58.4 35 0.00076 21.2 4.6 49 12-60 183-236 (247)
205 PF07035 Mic1: Colon cancer-as 58.3 34 0.00075 20.3 4.2 43 6-52 28-70 (167)
206 PF13525 YfiO: Outer membrane 57.7 39 0.00084 20.2 6.5 57 13-69 11-71 (203)
207 KOG1126 DNA-binding cell divis 57.2 15 0.00033 26.3 3.0 68 7-83 421-491 (638)
208 smart00386 HAT HAT (Half-A-TPR 56.6 13 0.00028 14.4 3.6 16 21-36 1-16 (33)
209 KOG0591 NIMA (never in mitosis 56.3 53 0.0012 21.8 5.1 44 13-58 97-140 (375)
210 KOG2053 Mitochondrial inherita 55.9 25 0.00055 26.4 3.9 49 19-68 55-105 (932)
211 KOG4626 O-linked N-acetylgluco 55.5 60 0.0013 24.0 5.6 52 7-60 116-168 (966)
212 CHL00033 ycf3 photosystem I as 55.2 38 0.00082 19.3 6.6 44 8-53 73-117 (168)
213 smart00544 MA3 Domain in DAP-5 55.0 31 0.00068 18.3 5.9 58 10-69 5-66 (113)
214 KOG1070 rRNA processing protei 54.8 47 0.001 26.6 5.2 26 44-69 1532-1559(1710)
215 cd00923 Cyt_c_Oxidase_Va Cytoc 54.6 34 0.00075 18.6 5.1 45 5-51 40-85 (103)
216 PF03943 TAP_C: TAP C-terminal 54.5 6.3 0.00014 18.5 0.6 24 19-42 25-49 (51)
217 PF09205 DUF1955: Domain of un 54.5 35 0.00076 19.9 3.7 35 5-39 118-152 (161)
218 PF13929 mRNA_stabil: mRNA sta 54.5 58 0.0013 21.2 5.9 56 5-60 200-256 (292)
219 PF08542 Rep_fac_C: Replicatio 54.5 17 0.00036 18.5 2.3 42 12-55 10-51 (89)
220 PF02184 HAT: HAT (Half-A-TPR) 54.3 18 0.00039 15.3 2.3 23 22-46 2-24 (32)
221 PF10363 DUF2435: Protein of u 54.0 32 0.0007 18.1 3.4 44 23-69 41-85 (92)
222 PF08343 RNR_N: Ribonucleotide 53.8 9.2 0.0002 19.9 1.2 44 8-51 2-47 (82)
223 KOG2396 HAT (Half-A-TPR) repea 53.3 49 0.0011 23.4 4.8 42 6-47 104-146 (568)
224 PRK09462 fur ferric uptake reg 53.2 41 0.00089 19.1 4.8 49 12-60 21-70 (148)
225 cd04441 DEP_2_DEP6 DEP (Dishev 53.1 27 0.00059 18.3 2.9 35 5-39 30-67 (85)
226 cd08790 DED_DEDD Death Effecto 53.1 36 0.00078 18.4 4.1 57 18-78 35-92 (97)
227 PF12169 DNA_pol3_gamma3: DNA 53.0 20 0.00044 19.9 2.7 31 12-43 20-50 (143)
228 PRK02603 photosystem I assembl 52.4 44 0.00095 19.2 5.7 49 7-57 72-121 (172)
229 KOG3081 Vesicle coat complex C 52.4 63 0.0014 21.0 6.5 63 5-68 205-270 (299)
230 COG2956 Predicted N-acetylgluc 52.0 71 0.0015 21.5 7.1 35 9-43 251-285 (389)
231 PF12816 Vps8: Golgi CORVET co 52.0 34 0.00073 20.7 3.6 53 3-60 18-70 (196)
232 COG3063 PilF Tfp pilus assembl 51.8 60 0.0013 20.6 5.6 62 6-69 68-132 (250)
233 PRK01381 Trp operon repressor; 51.2 35 0.00076 18.5 3.2 32 3-34 2-33 (99)
234 PF12569 NARP1: NMDA receptor- 51.1 63 0.0014 22.7 5.2 38 14-53 45-82 (517)
235 PF12000 Glyco_trans_4_3: Gkyc 51.0 15 0.00032 21.8 1.9 20 24-43 51-70 (171)
236 PRK10153 DNA-binding transcrip 51.0 41 0.0009 23.5 4.3 39 5-45 451-489 (517)
237 PF09868 DUF2095: Uncharacteri 50.9 33 0.00072 19.2 3.1 26 12-37 66-91 (128)
238 KOG2536 MAM33, mitochondrial m 50.1 42 0.00091 21.5 3.9 40 25-67 216-258 (263)
239 KOG4340 Uncharacterized conser 49.8 63 0.0014 21.6 4.7 42 18-60 155-197 (459)
240 PF13762 MNE1: Mitochondrial s 49.6 51 0.0011 19.1 6.1 75 8-85 40-122 (145)
241 cd04443 DEP_GPR155 DEP (Dishev 49.0 38 0.00083 17.5 3.9 35 5-39 28-65 (83)
242 KOG4648 Uncharacterized conser 48.1 21 0.00045 24.2 2.4 41 16-58 106-147 (536)
243 PF09397 Ftsk_gamma: Ftsk gamm 48.0 36 0.00077 16.9 3.4 27 12-39 24-50 (65)
244 KOG2053 Mitochondrial inherita 47.9 1E+02 0.0022 23.4 5.9 53 6-60 76-128 (932)
245 KOG0543 FKBP-type peptidyl-pro 47.9 64 0.0014 22.0 4.6 53 15-69 299-355 (397)
246 COG2987 HutU Urocanate hydrata 47.9 13 0.00028 25.8 1.5 44 13-56 225-278 (561)
247 KOG0985 Vesicle coat protein c 47.8 88 0.0019 24.7 5.6 53 6-60 1132-1184(1666)
248 cd04448 DEP_PIKfyve DEP (Dishe 46.3 42 0.00091 17.2 3.7 35 5-39 26-63 (81)
249 PF13170 DUF4003: Protein of u 45.9 81 0.0018 20.4 6.3 73 5-82 139-221 (297)
250 cd04934 ACT_AK-Hom3_1 CT domai 45.7 6.8 0.00015 19.6 -0.0 29 16-44 8-36 (73)
251 TIGR02710 CRISPR-associated pr 45.5 59 0.0013 22.0 4.2 41 14-54 137-177 (380)
252 PF03444 HrcA_DNA-bdg: Winged 45.3 45 0.00097 17.3 4.2 51 4-59 4-54 (78)
253 PF14162 YozD: YozD-like prote 45.2 36 0.00078 16.2 2.5 20 24-43 12-31 (57)
254 PF10963 DUF2765: Protein of u 44.9 47 0.001 17.4 3.4 31 4-34 13-43 (83)
255 TIGR02328 conserved hypothetic 44.5 27 0.00059 19.5 2.2 17 27-43 55-71 (120)
256 KOG1155 Anaphase-promoting com 44.4 1.1E+02 0.0025 21.6 6.1 65 2-68 393-460 (559)
257 COG5210 GTPase-activating prot 44.2 61 0.0013 22.4 4.3 43 27-69 362-406 (496)
258 PRK15363 pathogenicity island 43.8 67 0.0015 18.9 6.0 57 9-66 71-129 (157)
259 COG4235 Cytochrome c biogenesi 43.4 91 0.002 20.3 4.8 43 24-68 210-255 (287)
260 cd08340 DED_c-FLIP_repeat2 Dea 43.2 33 0.00072 17.7 2.3 24 21-44 36-60 (81)
261 PRK07452 DNA polymerase III su 43.1 53 0.0011 21.0 3.7 34 8-43 202-235 (326)
262 smart00843 Ftsk_gamma This dom 42.9 44 0.00095 16.5 3.3 28 11-39 22-49 (63)
263 KOG1130 Predicted G-alpha GTPa 42.9 52 0.0011 23.0 3.7 35 16-51 26-60 (639)
264 KOG1126 DNA-binding cell divis 42.6 1.3E+02 0.0029 21.9 6.8 17 17-33 533-549 (638)
265 cd00215 PTS_IIA_lac PTS_IIA, P 42.1 27 0.00059 18.7 2.0 19 17-35 25-43 (97)
266 PF09797 NatB_MDM20: N-acetylt 41.9 16 0.00035 24.0 1.2 34 13-46 223-256 (365)
267 PF04097 Nic96: Nup93/Nic96; 41.9 58 0.0013 23.3 4.0 49 6-55 110-158 (613)
268 KOG0553 TPR repeat-containing 41.8 1E+02 0.0022 20.3 5.0 44 7-52 149-192 (304)
269 PF07079 DUF1347: Protein of u 41.8 85 0.0018 22.2 4.5 48 8-55 129-180 (549)
270 cd04442 DEP_1_DEP6 DEP (Dishev 41.4 53 0.0012 17.0 3.1 35 5-39 26-63 (82)
271 KOG0548 Molecular co-chaperone 41.2 80 0.0017 22.4 4.4 44 16-60 367-410 (539)
272 KOG0991 Replication factor C, 41.1 99 0.0022 20.0 4.7 49 5-55 237-285 (333)
273 KOG1128 Uncharacterized conser 40.6 1.1E+02 0.0024 22.7 5.1 51 8-60 425-475 (777)
274 PRK05414 urocanate hydratase; 40.1 21 0.00046 25.1 1.6 22 23-44 241-262 (556)
275 PF05944 Phage_term_smal: Phag 40.1 72 0.0016 18.1 3.5 33 10-42 51-84 (132)
276 TIGR01228 hutU urocanate hydra 40.1 21 0.00046 25.0 1.6 22 23-44 232-253 (545)
277 PF07864 DUF1651: Protein of u 40.0 31 0.00066 17.4 1.9 18 22-39 51-68 (75)
278 KOG4414 COP9 signalosome, subu 39.9 47 0.001 19.5 2.8 31 4-34 36-66 (197)
279 COG4496 Uncharacterized protei 39.6 62 0.0014 17.3 3.4 33 2-34 3-35 (100)
280 KOG3616 Selective LIM binding 39.6 55 0.0012 24.8 3.6 23 10-32 794-816 (1636)
281 KOG0548 Molecular co-chaperone 39.5 66 0.0014 22.8 3.8 24 5-28 34-57 (539)
282 COG5053 CDC33 Translation init 39.5 37 0.00081 20.8 2.4 51 3-53 51-101 (217)
283 cd04440 DEP_2_P-Rex DEP (Dishe 39.0 64 0.0014 17.2 3.6 34 5-38 35-71 (93)
284 PLN03098 LPA1 LOW PSII ACCUMUL 39.0 69 0.0015 22.3 3.8 29 8-36 113-141 (453)
285 PF04269 DUF440: Protein of un 38.8 24 0.00053 19.2 1.4 38 23-60 10-48 (103)
286 TIGR00823 EIIA-LAC phosphotran 38.6 33 0.00072 18.4 2.0 20 16-35 26-45 (99)
287 PF01371 Trp_repressor: Trp re 38.4 32 0.0007 18.1 1.8 26 9-34 2-27 (87)
288 cd08320 Pyrin_NALPs Pyrin deat 38.3 23 0.00049 18.5 1.3 25 10-34 48-72 (86)
289 cd08775 DED_Caspase-like_repea 38.3 44 0.00095 17.3 2.3 23 21-43 36-59 (81)
290 PF14044 NETI: NETI protein 38.3 40 0.00088 16.3 2.0 18 23-40 7-24 (57)
291 PF09435 DUF2015: Fungal prote 38.1 46 0.00099 18.9 2.5 12 28-39 89-100 (128)
292 cd08333 DED_Caspase_8_repeat1 37.9 47 0.001 17.2 2.4 23 21-43 34-57 (82)
293 COG2973 TrpR Trp operon repres 37.8 41 0.0009 18.2 2.2 33 2-34 6-38 (103)
294 cd08338 DED_PEA15 Death Effect 37.7 47 0.001 17.2 2.4 23 21-43 36-59 (84)
295 cd04890 ACT_AK-like_1 ACT doma 37.4 10 0.00022 17.8 -0.1 26 19-44 10-35 (62)
296 cd08792 DED_Caspase_8_10_repea 37.3 48 0.0011 16.8 2.4 21 21-41 34-55 (77)
297 COG1466 HolA DNA polymerase II 37.2 57 0.0012 21.2 3.2 25 17-41 218-242 (334)
298 PF11426 Tn7_TnsC_Int: Tn7 tra 37.1 49 0.0011 15.4 2.3 29 14-45 15-43 (48)
299 cd00045 DED The Death Effector 37.0 48 0.001 16.7 2.3 20 22-41 35-55 (77)
300 PF04212 MIT: MIT (microtubule 36.9 33 0.00072 16.6 1.7 18 17-34 15-32 (69)
301 smart00049 DEP Domain found in 36.9 57 0.0012 16.0 3.2 34 5-38 18-54 (77)
302 KOG3807 Predicted membrane pro 36.7 1E+02 0.0022 21.0 4.3 44 15-60 282-329 (556)
303 PRK09591 celC cellobiose phosp 36.5 37 0.00081 18.4 2.0 20 16-35 29-48 (104)
304 KOG1174 Anaphase-promoting com 36.3 1.5E+02 0.0033 20.8 5.5 36 6-43 231-266 (564)
305 COG3898 Uncharacterized membra 35.9 79 0.0017 22.0 3.7 35 9-43 190-225 (531)
306 cd08341 DED_Caspase_10_repeat1 35.7 47 0.001 17.2 2.2 22 21-42 36-58 (82)
307 TIGR02894 DNA_bind_RsfA transc 35.6 81 0.0018 18.7 3.3 42 8-54 49-91 (161)
308 PF15374 CCDC71L: Coiled-coil 35.0 42 0.00092 22.6 2.3 51 3-56 2-52 (376)
309 PRK10454 PTS system N,N'-diace 35.0 39 0.00085 18.7 1.9 20 16-35 40-59 (115)
310 PF09477 Type_III_YscG: Bacter 35.0 85 0.0018 17.5 3.7 50 14-69 47-98 (116)
311 cd08336 DED_FADD Death Effecto 35.0 62 0.0013 16.6 2.6 29 22-50 37-67 (82)
312 PRK10803 tol-pal system protei 35.0 1.2E+02 0.0026 19.2 6.4 59 9-69 182-246 (263)
313 PF12968 DUF3856: Domain of Un 34.9 61 0.0013 18.5 2.7 26 6-31 54-79 (144)
314 PF13963 Transpos_assoc: Trans 34.9 54 0.0012 16.6 2.3 26 19-44 46-71 (77)
315 PF10300 DUF3808: Protein of u 34.8 1E+02 0.0022 21.3 4.2 29 9-37 307-335 (468)
316 smart00668 CTLH C-terminal to 34.8 52 0.0011 15.0 2.4 22 14-35 8-29 (58)
317 PF07553 Lipoprotein_Ltp: Host 34.6 36 0.00079 15.8 1.5 29 53-81 14-43 (48)
318 COG1447 CelC Phosphotransferas 34.4 43 0.00093 18.4 1.9 19 16-34 28-46 (105)
319 cd04437 DEP_Epac DEP (Dishevel 34.2 91 0.002 17.6 3.5 35 5-39 28-66 (125)
320 PF12627 PolyA_pol_RNAbd: Prob 34.1 56 0.0012 15.4 2.3 30 38-67 2-32 (64)
321 cd08334 DED_Caspase_8_10_repea 33.9 73 0.0016 16.4 4.0 31 22-52 38-70 (83)
322 COG0292 RplT Ribosomal protein 33.8 90 0.0019 17.4 4.6 18 39-56 70-87 (118)
323 PRK14958 DNA polymerase III su 33.7 1.5E+02 0.0033 20.8 4.9 33 8-41 247-279 (509)
324 PF01175 Urocanase: Urocanase; 33.7 30 0.00064 24.4 1.5 33 12-44 214-252 (546)
325 KOG4626 O-linked N-acetylgluco 33.5 2E+02 0.0044 21.5 5.4 51 8-60 321-372 (966)
326 PRK13808 adenylate kinase; Pro 33.2 7.1 0.00015 25.7 -1.3 22 23-44 90-111 (333)
327 PF08513 LisH: LisH; InterPro 33.2 41 0.00089 13.3 2.8 21 11-31 4-24 (27)
328 PF11768 DUF3312: Protein of u 32.8 43 0.00093 23.8 2.2 25 10-34 411-435 (545)
329 PRK14720 transcript cleavage f 32.7 2.3E+02 0.005 21.8 7.0 51 8-60 117-167 (906)
330 PF03013 Pyr_excise: Pyrimidin 32.7 41 0.00089 19.1 1.8 23 27-49 66-88 (130)
331 cd04438 DEP_dishevelled DEP (D 32.6 79 0.0017 16.4 3.3 35 5-39 27-65 (84)
332 PF07218 RAP1: Rhoptry-associa 32.5 38 0.00082 24.4 1.9 28 5-37 618-645 (782)
333 PRK10866 outer membrane biogen 32.4 1.3E+02 0.0028 18.7 7.5 57 13-69 38-98 (243)
334 KOG1070 rRNA processing protei 32.3 89 0.0019 25.3 3.8 37 7-43 1634-1670(1710)
335 cd02070 corrinoid_protein_B12- 32.3 92 0.002 18.7 3.4 43 18-60 5-47 (201)
336 PF11864 DUF3384: Domain of un 32.2 69 0.0015 22.0 3.1 38 21-58 192-229 (464)
337 smart00540 LEM in nuclear memb 32.1 54 0.0012 14.9 1.8 19 27-45 9-27 (44)
338 cd01786 STE50_RA Ubiquitin-lik 32.0 59 0.0013 17.5 2.2 18 24-41 75-92 (98)
339 KOG0780 Signal recognition par 31.7 27 0.00059 24.0 1.1 27 20-46 192-220 (483)
340 KOG3060 Uncharacterized conser 31.6 1E+02 0.0022 20.0 3.5 35 19-54 98-135 (289)
341 KOG2063 Vacuolar assembly/sort 31.6 73 0.0016 24.1 3.2 29 8-36 505-533 (877)
342 PF06552 TOM20_plant: Plant sp 31.3 1.3E+02 0.0027 18.4 4.0 42 23-66 96-137 (186)
343 PHA00439 exonuclease 31.3 59 0.0013 21.1 2.5 21 5-25 237-257 (286)
344 KOG2376 Signal recognition par 31.3 1E+02 0.0023 22.4 3.8 39 17-56 468-506 (652)
345 PF12569 NARP1: NMDA receptor- 31.2 1.9E+02 0.0042 20.4 6.7 54 5-60 190-246 (517)
346 cd08321 Pyrin_ASC-like Pyrin D 31.1 38 0.00083 17.4 1.4 25 11-35 49-73 (82)
347 smart00164 TBC Domain in Tre-2 31.1 1.1E+02 0.0025 17.8 4.2 13 23-35 109-121 (199)
348 PF02255 PTS_IIA: PTS system, 31.1 52 0.0011 17.5 1.9 18 17-34 24-41 (96)
349 cd08780 Death_TRADD Death Doma 31.1 84 0.0018 16.7 2.7 38 16-56 41-79 (90)
350 PLN03025 replication factor C 31.0 71 0.0015 20.6 2.9 32 11-43 229-260 (319)
351 KOG2223 Uncharacterized conser 31.0 1E+02 0.0023 21.6 3.7 43 27-69 459-503 (586)
352 PRK05907 hypothetical protein; 31.0 54 0.0012 21.3 2.4 26 18-43 215-241 (311)
353 TIGR00030 S21p ribosomal prote 31.0 56 0.0012 15.7 1.9 20 19-38 6-27 (58)
354 PF08967 DUF1884: Domain of un 30.8 43 0.00092 17.6 1.5 22 25-46 13-34 (85)
355 PRK14956 DNA polymerase III su 30.7 1.7E+02 0.0037 20.6 4.7 35 9-43 250-284 (484)
356 PF02937 COX6C: Cytochrome c o 30.6 53 0.0011 16.7 1.8 14 25-38 55-68 (73)
357 TIGR01032 rplT_bact ribosomal 30.5 1E+02 0.0022 17.1 3.9 24 43-66 73-97 (113)
358 cd08305 Pyrin Pyrin: a protein 30.4 31 0.00066 17.4 0.9 23 12-34 42-64 (73)
359 KOG2114 Vacuolar assembly/sort 30.2 2.4E+02 0.0051 21.6 5.4 45 12-60 710-754 (933)
360 PF02758 PYRIN: PAAD/DAPIN/Pyr 30.1 17 0.00036 18.7 -0.1 24 11-34 50-73 (83)
361 PRK05629 hypothetical protein; 30.0 63 0.0014 20.8 2.5 26 18-43 204-229 (318)
362 PRK07632 ribonucleotide-diphos 29.9 68 0.0015 23.5 2.8 34 13-46 123-156 (699)
363 cd08315 Death_TRAILR_DR4_DR5 D 29.8 95 0.0021 16.5 3.9 29 8-36 65-93 (96)
364 KOG2796 Uncharacterized conser 29.8 1.4E+02 0.003 19.7 3.9 44 6-49 211-254 (366)
365 PRK07914 hypothetical protein; 29.7 58 0.0013 21.0 2.3 26 18-43 206-231 (320)
366 PF04762 IKI3: IKI3 family; I 29.5 2.1E+02 0.0045 21.9 5.2 45 8-56 813-859 (928)
367 PRK13342 recombination factor 29.4 1.8E+02 0.0039 19.6 4.9 43 9-51 229-274 (413)
368 COG1729 Uncharacterized protei 29.3 1.6E+02 0.0035 18.9 5.0 58 9-69 144-207 (262)
369 cd04933 ACT_AK1-AT_1 ACT domai 29.0 16 0.00034 18.7 -0.3 25 20-44 12-36 (78)
370 PF11013 DUF2851: Protein of u 28.9 1.2E+02 0.0026 20.5 3.7 52 4-55 138-189 (377)
371 PF00610 DEP: Domain found in 28.7 81 0.0018 15.3 3.2 34 5-38 15-53 (74)
372 PF02259 FAT: FAT domain; Int 28.7 1.4E+02 0.003 19.0 3.9 35 3-37 142-176 (352)
373 PF09517 RE_Eco29kI: Eco29kI r 28.5 10 0.00023 22.5 -1.1 25 9-33 112-140 (170)
374 PF15297 CKAP2_C: Cytoskeleton 28.5 1.3E+02 0.0029 20.2 3.8 45 9-53 142-186 (353)
375 cd02681 MIT_calpain7_1 MIT: do 28.4 53 0.0011 16.7 1.6 18 17-34 16-33 (76)
376 KOG0508 Ankyrin repeat protein 28.3 69 0.0015 22.7 2.5 25 16-40 346-373 (615)
377 PF08673 RsbU_N: Phosphoserine 28.3 94 0.002 15.9 2.9 35 9-43 3-40 (77)
378 TIGR01321 TrpR trp operon repr 28.3 1.1E+02 0.0023 16.5 4.0 27 8-34 7-33 (94)
379 TIGR02370 pyl_corrinoid methyl 28.2 1.4E+02 0.003 17.9 3.8 44 17-60 5-48 (197)
380 cd04935 ACT_AKiii-DAPDC_1 ACT 28.1 16 0.00034 18.4 -0.4 25 20-44 12-36 (75)
381 KOG4062 6-O-methylguanine-DNA 28.1 36 0.00078 20.3 1.1 57 26-87 43-101 (178)
382 smart00535 RIBOc Ribonuclease 28.1 1.1E+02 0.0023 16.5 3.5 28 8-35 96-123 (129)
383 KOG2396 HAT (Half-A-TPR) repea 28.0 2.3E+02 0.005 20.3 5.7 58 11-69 464-525 (568)
384 TIGR01914 cas_Csa4 CRISPR-asso 27.8 2E+02 0.0042 19.4 4.4 62 17-85 286-348 (354)
385 PF11846 DUF3366: Domain of un 27.7 1.4E+02 0.003 17.6 5.5 51 18-68 119-172 (193)
386 TIGR02878 spore_ypjB sporulati 27.6 61 0.0013 20.4 2.1 42 16-57 14-70 (233)
387 PRK15331 chaperone protein Sic 27.5 1.4E+02 0.0031 17.7 3.7 42 17-60 47-89 (165)
388 KOG2076 RNA polymerase III tra 27.4 2.8E+02 0.0062 21.3 5.5 60 5-66 447-509 (895)
389 KOG1174 Anaphase-promoting com 27.0 2.3E+02 0.005 20.0 4.7 42 17-60 344-386 (564)
390 KOG2214 Predicted esterase of 26.9 2.4E+02 0.0052 20.2 5.3 59 9-67 248-342 (543)
391 PRK00270 rpsU 30S ribosomal pr 26.9 72 0.0016 15.7 1.9 21 18-38 6-28 (64)
392 PF09571 RE_XcyI: XcyI restric 26.8 26 0.00057 22.7 0.4 36 4-39 73-112 (318)
393 cd02069 methionine_synthase_B1 26.8 1.6E+02 0.0034 18.0 3.9 43 17-59 8-50 (213)
394 PRK09645 RNA polymerase sigma 26.7 1.3E+02 0.0028 17.1 3.8 32 2-33 3-43 (173)
395 PRK14529 adenylate kinase; Pro 26.7 11 0.00023 23.3 -1.3 20 23-42 89-108 (223)
396 PHA02265 hypothetical protein 26.6 1.1E+02 0.0023 16.2 2.5 37 24-60 4-41 (103)
397 PF15436 PGBA_N: Plasminogen-b 26.6 80 0.0017 19.7 2.4 44 38-83 98-141 (218)
398 PF12376 DUF3654: Protein of u 26.3 1.4E+02 0.003 17.2 4.5 42 5-47 91-132 (137)
399 PF08491 SE: Squalene epoxidas 26.2 1.9E+02 0.0041 18.8 4.4 48 5-53 155-202 (276)
400 PRK03971 putative deoxyhypusin 26.1 31 0.00068 22.8 0.7 28 8-35 29-60 (334)
401 cd02680 MIT_calpain7_2 MIT: do 26.0 64 0.0014 16.5 1.7 17 19-35 18-34 (75)
402 smart00031 DED Death effector 26.0 1E+02 0.0022 15.6 3.7 35 23-59 37-72 (79)
403 cd08813 DED_Caspase_8_repeat2 25.9 92 0.002 16.2 2.3 23 23-45 39-62 (83)
404 PF01316 Arg_repressor: Argini 25.9 1E+02 0.0022 15.5 4.2 42 12-53 8-49 (70)
405 PF09577 Spore_YpjB: Sporulati 25.6 81 0.0018 19.8 2.4 20 16-35 14-33 (232)
406 COG1899 DYS1 Deoxyhypusine syn 25.5 45 0.00098 22.0 1.3 30 8-37 20-54 (318)
407 PF05261 Tra_M: TraM protein, 25.4 54 0.0012 18.6 1.4 41 17-57 7-47 (127)
408 MTH00169 ATP8 ATP synthase F0 25.4 54 0.0012 16.3 1.3 11 2-12 1-11 (67)
409 PF13034 DUF3895: Protein of u 25.4 1.1E+02 0.0024 15.8 3.4 31 11-41 6-36 (78)
410 PF04121 Nup84_Nup100: Nuclear 25.3 75 0.0016 23.1 2.5 27 8-34 493-519 (697)
411 cd04449 DEP_DEPDC5-like DEP (D 25.3 1.1E+02 0.0024 15.6 3.3 34 5-38 27-64 (83)
412 PTZ00030 60S ribosomal protein 25.0 1.4E+02 0.003 16.8 4.1 13 9-21 66-78 (121)
413 COG4397 Mu-like prophage major 24.9 94 0.002 19.7 2.5 25 29-53 102-127 (308)
414 KOG3364 Membrane protein invol 24.8 1.4E+02 0.003 17.4 3.0 19 16-34 80-98 (149)
415 COG5159 RPN6 26S proteasome re 24.8 1.1E+02 0.0024 20.4 2.9 43 15-57 11-60 (421)
416 PRK05185 rplT 50S ribosomal pr 24.6 1.4E+02 0.003 16.6 4.2 13 44-56 74-86 (114)
417 PF09670 Cas_Cas02710: CRISPR- 24.5 2.3E+02 0.0049 19.1 5.1 33 9-43 134-166 (379)
418 cd02683 MIT_1 MIT: domain cont 24.3 62 0.0013 16.4 1.4 18 17-34 16-33 (77)
419 PRK14962 DNA polymerase III su 24.3 2E+02 0.0044 20.0 4.2 33 11-44 248-280 (472)
420 KOG3279 Uncharacterized conser 24.1 1E+02 0.0022 19.3 2.5 29 5-33 115-143 (283)
421 cd04371 DEP DEP domain, named 24.1 1.1E+02 0.0023 15.1 2.6 33 6-38 27-62 (81)
422 PRK01221 putative deoxyhypusin 23.9 79 0.0017 20.8 2.2 30 8-37 20-54 (312)
423 cd04445 DEP_PLEK1 DEP (Disheve 23.9 1.4E+02 0.0029 16.3 2.7 39 21-59 10-48 (99)
424 PF10414 CysG_dimeriser: Siroh 23.9 98 0.0021 14.6 2.8 23 12-34 37-59 (60)
425 PF00317 Ribonuc_red_lgN: Ribo 23.7 1.2E+02 0.0025 15.4 2.9 28 6-33 4-35 (83)
426 cd04932 ACT_AKiii-LysC-EC_1 AC 23.7 66 0.0014 16.1 1.5 25 20-44 12-36 (75)
427 CHL00068 rpl20 ribosomal prote 23.2 1.5E+02 0.0033 16.5 3.9 16 41-56 72-87 (115)
428 KOG3617 WD40 and TPR repeat-co 23.2 1.6E+02 0.0034 22.9 3.6 48 7-54 1330-1379(1416)
429 PF05476 PET122: PET122; Inte 22.7 1E+02 0.0022 19.9 2.4 50 18-69 21-72 (267)
430 PF00531 Death: Death domain; 22.7 1.1E+02 0.0025 14.9 3.2 35 24-60 41-75 (83)
431 PHA01754 hypothetical protein 22.4 1.2E+02 0.0025 14.9 2.1 16 25-40 48-63 (69)
432 KOG2127 Calmodulin-binding pro 22.3 2E+02 0.0042 22.5 4.0 55 3-57 415-469 (1020)
433 COG1747 Uncharacterized N-term 22.3 3.2E+02 0.0069 20.0 5.2 61 6-68 65-126 (711)
434 cd00927 Cyt_c_Oxidase_VIc Cyto 22.2 80 0.0017 16.0 1.6 14 25-38 53-66 (70)
435 PRK07143 hypothetical protein; 22.1 97 0.0021 19.9 2.3 25 8-32 149-173 (279)
436 PF02631 RecX: RecX family; I 21.6 1.5E+02 0.0033 16.0 4.1 45 25-69 10-55 (121)
437 PRK13713 conjugal transfer pro 21.5 1.7E+02 0.0036 16.5 2.9 20 34-53 17-36 (118)
438 PF06972 DUF1296: Protein of u 21.3 1.2E+02 0.0027 14.8 2.4 17 28-44 23-39 (60)
439 KOG2047 mRNA splicing factor [ 21.3 3.6E+02 0.0077 20.3 4.9 40 5-45 544-587 (835)
440 COG4105 ComL DNA uptake lipopr 21.3 2.4E+02 0.0052 18.1 4.7 44 17-60 44-89 (254)
441 COG3099 Uncharacterized protei 21.2 81 0.0018 16.9 1.5 31 23-53 14-45 (108)
442 cd04922 ACT_AKi-HSDH-ThrA_2 AC 21.1 63 0.0014 14.9 1.1 24 22-45 14-37 (66)
443 PF00356 LacI: Bacterial regul 21.0 1E+02 0.0023 13.9 2.0 18 24-41 29-46 (46)
444 PF08465 Herpes_TK_C: Thymidin 21.0 54 0.0012 14.0 0.7 21 61-83 12-32 (33)
445 PRK06645 DNA polymerase III su 20.9 1.5E+02 0.0032 21.0 3.1 32 11-43 262-293 (507)
446 KOG4496 Predicted coiled-coil 20.9 81 0.0017 18.6 1.6 21 20-42 144-164 (194)
447 PRK06585 holA DNA polymerase I 20.9 1E+02 0.0022 19.9 2.3 24 18-41 222-245 (343)
448 PF08424 NRDE-2: NRDE-2, neces 20.8 2.4E+02 0.0052 18.3 3.9 34 9-42 156-190 (321)
449 PF03299 TF_AP-2: Transcriptio 20.8 2.2E+02 0.0048 17.6 4.0 41 12-52 41-90 (209)
450 TIGR00876 tal_mycobact transal 20.6 1.6E+02 0.0036 19.8 3.1 32 14-45 290-330 (350)
451 KOG4334 Uncharacterized conser 20.6 1.2E+02 0.0027 21.6 2.6 33 24-56 542-574 (650)
452 PF06855 DUF1250: Protein of u 20.5 99 0.0021 13.9 1.6 29 6-34 14-42 (46)
453 cd04916 ACT_AKiii-YclM-BS_2 AC 20.5 62 0.0013 15.0 1.0 24 22-45 14-37 (66)
454 PRK14963 DNA polymerase III su 20.4 2.5E+02 0.0054 19.8 4.1 31 10-41 245-275 (504)
455 KOG0550 Molecular chaperone (D 20.4 1.8E+02 0.0039 20.4 3.3 44 17-60 259-305 (486)
456 PF06983 3-dmu-9_3-mt: 3-demet 20.3 91 0.002 17.0 1.7 16 20-35 10-25 (116)
457 cd02678 MIT_VPS4 MIT: domain c 20.2 93 0.002 15.4 1.6 18 17-34 16-33 (75)
458 PRK14720 transcript cleavage f 20.2 2.5E+02 0.0055 21.6 4.2 40 4-45 28-67 (906)
459 PF03735 ENT: ENT domain; Int 20.1 1.1E+02 0.0024 15.5 1.8 27 8-34 11-38 (73)
460 PF07723 LRR_2: Leucine Rich R 20.1 48 0.001 13.0 0.4 12 41-52 14-25 (26)
461 KOG3583 Uncharacterized conser 20.1 1.4E+02 0.003 18.8 2.5 36 7-46 139-174 (279)
462 KOG1147 Glutamyl-tRNA syntheta 20.0 49 0.0011 23.8 0.7 25 29-53 255-284 (712)
463 PF14858 DUF4486: Domain of un 20.0 2.1E+02 0.0046 20.5 3.6 30 6-35 196-225 (542)
No 1
>PF13041 PPR_2: PPR repeat family
Probab=99.88 E-value=1.1e-22 Score=97.26 Aligned_cols=50 Identities=28% Similarity=0.482 Sum_probs=49.1
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK 54 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~ 54 (87)
||+++||+||.+|++.|++++|.++|++|.+.|+.||..||+++|++||+
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
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=99.86 E-value=1e-21 Score=133.57 Aligned_cols=84 Identities=23% Similarity=0.351 Sum_probs=79.9
Q ss_pred CCCCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchh
Q 042815 1 MMPPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQI 78 (87)
Q Consensus 1 ~m~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~ 78 (87)
+|++||+++||+||.+|+++|+.++|+++|++|...|+.||..||+++|.+|++.|.+++ ++|+.|..+ .|+.|+.
T Consensus 385 ~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~--~g~~p~~ 462 (697)
T PLN03081 385 RMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSEN--HRIKPRA 462 (697)
T ss_pred hCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHh--cCCCCCc
Confidence 478899999999999999999999999999999999999999999999999999999999 999999876 5999999
Q ss_pred hhhhcccc
Q 042815 79 DAWQAACQ 86 (87)
Q Consensus 79 ~~~~~~~~ 86 (87)
.+|+++++
T Consensus 463 ~~y~~li~ 470 (697)
T PLN03081 463 MHYACMIE 470 (697)
T ss_pred cchHhHHH
Confidence 99999875
No 3
>PLN03077 Protein ECB2; Provisional
Probab=99.82 E-value=2.6e-20 Score=128.99 Aligned_cols=81 Identities=22% Similarity=0.432 Sum_probs=77.2
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhh
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAW 81 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~ 81 (87)
+||+++||+||.+|+++|+.++|+++|++|.+.|+.||..||+++|.+|++.|.+++ ++|+.|... .|+.|+..+|
T Consensus 551 ~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~--~gi~P~~~~y 628 (857)
T PLN03077 551 EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEK--YSITPNLKHY 628 (857)
T ss_pred CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHH--hCCCCchHHH
Confidence 689999999999999999999999999999999999999999999999999999999 999999965 5999999999
Q ss_pred hcccc
Q 042815 82 QAACQ 86 (87)
Q Consensus 82 ~~~~~ 86 (87)
++++.
T Consensus 629 ~~lv~ 633 (857)
T PLN03077 629 ACVVD 633 (857)
T ss_pred HHHHH
Confidence 98874
No 4
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=99.82 E-value=3.4e-20 Score=126.24 Aligned_cols=83 Identities=16% Similarity=0.198 Sum_probs=79.2
Q ss_pred CCCCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchh
Q 042815 1 MMPPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQI 78 (87)
Q Consensus 1 ~m~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~ 78 (87)
+|+++|+++||+||.+|+++|++++|.++|++|...|+.||..||++++++|++.|.++. ++++.|.+. |+.||.
T Consensus 284 ~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~---g~~~d~ 360 (697)
T PLN03081 284 GMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT---GFPLDI 360 (697)
T ss_pred hCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHh---CCCCCe
Confidence 488999999999999999999999999999999999999999999999999999999999 999999987 999999
Q ss_pred hhhhcccc
Q 042815 79 DAWQAACQ 86 (87)
Q Consensus 79 ~~~~~~~~ 86 (87)
.+||+++.
T Consensus 361 ~~~~~Li~ 368 (697)
T PLN03081 361 VANTALVD 368 (697)
T ss_pred eehHHHHH
Confidence 99999874
No 5
>PLN03077 Protein ECB2; Provisional
Probab=99.81 E-value=9.6e-20 Score=126.17 Aligned_cols=83 Identities=23% Similarity=0.326 Sum_probs=79.4
Q ss_pred CCCCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchh
Q 042815 1 MMPPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQI 78 (87)
Q Consensus 1 ~m~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~ 78 (87)
+|++||.++||+||.+|+++|++++|+++|++|...|+.||..||+++|.+|++.|+++. +++..|.+. |+.||.
T Consensus 247 ~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~---g~~~d~ 323 (857)
T PLN03077 247 RMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKT---GFAVDV 323 (857)
T ss_pred cCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHh---CCccch
Confidence 488999999999999999999999999999999999999999999999999999999998 889988887 999999
Q ss_pred hhhhcccc
Q 042815 79 DAWQAACQ 86 (87)
Q Consensus 79 ~~~~~~~~ 86 (87)
.+||++++
T Consensus 324 ~~~n~Li~ 331 (857)
T PLN03077 324 SVCNSLIQ 331 (857)
T ss_pred HHHHHHHH
Confidence 99999875
No 6
>PLN03218 maturation of RBCL 1; Provisional
Probab=99.76 E-value=2.3e-18 Score=121.26 Aligned_cols=79 Identities=16% Similarity=0.228 Sum_probs=67.5
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhh
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAW 81 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~ 81 (87)
.||+++||+||.+|++.|++++|.++|++|...|+.||..||+++|.+|++.|+++. ++|..|.+. |+.||..+|
T Consensus 716 ~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~---Gi~pd~~ty 792 (1060)
T PLN03218 716 RPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED---GIKPNLVMC 792 (1060)
T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc---CCCCCHHHH
Confidence 578888888888888888888888888888888888888888888888888888888 888888877 888888888
Q ss_pred hccc
Q 042815 82 QAAC 85 (87)
Q Consensus 82 ~~~~ 85 (87)
++++
T Consensus 793 nsLI 796 (1060)
T PLN03218 793 RCIT 796 (1060)
T ss_pred HHHH
Confidence 8775
No 7
>PLN03218 maturation of RBCL 1; Provisional
Probab=99.76 E-value=2.3e-18 Score=121.31 Aligned_cols=78 Identities=18% Similarity=0.221 Sum_probs=45.2
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhhh
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAWQ 82 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~~ 82 (87)
||.++||+||.+|++.|++++|.++|++|...|+.||..||+++|.+|++.|++++ .+|+.|... |+.||..+||
T Consensus 470 pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~---Gv~PD~vTYn 546 (1060)
T PLN03218 470 ADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK---NVKPDRVVFN 546 (1060)
T ss_pred CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHc---CCCCCHHHHH
Confidence 55555555555555555555555555555555555555555555555555555555 555555554 5555555555
Q ss_pred ccc
Q 042815 83 AAC 85 (87)
Q Consensus 83 ~~~ 85 (87)
++|
T Consensus 547 sLI 549 (1060)
T PLN03218 547 ALI 549 (1060)
T ss_pred HHH
Confidence 554
No 8
>PF12854 PPR_1: PPR repeat
Probab=99.49 E-value=3.2e-14 Score=62.66 Aligned_cols=32 Identities=25% Similarity=0.366 Sum_probs=30.2
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
-+||++|||+||.+||+.|++++|.++|++|+
T Consensus 3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~ 34 (34)
T PF12854_consen 3 CEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK 34 (34)
T ss_pred CCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence 36999999999999999999999999999984
No 9
>PF13041 PPR_2: PPR repeat family
Probab=99.48 E-value=3.1e-14 Score=67.70 Aligned_cols=44 Identities=18% Similarity=0.258 Sum_probs=42.3
Q ss_pred CCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhhhcccc
Q 042815 40 PNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAWQAACQ 86 (87)
Q Consensus 40 pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~~~~~~ 86 (87)
||.+||+++|++|++.|++++ ++|++|.++ |+.||..||+++++
T Consensus 1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~---g~~P~~~Ty~~li~ 46 (50)
T PF13041_consen 1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKR---GIKPDSYTYNILIN 46 (50)
T ss_pred CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHc---CCCCCHHHHHHHHH
Confidence 899999999999999999999 999999998 99999999999875
No 10
>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=99.45 E-value=1.8e-13 Score=60.00 Aligned_cols=35 Identities=31% Similarity=0.546 Sum_probs=33.4
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNA 42 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~ 42 (87)
++||+||.+|++.|++++|.++|++|.+.|++||.
T Consensus 1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~ 35 (35)
T TIGR00756 1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV 35 (35)
T ss_pred CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence 48999999999999999999999999999999984
No 11
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=99.31 E-value=4.4e-12 Score=55.38 Aligned_cols=34 Identities=26% Similarity=0.498 Sum_probs=32.6
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP 40 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p 40 (87)
+++||++|.+|++.|++++|.++|++|.+.|++|
T Consensus 1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P 34 (34)
T PF13812_consen 1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP 34 (34)
T ss_pred CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence 4699999999999999999999999999999998
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=99.25 E-value=8.8e-12 Score=53.27 Aligned_cols=31 Identities=26% Similarity=0.440 Sum_probs=29.4
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCC
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGP 38 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~ 38 (87)
++||+||++|++.|++++|.++|++|++.|+
T Consensus 1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~ 31 (31)
T PF01535_consen 1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI 31 (31)
T ss_pred CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence 5899999999999999999999999998875
No 13
>PF12854 PPR_1: PPR repeat
Probab=99.19 E-value=2.4e-11 Score=53.34 Aligned_cols=32 Identities=25% Similarity=0.372 Sum_probs=29.8
Q ss_pred cCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 36 RGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 36 ~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
.|+.||.+||+++|+++|+.|++++ ++|++|.
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 4899999999999999999999999 9998884
No 14
>KOG4422 consensus Uncharacterized conserved protein [Function unknown]
Probab=98.89 E-value=4.8e-09 Score=68.78 Aligned_cols=79 Identities=20% Similarity=0.291 Sum_probs=64.1
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHH-------------------------------HHHHcCCCCCHhhHHHHHHHHc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFM-------------------------------SIEKRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~-------------------------------~m~~~g~~pd~~t~~~ll~~~~ 53 (87)
++--+|.+||.|.|+--..|+|.++|+ +|....++||..|||+++++.+
T Consensus 205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL~c~a 284 (625)
T KOG4422|consen 205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALLSCAA 284 (625)
T ss_pred CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHHHHHH
Confidence 345788999999998777777777665 4556778999999999999999
Q ss_pred ccchhHH------HHHHhchhcccccccchhhhhhcccc
Q 042815 54 KIKIFGV------TLMGIQPQNLWYYIDGQIDAWQAACQ 86 (87)
Q Consensus 54 ~~~~~~~------~~~~~m~~~~~~g~~~~~~~~~~~~~ 86 (87)
+.|+++. +++.+|+.- |++|+..+|.-+|.
T Consensus 285 kfg~F~~ar~aalqil~EmKei---GVePsLsSyh~iik 320 (625)
T KOG4422|consen 285 KFGKFEDARKAALQILGEMKEI---GVEPSLSSYHLIIK 320 (625)
T ss_pred HhcchHHHHHHHHHHHHHHHHh---CCCcchhhHHHHHH
Confidence 9997766 788888887 99999998877664
No 15
>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=98.50 E-value=1.1e-07 Score=41.01 Aligned_cols=33 Identities=15% Similarity=0.129 Sum_probs=30.3
Q ss_pred hhHHHHHHHHcccchhHH--HHHHhchhcccccccchh
Q 042815 43 VTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQI 78 (87)
Q Consensus 43 ~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~ 78 (87)
.||+++|++|++.|++++ ++|+.|... |+.||.
T Consensus 1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~---g~~p~~ 35 (35)
T TIGR00756 1 VTYNTLIDGLCKAGRVEEALELFKEMLER---GIEPDV 35 (35)
T ss_pred CcHHHHHHHHHHCCCHHHHHHHHHHHHHc---CCCCCC
Confidence 489999999999999999 999999987 999873
No 16
>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=98.47 E-value=9.5e-07 Score=48.50 Aligned_cols=73 Identities=14% Similarity=0.134 Sum_probs=62.6
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCC-CCCHhhHHHHHHHHcccch----hHH------HHHHhchhcccccccchhh
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGP-RPNAVTFVGVLTAYGKIKI----FGV------TLMGIQPQNLWYYIDGQID 79 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~-~pd~~t~~~ll~~~~~~~~----~~~------~~~~~m~~~~~~g~~~~~~ 79 (87)
...|..+...+++.....+|+.++..|+ .|...+|+.+|++.++... ++. .+++.|... ++.|+..
T Consensus 29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~---~lKP~~e 105 (120)
T PF08579_consen 29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN---KLKPNDE 105 (120)
T ss_pred HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh---ccCCcHH
Confidence 4567778888999999999999999999 9999999999999987532 222 788999877 8999999
Q ss_pred hhhcccc
Q 042815 80 AWQAACQ 86 (87)
Q Consensus 80 ~~~~~~~ 86 (87)
+||.+++
T Consensus 106 tYnivl~ 112 (120)
T PF08579_consen 106 TYNIVLG 112 (120)
T ss_pred HHHHHHH
Confidence 9998764
No 17
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=98.42 E-value=2.6e-07 Score=39.83 Aligned_cols=32 Identities=16% Similarity=0.082 Sum_probs=29.3
Q ss_pred HhhHHHHHHHHcccchhHH--HHHHhchhcccccccc
Q 042815 42 AVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDG 76 (87)
Q Consensus 42 ~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~ 76 (87)
+.||+++|.+|++.|+++. .+|+.|... |++|
T Consensus 1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~---gv~P 34 (34)
T PF13812_consen 1 VHTYNALLRACAKAGDPDAALQLFDEMKEQ---GVKP 34 (34)
T ss_pred CcHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCC
Confidence 3689999999999999999 999999987 8887
No 18
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=98.20 E-value=1.8e-06 Score=36.27 Aligned_cols=27 Identities=19% Similarity=0.364 Sum_probs=25.2
Q ss_pred hhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 43 VTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 43 ~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+||+++|++|++.|++++ ++|++|...
T Consensus 1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~ 29 (31)
T PF01535_consen 1 VTYNSLISGYCKMGQFEEALEVFDEMRER 29 (31)
T ss_pred CcHHHHHHHHHccchHHHHHHHHHHHhHC
Confidence 589999999999999999 999999876
No 19
>KOG4422 consensus Uncharacterized conserved protein [Function unknown]
Probab=97.97 E-value=4.1e-05 Score=50.90 Aligned_cols=57 Identities=14% Similarity=0.153 Sum_probs=51.4
Q ss_pred CCcHhHHHHHHHHHHhcCCchh----HHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGM----GVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~----a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.||..|+|++++.-++.|+++. |.+++.+|++-|+.|...+|-.+|.-.++.++..+
T Consensus 270 ~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k 330 (625)
T KOG4422|consen 270 TPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQK 330 (625)
T ss_pred CCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchh
Confidence 4899999999999999998765 56788999999999999999999999999988755
No 20
>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses. ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].
Probab=97.92 E-value=5.5e-05 Score=45.98 Aligned_cols=82 Identities=13% Similarity=0.099 Sum_probs=68.4
Q ss_pred CCCcHhHHHHHHHHHHhc-----CCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH-----------------
Q 042815 3 PPRDATTSSAMMLGLAKN-----GKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV----------------- 60 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~-----g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~----------------- 60 (87)
..+|..+|..+|..|.+. |++|=...-+..|.+-|+.-|..+|+.||+.+=+...+..
T Consensus 43 ~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~ 122 (228)
T PF06239_consen 43 QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECA 122 (228)
T ss_pred ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHH
Confidence 357888999999999875 7778788888999999999999999999999876332211
Q ss_pred -HHHHhchhcccccccchhhhhhccccC
Q 042815 61 -TLMGIQPQNLWYYIDGQIDAWQAACQI 87 (87)
Q Consensus 61 -~~~~~m~~~~~~g~~~~~~~~~~~~~i 87 (87)
.++++|... |+-||..++..+++|
T Consensus 123 i~lL~qME~~---gV~Pd~Et~~~ll~i 147 (228)
T PF06239_consen 123 IDLLEQMENN---GVMPDKETEQMLLNI 147 (228)
T ss_pred HHHHHHHHHc---CCCCcHHHHHHHHHH
Confidence 778899987 999999999988764
No 21
>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends. Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].
Probab=97.81 E-value=8.2e-05 Score=40.98 Aligned_cols=54 Identities=19% Similarity=0.132 Sum_probs=45.1
Q ss_pred CCCCcHhHHHHHHHHHHhcC--------CchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 2 MPPRDATTSSAMMLGLAKNG--------KNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 2 m~~~~~~~~~~li~~~~~~g--------~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
+.-|++.+||.++.+-++.. +.-+.+.+|+.|...+++|+..||+.++.++.+.
T Consensus 56 i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Llkg 117 (120)
T PF08579_consen 56 ITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLLKG 117 (120)
T ss_pred CCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHh
Confidence 34688999999999988853 2456788999999999999999999999887653
No 22
>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].
Probab=97.81 E-value=5.5e-05 Score=50.12 Aligned_cols=61 Identities=15% Similarity=0.098 Sum_probs=54.9
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
|..++|..|.+.|..++++.+++.=...|+-||.+||+.+|+.+-+.|+... .+...|...
T Consensus 105 t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQ 167 (429)
T PF10037_consen 105 THHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQ 167 (429)
T ss_pred cHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHh
Confidence 4469999999999999999999998899999999999999999999999988 776666655
No 23
>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses. ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].
Probab=97.64 E-value=0.00024 Score=43.28 Aligned_cols=57 Identities=18% Similarity=0.227 Sum_probs=49.1
Q ss_pred CCcHhHHHHHHHHHHhc----------------CCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 4 PRDATTSSAMMLGLAKN----------------GKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~----------------g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
++|+.+||.||.-+-+. .+-+-|++++++|...|+.||..|+..++..+++.+..-.
T Consensus 84 ~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~p~~ 156 (228)
T PF06239_consen 84 EKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSHPMK 156 (228)
T ss_pred cccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccHHHH
Confidence 47899999999988763 2236789999999999999999999999999999887654
No 24
>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=97.61 E-value=0.00056 Score=38.33 Aligned_cols=78 Identities=13% Similarity=0.181 Sum_probs=56.0
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHH---------------HcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIE---------------KRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~---------------~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
|..++.++|.++++.|+.+....+.++.= ...+.|+..+..+++.+++..+++.. ++.+....
T Consensus 1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~ 80 (126)
T PF12921_consen 1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSR 80 (126)
T ss_pred ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence 45567788888888888888877776531 12355778888888888888888877 77777777
Q ss_pred cccccccchhhhhhccc
Q 042815 69 NLWYYIDGQIDAWQAAC 85 (87)
Q Consensus 69 ~~~~g~~~~~~~~~~~~ 85 (87)
. +++..+..+|..++
T Consensus 81 ~--Y~I~i~~~~W~~Ll 95 (126)
T PF12921_consen 81 K--YPIPIPKEFWRRLL 95 (126)
T ss_pred H--cCCCCCHHHHHHHH
Confidence 7 45666667776654
No 25
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=97.54 E-value=0.00037 Score=44.85 Aligned_cols=57 Identities=14% Similarity=0.108 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
+++.+...|.+.|++++|...|+++.+. .|+...+..+...+.+.|+.++ .+++.+.
T Consensus 251 ~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l 309 (389)
T PRK11788 251 VLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQL 309 (389)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 4555555666666666666666655543 3444444555555555555555 4444443
No 26
>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]
Probab=97.42 E-value=0.0001 Score=52.46 Aligned_cols=50 Identities=12% Similarity=0.179 Sum_probs=35.0
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK 54 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~ 54 (87)
.||.+||.++|..||..|+++.|- +|..|......-+...|+.++.+...
T Consensus 22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~ 71 (1088)
T KOG4318|consen 22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKE 71 (1088)
T ss_pred CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccc
Confidence 588899999999999999999998 88887654333333333333333333
No 27
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=97.42 E-value=0.0006 Score=43.89 Aligned_cols=70 Identities=13% Similarity=-0.032 Sum_probs=55.5
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc---cchhHH--HHHHhchhcccccccchhh
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK---IKIFGV--TLMGIQPQNLWYYIDGQID 79 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~---~~~~~~--~~~~~m~~~~~~g~~~~~~ 79 (87)
|+...++.+...+.+.|++++|..+|.++.+. .||..++..++..... .|..++ .+++.+.++ ++.|+..
T Consensus 280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~---~~~~~p~ 354 (389)
T PRK11788 280 PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGE---QLKRKPR 354 (389)
T ss_pred CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHH---HHhCCCC
Confidence 55566789999999999999999999998765 6999999999988775 335555 788888876 5655544
No 28
>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].
Probab=97.09 E-value=0.0015 Score=43.47 Aligned_cols=51 Identities=16% Similarity=0.037 Sum_probs=46.8
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
||..|+|.||+.+.++|++..|.++..+|...+...+..|+..-+.+|.+.
T Consensus 136 ~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~ 186 (429)
T PF10037_consen 136 PDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY 186 (429)
T ss_pred CChhhHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence 789999999999999999999999999999888888888998888888776
No 29
>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=96.97 E-value=0.0047 Score=30.16 Aligned_cols=51 Identities=20% Similarity=0.218 Sum_probs=41.5
Q ss_pred HhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 18 AKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
.+.|++++|+++|++.....-. |......+..++.+.|++++ .+++.+...
T Consensus 2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~ 54 (68)
T PF14559_consen 2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQ 54 (68)
T ss_dssp HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5689999999999999876422 66677789999999999999 888888765
No 30
>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=96.92 E-value=0.0089 Score=33.67 Aligned_cols=71 Identities=7% Similarity=-0.041 Sum_probs=49.2
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc--ccccccchhhh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN--LWYYIDGQIDA 80 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~--~~~g~~~~~~~ 80 (87)
....++..+...|++++|..+.++..... .-|...|..+|.++...|+... ++|+.+... ...|+.|+..+
T Consensus 64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~ 138 (146)
T PF03704_consen 64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET 138 (146)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence 45667778888999999999999988664 3388899999999999999988 666555432 12588888765
No 31
>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]
Probab=96.64 E-value=0.0074 Score=43.52 Aligned_cols=73 Identities=14% Similarity=0.094 Sum_probs=61.0
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhh
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAW 81 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~ 81 (87)
.+|..+|.+++..-.-+|+.+-|..+..+|+++|+..+..-|=.+|-+ .+.... .+...|... |+.|+..|+
T Consensus 201 ~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~---gv~p~seT~ 274 (1088)
T KOG4318|consen 201 APTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEK---GVQPGSETQ 274 (1088)
T ss_pred CCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHh---cCCCCcchh
Confidence 478899999999999999999999999999999998888866666665 444444 778888887 999999887
Q ss_pred h
Q 042815 82 Q 82 (87)
Q Consensus 82 ~ 82 (87)
.
T Consensus 275 a 275 (1088)
T KOG4318|consen 275 A 275 (1088)
T ss_pred H
Confidence 4
No 32
>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase. The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].
Probab=96.55 E-value=0.021 Score=31.98 Aligned_cols=56 Identities=11% Similarity=-0.107 Sum_probs=48.9
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHH-HcCCCCCHhhHHHHHHHHcccchhH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIE-KRGPRPNAVTFVGVLTAYGKIKIFG 59 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~-~~g~~pd~~t~~~ll~~~~~~~~~~ 59 (87)
.|+...-.+++.+|+.+|++..|+++.+... ..++.-+..+|..|++-+-.....+
T Consensus 49 ~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s~~~ 105 (126)
T PF12921_consen 49 YPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLSSKR 105 (126)
T ss_pred CCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcCCc
Confidence 4899999999999999999999999999987 5688889999999999887655543
No 33
>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]
Probab=96.42 E-value=0.02 Score=36.79 Aligned_cols=79 Identities=10% Similarity=0.064 Sum_probs=62.6
Q ss_pred CCcHhHHHHHHHHHHhc-----CCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH------------------
Q 042815 4 PRDATTSSAMMLGLAKN-----GKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV------------------ 60 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~-----g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~------------------ 60 (87)
++|-.+|-+++..|... +++|=...-++.|.+.|+..|..+|..||..+-+...+..
T Consensus 64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I 143 (406)
T KOG3941|consen 64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI 143 (406)
T ss_pred cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence 57888999999988775 6677777788999999999999999999999887544322
Q ss_pred HHHHhchhcccccccchhhhhhccc
Q 042815 61 TLMGIQPQNLWYYIDGQIDAWQAAC 85 (87)
Q Consensus 61 ~~~~~m~~~~~~g~~~~~~~~~~~~ 85 (87)
.++++|... |+-||..+--.++
T Consensus 144 ~vLeqME~h---GVmPdkE~e~~lv 165 (406)
T KOG3941|consen 144 KVLEQMEWH---GVMPDKEIEDILV 165 (406)
T ss_pred HHHHHHHHc---CCCCchHHHHHHH
Confidence 567778776 9999887654444
No 34
>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=96.39 E-value=0.019 Score=39.92 Aligned_cols=51 Identities=12% Similarity=-0.004 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.+..+...|.+.|++++|...|+++.+.+.. |..++..+..++.+.|+.++
T Consensus 839 ~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~ 889 (899)
T TIGR02917 839 ILDTLGWLLVEKGEADRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAE 889 (899)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHH
Confidence 3444444444455555555555555444322 44444445555555555444
No 35
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=96.02 E-value=0.024 Score=24.47 Aligned_cols=26 Identities=8% Similarity=0.050 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
+|+.|=..|.+.|++++|+++|++..
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 57888899999999999999999954
No 36
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=95.88 E-value=0.06 Score=37.56 Aligned_cols=53 Identities=13% Similarity=0.102 Sum_probs=24.6
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
...|..+...|.+.|++++|...|+++.+.. ..+...+..+..++...|+.++
T Consensus 601 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~ 653 (899)
T TIGR02917 601 PEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAK 653 (899)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHH
Confidence 3445555555555555555555555544332 1133344444444444444444
No 37
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=95.75 E-value=0.039 Score=24.85 Aligned_cols=28 Identities=11% Similarity=-0.006 Sum_probs=25.3
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
+|..+-..|.+.|++++|.++|++..+.
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~ 30 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALAL 30 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 5778888999999999999999999876
No 38
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=95.56 E-value=0.071 Score=25.69 Aligned_cols=53 Identities=11% Similarity=0.071 Sum_probs=42.0
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
-..+.+.|++++|...|++..... | +...+..+-.++...|+.++ ..|+....
T Consensus 4 a~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 4 ARALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 356789999999999999998765 5 55577778888889999988 77777754
No 39
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=95.53 E-value=0.094 Score=35.90 Aligned_cols=58 Identities=10% Similarity=0.138 Sum_probs=47.9
Q ss_pred CCCCcHhHHHHHHHHHHh-cCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 2 MPPRDATTSSAMMLGLAK-NGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 2 m~~~~~~~~~~li~~~~~-~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
+-+|+.+-|..||..|.+ .|++.+|.++|+..- +.+.-|.-....+++-|...|.-+.
T Consensus 654 liqp~~~kwqlmiasc~rrsgnyqka~d~yk~~h-rkfpedldclkflvri~~dlgl~d~ 712 (840)
T KOG2003|consen 654 LIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIH-RKFPEDLDCLKFLVRIAGDLGLKDA 712 (840)
T ss_pred hcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHH-HhCccchHHHHHHHHHhccccchhH
Confidence 357999999999988765 799999999999974 4456688888999999998886554
No 40
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=95.52 E-value=0.038 Score=31.07 Aligned_cols=41 Identities=20% Similarity=0.302 Sum_probs=30.0
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHH-----HcCCCCCHhhH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIE-----KRGPRPNAVTF 45 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~-----~~g~~pd~~t~ 45 (87)
-|...|-.+|.+|.+.|+..+|.+.|+++. +.|+.|...+-
T Consensus 94 ~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~ 139 (146)
T PF03704_consen 94 YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR 139 (146)
T ss_dssp T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence 467789999999999999999999999975 35899987654
No 41
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=95.27 E-value=0.073 Score=23.05 Aligned_cols=29 Identities=14% Similarity=0.176 Sum_probs=24.6
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
..+++.|-..|...|++++|+.++++...
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 35788999999999999999999999763
No 42
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=95.04 E-value=0.23 Score=28.18 Aligned_cols=62 Identities=3% Similarity=-0.131 Sum_probs=36.6
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
.+...|..+-..+.+.|++++|...|++..... ..|...+..+-.++...|+.++ ..|+...
T Consensus 56 ~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al 119 (144)
T PRK15359 56 WSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEPGLAREAFQTAI 119 (144)
T ss_pred CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 355566666666666667777777666665432 1244455555556666666666 5555544
No 43
>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=94.69 E-value=0.099 Score=26.10 Aligned_cols=59 Identities=8% Similarity=0.071 Sum_probs=42.8
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHc--CCC---CC-HhhHHHHHHHHcccchhHH--HHHHhc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKR--GPR---PN-AVTFVGVLTAYGKIKIFGV--TLMGIQ 66 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~--g~~---pd-~~t~~~ll~~~~~~~~~~~--~~~~~m 66 (87)
.+|+.+-..|...|++++|+..|++..+. ... |+ ..++..+=.++...|+.++ ..+++.
T Consensus 6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a 72 (78)
T PF13424_consen 6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA 72 (78)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 57888999999999999999999997743 122 23 4467777777788888877 555543
No 44
>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=94.65 E-value=0.23 Score=24.08 Aligned_cols=59 Identities=17% Similarity=0.121 Sum_probs=45.7
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccc-hhHH--HHHHhc
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIK-IFGV--TLMGIQ 66 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~-~~~~--~~~~~m 66 (87)
+...|..+=..+.+.|++++|+..|.+..+.. | +...|..+=.++...| +.++ ..++..
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~a 64 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKA 64 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHH
Confidence 45678888889999999999999999988764 4 5557777777788888 6665 555443
No 45
>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=94.54 E-value=0.11 Score=25.08 Aligned_cols=42 Identities=17% Similarity=0.255 Sum_probs=32.1
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVL 49 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll 49 (87)
|...+-.+...|.+.|++++|.+++.++... .||...|..++
T Consensus 24 ~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l~ 65 (68)
T PF14559_consen 24 NPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQLL 65 (68)
T ss_dssp SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHHH
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHHH
Confidence 6667778999999999999999999998866 46655554443
No 46
>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=94.31 E-value=0.28 Score=23.80 Aligned_cols=57 Identities=14% Similarity=0.022 Sum_probs=29.4
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
|..+...+.+.|++++|..+|.+..+.. ..+...+..+-..+...++.+. ..++...
T Consensus 3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~ 61 (100)
T cd00189 3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKAL 61 (100)
T ss_pred HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555666666666666666655432 1122344444555555555555 4444433
No 47
>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=0.1 Score=29.70 Aligned_cols=33 Identities=18% Similarity=0.324 Sum_probs=26.1
Q ss_pred hcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHc
Q 042815 19 KNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~ 53 (87)
+.|.-.+|..+|.+|...|-.||. |+.|+..+.
T Consensus 107 ~ygsk~DaY~VF~kML~~G~pPdd--W~~Ll~~a~ 139 (140)
T PF11663_consen 107 AYGSKTDAYAVFRKMLERGNPPDD--WDALLKEAK 139 (140)
T ss_pred hhccCCcHHHHHHHHHhCCCCCcc--HHHHHHHhc
Confidence 446678999999999999999984 666776653
No 48
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=94.18 E-value=0.28 Score=30.50 Aligned_cols=61 Identities=7% Similarity=-0.093 Sum_probs=34.5
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
.|...|..+-..+.+.|+.++|++.|++.... .| |......++..+...|+.++ .++....
T Consensus 144 ~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~ 207 (280)
T PF13429_consen 144 DSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLL 207 (280)
T ss_dssp T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence 34555666666666666666676666666544 34 34455566666666666654 4444443
No 49
>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]
Probab=93.99 E-value=0.26 Score=31.92 Aligned_cols=57 Identities=14% Similarity=0.208 Sum_probs=46.3
Q ss_pred CCcHhHHHHHHHHHHhcC----------------CchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 4 PRDATTSSAMMLGLAKNG----------------KNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g----------------~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
++|..+|+.||.-+-+-. +-+=++.++++|...|+.||..+--.|+.++++-+..-.
T Consensus 104 erDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~ 176 (406)
T KOG3941|consen 104 ERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTK 176 (406)
T ss_pred hhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHH
Confidence 478889999888766532 124478899999999999999999999999999886544
No 50
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=93.64 E-value=0.65 Score=31.55 Aligned_cols=62 Identities=11% Similarity=0.077 Sum_probs=50.4
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCH----hhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNA----VTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~----~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
.+...|+.+-.+|.+.|++++|+..|++-.+. .||. .+|..+-.+|+..|++++ ..+.+...
T Consensus 73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALe 140 (453)
T PLN03098 73 KTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALR 140 (453)
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 45678999999999999999999999996654 5664 469999999999999988 55555443
No 51
>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=93.53 E-value=0.45 Score=26.03 Aligned_cols=60 Identities=13% Similarity=0.210 Sum_probs=33.8
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
......+...+.+.|++++|.+.|++....+ ..+...+..+-..+...|+.+. ..++...
T Consensus 17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~ 78 (135)
T TIGR02552 17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAA 78 (135)
T ss_pred HHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455556666677777777776665443 2244455555555556666655 4555443
No 52
>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=93.52 E-value=0.43 Score=23.11 Aligned_cols=61 Identities=16% Similarity=0.085 Sum_probs=45.0
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
+...|..+-..|...|++++|.+.|.+..... ..+..++..+...+...|+.+. ..+....
T Consensus 33 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~ 95 (100)
T cd00189 33 NADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKYEEALEAYEKAL 95 (100)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 34677888888999999999999999977654 2244577777777888888776 5555443
No 53
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=93.29 E-value=0.26 Score=31.67 Aligned_cols=42 Identities=17% Similarity=0.243 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLT 50 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~ 50 (87)
=||.-|..-.+.|++++|+.|.+|-+..|+.--..||...++
T Consensus 259 Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~tFik~V~ 300 (303)
T PRK10564 259 YFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARSTFISSVK 300 (303)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHHHHHHHhh
Confidence 467999999999999999999999999998877777755443
No 54
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=93.19 E-value=0.77 Score=29.32 Aligned_cols=73 Identities=10% Similarity=0.005 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc--ccccccchhhhhh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN--LWYYIDGQIDAWQ 82 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~--~~~g~~~~~~~~~ 82 (87)
++..++..+...|+++.+.+.+++..... .-|...|..++.++.+.|.... ..|+++... -..|++|...+..
T Consensus 155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~ 231 (280)
T COG3629 155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA 231 (280)
T ss_pred HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence 45556666666666777777666666553 2266667777777777666655 444443321 1146666655543
No 55
>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=93.09 E-value=0.8 Score=25.01 Aligned_cols=64 Identities=0% Similarity=-0.108 Sum_probs=49.8
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
.+...|..+-..|.+.|++++|...|++....+ ..+...+..+-..+...|+.+. ..|......
T Consensus 49 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 49 YNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 466788888899999999999999999976654 3355667667778888899887 777766543
No 56
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=92.94 E-value=0.13 Score=26.14 Aligned_cols=52 Identities=15% Similarity=0.093 Sum_probs=27.4
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
...|-.+-..|.+.|++++|..++++ ...+-. +....-.+-.++-+.|+.++
T Consensus 25 ~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~e 76 (84)
T PF12895_consen 25 SAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEE 76 (84)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHH
Confidence 33444467777777777777777776 222111 11222233455566666665
No 57
>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]
Probab=92.88 E-value=0.81 Score=29.21 Aligned_cols=51 Identities=16% Similarity=0.196 Sum_probs=43.5
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHH-----cCCCCCHhhHHHHHHHHcc
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEK-----RGPRPNAVTFVGVLTAYGK 54 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~-----~g~~pd~~t~~~ll~~~~~ 54 (87)
+-|...|-.+|.+|.++|+...|+..|+++.. .|+.|-..+.....+...+
T Consensus 184 p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y~~~~~~ 239 (280)
T COG3629 184 PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALYEEILRQ 239 (280)
T ss_pred ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHHHHHhcc
Confidence 45778899999999999999999999999875 5899998888877777444
No 58
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=92.82 E-value=0.21 Score=24.47 Aligned_cols=24 Identities=25% Similarity=0.360 Sum_probs=20.5
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
.+|.||.+.|++++|.+...++..
T Consensus 28 qvI~gllqlg~~~~a~eYi~~~~~ 51 (62)
T PF14689_consen 28 QVIYGLLQLGKYEEAKEYIKELSK 51 (62)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH
Confidence 579999999999999999988763
No 59
>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=92.58 E-value=0.38 Score=19.93 Aligned_cols=29 Identities=7% Similarity=-0.026 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
.+|..+-..|...|++++|+..|++..+.
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 46888889999999999999999997754
No 60
>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=92.56 E-value=0.42 Score=30.17 Aligned_cols=62 Identities=6% Similarity=-0.055 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcC-CCCCHhhHHHHHHHHcccchhHH-HHHHhchhc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRG-PRPNAVTFVGVLTAYGKIKIFGV-TLMGIQPQN 69 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~~~ 69 (87)
.+|-.++...-+.+..+.|..+|.+..+.+ +..+.+...+.++-++....-.. .+|+...+.
T Consensus 2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~ 65 (280)
T PF05843_consen 2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK 65 (280)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 467788888888888888888888887543 55677777777766644332223 777777765
No 61
>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=92.51 E-value=1.2 Score=25.78 Aligned_cols=61 Identities=10% Similarity=-0.003 Sum_probs=42.5
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
...|..+-..|.+.|++++|...|.+..... ..+...+..+...+...|+.+. ..++....
T Consensus 135 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~ 197 (234)
T TIGR02521 135 ARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQ 197 (234)
T ss_pred hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 3456667777888888888888888876543 1234567777777778888877 66665544
No 62
>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=92.35 E-value=1.3 Score=25.67 Aligned_cols=24 Identities=17% Similarity=0.070 Sum_probs=9.6
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHH
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSI 33 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m 33 (87)
|..+...|.+.|++++|.+.|++.
T Consensus 68 ~~~la~~~~~~~~~~~A~~~~~~a 91 (234)
T TIGR02521 68 YLALALYYQQLGELEKAEDSFRRA 91 (234)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHH
Confidence 333333344444444444444433
No 63
>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=92.32 E-value=0.5 Score=25.53 Aligned_cols=46 Identities=9% Similarity=0.022 Sum_probs=37.6
Q ss_pred hhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 24 GMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
=+..+-++.+....+.|+.....+.|+||-+..++.. ++++..+.+
T Consensus 24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K 71 (103)
T cd00923 24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK 71 (103)
T ss_pred HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 3455566677777899999999999999999999888 888888755
No 64
>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=92.16 E-value=0.98 Score=23.76 Aligned_cols=60 Identities=10% Similarity=0.089 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCC-C-CHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPR-P-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~-p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
.+..+-..+.+.|++++|...|++.....-. | ...++..+-.++.+.++.+. ..+.....
T Consensus 41 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~ 104 (119)
T TIGR02795 41 AHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIK 104 (119)
T ss_pred HHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence 3444556666667777777777666543211 1 12234444445555555555 55555544
No 65
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=91.83 E-value=0.83 Score=22.23 Aligned_cols=54 Identities=4% Similarity=-0.054 Sum_probs=41.3
Q ss_pred HHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 15 LGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 15 ~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
..|.+.+++++|.+.++++....- .+...+...=.++.+.|++.. ..++.....
T Consensus 3 ~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~ 58 (73)
T PF13371_consen 3 QIYLQQEDYEEALEVLERALELDP-DDPELWLQRARCLFQLGRYEEALEDLERALEL 58 (73)
T ss_pred HHHHhCCCHHHHHHHHHHHHHhCc-ccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence 467899999999999999987642 255566666777888888888 777777654
No 66
>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1.9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....
Probab=91.81 E-value=0.41 Score=26.10 Aligned_cols=45 Identities=9% Similarity=0.020 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 25 MGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 25 ~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+..+-++.+-...+.|+.....+.|+||-+..++.. ++++..+.+
T Consensus 28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K 74 (108)
T PF02284_consen 28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK 74 (108)
T ss_dssp HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 444555666677889999999999999999999888 888888876
No 67
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=91.42 E-value=0.93 Score=28.19 Aligned_cols=65 Identities=11% Similarity=-0.000 Sum_probs=41.1
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcC-CCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRG-PRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
++...+..++..|.+.|+++++.+++.+..... ..++...|...-..+.+.|+.++ ..+++....
T Consensus 108 ~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~ 175 (280)
T PF13429_consen 108 GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL 175 (280)
T ss_dssp ----------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH
T ss_pred cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 455677888899999999999999999977433 45577788888888899999988 788777654
No 68
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=91.39 E-value=0.21 Score=21.26 Aligned_cols=25 Identities=12% Similarity=0.178 Sum_probs=21.3
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVE 28 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~ 28 (87)
+-|..+|+.+=..|.+.|++++|++
T Consensus 10 P~n~~a~~nla~~~~~~g~~~~A~~ 34 (34)
T PF13431_consen 10 PNNAEAYNNLANLYLNQGDYEEAIA 34 (34)
T ss_pred CCCHHHHHHHHHHHHHCcCHHhhcC
Confidence 4578899999999999999999863
No 69
>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=90.90 E-value=0.65 Score=21.21 Aligned_cols=25 Identities=16% Similarity=0.179 Sum_probs=21.9
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcC
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRG 37 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g 37 (87)
+-.+|...|+.+.|.+++++....|
T Consensus 5 LA~ayie~Gd~e~Ar~lL~evl~~~ 29 (44)
T TIGR03504 5 LARAYIEMGDLEGARELLEEVIEEG 29 (44)
T ss_pred HHHHHHHcCChHHHHHHHHHHHHcC
Confidence 5578999999999999999998655
No 70
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=90.87 E-value=0.31 Score=19.81 Aligned_cols=24 Identities=25% Similarity=0.289 Sum_probs=19.5
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHc
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
+-..|.+.|++++|.+.|+++...
T Consensus 6 ~a~~~~~~g~~~~A~~~~~~~~~~ 29 (33)
T PF13174_consen 6 LARCYYKLGDYDEAIEYFQRLIKR 29 (33)
T ss_dssp HHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred HHHHHHHccCHHHHHHHHHHHHHH
Confidence 345577889999999999998765
No 71
>PF13762 MNE1: Mitochondrial splicing apparatus component
Probab=90.79 E-value=1.1 Score=25.84 Aligned_cols=52 Identities=12% Similarity=0.099 Sum_probs=41.2
Q ss_pred CcHhHHHHHHHHHHhcCC-chhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccc
Q 042815 5 RDATTSSAMMLGLAKNGK-NGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIK 56 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~-~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~ 56 (87)
.|-.+|++++.+.++..- ---+..+|.-|++.+.++...-|..+|++|.+--
T Consensus 77 ~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~li~~~l~g~ 129 (145)
T PF13762_consen 77 LDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSCLIKAALRGY 129 (145)
T ss_pred cccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHcCC
Confidence 455688899998877766 4556778888888888888889999999887763
No 72
>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=90.76 E-value=1.7 Score=23.72 Aligned_cols=28 Identities=11% Similarity=0.121 Sum_probs=25.7
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
.-|..++.-|..+|..++|++++.+...
T Consensus 40 ~~~~eL~~lY~~kg~h~~AL~ll~~l~~ 67 (108)
T PF10366_consen 40 GKYQELVDLYQGKGLHRKALELLKKLAD 67 (108)
T ss_pred CCHHHHHHHHHccCccHHHHHHHHHHhc
Confidence 4588999999999999999999999876
No 73
>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=90.53 E-value=1.2 Score=22.29 Aligned_cols=43 Identities=14% Similarity=0.068 Sum_probs=36.1
Q ss_pred HhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 18 AKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
...|+.+++.+++++....|..|.......+..+.-+.|..-.
T Consensus 12 l~~~d~~~~~~~~~~~l~~g~~~~~i~~~~l~p~m~~iG~~w~ 54 (79)
T PF02607_consen 12 LLAGDEEEAEALLEEALAQGYPPEDIIEEILMPAMEEIGELWE 54 (79)
T ss_dssp HHTT-CCHHHHHHHHHHHCSSSTTHHHHHTHHHHHHHHHHHHH
T ss_pred HHhCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 3469999999999999989999999999889999888887643
No 74
>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=90.47 E-value=1 Score=20.81 Aligned_cols=37 Identities=16% Similarity=0.106 Sum_probs=29.5
Q ss_pred HHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 042815 15 LGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTA 51 (87)
Q Consensus 15 ~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~ 51 (87)
..--+.|...++..++++|.+.|+.-+...+..+++-
T Consensus 10 ~~Ak~~GlI~~~~~~l~~l~~~g~~is~~l~~~~L~~ 46 (48)
T PF11848_consen 10 LLAKRRGLISEVKPLLDRLQQAGFRISPKLIEEILRR 46 (48)
T ss_pred HHHHHcCChhhHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence 3345778888999999999999988888877777653
No 75
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=90.28 E-value=2.3 Score=24.58 Aligned_cols=63 Identities=11% Similarity=0.035 Sum_probs=44.5
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC--HhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN--AVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd--~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
....|..+-..|.+.|++++|...|++.....-.|+ ...+..+-..+.+.|+.+. ..+.....
T Consensus 34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~ 100 (172)
T PRK02603 34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE 100 (172)
T ss_pred hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 345667777778889999999999998876543332 3567777777888888877 55555443
No 76
>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=90.23 E-value=2.5 Score=28.02 Aligned_cols=58 Identities=12% Similarity=0.026 Sum_probs=44.8
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQ 66 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m 66 (87)
...++=.-+.+.|++++|.+.|+........||..++..+-..+-+.|+.++ +++.+-
T Consensus 337 ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~ 396 (409)
T TIGR00540 337 INRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDS 396 (409)
T ss_pred HHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 3446666678899999999999965555557898888899999999998877 666653
No 77
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=90.02 E-value=2.2 Score=24.07 Aligned_cols=58 Identities=10% Similarity=-0.015 Sum_probs=46.0
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
+...-..+.+.|++++|...|++..... ..+...+..+-.++...|+.++ ..|+....
T Consensus 27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~ 86 (144)
T PRK15359 27 VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALM 86 (144)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence 4456677889999999999999987553 2366688888888999999988 77777664
No 78
>KOG4570 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.91 E-value=1 Score=29.65 Aligned_cols=42 Identities=12% Similarity=0.105 Sum_probs=36.1
Q ss_pred hcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 19 KNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
-.-++++++-+...=.+.|+-||.+|++.+|+.+-+.++..+
T Consensus 112 lky~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~ 153 (418)
T KOG4570|consen 112 LKYDPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKD 153 (418)
T ss_pred HccChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHH
Confidence 345678888888887899999999999999999999988776
No 79
>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=89.85 E-value=2.3 Score=29.62 Aligned_cols=23 Identities=4% Similarity=-0.224 Sum_probs=9.2
Q ss_pred HHHHHHHHHhcCCchhHHHHHHH
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMS 32 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~ 32 (87)
|..+-..|...|++++|...|++
T Consensus 402 ~~~lg~~~~~~g~~~~A~~~~~k 424 (615)
T TIGR00990 402 YYHRAQLHFIKGEFAQAGKDYQK 424 (615)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHH
Confidence 33333333444444444444443
No 80
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=89.79 E-value=3.1 Score=27.24 Aligned_cols=62 Identities=15% Similarity=0.009 Sum_probs=46.1
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
.+...|..+-..|.+.|++++|+..+++.... .| +...|..+-.+|...|+++. ..|+....
T Consensus 34 ~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l--~P~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~ 98 (356)
T PLN03088 34 NNAELYADRAQANIKLGNFTEAVADANKAIEL--DPSLAKAYLRKGTACMKLEEYQTAKAALEKGAS 98 (356)
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 35667778888888999999999999988765 34 45567777778888888877 66655543
No 81
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=89.64 E-value=0.71 Score=23.37 Aligned_cols=46 Identities=13% Similarity=0.268 Sum_probs=35.1
Q ss_pred cCCchhHHHHHHHHHHcCC-CCCHhhHHHHHHHHcccchhHH--HHHHh
Q 042815 20 NGKNGMGVELFMSIEKRGP-RPNAVTFVGVLTAYGKIKIFGV--TLMGI 65 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~~g~-~pd~~t~~~ll~~~~~~~~~~~--~~~~~ 65 (87)
.|++++|+.+|+++.+..- .|+...+-.+-.++.+.|+.+. .++..
T Consensus 2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 6899999999999987653 2345555557889999999988 77776
No 82
>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=89.48 E-value=0.79 Score=18.09 Aligned_cols=22 Identities=18% Similarity=0.172 Sum_probs=17.5
Q ss_pred HHHHHHHHhcCCchhHHHHHHH
Q 042815 11 SAMMLGLAKNGKNGMGVELFMS 32 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~ 32 (87)
..+-..+...|++++|..++++
T Consensus 5 ~~la~~~~~~G~~~eA~~~l~~ 26 (26)
T PF07721_consen 5 LALARALLAQGDPDEAERLLRR 26 (26)
T ss_pred HHHHHHHHHcCCHHHHHHHHhC
Confidence 4556778899999999998763
No 83
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=88.89 E-value=1.5 Score=30.34 Aligned_cols=60 Identities=8% Similarity=0.103 Sum_probs=50.1
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcC-CCCCHhhHHHHHHHHcccchhHH-HHHHhch
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRG-PRPNAVTFVGVLTAYGKIKIFGV-TLMGIQP 67 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~ 67 (87)
.+|-..|..-.+..-++.|..+|-+..+.| +.|+++.++++|.-++.....-. ++|+.=.
T Consensus 398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~~d~~ta~~ifelGl 459 (660)
T COG5107 398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYATGDRATAYNIFELGL 459 (660)
T ss_pred hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhcCCcchHHHHHHHHH
Confidence 567788888888888999999999999999 77899999999999998766655 7776433
No 84
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=88.87 E-value=1.6 Score=20.75 Aligned_cols=31 Identities=6% Similarity=0.000 Sum_probs=26.2
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHc
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
+.-.|..+-..+.+.|++++|...|++..+.
T Consensus 30 ~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 30 NPEAWYLLGRILYQQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 6677888888999999999999999998754
No 85
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=88.71 E-value=4.4 Score=26.83 Aligned_cols=58 Identities=17% Similarity=0.099 Sum_probs=40.4
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGI 65 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~ 65 (87)
|.....++=..+.+.|++++|.+.|++..+. .|+..++..+-..+.+.|+.++ ..+.+
T Consensus 327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~~ 386 (398)
T PRK10747 327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRRD 386 (398)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 3344556666777788888888888876654 5777777777777777777766 44443
No 86
>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=88.33 E-value=1.1 Score=18.23 Aligned_cols=28 Identities=11% Similarity=-0.014 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
.|..+=..|.+.|++++|++.|++....
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 4566667889999999999999997654
No 87
>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=88.17 E-value=2.6 Score=24.88 Aligned_cols=53 Identities=8% Similarity=-0.002 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh--hHHHHHHHHcccchhHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV--TFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~--t~~~ll~~~~~~~~~~~ 60 (87)
..+..+-.-|++.|+.++|++.|.++.+....|... .+-.+|+.+-..+++..
T Consensus 37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~ 91 (177)
T PF10602_consen 37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSH 91 (177)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHH
Confidence 467788899999999999999999998876666544 55667777777777665
No 88
>PRK12370 invasion protein regulator; Provisional
Probab=88.15 E-value=4.8 Score=27.90 Aligned_cols=27 Identities=11% Similarity=-0.063 Sum_probs=13.9
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
.|..+-..|...|++++|...|++..+
T Consensus 374 a~~~lg~~l~~~G~~~eAi~~~~~Al~ 400 (553)
T PRK12370 374 IKYYYGWNLFMAGQLEEALQTINECLK 400 (553)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 444444455555555555555555443
No 89
>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=87.99 E-value=2.8 Score=26.77 Aligned_cols=53 Identities=9% Similarity=0.077 Sum_probs=25.9
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchh
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIF 58 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~ 58 (87)
++..+.|.+..++...|++++|.+++.+.....- -|..|...++.+....|+.
T Consensus 199 ~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~ 251 (290)
T PF04733_consen 199 STPKLLNGLAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKP 251 (290)
T ss_dssp -SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-T
T ss_pred CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCC
Confidence 3445555666666666666666666665443221 1333555555555555554
No 90
>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=87.52 E-value=5 Score=26.96 Aligned_cols=60 Identities=15% Similarity=0.137 Sum_probs=45.4
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh-hHHHHHHHHcccchhHH--HHHHhch
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV-TFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
|....+.-...+.+.++++.|+.+.++.... .|+.. +|..|..+|.+.|+++. ..++.+.
T Consensus 233 d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P 295 (395)
T PF09295_consen 233 DSELLNLQAEFLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALLALNSCP 295 (395)
T ss_pred CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence 4444555556678889999999999997755 67666 99999999999999988 5555444
No 91
>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=87.50 E-value=1.6 Score=25.88 Aligned_cols=32 Identities=16% Similarity=0.133 Sum_probs=28.1
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
.|+...|..++..+...|+.++|.+..+++..
T Consensus 141 ~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~ 172 (193)
T PF11846_consen 141 RPDPNVYQRYALALALLGDPEEARQWLARARR 172 (193)
T ss_pred CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 47888899999999999999999999988763
No 92
>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=87.30 E-value=3.6 Score=23.85 Aligned_cols=62 Identities=18% Similarity=0.153 Sum_probs=42.5
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhccccccc
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYID 75 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~ 75 (87)
.+.-+....+.|+-++-.++++++.+.+ +|+.....-+-.||.+.|..++ +++....++ |+.
T Consensus 89 vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek---G~k 152 (161)
T PF09205_consen 89 VDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEK---GLK 152 (161)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT---T-H
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh---chH
Confidence 3445666777888888888888876543 7888888899999999999988 888877776 664
No 93
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=87.24 E-value=6.2 Score=28.05 Aligned_cols=61 Identities=10% Similarity=0.095 Sum_probs=35.1
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
+...+..+-..+.+.|++++|...|++.... .|+ ...+..+-.++.+.|+.++ ..+..+..
T Consensus 283 ~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~ 346 (656)
T PRK15174 283 NVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAR 346 (656)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 4456666666666666666666666665543 233 3344455555666666665 55555443
No 94
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=87.16 E-value=4 Score=23.40 Aligned_cols=61 Identities=7% Similarity=-0.104 Sum_probs=43.2
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC--HhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN--AVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd--~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
...|..+...+...|++++|+..|++.....-.|. ..++..+=..+...|+.++ ..++...
T Consensus 35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al 99 (168)
T CHL00033 35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQAL 99 (168)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 45677777788888999999999998865532222 2467777777778888877 5555544
No 95
>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]
Probab=87.04 E-value=3.3 Score=29.19 Aligned_cols=62 Identities=11% Similarity=-0.015 Sum_probs=46.0
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh-hHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV-TFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
-|+.+|+.||.-+ +...++++.+.++++. +..|... .|..-|++--...+++. .+|.+-..+
T Consensus 18 ~di~sw~~lire~-qt~~~~~~R~~YEq~~--~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvk 82 (656)
T KOG1914|consen 18 YDIDSWSQLIREA-QTQPIDKVRETYEQLV--NVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVK 82 (656)
T ss_pred ccHHHHHHHHHHH-ccCCHHHHHHHHHHHh--ccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 3888999999955 4449999999999986 4456544 67777777777777777 777766544
No 96
>PRK11189 lipoprotein NlpI; Provisional
Probab=86.74 E-value=6.1 Score=25.07 Aligned_cols=53 Identities=15% Similarity=0.086 Sum_probs=30.5
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHcccchhHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~ 60 (87)
+...|+.+=..|.+.|++++|.+.|++..+. .|+ ..+|..+-.++...|+.++
T Consensus 97 ~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~e 150 (296)
T PRK11189 97 MADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYEL 150 (296)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHH
Confidence 4556666666666677777777766665533 342 3344444444555555555
No 97
>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=86.67 E-value=0.17 Score=24.33 Aligned_cols=35 Identities=17% Similarity=0.287 Sum_probs=30.0
Q ss_pred CCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 21 GKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
|--++..++|++|+.+...|.+-.|+..|+-|...
T Consensus 6 gy~~~lI~vFK~~pSr~YD~~Tr~W~F~L~Dy~~L 40 (55)
T PF07443_consen 6 GYHEELIAVFKQMPSRNYDPKTRKWNFSLEDYSTL 40 (55)
T ss_pred cCCHHHHHHHHcCcccccCccceeeeeeHHHHHHH
Confidence 55578899999999999999999999888877654
No 98
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=86.47 E-value=4 Score=22.67 Aligned_cols=53 Identities=8% Similarity=0.136 Sum_probs=32.9
Q ss_pred HHHhcCCchhHHHHHHHHHHcCCCCCH--hhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 16 GLAKNGKNGMGVELFMSIEKRGPRPNA--VTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~~g~~pd~--~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
++-..|+.++|+.+|++-...|..... ..+..+-+.+-..|++++ .+++....
T Consensus 10 a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~ 66 (120)
T PF12688_consen 10 AHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALE 66 (120)
T ss_pred HHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 345567777777777777777755442 244455556666777776 55555544
No 99
>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=85.92 E-value=1.6 Score=17.77 Aligned_cols=27 Identities=11% Similarity=-0.007 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
+|..+=..|.+.|++++|...|++-.+
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 566677788999999999999998654
No 100
>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=85.80 E-value=5.7 Score=27.67 Aligned_cols=68 Identities=13% Similarity=0.070 Sum_probs=45.1
Q ss_pred HHHhcCCchhHHHHHHHHHHcC-CCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhhhccc
Q 042815 16 GLAKNGKNGMGVELFMSIEKRG-PRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAWQAAC 85 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~~~~~ 85 (87)
..-+.|+.++|.+.|++|.+.- ..-+......|++++-..+...+ .++.+.... ..-..-...||+++
T Consensus 268 CarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi--~lpkSAti~YTaAL 338 (539)
T PF04184_consen 268 CARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDI--SLPKSATICYTAAL 338 (539)
T ss_pred HHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccc--cCCchHHHHHHHHH
Confidence 3345699999999999998553 22345578889999999988877 666655432 11123334566553
No 101
>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=85.67 E-value=3.6 Score=21.49 Aligned_cols=59 Identities=14% Similarity=0.057 Sum_probs=44.3
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC----HhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN----AVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd----~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
++-.....+.+.|++++|...|.++.... |+ ...+..+-..+.+.|+.+. ..++.....
T Consensus 4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~ 68 (119)
T TIGR02795 4 AYYDAALLVLKAGDYADAIQAFQAFLKKY--PKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKK 68 (119)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHH
Confidence 45566777899999999999999997652 33 2355567788888899887 777776653
No 102
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=85.67 E-value=6.9 Score=25.22 Aligned_cols=48 Identities=4% Similarity=0.108 Sum_probs=34.6
Q ss_pred chhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc--cchhHH------HHHHhchhcc
Q 042815 23 NGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK--IKIFGV------TLMGIQPQNL 70 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~--~~~~~~------~~~~~m~~~~ 70 (87)
+++.+.+++.|.+.|++-+..+|.+.+--... ....+. .+|..|+++|
T Consensus 78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H 133 (297)
T PF13170_consen 78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKH 133 (297)
T ss_pred HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhC
Confidence 46677799999999999999988774333333 333333 8999999883
No 103
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=85.15 E-value=2.9 Score=27.66 Aligned_cols=63 Identities=10% Similarity=0.055 Sum_probs=42.3
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhh
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDA 80 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~ 80 (87)
+...|++++|.+.++...+.+..--..+...+..+|...|+... ..+.++... ..|..+-...
T Consensus 224 ~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~-~~g~~~~l~l 288 (389)
T COG2956 224 ELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET-NTGADAELML 288 (389)
T ss_pred HHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc-cCCccHHHHH
Confidence 55678899999998888877655555677788889999998887 333333322 1344444433
No 104
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=85.03 E-value=4.5 Score=28.51 Aligned_cols=68 Identities=9% Similarity=-0.051 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhhh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAWQ 82 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~~ 82 (87)
+|+-|=-.|.+.+.+++|+..|++-.... .-|..|+.++=-.+...|.++. ..||... .+.|+..+-+
T Consensus 457 ~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL-----~l~p~n~~~~ 526 (611)
T KOG1173|consen 457 TLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKAL-----ALKPDNIFIS 526 (611)
T ss_pred HHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHH-----hcCCccHHHH
Confidence 45555566777788888888887765443 2366677777777777777777 6666554 3456554433
No 105
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=84.89 E-value=4.7 Score=24.16 Aligned_cols=64 Identities=8% Similarity=-0.053 Sum_probs=48.0
Q ss_pred CcHhHHHHHHHH-HHhcCC--chhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 5 RDATTSSAMMLG-LAKNGK--NGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 5 ~~~~~~~~li~~-~~~~g~--~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
.|...|..+-.. |.+.|+ .++|.+++++..+..-. +...+..+-..+.+.|++++ ..|+.+...
T Consensus 105 ~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l 173 (198)
T PRK10370 105 ENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDL 173 (198)
T ss_pred CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 466677777665 467777 59999999998866432 56677777778888999988 888887764
No 106
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=84.76 E-value=2.1 Score=30.75 Aligned_cols=48 Identities=8% Similarity=0.083 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccch
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKI 57 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~ 57 (87)
..|++|-+-|.+.|++++|..+|.+-... .-...-|+.++++|+....
T Consensus 249 ~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE 296 (835)
T KOG2047|consen 249 FLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEE 296 (835)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHH
Confidence 57999999999999999999999996644 3355567888888876543
No 107
>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=84.51 E-value=4.6 Score=21.72 Aligned_cols=49 Identities=16% Similarity=0.217 Sum_probs=39.5
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.++..+...+..-.|.++++++.+.+..++..|.--.|+.+.+.|.+..
T Consensus 5 ~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~ 53 (116)
T cd07153 5 AILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVRE 53 (116)
T ss_pred HHHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEE
Confidence 3566666667778899999999998877888888888888888887765
No 108
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=84.37 E-value=8.2 Score=24.48 Aligned_cols=54 Identities=15% Similarity=0.108 Sum_probs=39.9
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
|...-+..+....++|++++|...|++...- -.+|...|+-+=-+|.+.|+++.
T Consensus 99 d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~ 152 (257)
T COG5010 99 DRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDE 152 (257)
T ss_pred cHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhH
Confidence 3334455677777888888888888886533 25677788888888888888887
No 109
>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=83.94 E-value=4.8 Score=21.50 Aligned_cols=57 Identities=11% Similarity=0.037 Sum_probs=32.8
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchh-HH---HHHHhchhc
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIF-GV---TLMGIQPQN 69 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~-~~---~~~~~m~~~ 69 (87)
+.+|..|..+|+.++|...+.++..... .......++..+...+.- .+ .++..+...
T Consensus 6 ~~~l~ey~~~~d~~ea~~~l~el~~~~~--~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~ 66 (113)
T PF02847_consen 6 FSILMEYFSSGDVDEAVECLKELKLPSQ--HHEVVKVILECALEEKKSYREYYSKLLSHLCKR 66 (113)
T ss_dssp HHHHHHHHHHT-HHHHHHHHHHTT-GGG--HHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHhcCCCHHHHHHHHHHhCCCcc--HHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhc
Confidence 5677889999999999999988753311 122333344444444232 22 666666554
No 110
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=83.88 E-value=0.94 Score=33.49 Aligned_cols=64 Identities=8% Similarity=0.175 Sum_probs=49.1
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+|..+=|-+=.-++.+|++++|..+|.+..+... -+.-+|..+-++|...|++.. +.|+.-.++
T Consensus 644 kN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkk 709 (1018)
T KOG2002|consen 644 KNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKK 709 (1018)
T ss_pred chhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555565667889999999999999987754 245577888889999999888 778777765
No 111
>PRK12370 invasion protein regulator; Provisional
Probab=83.82 E-value=12 Score=25.98 Aligned_cols=56 Identities=4% Similarity=-0.139 Sum_probs=36.5
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCH-hhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNA-VTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~-~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
.+...+...|++++|...+++..... .|+. ..+..+-.++...|+.++ ..+..+..
T Consensus 411 ~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~ 469 (553)
T PRK12370 411 TKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEIST 469 (553)
T ss_pred HHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhh
Confidence 34445666888999999998876543 3433 345555666777888887 66665543
No 112
>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=83.66 E-value=10 Score=26.50 Aligned_cols=51 Identities=10% Similarity=-0.157 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
+|..+-..|...|++++|...|++..+.. .-+...|..+-..+...|+.++
T Consensus 367 ~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~ 417 (615)
T TIGR00990 367 SYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQ 417 (615)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence 44445555555555555555555554331 1123344444445555555554
No 113
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=83.56 E-value=13 Score=25.96 Aligned_cols=60 Identities=7% Similarity=-0.093 Sum_probs=47.9
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
+...|.++-......|++++|...|++..... |+...|..+-+.+...|+.++ ..+.+..
T Consensus 419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~--ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~ 480 (517)
T PRK10153 419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLE--MSWLNYVLLGKVYELKGDNRLAADAYSTAF 480 (517)
T ss_pred ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 34567777555667899999999999988765 788899999999999999988 6665554
No 114
>KOG1173 consensus Anaphase-promoting complex (APC), Cdc16 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=83.38 E-value=4.9 Score=28.34 Aligned_cols=52 Identities=15% Similarity=0.206 Sum_probs=43.8
Q ss_pred CCCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 2 MPPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 2 m~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
+.+.|..+++++=--|...|+++.|.+.|++ ...+.||-.+-+.+|..+-..
T Consensus 484 l~~k~~~~~asig~iy~llgnld~Aid~fhK--aL~l~p~n~~~~~lL~~aie~ 535 (611)
T KOG1173|consen 484 LSPKDASTHASIGYIYHLLGNLDKAIDHFHK--ALALKPDNIFISELLKLAIED 535 (611)
T ss_pred cCCCchhHHHHHHHHHHHhcChHHHHHHHHH--HHhcCCccHHHHHHHHHHHHh
Confidence 4567888999998899999999999999999 557799998888888866544
No 115
>COG4003 Uncharacterized protein conserved in archaea [Function unknown]
Probab=83.17 E-value=1.8 Score=22.75 Aligned_cols=39 Identities=23% Similarity=0.290 Sum_probs=28.3
Q ss_pred CCCCcHhHHH-HHHHHHHhcCCchhHHHHHHHHHHcC-CCC
Q 042815 2 MPPRDATTSS-AMMLGLAKNGKNGMGVELFMSIEKRG-PRP 40 (87)
Q Consensus 2 m~~~~~~~~~-~li~~~~~~g~~~~a~~l~~~m~~~g-~~p 40 (87)
||+-|..-|| ++++-+.++.-.++|+++.+-|.+.| +.|
T Consensus 25 ~~~~~~~gy~PtV~D~L~rCdT~EEAlEii~yleKrGEi~~ 65 (98)
T COG4003 25 EPKIDFSGYNPTVIDFLRRCDTEEEALEIINYLEKRGEITP 65 (98)
T ss_pred cccCCcCCCCchHHHHHHHhCcHHHHHHHHHHHHHhCCCCH
Confidence 3444444554 57777888888899999999999887 444
No 116
>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=83.07 E-value=1.9 Score=16.15 Aligned_cols=27 Identities=11% Similarity=0.035 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
.|..+-..|...|++++|...|.+..+
T Consensus 3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 3 ALYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 567777888999999999999988653
No 117
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=82.99 E-value=9.2 Score=27.23 Aligned_cols=26 Identities=12% Similarity=-0.040 Sum_probs=12.0
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSI 33 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m 33 (87)
..|..+...+.+.|++++|...++++
T Consensus 145 ~a~~~la~~l~~~g~~~eA~~~~~~~ 170 (656)
T PRK15174 145 QIFALHLRTLVLMDKELQAISLARTQ 170 (656)
T ss_pred HHHHHHHHHHHHCCChHHHHHHHHHH
Confidence 34444444444444444444444444
No 118
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=82.83 E-value=10 Score=26.36 Aligned_cols=56 Identities=14% Similarity=0.142 Sum_probs=44.2
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
+-|...|.+|=..|.+.++.++|+..|.+-...| .-+...+..+-+.+=+.++..+
T Consensus 429 PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~e 484 (559)
T KOG1155|consen 429 PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNE 484 (559)
T ss_pred CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHH
Confidence 4578889999999999999999999998887666 2255777778888777777766
No 119
>PRK14574 hmsH outer membrane protein; Provisional
Probab=82.83 E-value=10 Score=27.97 Aligned_cols=54 Identities=15% Similarity=0.131 Sum_probs=34.7
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
...|...|++++|+++|+++.+..-. |...+..+...+...++.++ ..++....
T Consensus 109 A~ly~~~gdyd~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~ 164 (822)
T PRK14574 109 ARAYRNEKRWDQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAE 164 (822)
T ss_pred HHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcc
Confidence 34566678888888888888765321 34455566677777777766 55555543
No 120
>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]
Probab=82.72 E-value=5.1 Score=22.94 Aligned_cols=51 Identities=10% Similarity=0.130 Sum_probs=38.9
Q ss_pred HHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhhhcc
Q 042815 30 FMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAWQAA 84 (87)
Q Consensus 30 ~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~~~~ 84 (87)
++.+....+.|+......-|++|-+..++.. ++|+.++.+ ..+...+|-.+
T Consensus 72 lN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K----~g~~k~~Y~y~ 124 (149)
T KOG4077|consen 72 LNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK----CGAQKQVYPYY 124 (149)
T ss_pred HHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh----cccHHHHHHHH
Confidence 3444556789999999999999999999988 999988876 44444455444
No 121
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=80.95 E-value=3.4 Score=28.82 Aligned_cols=44 Identities=9% Similarity=0.178 Sum_probs=35.5
Q ss_pred HHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHcccchhHH
Q 042815 15 LGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 15 ~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~ 60 (87)
.-|.++|++++|+..|.+-... .|| .+-|...-.+|...|++++
T Consensus 123 N~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~ 167 (606)
T KOG0547|consen 123 NKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEK 167 (606)
T ss_pred hhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHH
Confidence 4578899999999999997755 788 6677777777788888875
No 122
>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=80.86 E-value=4.5 Score=22.04 Aligned_cols=49 Identities=18% Similarity=0.255 Sum_probs=37.8
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.++....+++..-.|.++++.|.+.+...+..|.=--|+.+.+.|-+..
T Consensus 12 ~Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~ 60 (120)
T PF01475_consen 12 AILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRK 60 (120)
T ss_dssp HHHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEE
Confidence 5677777777789999999999999888888877777777777776654
No 123
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=80.38 E-value=10 Score=26.67 Aligned_cols=63 Identities=5% Similarity=-0.039 Sum_probs=47.7
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
+||.-.|++.|..=.+-..++.|..+|.+..-. .|++.+|--..+-=-+.|.+.. .+|+....
T Consensus 171 ~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~VyerAie 235 (677)
T KOG1915|consen 171 EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYERAIE 235 (677)
T ss_pred CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence 588899999999999999999999999998754 5888888766655555666655 55555443
No 124
>PRK14574 hmsH outer membrane protein; Provisional
Probab=80.23 E-value=9.9 Score=28.07 Aligned_cols=60 Identities=2% Similarity=-0.092 Sum_probs=43.0
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcC-----CCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRG-----PRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g-----~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
+=-++-++|...+.+++|+.+|++..... ..++......|+-++...+++++ .+.+.+..
T Consensus 329 ~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~ 395 (822)
T PRK14574 329 ARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSE 395 (822)
T ss_pred HHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence 34467788888888999999998886432 12233345678888888888888 77777765
No 125
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=79.77 E-value=23 Score=26.79 Aligned_cols=61 Identities=10% Similarity=-0.092 Sum_probs=32.2
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh-hHHHHHHHHcccchhHH--HHHHhch
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV-TFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
|+...|..+-..+.+.|++++|+..|++.... .|+.. .+..+-..+...|+.++ ..++...
T Consensus 607 P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l--~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL 670 (987)
T PRK09782 607 PSANAYVARATIYRQRHNVPAAVSDLRAALEL--EPNNSNYQAALGYALWDSGDIAQSREMLERAH 670 (987)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 34455566666666666666666666665443 34332 34444445555555555 4444443
No 126
>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=79.56 E-value=4.5 Score=18.87 Aligned_cols=30 Identities=17% Similarity=0.368 Sum_probs=22.6
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
|+.+...|--.+++.+.-++.+.|+.|.+.
T Consensus 11 iS~lLntgLd~etL~ici~L~e~GVnPeaL 40 (48)
T PF12554_consen 11 ISDLLNTGLDRETLSICIELCENGVNPEAL 40 (48)
T ss_pred HHHHHcCCCCHHHHHHHHHHHHCCCCHHHH
Confidence 445666788888888888888888877643
No 127
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=79.45 E-value=14 Score=28.12 Aligned_cols=61 Identities=8% Similarity=-0.032 Sum_probs=36.5
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
|...+..+...|...|++++|++.|++.... .|+ ..+...+-.++...|+.++ ..++....
T Consensus 636 ~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~ 699 (1157)
T PRK11447 636 NADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIP 699 (1157)
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhh
Confidence 4556667777777777777777777765533 332 3344445555556666666 55665543
No 128
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=78.72 E-value=12 Score=22.46 Aligned_cols=64 Identities=8% Similarity=-0.023 Sum_probs=46.0
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHH-cccchh--HH--HHHHhchhc
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAY-GKIKIF--GV--TLMGIQPQN 69 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~-~~~~~~--~~--~~~~~m~~~ 69 (87)
..|...|..+-..|...|++++|...|++.... .| |...+..+-.++ ...|+. ++ .+++.....
T Consensus 70 P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~ 139 (198)
T PRK10370 70 PQNSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTREMIDKALAL 139 (198)
T ss_pred CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh
Confidence 357788999999999999999999999987755 45 455666555553 555653 44 777766654
No 129
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=78.17 E-value=20 Score=24.89 Aligned_cols=25 Identities=12% Similarity=-0.128 Sum_probs=12.3
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
+.....-+.+.++.++|.+.|+++.
T Consensus 343 ~~~~~~i~~~~nk~~~A~e~~~kal 367 (484)
T COG4783 343 LELAGDILLEANKAKEAIERLKKAL 367 (484)
T ss_pred HHHHHHHHHHcCChHHHHHHHHHHH
Confidence 3333444455555555555555544
No 130
>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=78.16 E-value=13 Score=24.21 Aligned_cols=50 Identities=14% Similarity=-0.077 Sum_probs=22.4
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
||..-|...|.+|++.|+|++-..+..+ . -...-|-.++.+|-+.|...+
T Consensus 206 ~dkrfw~lki~aLa~~~~w~eL~~fa~s----k--KsPIGyepFv~~~~~~~~~~e 255 (319)
T PF04840_consen 206 PDKRFWWLKIKALAENKDWDELEKFAKS----K--KSPIGYEPFVEACLKYGNKKE 255 (319)
T ss_pred cHHHHHHHHHHHHHhcCCHHHHHHHHhC----C--CCCCChHHHHHHHHHCCCHHH
Confidence 3444455555555555555544433221 1 112444444555555554443
No 131
>PF13512 TPR_18: Tetratricopeptide repeat
Probab=77.99 E-value=9.5 Score=21.98 Aligned_cols=47 Identities=9% Similarity=0.092 Sum_probs=32.3
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchh
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIF 58 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~ 58 (87)
.++.+|.+.|++++|...+++..+..-.--.+-|.-.+.+++.-...
T Consensus 52 ~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~~~~ 98 (142)
T PF13512_consen 52 DLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYYEQD 98 (142)
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHHHHh
Confidence 46778888888888888888877654332335666677776665544
No 132
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=77.91 E-value=8.9 Score=29.48 Aligned_cols=63 Identities=8% Similarity=0.091 Sum_probs=46.2
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH-HHHHhchhcccccccchh
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV-TLMGIQPQNLWYYIDGQI 78 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~~~~~~g~~~~~ 78 (87)
..|+.+-.+-.+.|.+.+|.+-|-+- -|...|.-+++.+++.|..++ --|-.|.++ ..-+|.+
T Consensus 1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRk--k~~E~~i 1168 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARK--KVREPYI 1168 (1666)
T ss_pred HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHH--hhcCccc
Confidence 46888888888889999988877653 277889999999999999988 334445544 2344543
No 133
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=77.52 E-value=18 Score=25.31 Aligned_cols=60 Identities=15% Similarity=0.190 Sum_probs=45.2
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHH----HHcCC-CCCH-hhHHHHHHHHcccchhHH--HHHHhch
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSI----EKRGP-RPNA-VTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m----~~~g~-~pd~-~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
...|-|=..|.+.+.+++|.++|.+- +..|. .||+ .+|..|...|...|+++. ++.+...
T Consensus 410 ~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~ 477 (508)
T KOG1840|consen 410 KPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL 477 (508)
T ss_pred HHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence 46778888999999999999999883 33442 2344 488999999999999998 4444433
No 134
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=77.38 E-value=10 Score=21.18 Aligned_cols=55 Identities=7% Similarity=0.053 Sum_probs=36.4
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCCCCHh--hHHHHHHHHcccchhHH--HHHHhch
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPRPNAV--TFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~--t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
+-..+...|++++|...|++.....-.|+.. ....+-..+...|+.++ ..++...
T Consensus 54 lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~Al~~L~~~~ 112 (145)
T PF09976_consen 54 LAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDEALATLQQIP 112 (145)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhcc
Confidence 3366778899999999999988776333322 33345566667788877 5555443
No 135
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=77.37 E-value=8.5 Score=22.59 Aligned_cols=49 Identities=8% Similarity=0.004 Sum_probs=36.8
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
+++..+......-.|.++|+++.+.+..++..|.=-.|+.+...|-+..
T Consensus 30 ~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv~~ 78 (169)
T PRK11639 30 EVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHK 78 (169)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCEEE
Confidence 3455555556667899999999988887888877777788887777655
No 136
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=76.96 E-value=19 Score=23.92 Aligned_cols=54 Identities=7% Similarity=-0.007 Sum_probs=40.5
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
-.-+...|++++|...+++..+.. | +......+...+...|+++. .++..+.+.
T Consensus 160 a~l~l~~g~~~~Al~~l~~~~~~~--P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~ 216 (398)
T PRK10747 160 VRIQLARNENHAARHGVDKLLEVA--PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKA 216 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHc
Confidence 345677888888888888887654 4 45577778888888888887 777777765
No 137
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=76.92 E-value=24 Score=25.68 Aligned_cols=56 Identities=14% Similarity=0.119 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
.+..+...+.+.|++++|+..+++..+. .| +.. +..+-..+...|+.++ ..+++..
T Consensus 85 a~~~la~~l~~~g~~~eA~~~l~~~l~~--~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al 143 (765)
T PRK10049 85 YQRGLILTLADAGQYDEALVKAKQLVSG--APDKAN-LLALAYVYKRAGRHWDELRAMTQAL 143 (765)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 3444444455555555555555554433 22 222 4444444444444444 4444443
No 138
>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=76.86 E-value=6 Score=25.78 Aligned_cols=39 Identities=18% Similarity=0.204 Sum_probs=28.0
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcC-CCCCHhhHHHHHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRG-PRPNAVTFVGVLT 50 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g-~~pd~~t~~~ll~ 50 (87)
.++..|.++|.+++|+++........ --|+...+..+..
T Consensus 111 ~Lm~~ci~~g~y~eALel~~~~~~L~~~~~~~~lv~~i~~ 150 (338)
T PF04124_consen 111 QLMDTCIRNGNYSEALELSAHVRRLQSRFPNIPLVKSIAQ 150 (338)
T ss_pred HHHHHHHhcccHhhHHHHHHHHHHHHHhccCchhHHHHHH
Confidence 57899999999999999988876432 3466554444433
No 139
>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=76.85 E-value=14 Score=22.22 Aligned_cols=63 Identities=14% Similarity=0.061 Sum_probs=46.6
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCH----hhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNA----VTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~----~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
.....+-.....|.+.|++++|...|++.... .|+. ..+..+-.++-..|+++. ..++.....
T Consensus 31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~ 99 (235)
T TIGR03302 31 WPAEELYEEAKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL 99 (235)
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 45567777888899999999999999998754 3332 355666677778888888 777777654
No 140
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=76.83 E-value=20 Score=24.24 Aligned_cols=68 Identities=16% Similarity=0.148 Sum_probs=53.3
Q ss_pred CCCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCH-------hhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 2 MPPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNA-------VTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 2 m~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~-------~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
|..++...-......|.+.|++.+...+..+|.+.|.--|. .+|..+++-+...+..+. ..|+....+
T Consensus 182 ~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~ 258 (400)
T COG3071 182 MTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK 258 (400)
T ss_pred hCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH
Confidence 44566777888899999999999999999999998866554 378888888887776665 677766654
No 141
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=76.77 E-value=25 Score=25.60 Aligned_cols=59 Identities=8% Similarity=0.086 Sum_probs=36.5
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
...+.+=..+.+.|++++|.++|++.... .|| ..++.++=.++-..|+.++ ..|+....
T Consensus 155 ~~~~~~a~~l~~~g~~~~A~~~y~~~~~~--~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~ 216 (694)
T PRK15179 155 REILLEAKSWDEIGQSEQADACFERLSRQ--HPEFENGYVGWAQSLTRRGALWRARDVLQAGLD 216 (694)
T ss_pred HHHHHHHHHHHHhcchHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 34455555666777777777777777663 333 4566666666666676666 55555443
No 142
>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=76.57 E-value=17 Score=23.18 Aligned_cols=59 Identities=10% Similarity=0.034 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCC-CCCHh--hHHHHHHHHcccchhHH--HHHHhc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGP-RPNAV--TFVGVLTAYGKIKIFGV--TLMGIQ 66 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~-~pd~~--t~~~ll~~~~~~~~~~~--~~~~~m 66 (87)
..+..+-..|...|++++|..++++.....- .|+.. .|..+-..+...|+.++ .+++..
T Consensus 149 ~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~ 212 (355)
T cd05804 149 WAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTH 212 (355)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence 3444454555555555555555555443211 12221 22334444555555555 444443
No 143
>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]
Probab=76.57 E-value=19 Score=23.73 Aligned_cols=48 Identities=8% Similarity=0.058 Sum_probs=38.2
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccch
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKI 57 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~ 57 (87)
..+..-+.|..+|.+.+|.++-++..... ..+...+-.++..++..|+
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 44556678999999999999998877553 3366777788999999887
No 144
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=76.23 E-value=26 Score=26.81 Aligned_cols=63 Identities=11% Similarity=0.025 Sum_probs=44.4
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCC--C---CHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPR--P---NAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~--p---d~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
+...+..+-..+.+.|++++|.++|++.....-. | +...+..+-..+-..|+.++ ..|+....
T Consensus 670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~ 739 (1157)
T PRK11447 670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV 739 (1157)
T ss_pred ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 4456677778889999999999999998764321 2 22355555666778888888 66666654
No 145
>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=76.17 E-value=3.3 Score=27.78 Aligned_cols=30 Identities=10% Similarity=-0.100 Sum_probs=27.3
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
+..+|..|...|.+.|++++|+..++.++-
T Consensus 267 ~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm 296 (395)
T PF09295_consen 267 EFETWYQLAECYIQLGDFENALLALNSCPM 296 (395)
T ss_pred hHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence 456999999999999999999999999873
No 146
>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=76.14 E-value=20 Score=23.83 Aligned_cols=54 Identities=7% Similarity=-0.034 Sum_probs=40.6
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
..-+.+.|++++|.+.++++.+.. | |......+...+...|+++. ..+....+.
T Consensus 160 a~l~l~~~~~~~Al~~l~~l~~~~--P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~ 216 (409)
T TIGR00540 160 TRILLAQNELHAARHGVDKLLEMA--PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKA 216 (409)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence 455667888999998888888764 4 55577788888888888887 666666654
No 147
>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]
Probab=75.93 E-value=14 Score=26.25 Aligned_cols=59 Identities=5% Similarity=0.000 Sum_probs=42.4
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH-HHHHhch
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV-TLMGIQP 67 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~-~~~~~m~ 67 (87)
+|-..|..-.+..-++.|..+|.+..+.+..+ +++..+++|.-+|.....-. ++|+.=.
T Consensus 368 v~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~cskD~~~AfrIFeLGL 428 (656)
T KOG1914|consen 368 VYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYCSKDKETAFRIFELGL 428 (656)
T ss_pred ehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHhcCChhHHHHHHHHHH
Confidence 56666666666777888888888888887777 77788888888876654444 6665433
No 148
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=75.82 E-value=23 Score=25.78 Aligned_cols=62 Identities=8% Similarity=0.005 Sum_probs=43.5
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+...+..+-..+.+.|++++|.++|++..+. .|+ ...+..+...+...|+.++ ..++.....
T Consensus 48 ~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~ 112 (765)
T PRK10049 48 PARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQYDEALVKAKQLVSG 112 (765)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence 4456788888888888888888888887654 343 4455566667777888877 666666543
No 149
>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=75.43 E-value=13 Score=21.36 Aligned_cols=43 Identities=16% Similarity=0.134 Sum_probs=36.3
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK 54 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~ 54 (87)
.+|....+.+....+.++++.+.+.|+..+..|..-.|+-+.-
T Consensus 5 ~~i~~Li~~~~i~tqeeL~~~L~~~G~~vsqaTIsRdL~elgl 47 (146)
T TIGR01529 5 ERIKEIITEEKISTQEELVALLKAEGIEVTQATVSRDLRELGA 47 (146)
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHHhCCCcCHHHHHHHHHHcCC
Confidence 3577778899999999999999999999999988887776553
No 150
>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=75.41 E-value=4.7 Score=19.85 Aligned_cols=23 Identities=22% Similarity=0.320 Sum_probs=18.5
Q ss_pred cCCchhHHHHHHHHHHcC-CCCCH
Q 042815 20 NGKNGMGVELFMSIEKRG-PRPNA 42 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~~g-~~pd~ 42 (87)
+.+++.|...|.++...| |.|+.
T Consensus 38 ~Wd~~~Al~~F~~lk~~~~IP~eA 61 (63)
T smart00804 38 NWDYERALKNFTELKSEGSIPPEA 61 (63)
T ss_pred CCCHHHHHHHHHHHHhcCCCChhh
Confidence 678999999999999765 55554
No 151
>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=75.20 E-value=11 Score=24.50 Aligned_cols=54 Identities=11% Similarity=0.068 Sum_probs=43.5
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH-HHHHhc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV-TLMGIQ 66 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m 66 (87)
+-+..|.-+...|+...|..+-.+.. .||.--|-..+++++..+++++ .-|..-
T Consensus 179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s 233 (319)
T PF04840_consen 179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS 233 (319)
T ss_pred CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC
Confidence 45666777888899999998877775 6899999999999999999988 555443
No 152
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=74.83 E-value=11 Score=21.55 Aligned_cols=49 Identities=16% Similarity=0.164 Sum_probs=37.5
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.++.-+.+++..-.|.++|+++.+.+..-...|.=-.|+.+...|-+..
T Consensus 25 ~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~~ 73 (145)
T COG0735 25 AVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVHR 73 (145)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEEE
Confidence 5667777777778999999999988766666666666777777776654
No 153
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=74.63 E-value=19 Score=26.89 Aligned_cols=63 Identities=16% Similarity=0.145 Sum_probs=48.9
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
++-.|.-+-.+|.+.|++.+|+.+|..+.....--+...|--+-+++-..|..+. +.|+....
T Consensus 413 ~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~ 477 (895)
T KOG2076|consen 413 DVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLI 477 (895)
T ss_pred hHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence 4456778888999999999999999998876555567788888888888888877 55555543
No 154
>COG5108 RPO41 Mitochondrial DNA-directed RNA polymerase [Transcription]
Probab=74.47 E-value=11 Score=27.71 Aligned_cols=49 Identities=12% Similarity=0.018 Sum_probs=38.6
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHc--CCCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKR--GPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~--g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
++..+|..+|++.++.++++..... |-+.-...+|.-|....+.|.++.
T Consensus 33 sl~eacv~n~~~~rs~~ll~s~~~~~~~~k~~l~~~nlyi~~~~q~~sf~l 83 (1117)
T COG5108 33 SLFEACVYNGDFLRSKQLLKSFIDHNKGDKILLPMINLYIREIIQRGSFEL 83 (1117)
T ss_pred HHHHHHHhcchHHHHHHHHHHHhcCCcCCeeehhHHHHHHHHHHhcCCccH
Confidence 8999999999999999999998754 323334466777888888888776
No 155
>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=74.25 E-value=2.5 Score=23.14 Aligned_cols=48 Identities=8% Similarity=0.106 Sum_probs=31.4
Q ss_pred HHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 15 LGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 15 ~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
+.+.+.|+|++|..+.+.+ ..||...|-++-.. +.|.-+. ..+.++..
T Consensus 47 sSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce~--rlGl~s~l~~rl~rla~ 96 (115)
T TIGR02508 47 SSLMNRGDYQSALQLGNKL----CYPDLEPWLALCEW--RLGLGSALESRLNRLAA 96 (115)
T ss_pred HHHHccchHHHHHHhcCCC----CCchHHHHHHHHHH--hhccHHHHHHHHHHHHh
Confidence 4567889999999887776 48999998766444 3444433 33434443
No 156
>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=74.23 E-value=20 Score=22.86 Aligned_cols=59 Identities=14% Similarity=0.054 Sum_probs=43.0
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
....+-..+...|++++|...+++..+.. ..+...+..+-..+...|++++ ..++....
T Consensus 116 ~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~ 176 (355)
T cd05804 116 LLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFKEGIAFMESWRD 176 (355)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhh
Confidence 33444557788999999999999988654 2245566777778888899988 66665554
No 157
>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=73.80 E-value=3.8 Score=22.91 Aligned_cols=27 Identities=11% Similarity=0.377 Sum_probs=21.4
Q ss_pred cCCchhHHHHHHHHHHcCCCCCHhhHH
Q 042815 20 NGKNGMGVELFMSIEKRGPRPNAVTFV 46 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~~g~~pd~~t~~ 46 (87)
.|+.++|..+++.+..+|+.|-...|.
T Consensus 10 ~G~~~ra~riL~~L~~Eg~ep~~lLw~ 36 (125)
T PF14840_consen 10 AGDAKRALRILQGLQAEGVEPPILLWA 36 (125)
T ss_dssp TT-HHHHHHHHHHHHHTT--HHHHHHH
T ss_pred CCCHHHHHHHHHHHHHCCccHHHHHHH
Confidence 589999999999999999999887665
No 158
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=73.25 E-value=17 Score=24.55 Aligned_cols=58 Identities=16% Similarity=0.007 Sum_probs=46.9
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
-.+.++=.-|.+++.+.+|.+.|+. .....|+..+|.-+-+++.+.|+... .+++.-.
T Consensus 329 ~L~~tLG~L~~k~~~w~kA~~~lea--Al~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L 388 (400)
T COG3071 329 LLLSTLGRLALKNKLWGKASEALEA--ALKLRPSASDYAELADALDQLGEPEEAEQVRREAL 388 (400)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHHH--HHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence 4566666778999999999999996 44558999999999999999999987 5554433
No 159
>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=73.02 E-value=16 Score=21.50 Aligned_cols=43 Identities=14% Similarity=0.095 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK 54 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~ 54 (87)
.++-..+ +.+.|++.+|..+|+++...+ |...--..|+..|-.
T Consensus 47 ~~~~~~l--~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~ 89 (160)
T PF09613_consen 47 DLFDGWL--HIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLY 89 (160)
T ss_pred HHHHHHH--HHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHH
Confidence 3444444 477899999999999976543 333333444544443
No 160
>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=72.83 E-value=20 Score=22.36 Aligned_cols=33 Identities=9% Similarity=0.138 Sum_probs=29.0
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
++-|...|+.+++.|...+++.++.....+.-.
T Consensus 11 ~~~~~~~w~~i~~~F~~~~~v~~~~~~l~r~f~ 43 (228)
T PF05734_consen 11 TEENEEEWRNILSNFSTHGNVSATLRSLRRIFK 43 (228)
T ss_pred cHhhHHHHHHHHHHhhcCCCHHHHHHHHHHHhc
Confidence 445678999999999999999999999888776
No 161
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=72.65 E-value=19 Score=23.68 Aligned_cols=46 Identities=9% Similarity=-0.062 Sum_probs=35.4
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAY 52 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~ 52 (87)
.+...|..+-..|.+.|++++|+..|++.... .|+...+...+.-|
T Consensus 68 ~~~~a~~~lg~~~~~lg~~~eA~~~~~~al~l--~P~~~~~~~~l~~~ 113 (356)
T PLN03088 68 SLAKAYLRKGTACMKLEEYQTAKAALEKGASL--APGDSRFTKLIKEC 113 (356)
T ss_pred CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence 35667888888999999999999999998754 56666655555444
No 162
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=72.62 E-value=9 Score=22.39 Aligned_cols=43 Identities=9% Similarity=0.064 Sum_probs=26.6
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK 54 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~ 54 (87)
+.++-..| +.+.|++++|..+|++....+.. ..|..-+.++|-
T Consensus 46 ~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~~~---~p~~kAL~A~CL 88 (153)
T TIGR02561 46 LDMFDGWL--LIARGNYDEAARILRELLSSAGA---PPYGKALLALCL 88 (153)
T ss_pred cchhHHHH--HHHcCCHHHHHHHHHhhhccCCC---chHHHHHHHHHH
Confidence 33444444 37789999999999998765422 244444444443
No 163
>PRK05094 dsDNA-mimic protein; Reviewed
Probab=71.95 E-value=6.9 Score=21.42 Aligned_cols=44 Identities=9% Similarity=0.138 Sum_probs=34.2
Q ss_pred chhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH-HHHHhc
Q 042815 23 NGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV-TLMGIQ 66 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~-~~~~~m 66 (87)
++.|..+|-+|....+.| |...|+.-+.-++....++. .-|+..
T Consensus 13 id~AYDiFLE~A~dNL~paDi~lFnlqFeerGaaE~v~~~~dW~~~ 58 (107)
T PRK05094 13 LEQAYDIFLELAADNLDPADILLFNLQFEERGGAELVDPAEDWQEH 58 (107)
T ss_pred HHHHHHHHHHhhhhcCCHHHHHHHHHHHHhcCCeeecCchhhHHHH
Confidence 578999999999888888 77799999988887776665 334333
No 164
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=71.72 E-value=17 Score=22.91 Aligned_cols=45 Identities=13% Similarity=0.152 Sum_probs=21.4
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCCCH-hhHHHHHHHHcccchhHH
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRPNA-VTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~pd~-~t~~~ll~~~~~~~~~~~ 60 (87)
=-+|.+.|+...|..-+++-.+. .|+. -+|..+-..|-+.|..+.
T Consensus 42 al~YL~~gd~~~A~~nlekAL~~--DPs~~~a~~~~A~~Yq~~Ge~~~ 87 (250)
T COG3063 42 ALGYLQQGDYAQAKKNLEKALEH--DPSYYLAHLVRAHYYQKLGENDL 87 (250)
T ss_pred HHHHHHCCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChhh
Confidence 34455555555555555554433 2322 244444455555555444
No 165
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=71.44 E-value=20 Score=22.67 Aligned_cols=60 Identities=10% Similarity=-0.019 Sum_probs=37.6
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCH----hhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNA----VTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~----~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
..|+.-+.-+.+.|++++|...|+.+... .|+. ..+--+-.++-..|+.+. ..|..+...
T Consensus 144 ~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~ 209 (263)
T PRK10803 144 TDYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN 209 (263)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 44555555556678888888888888755 2332 233345555666777766 666666543
No 166
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.43 E-value=7.3 Score=26.36 Aligned_cols=28 Identities=11% Similarity=0.268 Sum_probs=12.8
Q ss_pred CcHhHHHHHHH-HHHhcCCchhHHHHHHH
Q 042815 5 RDATTSSAMML-GLAKNGKNGMGVELFMS 32 (87)
Q Consensus 5 ~~~~~~~~li~-~~~~~g~~~~a~~l~~~ 32 (87)
+|-++|-++++ .|.++++++.|.++|-+
T Consensus 425 kn~~~Y~s~LArCyi~nkkP~lAW~~~lk 453 (557)
T KOG3785|consen 425 KNKILYKSMLARCYIRNKKPQLAWDMMLK 453 (557)
T ss_pred hhhHHHHHHHHHHHHhcCCchHHHHHHHh
Confidence 34444544443 34445555555444433
No 167
>KOG3785 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.35 E-value=16 Score=24.87 Aligned_cols=52 Identities=19% Similarity=0.201 Sum_probs=36.4
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHH-HcccchhH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTA-YGKIKIFG 59 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~-~~~~~~~~ 59 (87)
|...+| +-.+++..|.+.+|+++|-++....++ |..+|.+++.- +.+.++.+
T Consensus 393 D~Fn~N-~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~ 445 (557)
T KOG3785|consen 393 DDFNLN-LAQAKLATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQ 445 (557)
T ss_pred chhhhH-HHHHHHHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCch
Confidence 333443 567889999999999999887655544 77888776654 44555554
No 168
>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]
Probab=71.34 E-value=23 Score=22.40 Aligned_cols=71 Identities=10% Similarity=-0.054 Sum_probs=45.8
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH-----HHHHhchhcccccccchhhhhh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV-----TLMGIQPQNLWYYIDGQIDAWQ 82 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~-----~~~~~m~~~~~~g~~~~~~~~~ 82 (87)
|-+..|+.+.+.+...+++.+.++-.+. +| |..+=-.+++.+|-.|+.++ ++..++.- ...+....|.
T Consensus 3 Tl~~t~seLL~~~sL~dai~~a~~qVka--kPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p----~~t~~a~lyr 76 (273)
T COG4455 3 TLRDTISELLDDNSLQDAIGLARDQVKA--KPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSP----QDTVGASLYR 76 (273)
T ss_pred chHHHHHHHHHhccHHHHHHHHHHHHhc--CCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCc----ccchHHHHHH
Confidence 3455677778888888888887775544 34 55566677888888888876 33444432 3555556665
Q ss_pred ccc
Q 042815 83 AAC 85 (87)
Q Consensus 83 ~~~ 85 (87)
.+|
T Consensus 77 ~li 79 (273)
T COG4455 77 HLI 79 (273)
T ss_pred HHH
Confidence 554
No 169
>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=70.67 E-value=13 Score=19.29 Aligned_cols=42 Identities=2% Similarity=-0.028 Sum_probs=34.1
Q ss_pred hcCCchhHHHHHHHHHHcCCCC-CHh-hHHHHHHHHcccchhHH
Q 042815 19 KNGKNGMGVELFMSIEKRGPRP-NAV-TFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~~g~~p-d~~-t~~~ll~~~~~~~~~~~ 60 (87)
+..+.++|+..|.+....-..| +.+ ++..++.+++..|+.++
T Consensus 18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~ 61 (80)
T PF10579_consen 18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYRE 61 (80)
T ss_pred ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHH
Confidence 6677899999999987664443 444 88999999999999987
No 170
>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=70.09 E-value=25 Score=22.25 Aligned_cols=45 Identities=11% Similarity=-0.006 Sum_probs=17.8
Q ss_pred CchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 22 KNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
+.+.|..+|+...+. +..+..-|..-++-+.+.++.+. .+|++..
T Consensus 51 d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i 97 (280)
T PF05843_consen 51 DPKRARKIFERGLKK-FPSDPDFWLEYLDFLIKLNDINNARALFERAI 97 (280)
T ss_dssp -HHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHC
T ss_pred CHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHH
Confidence 334455555554432 22233344444444444444444 4444443
No 171
>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=70.03 E-value=21 Score=21.39 Aligned_cols=57 Identities=16% Similarity=0.219 Sum_probs=43.1
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCC-CC-CHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGP-RP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~-~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+-..|.+.|++++|...|.+.....- .| ....+..+..++.+.|+.++ ..++.+..+
T Consensus 172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~ 232 (235)
T TIGR03302 172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN 232 (235)
T ss_pred HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 44567888999999999999876521 23 34577888999999999988 767666554
No 172
>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=69.90 E-value=16 Score=20.04 Aligned_cols=47 Identities=9% Similarity=0.126 Sum_probs=31.9
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAY 52 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~ 52 (87)
|+.....+.+.+|.+-.++..|.++|.-.+.. +.+....|.-+++-.
T Consensus 43 P~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lqEl 89 (108)
T PF02284_consen 43 PEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQEL 89 (108)
T ss_dssp --HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHHHH
T ss_pred CChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHHHH
Confidence 45566788999999999999999999998743 122333676666543
No 173
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=69.36 E-value=28 Score=22.74 Aligned_cols=72 Identities=13% Similarity=0.052 Sum_probs=45.1
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh-hHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhh
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV-TFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAW 81 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~ 81 (87)
.|.+-|.-=-++|.+.|.++.|.+=...-. .+.|.-+ +|..|=.++...|+..+ +.|.... .++|+..+|
T Consensus 113 ~nAVyycNRAAAy~~Lg~~~~AVkDce~Al--~iDp~yskay~RLG~A~~~~gk~~~A~~aykKaL-----eldP~Ne~~ 185 (304)
T KOG0553|consen 113 TNAVYYCNRAAAYSKLGEYEDAVKDCESAL--SIDPHYSKAYGRLGLAYLALGKYEEAIEAYKKAL-----ELDPDNESY 185 (304)
T ss_pred CcchHHHHHHHHHHHhcchHHHHHHHHHHH--hcChHHHHHHHHHHHHHHccCcHHHHHHHHHhhh-----ccCCCcHHH
Confidence 455666666677888888888777555433 2344433 66666667777777766 4444433 467877777
Q ss_pred hc
Q 042815 82 QA 83 (87)
Q Consensus 82 ~~ 83 (87)
..
T Consensus 186 K~ 187 (304)
T KOG0553|consen 186 KS 187 (304)
T ss_pred HH
Confidence 54
No 174
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=69.22 E-value=6.7 Score=27.37 Aligned_cols=55 Identities=9% Similarity=0.032 Sum_probs=39.7
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+=..|.+.|.+++|+.-|+...+. .||-.+=-.++-++-..|+-++ +.|..|..-
T Consensus 282 igvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~i 338 (840)
T KOG2003|consen 282 IGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDI 338 (840)
T ss_pred cCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcC
Confidence 334577899999999999998766 6887755555555555667666 888887654
No 175
>KOG4570 consensus Uncharacterized conserved protein [Function unknown]
Probab=69.00 E-value=16 Score=24.35 Aligned_cols=33 Identities=12% Similarity=0.058 Sum_probs=28.5
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcC
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRG 37 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g 37 (87)
||-++++.+|+.+.+++++.+|..+--.|....
T Consensus 133 ~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~qe 165 (418)
T KOG4570|consen 133 PDQFTFCLLMDSFLKKENYKDAASVVTEVMMQE 165 (418)
T ss_pred cchhhHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence 688999999999999999999999877776443
No 176
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=68.87 E-value=18 Score=20.01 Aligned_cols=52 Identities=15% Similarity=0.043 Sum_probs=39.6
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIF 58 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~ 58 (87)
+...-..+|..+.+.+..+....+++.+...+. .+...++.++..+++...-
T Consensus 6 ~~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~~ 57 (140)
T smart00299 6 DPIDVSEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDPQ 57 (140)
T ss_pred CcCCHHHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCHH
Confidence 444556788888888889999999888887763 5777888888888876443
No 177
>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=66.27 E-value=32 Score=22.05 Aligned_cols=45 Identities=9% Similarity=0.036 Sum_probs=28.4
Q ss_pred CchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 22 KNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
.+.+|.-+|+++.+ ...++..+.+.+.-+....|++++ .++....
T Consensus 182 ~~~~A~y~f~El~~-~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al 228 (290)
T PF04733_consen 182 KYQDAFYIFEELSD-KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEAL 228 (290)
T ss_dssp CCCHHHHHHHHHHC-CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHC
T ss_pred hHHHHHHHHHHHHh-ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 57778888888643 345666777777777777777777 4444433
No 178
>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]
Probab=65.54 E-value=9.9 Score=28.93 Aligned_cols=34 Identities=12% Similarity=0.195 Sum_probs=29.8
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHc
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
...|.-+|..+..+|...|.+..|..+|.+....
T Consensus 592 dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L 625 (1238)
T KOG1127|consen 592 DPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL 625 (1238)
T ss_pred CchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence 4568899999999999999999999999886543
No 179
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=65.15 E-value=31 Score=22.38 Aligned_cols=46 Identities=11% Similarity=0.117 Sum_probs=30.0
Q ss_pred CCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 21 GKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
+.+.+|.-+|++|.+ ...|+..+.+-...+|-..|++++ .+++...
T Consensus 187 ek~qdAfyifeE~s~-k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL 234 (299)
T KOG3081|consen 187 EKIQDAFYIFEELSE-KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEAL 234 (299)
T ss_pred hhhhhHHHHHHHHhc-ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHH
Confidence 456777777777743 346677777777777777777766 4444444
No 180
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=65.04 E-value=57 Score=24.88 Aligned_cols=62 Identities=10% Similarity=0.114 Sum_probs=48.2
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
.+...++.+-..+.+.|+.++|++.|++..+. .| +...+..+-.++...|++++ ..+++...
T Consensus 641 d~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l--~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~ 705 (987)
T PRK09782 641 NNSNYQAALGYALWDSGDIAQSREMLERAHKG--LPDDPALIRQLAYVNQRLDDMAATQHYARLVID 705 (987)
T ss_pred CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 35567777778899999999999999998765 45 55577888888888999887 66666553
No 181
>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=64.99 E-value=26 Score=21.50 Aligned_cols=49 Identities=10% Similarity=0.110 Sum_probs=34.6
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHc---CCCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKR---GPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~---g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.-+++|....+.+++..++.+..+. +=.+|...+.+|.+.+-+.++.+.
T Consensus 145 ~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~ 196 (203)
T PF11207_consen 145 YALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQ 196 (203)
T ss_pred HHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhh
Confidence 3455666677888888888776642 335677788888888877777766
No 182
>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=64.23 E-value=17 Score=18.73 Aligned_cols=34 Identities=18% Similarity=0.136 Sum_probs=26.0
Q ss_pred CcHhHHHHHHHHHHhcCCc---hhHHHHHHHHHHcCC
Q 042815 5 RDATTSSAMMLGLAKNGKN---GMGVELFMSIEKRGP 38 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~---~~a~~l~~~m~~~g~ 38 (87)
|+..+=+-+++-..+++.. ++|..+-+.+.+.|+
T Consensus 26 ~~cF~GselVdWL~~~~~~~~r~eAv~lg~~Ll~~G~ 62 (81)
T cd04439 26 PKCFLGNEFVSWLLEIGEISKPEEGVNLGQALLENGI 62 (81)
T ss_pred CceeEhHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCC
Confidence 5555666777777877766 689999999988885
No 183
>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=63.75 E-value=12 Score=16.14 Aligned_cols=22 Identities=14% Similarity=0.298 Sum_probs=15.7
Q ss_pred HHHHHHHHHhcCCchhHHHHHH
Q 042815 10 SSAMMLGLAKNGKNGMGVELFM 31 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~ 31 (87)
|-++=..+-+.|++++|+.+|+
T Consensus 4 ~y~~a~~~y~~~ky~~A~~~~~ 25 (36)
T PF07720_consen 4 LYGLAYNFYQKGKYDEAIHFFQ 25 (36)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHHHhhHHHHHHHHH
Confidence 3345556778999999999954
No 184
>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=63.67 E-value=0.85 Score=23.80 Aligned_cols=19 Identities=21% Similarity=0.373 Sum_probs=7.8
Q ss_pred CcHhHHHHHHHHHHhcCCc
Q 042815 5 RDATTSSAMMLGLAKNGKN 23 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~ 23 (87)
.+..+|-+.|.||+++|.+
T Consensus 22 k~~~vyRvFiNgYar~g~V 40 (88)
T PF11491_consen 22 KNEAVYRVFINGYARNGFV 40 (88)
T ss_dssp TTTTB------TTSS--EE
T ss_pred cccceeeeeecccccceEE
Confidence 4567888888888888864
No 185
>COG2405 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=63.62 E-value=27 Score=20.33 Aligned_cols=34 Identities=12% Similarity=0.136 Sum_probs=22.0
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHH
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLT 50 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~ 50 (87)
+-..|.+.+...+.++|.+.|+.....+|+.+++
T Consensus 119 ak~kgLisk~Kpild~LI~~GF~iS~~~~eeiL~ 152 (157)
T COG2405 119 AKSKGLISKDKPILDELIEKGFRISRSILEEILR 152 (157)
T ss_pred HHHcCcccchHHHHHHHHHhcCcccHHHHHHHHH
Confidence 3344666667777777777777666666665554
No 186
>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=62.93 E-value=15 Score=17.28 Aligned_cols=33 Identities=12% Similarity=0.116 Sum_probs=23.2
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHH
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVG 47 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ 47 (87)
+--|+.+.|++++|.+..+.+.+. .|+-.-.-.
T Consensus 7 lAig~ykl~~Y~~A~~~~~~lL~~--eP~N~Qa~~ 39 (53)
T PF14853_consen 7 LAIGHYKLGEYEKARRYCDALLEI--EPDNRQAQS 39 (53)
T ss_dssp HHHHHHHTT-HHHHHHHHHHHHHH--TTS-HHHHH
T ss_pred HHHHHHHhhhHHHHHHHHHHHHhh--CCCcHHHHH
Confidence 345789999999999999998765 565544333
No 187
>COG3294 HD supefamily hydrolase [General function prediction only]
Probab=62.74 E-value=7.4 Score=24.44 Aligned_cols=21 Identities=19% Similarity=0.509 Sum_probs=18.3
Q ss_pred hhHHHHHHHHHHcCCCCCHhh
Q 042815 24 GMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~pd~~t 44 (87)
..|+++|+.+.+.|++|+..+
T Consensus 67 ~~Al~i~~lL~~~Gv~ps~v~ 87 (269)
T COG3294 67 NSALAIYKLLLEKGVKPSGVT 87 (269)
T ss_pred chHHHHHHHHHhcCCCccccc
Confidence 579999999999999997654
No 188
>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]
Probab=62.53 E-value=38 Score=21.62 Aligned_cols=63 Identities=11% Similarity=-0.043 Sum_probs=46.1
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
.++|-..||.+=..|.+.|+.++|..-|.+-.+. .| +....+.+--.+.-.|+++. .++....
T Consensus 130 ~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~ 195 (257)
T COG5010 130 APTDWEAWNLLGAALDQLGRFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAETLLLPAY 195 (257)
T ss_pred CCCChhhhhHHHHHHHHccChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHH
Confidence 4578899999999999999999999999987654 33 33455666666666677766 4444433
No 189
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=62.42 E-value=46 Score=22.52 Aligned_cols=53 Identities=17% Similarity=0.112 Sum_probs=34.3
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHh
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGI 65 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~ 65 (87)
+.|=..|.+.|.+.+|...|+.-.+. .|-.-||-.+-+.|-+..+... .++..
T Consensus 227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~ 281 (478)
T KOG1129|consen 227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGE 281 (478)
T ss_pred HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhh
Confidence 34556777788888888877775554 4555566666777777666655 44443
No 190
>PRK11189 lipoprotein NlpI; Provisional
Probab=62.03 E-value=38 Score=21.49 Aligned_cols=59 Identities=10% Similarity=-0.044 Sum_probs=46.6
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
..|..+=..|.+.|+.++|...|++..+. .| +...|..+-..+...|+.+. ..|+....
T Consensus 65 ~~~~~~g~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~ 126 (296)
T PRK11189 65 QLHYERGVLYDSLGLRALARNDFSQALAL--RPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE 126 (296)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 44666666788999999999999998765 45 46688888889999999988 66776654
No 191
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=62.02 E-value=37 Score=23.95 Aligned_cols=62 Identities=10% Similarity=-0.013 Sum_probs=39.6
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
-|+.+|-.||.-|...|..++..+.+.+|.. ....=...|.--|++=-...+++. .+|.+-.
T Consensus 40 tnI~S~fqLiq~~~tq~s~~~~re~yeq~~~-pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL 103 (660)
T COG5107 40 TNILSYFQLIQYLETQESMDAEREMYEQLSS-PFPIMEHAWRLYMSGELARKDFRSVESLFGRCL 103 (660)
T ss_pred hhHHHHHHHHHHHhhhhhHHHHHHHHHHhcC-CCccccHHHHHHhcchhhhhhHHHHHHHHHHHH
Confidence 3778999999999999999999999999862 111122244444544333344443 4444433
No 192
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=61.54 E-value=29 Score=21.87 Aligned_cols=59 Identities=10% Similarity=0.033 Sum_probs=36.3
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-----CHh--hHHHHHHHHcccchhHH--HHHHhch
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-----NAV--TFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-----d~~--t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
.++.-+..-+.+.|++++|.++|++.......- +.- .+..+|..++. |+.-. +.++...
T Consensus 156 ~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~-~D~v~A~~~~~~~~ 223 (282)
T PF14938_consen 156 ECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAM-GDYVAARKALERYC 223 (282)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHT-T-HHHHHHHHHHHG
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHc-CCHHHHHHHHHHHH
Confidence 355667778999999999999999987654332 222 23455544443 44433 6666655
No 193
>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=61.52 E-value=4.3 Score=22.52 Aligned_cols=48 Identities=10% Similarity=0.065 Sum_probs=26.0
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
+....|.++..|++.+..++..++++. .+.+-...+++.|-+.+.++.
T Consensus 41 ~~~~~~~L~~ly~~~~~~~~l~~~L~~-------~~~yd~~~~~~~c~~~~l~~~ 88 (143)
T PF00637_consen 41 NPDLHTLLLELYIKYDPYEKLLEFLKT-------SNNYDLDKALRLCEKHGLYEE 88 (143)
T ss_dssp SHHHHHHHHHHHHCTTTCCHHHHTTTS-------SSSS-CTHHHHHHHTTTSHHH
T ss_pred CHHHHHHHHHHHHhcCCchHHHHHccc-------ccccCHHHHHHHHHhcchHHH
Confidence 345556666666666666666665551 122333455666666665555
No 194
>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=61.34 E-value=30 Score=21.16 Aligned_cols=40 Identities=13% Similarity=0.038 Sum_probs=27.4
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
.+.-|.++|.+++|.+++++... .|+......-|...-+.
T Consensus 117 aV~VCm~~g~Fk~A~eiLkr~~~---d~~~~~~r~kL~~II~~ 156 (200)
T cd00280 117 AVAVCMENGEFKKAEEVLKRLFS---DPESQKLRMKLLMIIRE 156 (200)
T ss_pred HHHHHHhcCchHHHHHHHHHHhc---CCCchhHHHHHHHHHHc
Confidence 34568999999999999999765 44555444444444433
No 195
>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=60.82 E-value=22 Score=18.69 Aligned_cols=27 Identities=7% Similarity=0.022 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
-.|..++..+...++.+++..+|+.+.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~l~ 29 (88)
T TIGR02531 3 ELLDELFDAILTLKNREECYRFFDDIA 29 (88)
T ss_pred hHHHHHHHHHHhCCCHHHHHHHHHHhC
Confidence 368899999999999999999999875
No 196
>KOG1129 consensus TPR repeat-containing protein [General function prediction only]
Probab=60.07 E-value=11 Score=25.27 Aligned_cols=62 Identities=8% Similarity=0.118 Sum_probs=44.5
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
|+.+-.++-.+|.=.+++|-|+..|+++.+.|+. +..-|+.+=-+|--.++++. ..|++...
T Consensus 323 nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf~RAls 386 (478)
T KOG1129|consen 323 NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALS 386 (478)
T ss_pred cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHh
Confidence 3444445556777789999999999999999976 56667666667777777777 45555443
No 197
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=59.95 E-value=66 Score=23.53 Aligned_cols=62 Identities=6% Similarity=-0.013 Sum_probs=43.0
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh-hHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV-TFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+.-.+-.+...+.+.+++++|+..+++.... .||.. ....+-.++.+.|+.++ .+|++....
T Consensus 119 ~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~~~g~~~~A~~~y~~~~~~ 183 (694)
T PRK15179 119 SSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLEAKSWDEIGQSEQADACFERLSRQ 183 (694)
T ss_pred cHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHhc
Confidence 3445666777788888888888888887655 45444 55555566677788877 777777654
No 198
>PF14744 WASH-7_mid: WASH complex subunit 7
Probab=59.59 E-value=10 Score=25.11 Aligned_cols=30 Identities=10% Similarity=0.091 Sum_probs=24.9
Q ss_pred CCchhHHHHHHHHHHcCCCCCHhhHHHHHH
Q 042815 21 GKNGMGVELFMSIEKRGPRPNAVTFVGVLT 50 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~ 50 (87)
--++.|..+-+.+.+.|+.||..||-=.++
T Consensus 280 Yp~erAekf~k~irkLG~~~dG~sylD~FR 309 (350)
T PF14744_consen 280 YPYERAEKFNKGIRKLGLSDDGQSYLDQFR 309 (350)
T ss_pred CCHHHHHHHHHHHHHcCCCCCcchHHHHHH
Confidence 346999999999999999999999854443
No 199
>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=59.50 E-value=21 Score=17.65 Aligned_cols=51 Identities=12% Similarity=0.077 Sum_probs=37.9
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
.|+...++.|+..+++-.-+++++..+.+....|. .+.-+|.=-++.+++.
T Consensus 5 ~~~~~l~~Ql~el~Aed~AieDtiy~L~~al~~g~-I~~d~~lK~vR~LaRe 55 (65)
T PF09454_consen 5 VAEDPLSNQLYELVAEDHAIEDTIYYLDRALQRGS-IDLDTFLKQVRSLARE 55 (65)
T ss_dssp E-SSHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-S-HHHHHHHHHHHHHH
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHH
Confidence 35667899999999999999999999999998885 3555555555555443
No 200
>PLN02789 farnesyltranstransferase
Probab=59.31 E-value=47 Score=21.66 Aligned_cols=50 Identities=12% Similarity=0.008 Sum_probs=36.8
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK 54 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~ 54 (87)
.+|..+|+----.+.+.|+++++++.+.++.+.... |...|+...-.+.+
T Consensus 139 pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~-N~sAW~~R~~vl~~ 188 (320)
T PLN02789 139 AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVR-NNSAWNQRYFVITR 188 (320)
T ss_pred cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCC-chhHHHHHHHHHHh
Confidence 467788888888888889999999999999877644 55566554444443
No 201
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=58.54 E-value=58 Score=22.78 Aligned_cols=53 Identities=11% Similarity=0.063 Sum_probs=43.1
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
...+-.+=.+|.+.|++.+|..++++-.... .-|...|..+-.+|+..|+..+
T Consensus 374 ~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~ 426 (484)
T COG4783 374 PLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAE 426 (484)
T ss_pred cHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHH
Confidence 4455666778999999999999999976543 4588899999999999888766
No 202
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=58.45 E-value=52 Score=23.13 Aligned_cols=64 Identities=14% Similarity=0.108 Sum_probs=40.9
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHc-----C-CCCCHhhHHH-HHHHHcccchhHH--HHHHhch
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKR-----G-PRPNAVTFVG-VLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-----g-~~pd~~t~~~-ll~~~~~~~~~~~--~~~~~m~ 67 (87)
|.+.. +..-+-..|...|++++|..+|++-... | ..|+..+..- +-..|...+++.+ .+|+.+.
T Consensus 196 P~~~~-~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL 268 (508)
T KOG1840|consen 196 PERLR-TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEAL 268 (508)
T ss_pred chHHH-HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 34443 3334889999999999999999986543 2 2344443322 4445666677766 6666655
No 203
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=58.43 E-value=24 Score=25.88 Aligned_cols=63 Identities=6% Similarity=-0.100 Sum_probs=46.5
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+.-+||.+=.+|.+.|+-.+|...+.+-.+....| -..|-.-+-.-.+.|.+++ +.++++...
T Consensus 552 ~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~-w~iWENymlvsvdvge~eda~~A~~rll~~ 616 (777)
T KOG1128|consen 552 NAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQH-WQIWENYMLVSVDVGEFEDAIKAYHRLLDL 616 (777)
T ss_pred chhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCC-CeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence 45689999999999999999999999988777443 3344444555667777777 666666543
No 204
>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=58.42 E-value=35 Score=21.17 Aligned_cols=49 Identities=10% Similarity=0.020 Sum_probs=34.5
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHH----cC-CCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEK----RG-PRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~----~g-~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
-|-.-|.+.|++++|..+|+.+.. +| ..+...+...+..+..+.|+.+.
T Consensus 183 ~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~ 236 (247)
T PF11817_consen 183 EMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVED 236 (247)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHH
Confidence 345668889999999999999852 23 23344456667777777777766
No 205
>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=58.32 E-value=34 Score=20.25 Aligned_cols=43 Identities=12% Similarity=0.107 Sum_probs=24.2
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAY 52 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~ 52 (87)
+...|.-+|..+.++|++.. +..+...++-||.......+-..
T Consensus 28 ~~~L~~lli~lLi~~~~~~~----L~qllq~~Vi~DSk~lA~~LLs~ 70 (167)
T PF07035_consen 28 QHELYELLIDLLIRNGQFSQ----LHQLLQYHVIPDSKPLACQLLSL 70 (167)
T ss_pred CHHHHHHHHHHHHHcCCHHH----HHHHHhhcccCCcHHHHHHHHHh
Confidence 34466666666666665443 34445556666666655555433
No 206
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=57.72 E-value=39 Score=20.18 Aligned_cols=57 Identities=18% Similarity=0.133 Sum_probs=34.3
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCC-C-CHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPR-P-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~-p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
.-..+.+.|++++|...|+++...--. | -....--+..++-+.|+.+. ..++.....
T Consensus 11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~ 71 (203)
T PF13525_consen 11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL 71 (203)
T ss_dssp HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 334567788999999999998765211 1 11233455666777777777 666665554
No 207
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=57.18 E-value=15 Score=26.34 Aligned_cols=68 Identities=9% Similarity=0.003 Sum_probs=45.2
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhhhc
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAWQA 83 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~~~ 83 (87)
..+|-++=..|.-.++.+.|++.|++-.+. .| .+++|+.+=+-+.....++. ..|.. .+..|..+|||
T Consensus 421 PesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~-------Al~~~~rhYnA 491 (638)
T KOG1126|consen 421 PESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRK-------ALGVDPRHYNA 491 (638)
T ss_pred cHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHh-------hhcCCchhhHH
Confidence 468999999999999999999999997644 45 66666654444444444444 33332 34556667765
No 208
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=56.65 E-value=13 Score=14.36 Aligned_cols=16 Identities=6% Similarity=0.158 Sum_probs=12.2
Q ss_pred CCchhHHHHHHHHHHc
Q 042815 21 GKNGMGVELFMSIEKR 36 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~ 36 (87)
|+.++|..+|+++...
T Consensus 1 ~~~~~~r~i~e~~l~~ 16 (33)
T smart00386 1 GDIERARKIYERALEK 16 (33)
T ss_pred CcHHHHHHHHHHHHHH
Confidence 4678888888888754
No 209
>KOG0591 consensus NIMA (never in mitosis)-related G2-specific serine/threonine protein kinase [Cell cycle control, cell division, chromosome partitioning]
Probab=56.31 E-value=53 Score=21.77 Aligned_cols=44 Identities=9% Similarity=0.153 Sum_probs=32.4
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchh
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIF 58 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~ 58 (87)
+.--||..|+..+..+-|++ +...-|-...|-.+...|...-..
T Consensus 97 ivmE~c~~GDLsqmIk~~K~--qkr~ipE~~Vwk~f~QL~~AL~~c 140 (375)
T KOG0591|consen 97 IVMELCDAGDLSQMIKHFKK--QKRLIPEKTVWKYFVQLCRALYHC 140 (375)
T ss_pred HHHHhhcccCHHHHHHHHHh--ccccCchHHHHHHHHHHHHHHHHH
Confidence 34458889999998888887 556678888888777777654433
No 210
>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]
Probab=55.86 E-value=25 Score=26.37 Aligned_cols=49 Identities=14% Similarity=0.150 Sum_probs=27.5
Q ss_pred hcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 19 KNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
+.|+.++|..+++.....+.. |..|...+-.+|-..++.++ .+|++...
T Consensus 55 r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~ 105 (932)
T KOG2053|consen 55 RLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHLYERANQ 105 (932)
T ss_pred HhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHHHHHHHh
Confidence 456666666666555444333 55566666666666666665 55555443
No 211
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=55.52 E-value=60 Score=23.98 Aligned_cols=52 Identities=13% Similarity=0.126 Sum_probs=37.9
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~ 60 (87)
..+|+.+-..+-..|+.++|+++|+.|.+. +| ..-.|..+-.++...|+.+.
T Consensus 116 ae~ysn~aN~~kerg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~ 168 (966)
T KOG4626|consen 116 AEAYSNLANILKERGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLEL 168 (966)
T ss_pred HHHHHHHHHHHHHhchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcc
Confidence 356777777888888888888888888765 34 34467777777777777666
No 212
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=55.18 E-value=38 Score=19.30 Aligned_cols=44 Identities=14% Similarity=0.138 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYG 53 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~ 53 (87)
.+|..+=..|.+.|++++|+..|++.... .|+ ..++..+-..+.
T Consensus 73 ~~~~~lg~~~~~~g~~~eA~~~~~~Al~~--~~~~~~~~~~la~i~~ 117 (168)
T CHL00033 73 YILYNIGLIHTSNGEHTKALEYYFQALER--NPFLPQALNNMAVICH 117 (168)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHHH
Confidence 47888889999999999999999997754 333 345555555555
No 213
>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=55.04 E-value=31 Score=18.33 Aligned_cols=58 Identities=12% Similarity=0.058 Sum_probs=35.5
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccc-hhHH---HHHHhchhc
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIK-IFGV---TLMGIQPQN 69 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~-~~~~---~~~~~m~~~ 69 (87)
...+|..|...|++++|.+-+.++......+ .....+|..+...+ ...+ .+++.+...
T Consensus 5 i~~~l~ey~~~~D~~ea~~~l~~L~~~~~~~--~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~ 66 (113)
T smart00544 5 IFLIIEEYLSSGDTDEAVHCLLELKLPEQHH--EVVKVLLTCALEEKRTYREMYSVLLSRLCQA 66 (113)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHhCCCcchH--HHHHHHHHHHHcCCccHHHHHHHHHHHHHHc
Confidence 4567888999999999999999986433222 23334455554443 2222 555555543
No 214
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=54.81 E-value=47 Score=26.64 Aligned_cols=26 Identities=15% Similarity=0.189 Sum_probs=13.2
Q ss_pred hHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 44 TFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 44 t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
.|..|..-|.+.+..++ ++++.|.++
T Consensus 1532 V~~~L~~iy~k~ek~~~A~ell~~m~KK 1559 (1710)
T KOG1070|consen 1532 VHLKLLGIYEKSEKNDEADELLRLMLKK 1559 (1710)
T ss_pred HHHHHHHHHHHhhcchhHHHHHHHHHHH
Confidence 34444444444444444 666666654
No 215
>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=54.57 E-value=34 Score=18.63 Aligned_cols=45 Identities=13% Similarity=0.216 Sum_probs=32.8
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHH-HcCCCCCHhhHHHHHHH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIE-KRGPRPNAVTFVGVLTA 51 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~-~~g~~pd~~t~~~ll~~ 51 (87)
|+...-.+-+.+|.+-.++..|.++|.-.+ +.|. +..+|..+++-
T Consensus 40 P~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lqe 85 (103)
T cd00923 40 PEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQE 85 (103)
T ss_pred CCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHHH
Confidence 334456788999999999999999999887 3332 44566666654
No 216
>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=54.54 E-value=6.3 Score=18.47 Aligned_cols=24 Identities=21% Similarity=0.314 Sum_probs=17.1
Q ss_pred hcCCchhHHHHHHHHHHcC-CCCCH
Q 042815 19 KNGKNGMGVELFMSIEKRG-PRPNA 42 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~~g-~~pd~ 42 (87)
.+.++++|...|.++...| |.|+.
T Consensus 25 n~Wd~~~A~~~F~~l~~~~~IP~eA 49 (51)
T PF03943_consen 25 NNWDYERALQNFEELKAQGKIPPEA 49 (51)
T ss_dssp TTT-CCHHHHHHHHCCCTT-S-CCC
T ss_pred cCCCHHHHHHHHHHHHHcCCCChHh
Confidence 3678999999999988665 55554
No 217
>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=54.53 E-value=35 Score=19.91 Aligned_cols=35 Identities=14% Similarity=0.117 Sum_probs=26.3
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCC
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPR 39 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~ 39 (87)
++..-.-.+-.+|.+-|+..++-+++++..+.|++
T Consensus 118 ~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k 152 (161)
T PF09205_consen 118 INPEFLVKIANAYKKLGNTREANELLKEACEKGLK 152 (161)
T ss_dssp S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred CCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence 34444456778999999999999999999999864
No 218
>PF13929 mRNA_stabil: mRNA stabilisation
Probab=54.49 E-value=58 Score=21.22 Aligned_cols=56 Identities=7% Similarity=-0.045 Sum_probs=43.1
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHc-CCCCCHhhHHHHHHHHcccchhHH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKR-GPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~-g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
++..+--++|..+++.+++.+-.+++...... +..-|.-.|..+|+...+.|+...
T Consensus 200 l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~ 256 (292)
T PF13929_consen 200 LTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEV 256 (292)
T ss_pred CChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHH
Confidence 34455567888899999999988888876544 455688889999999998888754
No 219
>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=54.46 E-value=17 Score=18.51 Aligned_cols=42 Identities=7% Similarity=0.012 Sum_probs=26.9
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
.++..+ .+++++++.....++...|+.++. .+..+.+.....
T Consensus 10 ~i~~~~-~~~~~~~~~~~~~~l~~~G~s~~~-Il~~l~~~l~~~ 51 (89)
T PF08542_consen 10 EILESC-LNGDFKEARKKLYELLVEGYSASD-ILKQLHEVLVES 51 (89)
T ss_dssp HHHHHH-HHTCHHHHHHHHHHHHHTT--HHH-HHHHHHHHHHTS
T ss_pred HHHHHH-HhCCHHHHHHHHHHHHHcCCCHHH-HHHHHHHHHHHh
Confidence 455544 446999999999999988876544 344445554444
No 220
>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=54.29 E-value=18 Score=15.34 Aligned_cols=23 Identities=4% Similarity=0.156 Sum_probs=18.1
Q ss_pred CchhHHHHHHHHHHcCCCCCHhhHH
Q 042815 22 KNGMGVELFMSIEKRGPRPNAVTFV 46 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g~~pd~~t~~ 46 (87)
.++.|..+|++.... .|+..+|.
T Consensus 2 E~dRAR~IyeR~v~~--hp~~k~Wi 24 (32)
T PF02184_consen 2 EFDRARSIYERFVLV--HPEVKNWI 24 (32)
T ss_pred hHHHHHHHHHHHHHh--CCCchHHH
Confidence 468899999998764 58887774
No 221
>PF10363 DUF2435: Protein of unknown function (DUF2435)
Probab=54.01 E-value=32 Score=18.13 Aligned_cols=44 Identities=11% Similarity=0.138 Sum_probs=31.6
Q ss_pred chhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH-HHHHhchhc
Q 042815 23 NGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV-TLMGIQPQN 69 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~~~ 69 (87)
.+....+|.+..+ .+|.+.|-..|++++..++... .++..+...
T Consensus 41 ~~~il~l~l~~L~---d~DsyVYL~aI~~L~~La~~~p~~vl~~L~~~ 85 (92)
T PF10363_consen 41 IPKILDLFLSQLK---DEDSYVYLNAIKGLAALADRHPDEVLPILLDE 85 (92)
T ss_pred HHHHHHHHHHHcC---CCCchHHHHHHHHHHHHHHHChHHHHHHHHHH
Confidence 4555556655443 4699999999999999888776 666665543
No 222
>PF08343 RNR_N: Ribonucleotide reductase N-terminal; InterPro: IPR013554 This domain is found at the N terminus of bacterial ribonucleoside-diphosphate reductases (ribonucleotide reductases, RNRs) which catalyse the formation of deoxyribonucleotides []. It occurs together with the RNR all-alpha domain (IPR013509 from INTERPRO) and the RNR barrel domain (IPR000788 from INTERPRO). ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0006260 DNA replication, 0055114 oxidation-reduction process, 0005971 ribonucleoside-diphosphate reductase complex; PDB: 1PEM_A 2BQ1_E 1PEU_A 1PEQ_A 1PEO_A.
Probab=53.82 E-value=9.2 Score=19.89 Aligned_cols=44 Identities=18% Similarity=0.117 Sum_probs=23.3
Q ss_pred hHHHHHHHHHHhcCCc--hhHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKN--GMGVELFMSIEKRGPRPNAVTFVGVLTA 51 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~--~~a~~l~~~m~~~g~~pd~~t~~~ll~~ 51 (87)
+..|+++.-+-..|.+ ++=.+-.+.-....+.|++..|.++-.-
T Consensus 2 ~~LNn~~~~~~~~G~~~l~kD~eA~~~y~~~~V~pnt~~F~S~~Er 47 (82)
T PF08343_consen 2 IELNNELNIYDEDGKIQLEKDKEAVRAYFKEHVNPNTVKFNSLKER 47 (82)
T ss_dssp HHHHHGGG---TTS---THHHHHHHHHHHHHTTGGGB---SSHHHH
T ss_pred HHHHHHHcCCCCCCCcCchhHHHHHHHHHHHhcccceeecCCHHHH
Confidence 3567888777888875 3333344444566789999998877543
No 223
>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]
Probab=53.31 E-value=49 Score=23.43 Aligned_cols=42 Identities=14% Similarity=0.147 Sum_probs=33.3
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHH-HcCCCCCHhhHHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIE-KRGPRPNAVTFVG 47 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~-~~g~~pd~~t~~~ 47 (87)
|+-.|..-|.-+-+.+.+.+...+|.+|. .++-.||...+.+
T Consensus 104 D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~dLWI~aA 146 (568)
T KOG2396|consen 104 DVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPDLWIYAA 146 (568)
T ss_pred CHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCchhHHhhh
Confidence 77888888886666777999999999998 5667777776643
No 224
>PRK09462 fur ferric uptake regulator; Provisional
Probab=53.20 E-value=41 Score=19.08 Aligned_cols=49 Identities=14% Similarity=0.167 Sum_probs=35.6
Q ss_pred HHHHHHHhc-CCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKN-GKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~-g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.++..+... +..-.|.++++++.+.+...+..|.=-.|+.+...|.+..
T Consensus 21 ~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~~ 70 (148)
T PRK09462 21 KILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTR 70 (148)
T ss_pred HHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEEE
Confidence 345555554 4577899999999988877777777777777777777654
No 225
>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=53.12 E-value=27 Score=18.25 Aligned_cols=35 Identities=17% Similarity=0.166 Sum_probs=25.7
Q ss_pred CcHhHHHHHHHHHHhcCCc---hhHHHHHHHHHHcCCC
Q 042815 5 RDATTSSAMMLGLAKNGKN---GMGVELFMSIEKRGPR 39 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~---~~a~~l~~~m~~~g~~ 39 (87)
|+...=+-+++-+.++|.. ++|..+.+.+.+.|+-
T Consensus 30 ~~cF~GsElVdWL~~~~~~~sR~eAv~lgq~Ll~~gii 67 (85)
T cd04441 30 ERTFVGSEFIDWLLQEGEAESRREAVQLCRRLLEHGII 67 (85)
T ss_pred CCEeEchHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCE
Confidence 3444556677777777754 8899999999988863
No 226
>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=53.09 E-value=36 Score=18.38 Aligned_cols=57 Identities=14% Similarity=0.275 Sum_probs=36.7
Q ss_pred HhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH-HHHHhchhcccccccchh
Q 042815 18 AKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV-TLMGIQPQNLWYYIDGQI 78 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~~~~~~g~~~~~ 78 (87)
.+...++.|.++|.++.+.|.- +...|..+.+..-..++.+. ...+.=.++ -+.|+.
T Consensus 35 ~~~e~i~s~~~Lf~~Lee~gll-~e~~~~fL~ELLy~I~R~DLL~~L~~~ke~---~~~~~~ 92 (97)
T cd08790 35 YERGLIRSGRDFLLALERQGRC-DETNFRQVLQLLRIITRHDLLPYVTLKRRR---AVCPDL 92 (97)
T ss_pred hhccCcCcHHHHHHHHHHcCCC-ccchHHHHHHHHHHHHHHHHHHHhccCCcC---CCCCch
Confidence 4457789999999999999854 44355566666666666655 444433333 455554
No 227
>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=52.97 E-value=20 Score=19.94 Aligned_cols=31 Identities=16% Similarity=0.327 Sum_probs=21.2
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
.++. ..-.|+..+++..++++...|..|...
T Consensus 20 ~l~~-ai~~~d~~~~l~~~~~l~~~G~d~~~~ 50 (143)
T PF12169_consen 20 ELLD-AILEGDAAEALELLNELLEQGKDPKQF 50 (143)
T ss_dssp HHHH-HHHTT-HHHHHHHHHHHHHCT--HHHH
T ss_pred HHHH-HHHcCCHHHHHHHHHHHHHhCCCHHHH
Confidence 3444 345689999999999999999877544
No 228
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=52.41 E-value=44 Score=19.19 Aligned_cols=49 Identities=16% Similarity=0.179 Sum_probs=35.7
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHcccch
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYGKIKI 57 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~~~ 57 (87)
...|..+-..|.+.|++++|...|.+.... .|+ ...+..+-..+...|+
T Consensus 72 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~ 121 (172)
T PRK02603 72 SYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNIAVIYHKRGE 121 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCC
Confidence 467888899999999999999999998764 443 4455555555555554
No 229
>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=52.36 E-value=63 Score=21.03 Aligned_cols=63 Identities=5% Similarity=-0.043 Sum_probs=44.9
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH---HHHHhchh
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV---TLMGIQPQ 68 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~---~~~~~m~~ 68 (87)
|+..+-|-+...+...|++++|..++++.....-+ |..|...++-+--..|...+ +...+.+.
T Consensus 205 ~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~ 270 (299)
T KOG3081|consen 205 PTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKL 270 (299)
T ss_pred CChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence 66677788888889999999999999998866533 56666666666666666533 44444443
No 230
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=52.00 E-value=71 Score=21.50 Aligned_cols=35 Identities=14% Similarity=0.151 Sum_probs=28.3
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
+-..|..+|.+.|+.++.+.++.++.+....++..
T Consensus 251 vl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~ 285 (389)
T COG2956 251 VLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAE 285 (389)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHH
Confidence 45678899999999999999999988765555544
No 231
>PF12816 Vps8: Golgi CORVET complex core vacuolar protein 8
Probab=51.97 E-value=34 Score=20.67 Aligned_cols=53 Identities=11% Similarity=0.144 Sum_probs=35.6
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
..........+|.-|.+.|+.+..+++.-.|--.. .-...+++.|-+.+-.+.
T Consensus 18 ~~lpp~v~k~lv~~y~~~~~~~~lE~lI~~LD~~~-----LDidq~i~lC~~~~Lyda 70 (196)
T PF12816_consen 18 KSLPPEVFKALVEHYASKGRLERLEQLILHLDPSS-----LDIDQVIKLCKKHGLYDA 70 (196)
T ss_pred CCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHh-----cCHHHHHHHHHHCCCCCe
Confidence 33445678899999999999999988887764333 333445556655544433
No 232
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=51.84 E-value=60 Score=20.62 Aligned_cols=62 Identities=10% Similarity=-0.119 Sum_probs=34.5
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh-hHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV-TFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+..+|..+-.-|-+.|+.+.|.+-|++-... .|+.. ..|..=.-+|..|.+++ ..|+.....
T Consensus 68 ~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~ 132 (250)
T COG3063 68 YYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLCAQGRPEEAMQQFERALAD 132 (250)
T ss_pred cHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHHhCCChHHHHHHHHHHHhC
Confidence 3456777777777777777777777775433 33222 22222223445556665 555555544
No 233
>PRK01381 Trp operon repressor; Provisional
Probab=51.23 E-value=35 Score=18.48 Aligned_cols=32 Identities=6% Similarity=0.028 Sum_probs=28.2
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
.+++.--|..++.-+-++.+.++...+|..+.
T Consensus 2 ~~~~~~~W~~~v~ll~~a~~~~~~~~~l~~ll 33 (99)
T PRK01381 2 AEQENQEWQRFVDLLKQAFEEDLHLPLLTLLL 33 (99)
T ss_pred CCcchhhHHHHHHHHHHhccHHHHHHHHHHhC
Confidence 45778889999999999999999999998876
No 234
>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=51.15 E-value=63 Score=22.74 Aligned_cols=38 Identities=16% Similarity=0.175 Sum_probs=25.3
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHc
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~ 53 (87)
-.-|.+.|+.++|..+|+++...+ ||-..|-..+..|.
T Consensus 45 A~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~ 82 (517)
T PF12569_consen 45 AELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEAL 82 (517)
T ss_pred HHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHH
Confidence 344566788888888888887764 56665555544444
No 235
>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=51.02 E-value=15 Score=21.82 Aligned_cols=20 Identities=10% Similarity=0.145 Sum_probs=16.7
Q ss_pred hhHHHHHHHHHHcCCCCCHh
Q 042815 24 GMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~pd~~ 43 (87)
+.+.+...++++.|..||.+
T Consensus 51 ~av~~a~~~L~~~Gf~PDvI 70 (171)
T PF12000_consen 51 QAVARAARQLRAQGFVPDVI 70 (171)
T ss_pred HHHHHHHHHHHHcCCCCCEE
Confidence 66777888888899999976
No 236
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=51.01 E-value=41 Score=23.52 Aligned_cols=39 Identities=13% Similarity=0.103 Sum_probs=31.0
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTF 45 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~ 45 (87)
|+...|..+-..|...|+.++|.+.|.+-... .|..-||
T Consensus 451 ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~ 489 (517)
T PRK10153 451 MSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTL 489 (517)
T ss_pred CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchH
Confidence 57778999999999999999999999996544 4544444
No 237
>PF09868 DUF2095: Uncharacterized protein conserved in archaea (DUF2095); InterPro: IPR018662 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=50.91 E-value=33 Score=19.23 Aligned_cols=26 Identities=23% Similarity=0.321 Sum_probs=23.0
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcC
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRG 37 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g 37 (87)
++|+-..++...++|+++.+-|...|
T Consensus 66 tViD~lrRC~T~EEALEVInylek~G 91 (128)
T PF09868_consen 66 TVIDYLRRCKTDEEALEVINYLEKRG 91 (128)
T ss_pred hHHHHHHHhCcHHHHHHHHHHHHHhC
Confidence 56777888889999999999999888
No 238
>KOG2536 consensus MAM33, mitochondrial matrix glycoprotein [Energy production and conversion]
Probab=50.10 E-value=42 Score=21.46 Aligned_cols=40 Identities=23% Similarity=0.154 Sum_probs=28.3
Q ss_pred hHHHHHHHHH-HcCCCCCHhhHHHHHHHHcccchhHH--HHHHhch
Q 042815 25 MGVELFMSIE-KRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQP 67 (87)
Q Consensus 25 ~a~~l~~~m~-~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~ 67 (87)
+-.+.|.+.+ .+||++...+| |.+|....+-.+ ++++.++
T Consensus 216 ~Lqd~fh~fLEeRGI~esl~~F---L~~ym~~Kd~rEYl~WlksvK 258 (263)
T KOG2536|consen 216 ELQDSFHRFLEERGIKESLASF---LHAYMKNKDSREYLRWLKSVK 258 (263)
T ss_pred HHHHHHHHHHHHcCCCHHHHHH---HHHHHhhhhHHHHHHHHHHHH
Confidence 3344555544 78999888877 889998887776 7776654
No 239
>KOG4340 consensus Uncharacterized conserved protein [Function unknown]
Probab=49.84 E-value=63 Score=21.65 Aligned_cols=42 Identities=19% Similarity=0.266 Sum_probs=30.9
Q ss_pred HhcCCchhHHHHHHHHH-HcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 18 AKNGKNGMGVELFMSIE-KRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~-~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.+.|++|+|.+=|+.-. ..|..| ...|+..+..+.+...-..
T Consensus 155 ykegqyEaAvqkFqaAlqvsGyqp-llAYniALaHy~~~qyasA 197 (459)
T KOG4340|consen 155 YKEGQYEAAVQKFQAALQVSGYQP-LLAYNLALAHYSSRQYASA 197 (459)
T ss_pred eccccHHHHHHHHHHHHhhcCCCc-hhHHHHHHHHHhhhhHHHH
Confidence 46899999999999876 456664 5678888888876544333
No 240
>PF13762 MNE1: Mitochondrial splicing apparatus component
Probab=49.62 E-value=51 Score=19.12 Aligned_cols=75 Identities=11% Similarity=0.036 Sum_probs=50.2
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcC---C--CCCHhhHHHHHHHHcccchhHH---HHHHhchhcccccccchhh
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRG---P--RPNAVTFVGVLTAYGKIKIFGV---TLMGIQPQNLWYYIDGQID 79 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g---~--~pd~~t~~~ll~~~~~~~~~~~---~~~~~m~~~~~~g~~~~~~ 79 (87)
.-.|+++.-.+..+...-.+.+++.+..-. + .-|..+|.+++++.++...-.. .+|.-+++. +.+++..
T Consensus 40 ~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~---~~~~t~~ 116 (145)
T PF13762_consen 40 IFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKN---DIEFTPS 116 (145)
T ss_pred HHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHc---CCCCCHH
Confidence 446777777777777777777777764211 1 2466789999999988766333 778877764 5666666
Q ss_pred hhhccc
Q 042815 80 AWQAAC 85 (87)
Q Consensus 80 ~~~~~~ 85 (87)
-|..++
T Consensus 117 dy~~li 122 (145)
T PF13762_consen 117 DYSCLI 122 (145)
T ss_pred HHHHHH
Confidence 665554
No 241
>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=49.03 E-value=38 Score=17.54 Aligned_cols=35 Identities=14% Similarity=0.073 Sum_probs=25.6
Q ss_pred CcHhHHHHHHHHHHhcCC---chhHHHHHHHHHHcCCC
Q 042815 5 RDATTSSAMMLGLAKNGK---NGMGVELFMSIEKRGPR 39 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~---~~~a~~l~~~m~~~g~~ 39 (87)
|+..+=+-+++-..+.|. -++|..+-+.+.+.|+-
T Consensus 28 ~~cF~GselVdWL~~~~~~~sR~eAv~lg~~Ll~~G~i 65 (83)
T cd04443 28 KGVFCGCDLVSWLIEVGLAQDRGEAVLYGRRLLQGGVL 65 (83)
T ss_pred cccccHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCE
Confidence 555666677777777654 36899999999988853
No 242
>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]
Probab=48.09 E-value=21 Score=24.20 Aligned_cols=41 Identities=27% Similarity=0.303 Sum_probs=28.2
Q ss_pred HHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchh
Q 042815 16 GLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIF 58 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~ 58 (87)
-|.+.|.+++|+..|.+-. .+.| |.+++..--.+|.+...+
T Consensus 106 ~yFKQgKy~EAIDCYs~~i--a~~P~NpV~~~NRA~AYlk~K~F 147 (536)
T KOG4648|consen 106 TYFKQGKYEEAIDCYSTAI--AVYPHNPVYHINRALAYLKQKSF 147 (536)
T ss_pred hhhhccchhHHHHHhhhhh--ccCCCCccchhhHHHHHHHHHHH
Confidence 4788999999999998744 3355 777776655565554443
No 243
>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=47.98 E-value=36 Score=16.87 Aligned_cols=27 Identities=11% Similarity=0.193 Sum_probs=17.8
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCC
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPR 39 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~ 39 (87)
++|..-.+-| +.+|..+.++|.+.|+.
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 4555555555 67778888888888864
No 244
>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]
Probab=47.94 E-value=1e+02 Score=23.44 Aligned_cols=53 Identities=19% Similarity=0.160 Sum_probs=46.7
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
|..|..++-..|...|+.++|..+|++.. +.-|+..-...++-++.+.+.+.+
T Consensus 76 D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~--~~~P~eell~~lFmayvR~~~yk~ 128 (932)
T KOG2053|consen 76 DDLTLQFLQNVYRDLGKLDEAVHLYERAN--QKYPSEELLYHLFMAYVREKSYKK 128 (932)
T ss_pred chHHHHHHHHHHHHHhhhhHHHHHHHHHH--hhCCcHHHHHHHHHHHHHHHHHHH
Confidence 67788889999999999999999999965 447888889999999999988877
No 245
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=47.87 E-value=64 Score=21.99 Aligned_cols=53 Identities=11% Similarity=0.065 Sum_probs=34.4
Q ss_pred HHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc-chhHH---HHHHhchhc
Q 042815 15 LGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI-KIFGV---TLMGIQPQN 69 (87)
Q Consensus 15 ~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~-~~~~~---~~~~~m~~~ 69 (87)
.+|...|+++.|...|+++++. .|+--.-..=|..|.+. ..... ..|+.|...
T Consensus 299 ~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k 355 (397)
T KOG0543|consen 299 QALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFAK 355 (397)
T ss_pred HHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3566678889999999998755 66556555555555443 22222 777777755
No 246
>COG2987 HutU Urocanate hydratase [Amino acid transport and metabolism]
Probab=47.87 E-value=13 Score=25.82 Aligned_cols=44 Identities=25% Similarity=0.345 Sum_probs=28.1
Q ss_pred HHHHHHhcCC------chhHHHHHHHHHHcCCCCCHhhH----HHHHHHHcccc
Q 042815 13 MMLGLAKNGK------NGMGVELFMSIEKRGPRPNAVTF----VGVLTAYGKIK 56 (87)
Q Consensus 13 li~~~~~~g~------~~~a~~l~~~m~~~g~~pd~~t~----~~ll~~~~~~~ 56 (87)
++..+...|. ...|.+++.++.++|++||.+|= --.+.+|+-.|
T Consensus 225 ~a~~~~~ag~p~SIgl~GNaaei~~~l~~r~~~pD~vtDQTsaHdp~~GY~P~G 278 (561)
T COG2987 225 LAEEATAAGEPISIGLLGNAAEILPELLRRGIRPDLVTDQTSAHDPLNGYLPVG 278 (561)
T ss_pred HHHHHHhcCCceEEEEeccHHHHHHHHHHcCCCCceecccccccCcccCcCCCc
Confidence 4444555443 46788899999999999987753 22344455444
No 247
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.80 E-value=88 Score=24.68 Aligned_cols=53 Identities=17% Similarity=0.169 Sum_probs=42.4
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
|...|--+|....+.|.+|+-...+...++..-+|... +.+|-+|++.+++.+
T Consensus 1132 Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~e 1184 (1666)
T KOG0985|consen 1132 DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTE 1184 (1666)
T ss_pred CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHH
Confidence 56789999999999999999999777666666666554 467889999888766
No 248
>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=46.27 E-value=42 Score=17.22 Aligned_cols=35 Identities=11% Similarity=0.104 Sum_probs=25.5
Q ss_pred CcHhHHHHHHHHHHhcCCc---hhHHHHHHHHHHcCCC
Q 042815 5 RDATTSSAMMLGLAKNGKN---GMGVELFMSIEKRGPR 39 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~---~~a~~l~~~m~~~g~~ 39 (87)
|+..+=+-+++-+.+++.. ++|..+.+.+.+.|+-
T Consensus 26 ~~cF~GselVdWL~~~~~~~~R~eAv~~gq~Ll~~g~i 63 (81)
T cd04448 26 TNCILGKELVNWLIRQGKAATRVQAIAIGQALLDAGWI 63 (81)
T ss_pred CcccChHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCE
Confidence 4555666677777776653 6899999999988853
No 249
>PF13170 DUF4003: Protein of unknown function (DUF4003)
Probab=45.95 E-value=81 Score=20.42 Aligned_cols=73 Identities=7% Similarity=0.019 Sum_probs=39.0
Q ss_pred CcHhHHHHHHHHHHhcCC----chhHHHHHHHHHHcCCCCC-Hh-hHHHHHHHHcccch--hHH--HHHHhchhcccccc
Q 042815 5 RDATTSSAMMLGLAKNGK----NGMGVELFMSIEKRGPRPN-AV-TFVGVLTAYGKIKI--FGV--TLMGIQPQNLWYYI 74 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~----~~~a~~l~~~m~~~g~~pd-~~-t~~~ll~~~~~~~~--~~~--~~~~~m~~~~~~g~ 74 (87)
++-+++.+|+++ ...+ .++++.+|+.+...|+..+ .. ..+.+|..+..... +.. ++++.+.++ |+
T Consensus 139 ~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~---~~ 213 (297)
T PF13170_consen 139 PEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN---GV 213 (297)
T ss_pred ccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc---CC
Confidence 455666677665 3333 2566677777777776652 32 33344433333222 223 666666665 66
Q ss_pred cchhhhhh
Q 042815 75 DGQIDAWQ 82 (87)
Q Consensus 75 ~~~~~~~~ 82 (87)
.+....|.
T Consensus 214 kik~~~yp 221 (297)
T PF13170_consen 214 KIKYMHYP 221 (297)
T ss_pred cccccccc
Confidence 65555554
No 250
>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=45.68 E-value=6.8 Score=19.64 Aligned_cols=29 Identities=14% Similarity=0.195 Sum_probs=23.3
Q ss_pred HHHhcCCchhHHHHHHHHHHcCCCCCHhh
Q 042815 16 GLAKNGKNGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~~g~~pd~~t 44 (87)
++..++...-+.++|..+.+.|+.+|..+
T Consensus 8 ~~~m~~~~g~~~~If~~la~~~I~vd~I~ 36 (73)
T cd04934 8 SNKKSLSHGFLARIFAILDKYRLSVDLIS 36 (73)
T ss_pred cccCccccCHHHHHHHHHHHcCCcEEEEE
Confidence 34456778888999999999999988774
No 251
>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=45.55 E-value=59 Score=22.00 Aligned_cols=41 Identities=7% Similarity=-0.071 Sum_probs=30.6
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcc
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGK 54 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~ 54 (87)
...+.+.+++..|.++|.++......|....+-..+..+|+
T Consensus 137 ~r~l~n~~dy~aA~~~~~~L~~r~l~~~~~~~~~~~~~l~~ 177 (380)
T TIGR02710 137 ARRAINAFDYLFAHARLETLLRRLLSAVNHTFYEAMIKLTR 177 (380)
T ss_pred HHHHHHhcChHHHHHHHHHHHhcccChhhhhHHHHHHHHHH
Confidence 34567789999999999999988776766665555555554
No 252
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=45.32 E-value=45 Score=17.25 Aligned_cols=51 Identities=8% Similarity=0.063 Sum_probs=38.9
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFG 59 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~ 59 (87)
++-.-...++|.-|.+.|.+=....+-+++ ..+..|....+..+-..|.++
T Consensus 4 ~rq~~IL~alV~~Y~~~~~PVgSk~ia~~l-----~~s~aTIRN~M~~Le~lGlve 54 (78)
T PF03444_consen 4 ERQREILKALVELYIETGEPVGSKTIAEEL-----GRSPATIRNEMADLEELGLVE 54 (78)
T ss_pred HHHHHHHHHHHHHHHhcCCCcCHHHHHHHH-----CCChHHHHHHHHHHHHCCCcc
Confidence 344567889999999999999999887763 345678877777777777664
No 253
>PF14162 YozD: YozD-like protein
Probab=45.17 E-value=36 Score=16.16 Aligned_cols=20 Identities=20% Similarity=0.316 Sum_probs=15.5
Q ss_pred hhHHHHHHHHHHcCCCCCHh
Q 042815 24 GMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~pd~~ 43 (87)
+-|.-+|.++.++|..|...
T Consensus 12 EIAefFy~eL~kRGyvP~e~ 31 (57)
T PF14162_consen 12 EIAEFFYHELVKRGYVPTEE 31 (57)
T ss_pred HHHHHHHHHHHHccCCCcHH
Confidence 34666888999999999753
No 254
>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=44.90 E-value=47 Score=17.37 Aligned_cols=31 Identities=16% Similarity=0.129 Sum_probs=26.1
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
.|+...||.+|....+.+...-|..++.+..
T Consensus 13 ~pt~~~yn~yiN~~~~~nkVaPa~n~L~r~V 43 (83)
T PF10963_consen 13 NPTPTAYNKYINEMAMDNKVAPAHNYLMRIV 43 (83)
T ss_pred ccCHHHHHHHHHHhccCCCchHHHHHHHHHc
Confidence 4788899999999999999988887777765
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=44.46 E-value=27 Score=19.48 Aligned_cols=17 Identities=12% Similarity=0.182 Sum_probs=14.2
Q ss_pred HHHHHHHHHcCCCCCHh
Q 042815 27 VELFMSIEKRGPRPNAV 43 (87)
Q Consensus 27 ~~l~~~m~~~g~~pd~~ 43 (87)
..+.++|..+|.+||..
T Consensus 55 ~lv~~EM~~RGY~~~~~ 71 (120)
T TIGR02328 55 LLVMEEMATRGYHVSKQ 71 (120)
T ss_pred HHHHHHHHHcCCCCChh
Confidence 45778999999999884
No 256
>KOG1155 consensus Anaphase-promoting complex (APC), Cdc23 subunit [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=44.39 E-value=1.1e+02 Score=21.63 Aligned_cols=65 Identities=12% Similarity=0.090 Sum_probs=53.5
Q ss_pred CCCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 2 MPPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 2 m~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
|-++|-..|-.|=++|.--+...=|+-.|++-.+. +| |...|.+|=++|.+.+++++ ..|.+...
T Consensus 393 i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~ 460 (559)
T KOG1155|consen 393 INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRAIL 460 (559)
T ss_pred cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHHHh
Confidence 45678899999999999999999999999986544 66 77799999999999999887 66665544
No 257
>COG5210 GTPase-activating protein [General function prediction only]
Probab=44.17 E-value=61 Score=22.42 Aligned_cols=43 Identities=14% Similarity=0.050 Sum_probs=30.2
Q ss_pred HHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 27 VELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 27 ~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
-+++..|...|+.+...++.-++....+.-.++. ++++.+...
T Consensus 362 p~l~~hl~~~~~~~~~~~~~w~l~lF~~~~p~e~~lriwD~lf~e 406 (496)
T COG5210 362 PELYEHLLREGVVLLMFAFRWFLTLFVREFPLEYALRIWDCLFLE 406 (496)
T ss_pred HHHHHHHHHcCCchhhhhHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence 3466777777777777777777777777766666 666666554
No 258
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=43.84 E-value=67 Score=18.88 Aligned_cols=57 Identities=4% Similarity=-0.187 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQ 66 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m 66 (87)
-|-.|=..+-..|++++|+..|........ -|...+-.+=.++-..|+++. ..|+..
T Consensus 71 y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~lG~~~~A~~aF~~A 129 (157)
T PRK15363 71 YWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLACDNVCYAIKALKAV 129 (157)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 333444444445555555555555444432 133344444444455555554 444433
No 259
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=43.39 E-value=91 Score=20.29 Aligned_cols=43 Identities=9% Similarity=-0.076 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 24 GMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
.++..+|++.... .| |..+..-+--.+-..|+..+ ..|+.|..
T Consensus 210 a~a~~ll~~al~~--D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~ 255 (287)
T COG4235 210 AKARALLRQALAL--DPANIRALSLLAFAAFEQGDYAEAAAAWQMLLD 255 (287)
T ss_pred HHHHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence 5556666665543 23 33344444444555555555 55555554
No 260
>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=43.22 E-value=33 Score=17.66 Aligned_cols=24 Identities=33% Similarity=0.430 Sum_probs=17.2
Q ss_pred CCchhHHHHHHHHHHcC-CCCCHhh
Q 042815 21 GKNGMGVELFMSIEKRG-PRPNAVT 44 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g-~~pd~~t 44 (87)
.....+.++|.+|.+.| +.||-..
T Consensus 36 e~~~s~l~lf~~Lek~~~l~~~nl~ 60 (81)
T cd08340 36 AKDKSFLELVLELEKLNLVSPNKVD 60 (81)
T ss_pred cccCCHHHHHHHHHhcCCCCCccHH
Confidence 34677889999999887 5564443
No 261
>PRK07452 DNA polymerase III subunit delta; Validated
Probab=43.08 E-value=53 Score=21.05 Aligned_cols=34 Identities=12% Similarity=0.204 Sum_probs=25.4
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
..|. ++.+... |+..+|..+++.+...|..|-..
T Consensus 202 ~if~-l~dai~~-~~~~~A~~~l~~L~~~g~~p~~i 235 (326)
T PRK07452 202 NSLQ-LADALLQ-GNTGKALALLDDLLDANEPALRI 235 (326)
T ss_pred cHHH-HHHHHHC-CCHHHHHHHHHHHHHCCCcHHHH
Confidence 4554 6665554 88999999999999999776443
No 262
>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=42.91 E-value=44 Score=16.49 Aligned_cols=28 Identities=14% Similarity=0.230 Sum_probs=19.4
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCCC
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGPR 39 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~~ 39 (87)
.++|..-.+-| +.+|..+.++|.+.|+.
T Consensus 22 ~S~lQR~~~IG-ynrAariid~lE~~GiV 49 (63)
T smart00843 22 TSLLQRRLRIG-YNRAARLIDQLEEEGIV 49 (63)
T ss_pred hHHHHHHHhcc-hhHHHHHHHHHHHCcCC
Confidence 35555555565 67778888888888854
No 263
>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]
Probab=42.86 E-value=52 Score=22.99 Aligned_cols=35 Identities=23% Similarity=0.391 Sum_probs=27.8
Q ss_pred HHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 042815 16 GLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTA 51 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~ 51 (87)
.+|+.|+++....+|+...+-|.. |..|.+++.+-
T Consensus 26 RLck~gdcraGv~ff~aA~qvGTe-Dl~tLSAIYsQ 60 (639)
T KOG1130|consen 26 RLCKMGDCRAGVDFFKAALQVGTE-DLSTLSAIYSQ 60 (639)
T ss_pred HHHhccchhhhHHHHHHHHHhcch-HHHHHHHHHHH
Confidence 478999999999999999988854 77776665443
No 264
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=42.59 E-value=1.3e+02 Score=21.92 Aligned_cols=17 Identities=6% Similarity=0.151 Sum_probs=7.3
Q ss_pred HHhcCCchhHHHHHHHH
Q 042815 17 LAKNGKNGMGVELFMSI 33 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m 33 (87)
+-+.|+.++|+++|++.
T Consensus 533 ~~~~k~~d~AL~~~~~A 549 (638)
T KOG1126|consen 533 QHQLKRKDKALQLYEKA 549 (638)
T ss_pred HHHhhhhhHHHHHHHHH
Confidence 33444444444444443
No 265
>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=42.08 E-value=27 Score=18.68 Aligned_cols=19 Identities=26% Similarity=0.262 Sum_probs=15.7
Q ss_pred HHhcCCchhHHHHHHHHHH
Q 042815 17 LAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~ 35 (87)
.++.|++++|.+++++-.+
T Consensus 25 ~a~~g~fe~A~~~l~ea~~ 43 (97)
T cd00215 25 AAKEGDFAEAEELLEEAND 43 (97)
T ss_pred HHHcCCHHHHHHHHHHHHH
Confidence 5789999999999888643
No 266
>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=41.90 E-value=16 Score=23.96 Aligned_cols=34 Identities=9% Similarity=0.210 Sum_probs=20.6
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHH
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFV 46 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~ 46 (87)
+|.-|..-|..+.|..+|..+..+.|.-|+..|.
T Consensus 223 LvrlY~~LG~~~~A~~~~~~L~iK~IQ~DTL~h~ 256 (365)
T PF09797_consen 223 LVRLYSLLGAGSLALEHYESLDIKNIQLDTLGHL 256 (365)
T ss_pred HHHHHHHcCCHHHHHHHHHhcChHHHHHHHhHHH
Confidence 4555666666777777776666555555555443
No 267
>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=41.88 E-value=58 Score=23.28 Aligned_cols=49 Identities=14% Similarity=0.110 Sum_probs=36.9
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
|...-.++|--|.++|++++|.++-.+. +.........|...+..+...
T Consensus 110 ~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~-~~~~~~~~~~f~~~l~~~~~s 158 (613)
T PF04097_consen 110 NGDPIWALIYYCLRCGDYDEALEVANEN-RNQFQKIERSFPTYLKAYASS 158 (613)
T ss_dssp TTEEHHHHHHHHHTTT-HHHHHHHHHHT-GGGS-TTTTHHHHHHHHCTTT
T ss_pred CCCccHHHHHHHHhcCCHHHHHHHHHHh-hhhhcchhHHHHHHHHHHHhC
Confidence 3444567888899999999999998665 345566778889999999875
No 268
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=41.81 E-value=1e+02 Score=20.30 Aligned_cols=44 Identities=14% Similarity=0.151 Sum_probs=35.3
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAY 52 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~ 52 (87)
..+|..|=.+|...|++++|++-|++- ..+.|+-.+|-.=|+.-
T Consensus 149 skay~RLG~A~~~~gk~~~A~~aykKa--LeldP~Ne~~K~nL~~A 192 (304)
T KOG0553|consen 149 SKAYGRLGLAYLALGKYEEAIEAYKKA--LELDPDNESYKSNLKIA 192 (304)
T ss_pred HHHHHHHHHHHHccCcHHHHHHHHHhh--hccCCCcHHHHHHHHHH
Confidence 468888989999999999999999984 46688888776655543
No 269
>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length. Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.
Probab=41.77 E-value=85 Score=22.16 Aligned_cols=48 Identities=13% Similarity=0.055 Sum_probs=36.4
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcC----CCCCHhhHHHHHHHHccc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRG----PRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g----~~pd~~t~~~ll~~~~~~ 55 (87)
.-=+..+......|++.++..++++|...= ...|+-+|+-++-.+++.
T Consensus 129 ~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~vlmlsrS 180 (549)
T PF07079_consen 129 FLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAVLMLSRS 180 (549)
T ss_pred HHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHHHHHhHH
Confidence 344566777888999999999999987543 448999999866666654
No 270
>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=41.43 E-value=53 Score=17.01 Aligned_cols=35 Identities=3% Similarity=0.067 Sum_probs=24.7
Q ss_pred CcHhHHHHHHHHHHhcCC---chhHHHHHHHHHHcCCC
Q 042815 5 RDATTSSAMMLGLAKNGK---NGMGVELFMSIEKRGPR 39 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~---~~~a~~l~~~m~~~g~~ 39 (87)
|+..+=+-+++-+.+++. =++|..+.+.+.+.|+-
T Consensus 26 ~~cF~GselVdWL~~~~~~~sR~eAv~lgq~Ll~~gvi 63 (82)
T cd04442 26 PNCFVGKELIDWLIEHKEASDRETAIKIMQKLLDHSII 63 (82)
T ss_pred CceeEcHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCE
Confidence 344445566666777775 47899999999988853
No 271
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=41.17 E-value=80 Score=22.44 Aligned_cols=44 Identities=18% Similarity=0.182 Sum_probs=34.6
Q ss_pred HHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 16 GLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.+.+.|++..|+..|.++.... .-|...|+.---|+.++|.+..
T Consensus 367 e~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~ 410 (539)
T KOG0548|consen 367 EAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPE 410 (539)
T ss_pred HHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHH
Confidence 4677899999999999988775 3367788888778887777654
No 272
>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]
Probab=41.06 E-value=99 Score=20.03 Aligned_cols=49 Identities=8% Similarity=0.119 Sum_probs=34.2
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
|....--.|+..| ..+++++|.++++++-+.|..|.- ..+++++.+-..
T Consensus 237 PhP~~v~~ml~~~-~~~~~~~A~~il~~lw~lgysp~D-ii~~~FRv~K~~ 285 (333)
T KOG0991|consen 237 PHPLLVKKMLQAC-LKRNIDEALKILAELWKLGYSPED-IITTLFRVVKNM 285 (333)
T ss_pred CChHHHHHHHHHH-HhccHHHHHHHHHHHHHcCCCHHH-HHHHHHHHHHhc
Confidence 4444455666644 456899999999999999998754 345566666554
No 273
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=40.57 E-value=1.1e+02 Score=22.74 Aligned_cols=51 Identities=10% Similarity=0.089 Sum_probs=38.4
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
..|--+|-.|...|+-++|.++..+-.+ -+||..-|..+-+..-.-...++
T Consensus 425 emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~d~s~yEk 475 (777)
T KOG1128|consen 425 EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLHDPSLYEK 475 (777)
T ss_pred HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhccChHHHHH
Confidence 4678889999999998998888877665 36788888777776665555554
No 274
>PRK05414 urocanate hydratase; Provisional
Probab=40.14 E-value=21 Score=25.12 Aligned_cols=22 Identities=32% Similarity=0.573 Sum_probs=18.6
Q ss_pred chhHHHHHHHHHHcCCCCCHhh
Q 042815 23 NGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~pd~~t 44 (87)
...|.++|.++.++|+.||.+|
T Consensus 241 ~GNaadv~~~l~~~~i~pDlvt 262 (556)
T PRK05414 241 LGNAADVLPELVRRGIRPDLVT 262 (556)
T ss_pred eccHHHHHHHHHHcCCCCCccC
Confidence 4678899999999999998775
No 275
>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=40.13 E-value=72 Score=18.15 Aligned_cols=33 Identities=15% Similarity=0.142 Sum_probs=25.7
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHHHcCCC-CCH
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIEKRGPR-PNA 42 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~~~g~~-pd~ 42 (87)
...++--....|+++.|+++.+-....|.. |+.
T Consensus 51 l~~~mvW~~D~Gd~~~AL~~a~yAi~~~l~~P~~ 84 (132)
T PF05944_consen 51 LMTVMVWLFDVGDFDGALDIAEYAIEHGLPMPDR 84 (132)
T ss_pred HHhhHhhhhcccCHHHHHHHHHHHHHcCCCcccc
Confidence 335556678899999999999999988854 443
No 276
>TIGR01228 hutU urocanate hydratase. This model represents the second of four enzymes involved in the degradation of histidine to glutamate.
Probab=40.07 E-value=21 Score=25.00 Aligned_cols=22 Identities=36% Similarity=0.511 Sum_probs=18.3
Q ss_pred chhHHHHHHHHHHcCCCCCHhh
Q 042815 23 NGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~pd~~t 44 (87)
...|.++|.++.++|+.||.+|
T Consensus 232 ~GNaadv~~~l~~r~i~pDlvt 253 (545)
T TIGR01228 232 LGNAAEVLPELLKRGVVPDVVT 253 (545)
T ss_pred eccHHHHHHHHHHcCCCCCCcC
Confidence 4678889999999999997764
No 277
>PF07864 DUF1651: Protein of unknown function (DUF1651); InterPro: IPR012447 The proteins in this entry have not been characterised.
Probab=40.03 E-value=31 Score=17.35 Aligned_cols=18 Identities=28% Similarity=0.370 Sum_probs=14.8
Q ss_pred CchhHHHHHHHHHHcCCC
Q 042815 22 KNGMGVELFMSIEKRGPR 39 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g~~ 39 (87)
..++|.+.+.+|+..|=.
T Consensus 51 ~~~~A~e~W~~L~~~GW~ 68 (75)
T PF07864_consen 51 TREEARELWKELQKTGWR 68 (75)
T ss_pred EHHHHHHHHHHHHHcCCE
Confidence 358999999999998843
No 278
>KOG4414 consensus COP9 signalosome, subunit CSN8 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=39.92 E-value=47 Score=19.55 Aligned_cols=31 Identities=13% Similarity=0.052 Sum_probs=27.5
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
.+|--.|...+.+|.-+.+.+.|.-++++++
T Consensus 36 ~~~dw~Ya~~L~~Yf~~dD~dnARfLWKRIP 66 (197)
T KOG4414|consen 36 THDDWPYAIHLAGYFLHDDCDNARFLWKRIP 66 (197)
T ss_pred CCCcchHHHHHHHHHHhccchhHHHHHHhCC
Confidence 4566689999999999999999999999976
No 279
>COG4496 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.60 E-value=62 Score=17.29 Aligned_cols=33 Identities=3% Similarity=-0.038 Sum_probs=25.4
Q ss_pred CCCCcHhHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 2 MPPRDATTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 2 m~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
++++-......+..+..-..+.+++.++|+.+.
T Consensus 3 i~klr~~~Ld~l~dailtL~n~eecy~FfdDlc 35 (100)
T COG4496 3 IEKLRGAALDELFDAILTLENLEECYAFFDDLC 35 (100)
T ss_pred ccchhhHHHHHHHHHHHHhccHHHHHHHHHhhc
Confidence 455556667778888888888999999998764
No 280
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=39.56 E-value=55 Score=24.79 Aligned_cols=23 Identities=17% Similarity=-0.015 Sum_probs=14.5
Q ss_pred HHHHHHHHHhcCCchhHHHHHHH
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMS 32 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~ 32 (87)
++.-|..|.++|++++|.++-.+
T Consensus 794 ~~dai~my~k~~kw~da~kla~e 816 (1636)
T KOG3616|consen 794 FKDAIDMYGKAGKWEDAFKLAEE 816 (1636)
T ss_pred hHHHHHHHhccccHHHHHHHHHH
Confidence 45556666777777766666544
No 281
>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]
Probab=39.51 E-value=66 Score=22.81 Aligned_cols=24 Identities=13% Similarity=0.033 Sum_probs=12.9
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVE 28 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~ 28 (87)
+|.+.|+-=..+|++.|++++|+.
T Consensus 34 ~nhvlySnrsaa~a~~~~~~~al~ 57 (539)
T KOG0548|consen 34 TNHVLYSNRSAAYASLGSYEKALK 57 (539)
T ss_pred CccchhcchHHHHHHHhhHHHHHH
Confidence 355555555555555555555544
No 282
>COG5053 CDC33 Translation initiation factor 4E (eIF-4E) [Translation, ribosomal structure and biogenesis]
Probab=39.45 E-value=37 Score=20.80 Aligned_cols=51 Identities=8% Similarity=0.008 Sum_probs=42.4
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHc
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~ 53 (87)
|++++.+|+-++..-+.-.-.++-.-+++.+...+.-|-...|+..-++..
T Consensus 51 ~e~g~esw~dlLk~I~tf~Tveefwyi~~~I~~a~~lprksdynvFreGIr 101 (217)
T COG5053 51 PEDGLESWSDLLKSIITFETVEEFWYILHNISDASRLPRKSDYNVFREGIR 101 (217)
T ss_pred CccchhHHHHHHhhheeeecHHHHHHHHhcCCcccccchhhhHHHHHcCCC
Confidence 456777899999999888888999999999988888888888887777654
No 283
>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=38.99 E-value=64 Score=17.23 Aligned_cols=34 Identities=18% Similarity=0.139 Sum_probs=24.1
Q ss_pred CcHhHHHHHHHHHHhcCCc---hhHHHHHHHHHHcCC
Q 042815 5 RDATTSSAMMLGLAKNGKN---GMGVELFMSIEKRGP 38 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~---~~a~~l~~~m~~~g~ 38 (87)
|+...=+-+++-+.++|.. ++|..+-+.+.+.|+
T Consensus 35 ~~cFvGsElVdWLi~~g~~~tR~eAv~~gq~Ll~~gi 71 (93)
T cd04440 35 KSVVPASKLVDWLLAQGDCRTREEAVILGVGLCNNGF 71 (93)
T ss_pred ccccchhHHHHHHHHcCCCCCHHHHHHHHHHHHhCCC
Confidence 3444555677777776654 788889888888875
No 284
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=38.96 E-value=69 Score=22.26 Aligned_cols=29 Identities=3% Similarity=-0.102 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
.+|..+-.+|.+.|+.++|++.|++..+.
T Consensus 113 ~A~yNLAcaya~LGr~dEAla~LrrALel 141 (453)
T PLN03098 113 AAYYNKACCHAYREEGKKAADCLRTALRD 141 (453)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 46999999999999999999999998765
No 285
>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=38.83 E-value=24 Score=19.22 Aligned_cols=38 Identities=11% Similarity=0.232 Sum_probs=24.7
Q ss_pred chhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH
Q 042815 23 NGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~ 60 (87)
.+.|..+|-+|-...+.| |...|+.-+...+....++.
T Consensus 10 id~AYDiFLE~A~dNL~paDi~lF~~qFeerGa~e~v~~ 48 (103)
T PF04269_consen 10 IDQAYDIFLELAPDNLDPADILLFNLQFEERGAAELVEP 48 (103)
T ss_dssp HHHHHHHHHHH-STTS-HHHHHHHHHSSSTT-EEEEE--
T ss_pred HHHHHHHHHHHhhhcCCHHHHHHHHHHHHhcCCeeccCc
Confidence 578999999999888888 66677776666655554444
No 286
>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=38.62 E-value=33 Score=18.43 Aligned_cols=20 Identities=20% Similarity=0.067 Sum_probs=16.0
Q ss_pred HHHhcCCchhHHHHHHHHHH
Q 042815 16 GLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~ 35 (87)
.+++.|++++|.+++.+-.+
T Consensus 26 ~~a~~gdfe~A~~~l~eA~~ 45 (99)
T TIGR00823 26 KAAKAGDFAKARALVEQAGM 45 (99)
T ss_pred HHHHcCCHHHHHHHHHHHHH
Confidence 35789999999999888653
No 287
>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=38.45 E-value=32 Score=18.08 Aligned_cols=26 Identities=4% Similarity=0.033 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
.|..++.+..+..+.+++..+|..+.
T Consensus 2 ~~~~l~~~i~~l~~~ee~~~f~~dL~ 27 (87)
T PF01371_consen 2 DWDELFEAILSLKDEEECYDFFEDLC 27 (87)
T ss_dssp HHHHHHHHHHCHHCHHCHHHHHHHHS
T ss_pred hHHHHHHHHHHcCCHHHHHHHHHHhC
Confidence 47788899999999999999998875
No 288
>cd08320 Pyrin_NALPs Pyrin death domain found in NALP proteins. Pyrin Death Domain found in NALP (NACHT, LRR and PYD domains) proteins including NALP1 (CARD7, NLRP1), NALP3 (NLRP3, Cryopyrin, CIAS1), and NALP12 (NLRP12, Monarch-1), among others. Mammals contains at least 14 NALP proteins, named NALP1-14 (or NLRP1-14). NALPs are members of the NBS-LRR family of proteins possessing a tripartite domain structure including a C-terminal LRR (leucine-rich repeats), a central nucleotide-binding site (NBS) domain or NACHT (for neuronal apoptosis inhibitor protein, CIITA, HET-E and TP1), and an N-terminal protein-protein interaction domain, which is a Pyrin domain in the case of NALPs. The NBS-LRR family is also referred to as the NLR (Nod-like Receptor) or CATERPILLER (for CARD, transcription enhancer, R-(purine)-binding, pyrin, lots of LRRs) family. NALP1 contains an additional Caspase activation and recruitment domain (CARD) at the C-terminus. NALP1 and NALP3 are both involved in the assembly
Probab=38.31 E-value=23 Score=18.49 Aligned_cols=25 Identities=4% Similarity=0.126 Sum_probs=17.1
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
=+-|+..|...+-++-+..+|+.|-
T Consensus 48 a~lLv~~y~~~~A~~~t~~if~~mn 72 (86)
T cd08320 48 AELLVEHYGGQQAWDVTLSIFEKMN 72 (86)
T ss_pred HHHHHHHcChhHHHHHHHHHHHHHC
Confidence 3456666666667777777887775
No 289
>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=38.26 E-value=44 Score=17.26 Aligned_cols=23 Identities=17% Similarity=0.263 Sum_probs=16.1
Q ss_pred CCchhHHHHHHHHHHcC-CCCCHh
Q 042815 21 GKNGMGVELFMSIEKRG-PRPNAV 43 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g-~~pd~~ 43 (87)
.....+.++|.+|.+.| +.||-.
T Consensus 36 e~~~s~ldlf~~Lek~~lL~~~nl 59 (81)
T cd08775 36 DDDMNFLDIVIEMENRVLLGPGKV 59 (81)
T ss_pred cccCCHHHHHHHHHHcCCCCCccH
Confidence 34566888999999877 556433
No 290
>PF14044 NETI: NETI protein
Probab=38.25 E-value=40 Score=16.31 Aligned_cols=18 Identities=22% Similarity=0.296 Sum_probs=13.4
Q ss_pred chhHHHHHHHHHHcCCCC
Q 042815 23 NGMGVELFMSIEKRGPRP 40 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~p 40 (87)
-+.-.+.+.+|.+.|..|
T Consensus 7 nETI~~CL~RM~~eGY~P 24 (57)
T PF14044_consen 7 NETISDCLARMKKEGYMP 24 (57)
T ss_pred CCcHHHHHHHHHHcCCCc
Confidence 355567788999888776
No 291
>PF09435 DUF2015: Fungal protein of unknown function (DUF2015); InterPro: IPR018559 This entry represents uncharacterised proteins found in fungi.
Probab=38.06 E-value=46 Score=18.94 Aligned_cols=12 Identities=17% Similarity=0.232 Sum_probs=5.6
Q ss_pred HHHHHHHHcCCC
Q 042815 28 ELFMSIEKRGPR 39 (87)
Q Consensus 28 ~l~~~m~~~g~~ 39 (87)
++.+-|+++++.
T Consensus 89 EI~~IM~~~~v~ 100 (128)
T PF09435_consen 89 EIRRIMKRRRVN 100 (128)
T ss_pred HHHHHHHHcCCC
Confidence 344444444544
No 292
>cd08333 DED_Caspase_8_repeat1 Death effector domain, repeat 1, of Caspase-8. Death effector domain (DED) found in caspase-8 (CASP8, FLICE), 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 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=37.89 E-value=47 Score=17.18 Aligned_cols=23 Identities=13% Similarity=0.306 Sum_probs=16.6
Q ss_pred CCchhHHHHHHHHHHcC-CCCCHh
Q 042815 21 GKNGMGVELFMSIEKRG-PRPNAV 43 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g-~~pd~~ 43 (87)
.....+.++|.+|.+.| +.|+-.
T Consensus 34 e~~~s~ldlf~~Lek~~~L~~~nl 57 (82)
T cd08333 34 ENIKDALALFQALQEKGLLEEGNL 57 (82)
T ss_pred hccCCHHHHHHHHHHcCCCCcchH
Confidence 34677899999999877 555433
No 293
>COG2973 TrpR Trp operon repressor [Transcription]
Probab=37.84 E-value=41 Score=18.24 Aligned_cols=33 Identities=15% Similarity=0.050 Sum_probs=26.6
Q ss_pred CCCCcHhHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 2 MPPRDATTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 2 m~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
|..++.-.|.+++.-+.+.-.-+....++.-|.
T Consensus 6 ~~~~~~q~W~~fv~ll~~a~~~d~~~~lL~llL 38 (103)
T COG2973 6 MAEQREQEWLAFVDLLKKAYQEDLHQPLLTLLL 38 (103)
T ss_pred HhhhhHHHHHHHHHHHHHHHHhHHHHHHHHHHc
Confidence 445677889999999999887788888877776
No 294
>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=37.66 E-value=47 Score=17.25 Aligned_cols=23 Identities=17% Similarity=0.231 Sum_probs=16.3
Q ss_pred CCchhHHHHHHHHHHcC-CCCCHh
Q 042815 21 GKNGMGVELFMSIEKRG-PRPNAV 43 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g-~~pd~~ 43 (87)
.....+.++|.+|.+.| +.||-.
T Consensus 36 e~~~s~ldlf~~Lek~~~L~~dnl 59 (84)
T cd08338 36 EEITSGRDWFSFLEKHDKLSQDNL 59 (84)
T ss_pred hccCCHHHHHHHHHHcCCCCCchH
Confidence 45677888999998777 555443
No 295
>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=37.42 E-value=10 Score=17.82 Aligned_cols=26 Identities=27% Similarity=0.429 Sum_probs=20.4
Q ss_pred hcCCchhHHHHHHHHHHcCCCCCHhh
Q 042815 19 KNGKNGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~~g~~pd~~t 44 (87)
..|..+-+.++|+.+.+.|+.++..+
T Consensus 10 m~~~~~~~~~if~~l~~~~i~v~~i~ 35 (62)
T cd04890 10 MNGEVGFLRKIFEILEKHGISVDLIP 35 (62)
T ss_pred cCcccCHHHHHHHHHHHcCCeEEEEe
Confidence 34667778889999999998887764
No 296
>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=37.29 E-value=48 Score=16.83 Aligned_cols=21 Identities=24% Similarity=0.506 Sum_probs=15.0
Q ss_pred CCchhHHHHHHHHHHcC-CCCC
Q 042815 21 GKNGMGVELFMSIEKRG-PRPN 41 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g-~~pd 41 (87)
.....+.++|.+|.+.| +.||
T Consensus 34 e~~~s~ldlf~~Le~~~~l~~d 55 (77)
T cd08792 34 ETVSSGKDLFLQLEEKGLLEVE 55 (77)
T ss_pred hccCCHHHHHHHHHHcCCCCcc
Confidence 34567889999998877 4443
No 297
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=37.21 E-value=57 Score=21.23 Aligned_cols=25 Identities=16% Similarity=0.210 Sum_probs=21.3
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCC
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPN 41 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd 41 (87)
....|+..+|..+++++...|..|-
T Consensus 218 ail~g~~~~a~~~l~~L~~~ge~p~ 242 (334)
T COG1466 218 ALLKGDVKKALRLLRDLLLEGEEPL 242 (334)
T ss_pred HHHCCCHHHHHHHHHHHHHcCCcHH
Confidence 4567999999999999999997653
No 298
>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=37.09 E-value=49 Score=15.39 Aligned_cols=29 Identities=3% Similarity=0.153 Sum_probs=15.9
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCCCHhhH
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRPNAVTF 45 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~ 45 (87)
=--|++++.-+ .+|..+...|+..|...+
T Consensus 15 Rf~ySq~~~~~---~~y~~Lk~~Glifdl~~~ 43 (48)
T PF11426_consen 15 RFIYSQSDNSE---SVYEALKQNGLIFDLEDW 43 (48)
T ss_dssp HHHHHTS-TTS----HHHHHHHTTSB--HHHH
T ss_pred HHHHhcCCchH---HHHHHHHHCCeeeeHHHH
Confidence 33456665433 678888888877666544
No 299
>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=36.96 E-value=48 Score=16.75 Aligned_cols=20 Identities=25% Similarity=0.473 Sum_probs=15.2
Q ss_pred CchhHHHHHHHHHHcC-CCCC
Q 042815 22 KNGMGVELFMSIEKRG-PRPN 41 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g-~~pd 41 (87)
+...+.++|.+|.+.| +.||
T Consensus 35 ~~~s~l~lf~~Le~~~~l~~~ 55 (77)
T cd00045 35 KIKTPFDLFLVLERQGKLGED 55 (77)
T ss_pred ccCCHHHHHHHHHHcCCCCCc
Confidence 4677889999998877 5554
No 300
>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=36.87 E-value=33 Score=16.64 Aligned_cols=18 Identities=17% Similarity=0.241 Sum_probs=14.1
Q ss_pred HHhcCCchhHHHHHHHHH
Q 042815 17 LAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~ 34 (87)
+=+.|++++|+.+|.+-.
T Consensus 15 ~D~~g~~~~A~~~Y~~ai 32 (69)
T PF04212_consen 15 ADEAGNYEEALELYKEAI 32 (69)
T ss_dssp HHHTTSHHHHHHHHHHHH
T ss_pred HHHCCCHHHHHHHHHHHH
Confidence 345899999999998743
No 301
>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=36.85 E-value=57 Score=16.03 Aligned_cols=34 Identities=21% Similarity=0.083 Sum_probs=24.3
Q ss_pred CcHhHHHHHHHHHHhcCC---chhHHHHHHHHHHcCC
Q 042815 5 RDATTSSAMMLGLAKNGK---NGMGVELFMSIEKRGP 38 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~---~~~a~~l~~~m~~~g~ 38 (87)
++..+-..++.....++. -++|.++-+.|...|+
T Consensus 18 ~~~F~G~e~v~wL~~~~~~~~r~eA~~l~~~ll~~g~ 54 (77)
T smart00049 18 PNCFTGSELVDWLMDNLEIIDREEAVHLGQLLLDEGL 54 (77)
T ss_pred cceeEcHHHHHHHHHcCCcCCHHHHHHHHHHHHHCCC
Confidence 455556666776776654 4888999999988884
No 302
>KOG3807 consensus Predicted membrane protein ST7 (tumor suppressor in humans) [General function prediction only]
Probab=36.66 E-value=1e+02 Score=21.00 Aligned_cols=44 Identities=18% Similarity=0.165 Sum_probs=27.9
Q ss_pred HHHH-hcCCchhHHHHHHHHHHcCCCCCHh---hHHHHHHHHcccchhHH
Q 042815 15 LGLA-KNGKNGMGVELFMSIEKRGPRPNAV---TFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 15 ~~~~-~~g~~~~a~~l~~~m~~~g~~pd~~---t~~~ll~~~~~~~~~~~ 60 (87)
+.|+ +.|+..+|.+.|+.+.+. .|-.. ....+|++|-......+
T Consensus 282 AMCARklGrlrEA~K~~RDL~ke--~pl~t~lniheNLiEalLE~QAYAD 329 (556)
T KOG3807|consen 282 AMCARKLGRLREAVKIMRDLMKE--FPLLTMLNIHENLLEALLELQAYAD 329 (556)
T ss_pred HHHHHHhhhHHHHHHHHHHHhhh--ccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444 469999999999997654 33222 33457777766554443
No 303
>PRK09591 celC cellobiose phosphotransferase system IIA component; Reviewed
Probab=36.53 E-value=37 Score=18.43 Aligned_cols=20 Identities=5% Similarity=0.134 Sum_probs=16.2
Q ss_pred HHHhcCCchhHHHHHHHHHH
Q 042815 16 GLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~ 35 (87)
.+++.|++++|.+++.+-.+
T Consensus 29 ~~ak~gdf~~A~~~l~eA~~ 48 (104)
T PRK09591 29 AAMREGNFDLAEQKLNQSNE 48 (104)
T ss_pred HHHHcCCHHHHHHHHHHHHH
Confidence 35788999999999888654
No 304
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=36.32 E-value=1.5e+02 Score=20.82 Aligned_cols=36 Identities=22% Similarity=0.172 Sum_probs=27.1
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
|+....++-..|..+|+.++|...|.+-+ .+.|+..
T Consensus 231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~--~~dpy~i 266 (564)
T KOG1174|consen 231 NEHLMMALGKCLYYNGDYFQAEDIFSSTL--CANPDNV 266 (564)
T ss_pred cHHHHHHHhhhhhhhcCchHHHHHHHHHh--hCChhhh
Confidence 56677778888888999999999998854 3455544
No 305
>COG3898 Uncharacterized membrane-bound protein [Function unknown]
Probab=35.91 E-value=79 Score=21.95 Aligned_cols=35 Identities=9% Similarity=0.012 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHc-CCCCCHh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKR-GPRPNAV 43 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~-g~~pd~~ 43 (87)
.|.+.+...+..|+++.|++|.+.-+.. -+.+|..
T Consensus 190 A~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~a 225 (531)
T COG3898 190 AARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVA 225 (531)
T ss_pred HHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhH
Confidence 5778999999999999999999887643 3455544
No 306
>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=35.69 E-value=47 Score=17.22 Aligned_cols=22 Identities=14% Similarity=0.179 Sum_probs=16.1
Q ss_pred CCchhHHHHHHHHHHcC-CCCCH
Q 042815 21 GKNGMGVELFMSIEKRG-PRPNA 42 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g-~~pd~ 42 (87)
.....+.++|.+|.+.| +.|+-
T Consensus 36 e~~~s~ldlf~~Le~~~~L~~dn 58 (82)
T cd08341 36 ESVQSGHDLFQHLMDEDLLNEED 58 (82)
T ss_pred hhhCCHHHHHHHHHHcCCCCcch
Confidence 34577889999999877 55543
No 307
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=35.62 E-value=81 Score=18.70 Aligned_cols=42 Identities=17% Similarity=0.116 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCC-CCHhhHHHHHHHHcc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPR-PNAVTFVGVLTAYGK 54 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~-pd~~t~~~ll~~~~~ 54 (87)
+-||+.+. ..|++++++-++-.+.+-. |...|+..+|.-+=.
T Consensus 49 FRWNs~VR-----kqY~~~i~~AKkqRk~~~~~~~~ltl~~vI~fLq~ 91 (161)
T TIGR02894 49 FRWNAYVR-----KQYEEAIELAKKQRKELKREAGSLTLQDVISFLQN 91 (161)
T ss_pred chHHHHHH-----HHHHHHHHHHHHHHhccccCcccCCHHHHHHHHHH
Confidence 45888776 5688888888887765532 566677766665543
No 308
>PF15374 CCDC71L: Coiled-coil domain-containing protein 71L
Probab=35.03 E-value=42 Score=22.57 Aligned_cols=51 Identities=12% Similarity=0.079 Sum_probs=29.9
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccc
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIK 56 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~ 56 (87)
.++-+++|.-+..+=-+ -+|+|+.+|.=|-.. +.-+..-..++|.++-+.|
T Consensus 2 eeK~VhSwsr~~~ag~k--aleeAl~vF~PmS~d-l~~te~qLv~Flq~Lr~eG 52 (376)
T PF15374_consen 2 EEKAVHSWSRISSAGKK--ALEEALRVFNPMSKD-LSDTEAQLVAFLQGLRHEG 52 (376)
T ss_pred cchhhhhhhhhcchhHH--HHHHHHHHhCccccc-cchhHHHHHHHHHHHhhcC
Confidence 45678899995444333 389999999988533 2223333344444444443
No 309
>PRK10454 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA; Provisional
Probab=35.02 E-value=39 Score=18.75 Aligned_cols=20 Identities=15% Similarity=0.086 Sum_probs=16.1
Q ss_pred HHHhcCCchhHHHHHHHHHH
Q 042815 16 GLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~ 35 (87)
..++.|++++|.+++.+-.+
T Consensus 40 ~~Ak~gdfe~A~~~l~eA~e 59 (115)
T PRK10454 40 KQAKQGDFAAAKAMMDQSRM 59 (115)
T ss_pred HHHHhCCHHHHHHHHHHHHH
Confidence 35788999999999888653
No 310
>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=34.98 E-value=85 Score=17.50 Aligned_cols=50 Identities=10% Similarity=0.114 Sum_probs=28.6
Q ss_pred HHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 14 MLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
+..+.+.|+|++|+.+ ......||...|-++-.. +.|.-++ ..+.++..+
T Consensus 47 ~~sLmNrG~Yq~ALl~----~~~~~~pdL~p~~AL~a~--klGL~~~~e~~l~rla~~ 98 (116)
T PF09477_consen 47 LSSLMNRGDYQEALLL----PQCHCYPDLEPWAALCAW--KLGLASALESRLTRLASS 98 (116)
T ss_dssp HHHHHHTT-HHHHHHH----HTTS--GGGHHHHHHHHH--HCT-HHHHHHHHHHHCT-
T ss_pred HHHHHhhHHHHHHHHh----cccCCCccHHHHHHHHHH--hhccHHHHHHHHHHHHhC
Confidence 4567889999999322 344567899988665433 4555555 555555544
No 311
>cd08336 DED_FADD Death Effector Domain found in Fas-Associated via Death Domain. Death Effector Domain (DED) found in Fas-Associated via Death Domain (FADD). DEDs comprise a subfamily of the Death Domain (DD) superfamily. FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor and its DED recruits the initiator caspases 8 and 10 to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. 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 incl
Probab=34.98 E-value=62 Score=16.62 Aligned_cols=29 Identities=24% Similarity=0.432 Sum_probs=18.9
Q ss_pred CchhHHHHHHHHHHcC-CCCCHhh-HHHHHH
Q 042815 22 KNGMGVELFMSIEKRG-PRPNAVT-FVGVLT 50 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g-~~pd~~t-~~~ll~ 50 (87)
....+.++|.+|.+.+ +.|+-.. ...++.
T Consensus 37 ~~~s~l~lf~~Le~~~~i~~~nl~~L~~lL~ 67 (82)
T cd08336 37 KVQSGLQLFSALMERNLISPENTAFLRELLQ 67 (82)
T ss_pred ccCCHHHHHHHHHHcCCCCcchHHHHHHHHH
Confidence 4567899999999777 5564443 333433
No 312
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=34.96 E-value=1.2e+02 Score=19.22 Aligned_cols=59 Identities=12% Similarity=-0.025 Sum_probs=39.1
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCH----hhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNA----VTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~----~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
.+--+-..|...|++++|...|+++... .|+. ..+--+-..+-..|+.+. ..++.....
T Consensus 182 A~y~LG~~y~~~g~~~~A~~~f~~vv~~--yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~ 246 (263)
T PRK10803 182 ANYWLGQLNYNKGKKDDAAYYFASVVKN--YPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK 246 (263)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 4445667788999999999999999754 2321 122223334556777777 777777665
No 313
>PF12968 DUF3856: Domain of Unknown Function (DUF3856); InterPro: IPR024552 This domain of unknown function is found in a small group of tetratricopeptide-like proteins, which includes the uncharacterised protein Q8KAL8 from SWISSPROT. The structure of Q8KAL8 is known and belongs to the SCOP all alpha class, TPR-like superfamily, CT2138-like family.; PDB: 2HR2_D.
Probab=34.92 E-value=61 Score=18.55 Aligned_cols=26 Identities=19% Similarity=0.075 Sum_probs=19.8
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFM 31 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~ 31 (87)
|..++..|-.++...|++++++.--+
T Consensus 54 DA~chA~Ls~A~~~Lgry~e~L~sA~ 79 (144)
T PF12968_consen 54 DAFCHAGLSGALAGLGRYDECLQSAD 79 (144)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhccHHHHHHHHH
Confidence 56788899999999999987766433
No 314
>PF13963 Transpos_assoc: Transposase-associated domain
Probab=34.92 E-value=54 Score=16.56 Aligned_cols=26 Identities=27% Similarity=0.242 Sum_probs=17.0
Q ss_pred hcCCchhHHHHHHHHHHcCCCCCHhh
Q 042815 19 KNGKNGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~~g~~pd~~t 44 (87)
++.......++...+...|+.|+=..
T Consensus 46 ~N~~~~~~~~V~~HL~~~Gf~~~Y~~ 71 (77)
T PF13963_consen 46 KNEKRQSRDDVHEHLVCRGFMPNYTV 71 (77)
T ss_pred ccCccCCHHHHHHHHHHhCCCCCCCe
Confidence 44555666777777777777776443
No 315
>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=34.78 E-value=1e+02 Score=21.31 Aligned_cols=29 Identities=10% Similarity=-0.003 Sum_probs=19.0
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcC
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRG 37 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g 37 (87)
.+--+.-.++-.+++++|.+.|.++.+..
T Consensus 307 ~~~El~w~~~~~~~w~~A~~~f~~L~~~s 335 (468)
T PF10300_consen 307 CYFELAWCHMFQHDWEEAAEYFLRLLKES 335 (468)
T ss_pred HHHHHHHHHHHHchHHHHHHHHHHHHhcc
Confidence 33334444566678888888888887643
No 316
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=34.78 E-value=52 Score=14.96 Aligned_cols=22 Identities=18% Similarity=0.220 Sum_probs=17.6
Q ss_pred HHHHHhcCCchhHHHHHHHHHH
Q 042815 14 MLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 14 i~~~~~~g~~~~a~~l~~~m~~ 35 (87)
|......|++++|++...+...
T Consensus 8 i~~~i~~g~~~~a~~~~~~~~~ 29 (58)
T smart00668 8 IRELILKGDWDEALEWLSSLKP 29 (58)
T ss_pred HHHHHHcCCHHHHHHHHHHcCH
Confidence 4556778999999999888754
No 317
>PF07553 Lipoprotein_Ltp: Host cell surface-exposed lipoprotein; InterPro: IPR011434 This domain is found as 1-3 copies in a small family of proteins of unknown function.
Probab=34.57 E-value=36 Score=15.76 Aligned_cols=29 Identities=7% Similarity=-0.141 Sum_probs=15.9
Q ss_pred cccchhHH-HHHHhchhcccccccchhhhh
Q 042815 53 GKIKIFGV-TLMGIQPQNLWYYIDGQIDAW 81 (87)
Q Consensus 53 ~~~~~~~~-~~~~~m~~~~~~g~~~~~~~~ 81 (87)
.+.+.+.. .+++++...++-|+.++...|
T Consensus 14 ~~~~~~Sk~~l~~QL~se~ge~Ft~e~A~Y 43 (48)
T PF07553_consen 14 LKTMHMSKQGLYDQLTSEYGEGFTEEEAQY 43 (48)
T ss_pred HHhccCCHHHHHHHHHhhcccCCCHHHHHH
Confidence 33344444 666666655444666665544
No 318
>COG1447 CelC Phosphotransferase system cellobiose-specific component IIA [Carbohydrate transport and metabolism]
Probab=34.37 E-value=43 Score=18.37 Aligned_cols=19 Identities=26% Similarity=0.211 Sum_probs=15.7
Q ss_pred HHHhcCCchhHHHHHHHHH
Q 042815 16 GLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~ 34 (87)
.+++.|++++|.++..+-.
T Consensus 28 ~~Ak~g~f~~A~~~i~eA~ 46 (105)
T COG1447 28 KAAKEGDFEEAEELIQEAN 46 (105)
T ss_pred HHHHcCCHHHHHHHHHHHH
Confidence 3688999999999888754
No 319
>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=34.22 E-value=91 Score=17.59 Aligned_cols=35 Identities=11% Similarity=0.173 Sum_probs=27.2
Q ss_pred CcHhHHHHHHHHHHhcCCc----hhHHHHHHHHHHcCCC
Q 042815 5 RDATTSSAMMLGLAKNGKN----GMGVELFMSIEKRGPR 39 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~----~~a~~l~~~m~~~g~~ 39 (87)
|+..+=+-++.-+.+++.. ++|..+.+.+.+.|+-
T Consensus 28 ~~cF~GsElVdWLl~~~~~v~sR~eAv~lgq~Ll~~gvi 66 (125)
T cd04437 28 RQCCVGTELVDWLLQQSPCVQSRSQAVGMWQVLLEEGVL 66 (125)
T ss_pred CcccccHHHHHHHHHcCCCCCCHHHHHHHHHHHHhCCCe
Confidence 4555666778888888763 8999999999998854
No 320
>PF12627 PolyA_pol_RNAbd: Probable RNA and SrmB- binding site of polymerase A; PDB: 1OU5_B 3H38_A 3H3A_B 3H39_B 3H37_A 3AQN_A 3AQK_A 3AQM_B 3AQL_B 1MIY_A ....
Probab=34.13 E-value=56 Score=15.37 Aligned_cols=30 Identities=3% Similarity=-0.173 Sum_probs=13.7
Q ss_pred CCCCHhhHHHHHHHHcccchhHH-HHHHhch
Q 042815 38 PRPNAVTFVGVLTAYGKIKIFGV-TLMGIQP 67 (87)
Q Consensus 38 ~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~ 67 (87)
++.+..|...+-+.-.....+.. ++++++.
T Consensus 2 F~ie~~t~~ai~~~~~~L~~is~ERi~~El~ 32 (64)
T PF12627_consen 2 FKIEPETEEAIKENAELLSKISKERIREELE 32 (64)
T ss_dssp -EE-HHHHHHHHHHGGGGGGS-HHHHHHHHH
T ss_pred CccCHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 34455555555555444444444 5555544
No 321
>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=33.92 E-value=73 Score=16.44 Aligned_cols=31 Identities=19% Similarity=0.351 Sum_probs=19.3
Q ss_pred CchhHHHHHHHHHHcC-CCCC-HhhHHHHHHHH
Q 042815 22 KNGMGVELFMSIEKRG-PRPN-AVTFVGVLTAY 52 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g-~~pd-~~t~~~ll~~~ 52 (87)
+...+.++|.+|.+.| +.|| ......++...
T Consensus 38 ~~~s~ldlf~~Lek~~~l~~~nl~~L~elL~~i 70 (83)
T cd08334 38 DNKTLLDVFVEMEKQGLLGEDNLDELKRILKSL 70 (83)
T ss_pred ccCCHHHHHHHHHHcCCCCCccHHHHHHHHHHH
Confidence 4566789999998877 5553 33344444444
No 322
>COG0292 RplT Ribosomal protein L20 [Translation, ribosomal structure and biogenesis]
Probab=33.85 E-value=90 Score=17.43 Aligned_cols=18 Identities=17% Similarity=0.353 Sum_probs=9.2
Q ss_pred CCCHhhHHHHHHHHcccc
Q 042815 39 RPNAVTFVGVLTAYGKIK 56 (87)
Q Consensus 39 ~pd~~t~~~ll~~~~~~~ 56 (87)
..+..||+-+|.++-+.|
T Consensus 70 R~~GlsYS~fi~gLkkA~ 87 (118)
T COG0292 70 RENGLSYSRFINGLKKAG 87 (118)
T ss_pred HHcCCcHHHHHHHHHHcC
Confidence 344445555555555544
No 323
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=33.73 E-value=1.5e+02 Score=20.81 Aligned_cols=33 Identities=9% Similarity=-0.017 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN 41 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd 41 (87)
...-.|+.+... |+.++++.++++|...|..|.
T Consensus 247 ~~i~~ll~al~~-~d~~~~l~~~~~l~~~g~~~~ 279 (509)
T PRK14958 247 LLLFDILEALAA-KAGDRLLGCVTRLVEQGVDFS 279 (509)
T ss_pred HHHHHHHHHHHc-CCHHHHHHHHHHHHHcCCCHH
Confidence 344455555444 789999999999999998874
No 324
>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=33.66 E-value=30 Score=24.40 Aligned_cols=33 Identities=24% Similarity=0.297 Sum_probs=19.6
Q ss_pred HHHHHHHhcCC------chhHHHHHHHHHHcCCCCCHhh
Q 042815 12 AMMLGLAKNGK------NGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 12 ~li~~~~~~g~------~~~a~~l~~~m~~~g~~pd~~t 44 (87)
.++.-+.+.++ ...+.++|.++.++|+.||..|
T Consensus 214 ~~~~ea~~~~~~~SIg~~GN~ad~~~~l~~~~i~pDl~t 252 (546)
T PF01175_consen 214 ARAKEARAKKEPLSIGLLGNAADLWEELVERGIIPDLVT 252 (546)
T ss_dssp HHHHHHHHTT--EEEEEES-HHHHHHHHHHTT---SEE-
T ss_pred HHHHHhhccCCeeEEEEeccHHHHHHHHHHcCCCCCccc
Confidence 44455555544 4678899999999999998765
No 325
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=33.50 E-value=2e+02 Score=21.52 Aligned_cols=51 Identities=14% Similarity=0.117 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC-HhhHHHHHHHHcccchhHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN-AVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd-~~t~~~ll~~~~~~~~~~~ 60 (87)
..||.|-.++-..|++.+|.+.|.+.... .|+ .-+.+.+-..+.+.|.++.
T Consensus 321 ~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~~E~~~~e~ 372 (966)
T KOG4626|consen 321 DAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIYREQGKIEE 372 (966)
T ss_pred HHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhccchH
Confidence 46778888888888888888888775533 333 2255556666666666655
No 326
>PRK13808 adenylate kinase; Provisional
Probab=33.24 E-value=7.1 Score=25.66 Aligned_cols=22 Identities=14% Similarity=0.045 Sum_probs=15.8
Q ss_pred chhHHHHHHHHHHcCCCCCHhh
Q 042815 23 NGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~pd~~t 44 (87)
.++|..+...+...|+.||.+.
T Consensus 90 ~~QA~~L~~ll~~~gi~PDlVI 111 (333)
T PRK13808 90 VPQAEALDALLKDKQLKLDAVV 111 (333)
T ss_pred HHHHHHHHHHHHhcCCCcCeEE
Confidence 4677777666777888887653
No 327
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=33.16 E-value=41 Score=13.31 Aligned_cols=21 Identities=5% Similarity=0.069 Sum_probs=11.3
Q ss_pred HHHHHHHHhcCCchhHHHHHH
Q 042815 11 SAMMLGLAKNGKNGMGVELFM 31 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~ 31 (87)
|.+|--|....-+.++...|.
T Consensus 4 n~lI~~YL~~~Gy~~tA~~f~ 24 (27)
T PF08513_consen 4 NQLIYDYLVENGYKETAKAFA 24 (27)
T ss_dssp HHHHHHHHHHCT-HHHHHHHH
T ss_pred HHHHHHHHHHCCcHHHHHHHH
Confidence 566666666555555555443
No 328
>PF11768 DUF3312: Protein of unknown function (DUF3312); InterPro: IPR024511 This is a eukaryotic family of uncharacterised proteins that contain WD40 repeats.
Probab=32.76 E-value=43 Score=23.77 Aligned_cols=25 Identities=8% Similarity=0.185 Sum_probs=22.0
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
-..++.-|.+.+++++|..++..|-
T Consensus 411 ~~eL~~~yl~~~qi~eAi~lL~smn 435 (545)
T PF11768_consen 411 LVELISQYLRCDQIEEAINLLLSMN 435 (545)
T ss_pred HHHHHHHHHhcCCHHHHHHHHHhCC
Confidence 4468889999999999999999984
No 329
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=32.73 E-value=2.3e+02 Score=21.78 Aligned_cols=51 Identities=16% Similarity=0.040 Sum_probs=41.0
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.+.-.+-.+|-+.|+.++|.++|++..+.. .-|....|-+-..++.. ++++
T Consensus 117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~K 167 (906)
T PRK14720 117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEK 167 (906)
T ss_pred HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHH
Confidence 345566777778899999999999999877 33777888888888888 7776
No 330
>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=32.72 E-value=41 Score=19.10 Aligned_cols=23 Identities=26% Similarity=0.404 Sum_probs=11.5
Q ss_pred HHHHHHHHHcCCCCCHhhHHHHH
Q 042815 27 VELFMSIEKRGPRPNAVTFVGVL 49 (87)
Q Consensus 27 ~~l~~~m~~~g~~pd~~t~~~ll 49 (87)
..|..||..+|..|+..-+..+.
T Consensus 66 ~~l~~EM~~RGY~~~~~~~~~~~ 88 (130)
T PF03013_consen 66 QLLMAEMQRRGYKPNSPWFDDLD 88 (130)
T ss_dssp HHHHHHHHHTT---S--S----T
T ss_pred HHHHHHHHHcCCCCChhhhhccc
Confidence 56789999999999887776444
No 331
>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=32.57 E-value=79 Score=16.38 Aligned_cols=35 Identities=14% Similarity=-0.024 Sum_probs=24.1
Q ss_pred CcHhHHHHHHHHHHhcC----CchhHHHHHHHHHHcCCC
Q 042815 5 RDATTSSAMMLGLAKNG----KNGMGVELFMSIEKRGPR 39 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g----~~~~a~~l~~~m~~~g~~ 39 (87)
|+..+=+-+++-+.++. .-++|..+-++|.+.|+-
T Consensus 27 p~~F~GsdlVdWL~~~~~~~~~R~eAv~~g~~Ll~~G~i 65 (84)
T cd04438 27 PNSFIGSDLVDWLLSHVEGLTDRREARKYASSLLKLGYI 65 (84)
T ss_pred CccccchHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCcE
Confidence 34444555666666644 447999999999998853
No 332
>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=32.49 E-value=38 Score=24.36 Aligned_cols=28 Identities=11% Similarity=0.225 Sum_probs=15.9
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcC
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRG 37 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g 37 (87)
+|+..||++|++- .++...++.-|+..|
T Consensus 618 KN~iIYNaVISgI-----heqmK~lmkl~PR~~ 645 (782)
T PF07218_consen 618 KNMIIYNAVISGI-----HEQMKNLMKLMPRKP 645 (782)
T ss_pred hhhHhHHHHHHHH-----HHHHHHHHHhCCCcc
Confidence 4667777777743 344555555555444
No 333
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=32.37 E-value=1.3e+02 Score=18.73 Aligned_cols=57 Identities=11% Similarity=0.040 Sum_probs=35.7
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhH--HHHHHHHcccchhHH--HHHHhchhc
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTF--VGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~--~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
--..+.+.|++++|.+.|+++...--.+..... --+..++-+.++.+. ..+++....
T Consensus 38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~ 98 (243)
T PRK10866 38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL 98 (243)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence 344456789999999999998865322221111 234456667777777 666666554
No 334
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=32.31 E-value=89 Score=25.27 Aligned_cols=37 Identities=14% Similarity=-0.013 Sum_probs=31.8
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
.-.|+..|..=.++|+.+.+..+|++....++.|-..
T Consensus 1634 tDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkm 1670 (1710)
T KOG1070|consen 1634 TDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKM 1670 (1710)
T ss_pred hhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHh
Confidence 3579999999999999999999999999888777544
No 335
>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=32.29 E-value=92 Score=18.66 Aligned_cols=43 Identities=16% Similarity=0.108 Sum_probs=34.3
Q ss_pred HhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 18 AKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
.-.|+-+++.++.++....|+.|.......+..+.-+.|..-+
T Consensus 5 ll~~D~~~~~~~v~~~l~~g~~~~~i~~~~l~p~m~~vG~~w~ 47 (201)
T cd02070 5 IVDGDEEETVELVKKALEAGIDPQDIIEEGLAPGMDIVGDKYE 47 (201)
T ss_pred HHcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHc
Confidence 3458889999999999999988887777888888887776543
No 336
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=32.19 E-value=69 Score=21.99 Aligned_cols=38 Identities=8% Similarity=0.003 Sum_probs=28.7
Q ss_pred CCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchh
Q 042815 21 GKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIF 58 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~ 58 (87)
.+++.++.+|+.+...|..|+......+--.|+-.+..
T Consensus 192 ~di~~~L~vldaii~y~~iP~~sl~~~i~vLCsi~~~~ 229 (464)
T PF11864_consen 192 DDIEACLSVLDAIITYGDIPSESLSPCIEVLCSIVNSV 229 (464)
T ss_pred HHHHHHHHHHHHHHHcCcCChHHHHHHHHHHhhHhccc
Confidence 45688999999999999999887776666555544443
No 337
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=32.13 E-value=54 Score=14.92 Aligned_cols=19 Identities=26% Similarity=0.361 Sum_probs=14.0
Q ss_pred HHHHHHHHHcCCCCCHhhH
Q 042815 27 VELFMSIEKRGPRPNAVTF 45 (87)
Q Consensus 27 ~~l~~~m~~~g~~pd~~t~ 45 (87)
.++..++.+.|+.|..+|-
T Consensus 9 ~eL~~~L~~~G~~~gPIt~ 27 (44)
T smart00540 9 AELRAELKQYGLPPGPITD 27 (44)
T ss_pred HHHHHHHHHcCCCCCCcCc
Confidence 4677888899988766553
No 338
>cd01786 STE50_RA Ubiquitin-like domain of STE50_RA. STE50_RA The fungal adaptor protein STE50 is an essential component of three MAPK-mediated signalling pathways, which control the mating response, invasive/filamentous growth and osmotolerance (HOG pathway), respectively. STE50 functions in cell signalling between the activated G protein and STE11. The domain architecture of STE50 includes an amino-terminal SAM (sterile alpha motif) domain in addition to the carboxy-terminal ubiquitin-like RA (RAS-associated) domain. While the SAM domain interacts with STE11, the RA domain interacts with CDC42 and RAS. Modulation of signal transduction by STE50 specifically affects the pheromone-response pathway in yeast.
Probab=32.02 E-value=59 Score=17.49 Aligned_cols=18 Identities=22% Similarity=0.471 Sum_probs=14.4
Q ss_pred hhHHHHHHHHHHcCCCCC
Q 042815 24 GMGVELFMSIEKRGPRPN 41 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~pd 41 (87)
|+=+.+|+++.+.|-.|-
T Consensus 75 EKPl~lFk~L~~~g~~P~ 92 (98)
T cd01786 75 EKPVIIFKNLKQQGLHPA 92 (98)
T ss_pred ccHHHHHHHHHHcCCCCe
Confidence 566779999999988773
No 339
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.75 E-value=27 Score=23.96 Aligned_cols=27 Identities=22% Similarity=0.608 Sum_probs=22.2
Q ss_pred cCCchhHHHHHHHHHH--cCCCCCHhhHH
Q 042815 20 NGKNGMGVELFMSIEK--RGPRPNAVTFV 46 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~--~g~~pd~~t~~ 46 (87)
+|+..+-..+|++|++ +-+.||.+.|+
T Consensus 192 SGRh~qe~sLfeEM~~v~~ai~Pd~vi~V 220 (483)
T KOG0780|consen 192 SGRHKQEASLFEEMKQVSKAIKPDEIIFV 220 (483)
T ss_pred CCchhhhHHHHHHHHHHHhhcCCCeEEEE
Confidence 5788888999999984 56899998773
No 340
>KOG3060 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.62 E-value=1e+02 Score=20.03 Aligned_cols=35 Identities=23% Similarity=0.331 Sum_probs=23.4
Q ss_pred hcCCchhHHHHHHHHHHcCCCCCHhhHH---HHHHHHcc
Q 042815 19 KNGKNGMGVELFMSIEKRGPRPNAVTFV---GVLTAYGK 54 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~~g~~pd~~t~~---~ll~~~~~ 54 (87)
..|++++|+++|+.+.+.. .-|.+++- +++++-++
T Consensus 98 a~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK 135 (289)
T KOG3060|consen 98 ATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGK 135 (289)
T ss_pred HhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCC
Confidence 3688899999999988765 33666665 34444443
No 341
>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.61 E-value=73 Score=24.11 Aligned_cols=29 Identities=10% Similarity=0.166 Sum_probs=25.5
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
.-|..|+.-|..+|+-++|+++|.+....
T Consensus 505 ~~y~~Li~LY~~kg~h~~AL~ll~~l~d~ 533 (877)
T KOG2063|consen 505 KKYRELIELYATKGMHEKALQLLRDLVDE 533 (877)
T ss_pred ccHHHHHHHHHhccchHHHHHHHHHHhcc
Confidence 35788999999999999999999998753
No 342
>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins. Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.
Probab=31.34 E-value=1.3e+02 Score=18.37 Aligned_cols=42 Identities=14% Similarity=0.086 Sum_probs=26.3
Q ss_pred chhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHHHHHHhc
Q 042815 23 NGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGVTLMGIQ 66 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~~~~~~m 66 (87)
+++|.+.|++-. ...|+...|..-|..+.+.-.+..++..++
T Consensus 96 F~kA~~~FqkAv--~~~P~ne~Y~ksLe~~~kap~lh~e~~~~~ 137 (186)
T PF06552_consen 96 FEKATEYFQKAV--DEDPNNELYRKSLEMAAKAPELHMEIHKQG 137 (186)
T ss_dssp HHHHHHHHHHHH--HH-TT-HHHHHHHHHHHTHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHH--hcCCCcHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 455555555544 358999999999999977555544555543
No 343
>PHA00439 exonuclease
Probab=31.28 E-value=59 Score=21.11 Aligned_cols=21 Identities=19% Similarity=0.048 Sum_probs=16.6
Q ss_pred CcHhHHHHHHHHHHhcCCchh
Q 042815 5 RDATTSSAMMLGLAKNGKNGM 25 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~ 25 (87)
+....|-+|.+.|.+.|.-|+
T Consensus 237 ~~~~~w~~~v~~~~k~g~~e~ 257 (286)
T PHA00439 237 PEETLWDCIVTLGAKAGMTEE 257 (286)
T ss_pred ccccHHHHHHHHHHHcCCCHH
Confidence 444779999999999998765
No 344
>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.26 E-value=1e+02 Score=22.35 Aligned_cols=39 Identities=18% Similarity=0.303 Sum_probs=32.9
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccc
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIK 56 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~ 56 (87)
=.+.|..++|..+++++.+-. .+|+-+...++.++++..
T Consensus 468 ~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~d 506 (652)
T KOG2376|consen 468 KLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARLD 506 (652)
T ss_pred HHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhcC
Confidence 345799999999999998643 679999999999999874
No 345
>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=31.21 E-value=1.9e+02 Score=20.44 Aligned_cols=54 Identities=7% Similarity=-0.041 Sum_probs=39.5
Q ss_pred CcHhHH--HHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh-hHHHHHHHHcccchhHH
Q 042815 5 RDATTS--SAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV-TFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 5 ~~~~~~--~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~ 60 (87)
|....| .-+-..|-..|++++|++..++-.+. .|..+ -|..--+.+-+.|++.+
T Consensus 190 p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~ 246 (517)
T PF12569_consen 190 PSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKE 246 (517)
T ss_pred chHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHH
Confidence 555555 44466677899999999999987766 56533 66666777778888876
No 346
>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=31.12 E-value=38 Score=17.44 Aligned_cols=25 Identities=8% Similarity=0.104 Sum_probs=16.4
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
+-|+..|...+-++-+..+|+.|..
T Consensus 49 ~lLv~~y~~~~A~~vt~~il~~in~ 73 (82)
T cd08321 49 DKMVQFYGEEYAVEVTVKILRKMNQ 73 (82)
T ss_pred HHHHHHcChhHHHHHHHHHHHHhcc
Confidence 4456666666667777777777753
No 347
>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=31.11 E-value=1.1e+02 Score=17.77 Aligned_cols=13 Identities=0% Similarity=-0.059 Sum_probs=7.0
Q ss_pred chhHHHHHHHHHH
Q 042815 23 NGMGVELFMSIEK 35 (87)
Q Consensus 23 ~~~a~~l~~~m~~ 35 (87)
-++|..+|..+..
T Consensus 109 e~~af~~~~~l~~ 121 (199)
T smart00164 109 EEDAFWCLVKLME 121 (199)
T ss_pred HHHHHHHHHHHHH
Confidence 4455555555543
No 348
>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=31.07 E-value=52 Score=17.53 Aligned_cols=18 Identities=22% Similarity=0.278 Sum_probs=14.1
Q ss_pred HHhcCCchhHHHHHHHHH
Q 042815 17 LAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~ 34 (87)
.++.|++++|.+++++-.
T Consensus 24 ~a~~~~fe~A~~~l~~a~ 41 (96)
T PF02255_consen 24 AAREGDFEEAEELLKEAD 41 (96)
T ss_dssp HHHTT-HHHHHHHHHHHH
T ss_pred HHHhCCHHHHHHHHHHHH
Confidence 468899999999988754
No 349
>cd08780 Death_TRADD Death Domain of Tumor Necrosis Factor Receptor 1-Associated Death Domain protein. Death domain (DD) of TRADD (TNF Receptor 1-Associated Death Domain or TNFRSF1A-associated via death domain) protein. TRADD is a central signaling adaptor for TNF-receptor 1 (TNFR1), mediating activation of Nuclear Factor -kappaB (NF-kB) and c-Jun N-terminal kinase (JNK), as well as caspase-dependent apoptosis. It also carries important immunological roles including germinal center formation, DR3-mediated T-cell stimulation, and TNFalpha-mediated inflammatory responses. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into s
Probab=31.06 E-value=84 Score=16.73 Aligned_cols=38 Identities=13% Similarity=0.199 Sum_probs=26.7
Q ss_pred HHHhcCCchhHHHHHHHHHH-cCCCCCHhhHHHHHHHHcccc
Q 042815 16 GLAKNGKNGMGVELFMSIEK-RGPRPNAVTFVGVLTAYGKIK 56 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~-~g~~pd~~t~~~ll~~~~~~~ 56 (87)
-|-+.|..|++.+++++-+. +|-. .|...|+.++-.++
T Consensus 41 ~y~r~gL~EqvyQ~L~~W~~~eg~~---Atv~~Lv~AL~~c~ 79 (90)
T cd08780 41 EYDREGLYEQAYQLLRRFIQSEGKK---ATLQRLVQALEENG 79 (90)
T ss_pred hcccccHHHHHHHHHHHHHHhcccc---chHHHHHHHHHHcc
Confidence 46678889999999988764 5644 66666666655443
No 350
>PLN03025 replication factor C subunit; Provisional
Probab=30.99 E-value=71 Score=20.55 Aligned_cols=32 Identities=13% Similarity=0.161 Sum_probs=24.4
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
..++... ..+++++|...+.+|...|..|...
T Consensus 229 ~~~i~~~-~~~~~~~a~~~l~~ll~~g~~~~~I 260 (319)
T PLN03025 229 KNIVRNC-LKGKFDDACDGLKQLYDLGYSPTDI 260 (319)
T ss_pred HHHHHHH-HcCCHHHHHHHHHHHHHcCCCHHHH
Confidence 3444443 4588999999999999999887644
No 351
>KOG2223 consensus Uncharacterized conserved protein, contains TBC domain [Signal transduction mechanisms; General function prediction only]
Probab=30.98 E-value=1e+02 Score=21.61 Aligned_cols=43 Identities=16% Similarity=0.241 Sum_probs=32.1
Q ss_pred HHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 27 VELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 27 ~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
-++|..+.+..+.||.+.+.-++..|++.=-++. ++++-..++
T Consensus 459 p~L~~Hl~kl~l~PDiylidwiftlyskslpldlacRIwDvy~rd 503 (586)
T KOG2223|consen 459 PKLFTHLKKLELTPDIYLIDWIFTLYSKSLPLDLACRIWDVYCRD 503 (586)
T ss_pred HHHHHHHHhccCCCchhhHHHHHHHHhccCChHHhhhhhheeeec
Confidence 3567777788899999999988888888766665 666554443
No 352
>PRK05907 hypothetical protein; Provisional
Probab=30.97 E-value=54 Score=21.32 Aligned_cols=26 Identities=19% Similarity=0.215 Sum_probs=21.1
Q ss_pred HhcCCchhHHHHHHHHHHc-CCCCCHh
Q 042815 18 AKNGKNGMGVELFMSIEKR-GPRPNAV 43 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~-g~~pd~~ 43 (87)
.-.|+.++|.++++++... |..|-..
T Consensus 215 i~~~~~~~Al~il~~Ll~~~ge~p~~I 241 (311)
T PRK05907 215 LLRRDRVEGHSLLRSLLSDMGEDPLGI 241 (311)
T ss_pred HHccCHHHHHHHHHHHHHhcCCChHHH
Confidence 3458899999999999999 8777533
No 353
>TIGR00030 S21p ribosomal protein S21. This model describes bacterial ribosomal protein S21 and most mitochondrial and chloroplast equivalents.
Probab=30.96 E-value=56 Score=15.75 Aligned_cols=20 Identities=25% Similarity=0.275 Sum_probs=14.5
Q ss_pred hcCC-chhHHHHHHHHH-HcCC
Q 042815 19 KNGK-NGMGVELFMSIE-KRGP 38 (87)
Q Consensus 19 ~~g~-~~~a~~l~~~m~-~~g~ 38 (87)
+.|+ +|.|+.-|.... ..|+
T Consensus 6 ~~~e~ie~alrrfkr~~~~~gi 27 (58)
T TIGR00030 6 KEGESIDSALRRFKRKLEKEGI 27 (58)
T ss_pred CCCCcHHHHHHHHHHHHHHcch
Confidence 4566 899999998866 3454
No 354
>PF08967 DUF1884: Domain of unknown function (DUF1884); InterPro: IPR014418 This group represents an uncharacterised conserved protein.; PDB: 2PK8_A.
Probab=30.78 E-value=43 Score=17.56 Aligned_cols=22 Identities=18% Similarity=0.197 Sum_probs=11.6
Q ss_pred hHHHHHHHHHHcCCCCCHhhHH
Q 042815 25 MGVELFMSIEKRGPRPNAVTFV 46 (87)
Q Consensus 25 ~a~~l~~~m~~~g~~pd~~t~~ 46 (87)
...+-.++++..|+.||..-+.
T Consensus 13 ~ie~~inELk~dG~ePDivL~G 34 (85)
T PF08967_consen 13 LIEEKINELKEDGFEPDIVLVG 34 (85)
T ss_dssp HHHHHHHHHHHTT----EEEE-
T ss_pred HHHHHHHHHHhcCCCCCEEEEc
Confidence 3445567788899999987554
No 355
>PRK14956 DNA polymerase III subunits gamma and tau; Provisional
Probab=30.69 E-value=1.7e+02 Score=20.61 Aligned_cols=35 Identities=11% Similarity=0.185 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
....++.+....+....|+.++.+|...|..|...
T Consensus 250 ~~~~l~~si~~~d~~~~al~~l~~l~~~G~d~~~~ 284 (484)
T PRK14956 250 FLTSFIKSLIDPDNHSKSLEILESLYQEGQDIYKF 284 (484)
T ss_pred HHHHHHHHHHcCCcHHHHHHHHHHHHHcCCCHHHH
Confidence 34555555555555678999999999999877654
No 356
>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=30.61 E-value=53 Score=16.68 Aligned_cols=14 Identities=21% Similarity=0.214 Sum_probs=9.7
Q ss_pred hHHHHHHHHHHcCC
Q 042815 25 MGVELFMSIEKRGP 38 (87)
Q Consensus 25 ~a~~l~~~m~~~g~ 38 (87)
++.+-|++|.+.|+
T Consensus 55 D~~k~fe~M~~~G~ 68 (73)
T PF02937_consen 55 DPMKDFEEMRKAGI 68 (73)
T ss_dssp -HHHHHHHHHHTT-
T ss_pred ChHHHHHHHHhcCC
Confidence 45667899998886
No 357
>TIGR01032 rplT_bact ribosomal protein L20. This protein binds directly to 23s ribosomal RNA and is necessary for the in vitro assembly process of the 50s ribosomal subunit. It is not involved in the protein synthesizing functions of that subunit. GO process changed accordingly
Probab=30.51 E-value=1e+02 Score=17.10 Aligned_cols=24 Identities=8% Similarity=0.094 Sum_probs=11.6
Q ss_pred hhHHHHHHHHcccchhHH-HHHHhc
Q 042815 43 VTFVGVLTAYGKIKIFGV-TLMGIQ 66 (87)
Q Consensus 43 ~t~~~ll~~~~~~~~~~~-~~~~~m 66 (87)
.+|+.++.++.+.+-.-. .++.++
T Consensus 73 ~~Ys~fi~~L~~~~i~LnRKvLa~l 97 (113)
T TIGR01032 73 LSYSRFINGLKKANIEINRKVLSEL 97 (113)
T ss_pred CCHHHHHHHHHHcCCCccHHHHHHH
Confidence 346666666655543322 444444
No 358
>cd08305 Pyrin Pyrin: a protein-protein interaction domain. The Pyrin domain (or PYD), also called DAPIN or PAAD, is a subfamily of the Death Domain (DD) superfamily and it functions in several signaling pathways. The Pyrin domain is found at the N-terminus of a variety of proteins and serves as a linker that recruits other domains into signaling complexes. Pyrin-containing proteins include NALPs, ASC (Apoptosis-associated speck-like protein containing a CARD), and the interferon-inducible p200 (IFI-200) family of proteins which includes the human IFI-16, myeloid cell nuclear differentiation antigen (MNDA) and absent in melanoma (AIM) 2. NALPs are members of the NBS-LRR family of proteins possessing a tripartite domain structure including a C-terminal LRR (leucine-rich repeats), a central nucleotide-binding site (NBS) domain or NACHT (for neuronal apoptosis inhibitor protein, CIITA, HET-E and TP1), and an N-terminal protein-protein interaction domain, which is a Pyrin domain in the case
Probab=30.39 E-value=31 Score=17.38 Aligned_cols=23 Identities=9% Similarity=0.059 Sum_probs=13.7
Q ss_pred HHHHHHHhcCCchhHHHHHHHHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
-|+..|....-++.+..+|++|.
T Consensus 42 lL~~~y~~~~a~~~t~~i~~~m~ 64 (73)
T cd08305 42 LMEQKFGAVSALDKLINIFEDMP 64 (73)
T ss_pred HHHHHcChhHHHHHHHHHHHHcC
Confidence 44555555555666666666664
No 359
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.22 E-value=2.4e+02 Score=21.65 Aligned_cols=45 Identities=11% Similarity=0.108 Sum_probs=28.8
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
-++..+.+..+.|++..+.+..-.. |..-|-.+|+.+++.+.++.
T Consensus 710 dl~~~~~q~~d~E~~it~~~~~g~~----~p~l~~~~L~yF~~~~~i~~ 754 (933)
T KOG2114|consen 710 DLMLYFQQISDPETVITLCERLGKE----DPSLWLHALKYFVSEESIED 754 (933)
T ss_pred HHHHHHHHhhChHHHHHHHHHhCcc----ChHHHHHHHHHHhhhcchhh
Confidence 3455566666666666665554322 66777778888888776655
No 360
>PF02758 PYRIN: PAAD/DAPIN/Pyrin domain; InterPro: IPR004020 Pyrin domain was identified as putative protein-protein interaction domain at the N-terminal region of several proteins thought to function in apoptotic and inflammatory signalling pathways. Using secondary structure prediction and potential-based fold recognition methods, the PYRIN domain is predicted to be a member of the six-helix bundle death domain-fold superfamily that includes death domains (DDs), death effector domains (DEDs), and caspase recruitment domains (CARDs). Members of the death domain-fold superfamily are well established mediators of protein-protein interactions found in many proteins involved in apoptosis and inflammation, indicating further that the PYRIN domains serve a similar function. Comparison of a circular dichroism spectrum of the PYRIN domain of CARD7/DEFCAP/NAC/NALP1 with spectra of several proteins known to adopt the death domain-fold provides experimental support for the structure prediction [] It is found in interferon-inducible proteins, pyrin and myeloid cell nuclear differentiation antigen.; PDB: 2DO9_A 2YU0_A 2KN6_A 1UCP_A 2L6A_A 2KM6_A 1PN5_A 2DBG_A 3QF2_B 2HM2_Q.
Probab=30.07 E-value=17 Score=18.66 Aligned_cols=24 Identities=0% Similarity=0.101 Sum_probs=14.5
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHH
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
+.|+..|...+-++-+..+|++|.
T Consensus 50 ~lLv~~y~~~~A~~vt~~il~~m~ 73 (83)
T PF02758_consen 50 DLLVQHYGEQRAWEVTLKILEKMN 73 (83)
T ss_dssp HHHHHHTCHHHHHHHHHHHHHHTT
T ss_pred HHHHHHcCHHHHHHHHHHHHHHcC
Confidence 445555555556666666666664
No 361
>PRK05629 hypothetical protein; Validated
Probab=29.96 E-value=63 Score=20.78 Aligned_cols=26 Identities=23% Similarity=0.153 Sum_probs=21.7
Q ss_pred HhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 18 AKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
.-.|+.++|..+++++...|..|-..
T Consensus 204 v~~g~~~~Al~~l~~l~~~g~~pi~i 229 (318)
T PRK05629 204 ACAGQVSKAVASTRRALQLGVSPVAL 229 (318)
T ss_pred HHcCCHHHHHHHHHHHHHcCCCcHHH
Confidence 44588999999999999999888543
No 362
>PRK07632 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=29.90 E-value=68 Score=23.55 Aligned_cols=34 Identities=15% Similarity=0.286 Sum_probs=26.4
Q ss_pred HHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHH
Q 042815 13 MMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFV 46 (87)
Q Consensus 13 li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~ 46 (87)
+++.+...|+.+.|.++|+.|....+.|.+-|+.
T Consensus 123 ~vAl~l~~~~~~~a~~~y~~ls~~~f~paTPtl~ 156 (699)
T PRK07632 123 IVALYLANGDKAKAKQFISAMVEQRYQPATPTFL 156 (699)
T ss_pred HHHHHHcCCCHHHHHHHHHHHHcCCeecCCCccc
Confidence 4455566788999999999999888888776653
No 363
>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=29.78 E-value=95 Score=16.47 Aligned_cols=29 Identities=7% Similarity=0.000 Sum_probs=14.9
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHHc
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEKR 36 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~~ 36 (87)
.|++.|+.++.+.|.-..|..+=+.+...
T Consensus 65 At~~~L~~aL~~~~~~~~Ae~I~~~l~~~ 93 (96)
T cd08315 65 ASVNTLLDALEAIGLRLAKESIQDELISS 93 (96)
T ss_pred cHHHHHHHHHHHcccccHHHHHHHHHHHc
Confidence 34555555555555555555554444433
No 364
>KOG2796 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.75 E-value=1.4e+02 Score=19.71 Aligned_cols=44 Identities=11% Similarity=0.027 Sum_probs=27.4
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVL 49 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll 49 (87)
+.+.-..+.+.-.+.|+.+.|...|++..+..-+-|..+++.++
T Consensus 211 ~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V 254 (366)
T KOG2796|consen 211 EPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMV 254 (366)
T ss_pred cHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHH
Confidence 44445555566667888888888888766544344555555444
No 365
>PRK07914 hypothetical protein; Reviewed
Probab=29.70 E-value=58 Score=20.99 Aligned_cols=26 Identities=19% Similarity=0.087 Sum_probs=21.3
Q ss_pred HhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 18 AKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
.-.|+..+|..+++++...|..|-..
T Consensus 206 i~~g~~~~A~~~l~~L~~~ge~p~~i 231 (320)
T PRK07914 206 AVAGDVAGAAEALRWAMMRGEPHVVL 231 (320)
T ss_pred HHCCCHHHHHHHHHHHHHCCCchHHH
Confidence 34589999999999999999877444
No 366
>PF04762 IKI3: IKI3 family; InterPro: IPR006849 Members of this family are components of the elongator multi-subunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation [].
Probab=29.49 E-value=2.1e+02 Score=21.94 Aligned_cols=45 Identities=7% Similarity=0.060 Sum_probs=32.2
Q ss_pred hHHHHHHHHHHhcC--CchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccc
Q 042815 8 TTSSAMMLGLAKNG--KNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIK 56 (87)
Q Consensus 8 ~~~~~li~~~~~~g--~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~ 56 (87)
.-..++|.+|++.+ ++++|+.+..++++. +...--..|+..+-.-
T Consensus 813 ~~l~~IlTa~vkk~Pp~le~aL~~I~~l~~~----~~~~ae~alkyl~fLv 859 (928)
T PF04762_consen 813 KYLQPILTAYVKKSPPDLEEALQLIKELREE----DPESAEEALKYLCFLV 859 (928)
T ss_pred hhHHHHHHHHHhcCchhHHHHHHHHHHHHhc----ChHHHHHHHhHheeec
Confidence 34578999999999 899999999999866 4444444455544433
No 367
>PRK13342 recombination factor protein RarA; Reviewed
Probab=29.44 E-value=1.8e+02 Score=19.57 Aligned_cols=43 Identities=14% Similarity=0.146 Sum_probs=30.0
Q ss_pred HHHHHHHHHHh---cCCchhHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 042815 9 TSSAMMLGLAK---NGKNGMGVELFMSIEKRGPRPNAVTFVGVLTA 51 (87)
Q Consensus 9 ~~~~li~~~~~---~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~ 51 (87)
..-.+++++.+ ..+.+.|+..+.+|.+.|..|....=..++.+
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 34556666666 47899999999999999987775444433333
No 368
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.32 E-value=1.6e+02 Score=18.93 Aligned_cols=58 Identities=16% Similarity=0.091 Sum_probs=41.1
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcC----CCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRG----PRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g----~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
.|+.=+. +.+.|++.+|..-|....+.. ..||..=| |-.++-..|+.+. .+|..+.+.
T Consensus 144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~ 207 (262)
T COG1729 144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYW--LGESLYAQGDYEDAAYIFARVVKD 207 (262)
T ss_pred HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHH--HHHHHHhcccchHHHHHHHHHHHh
Confidence 4777666 556777999999999987653 55666666 5667777777776 777766655
No 369
>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=29.03 E-value=16 Score=18.68 Aligned_cols=25 Identities=24% Similarity=0.337 Sum_probs=20.3
Q ss_pred cCCchhHHHHHHHHHHcCCCCCHhh
Q 042815 20 NGKNGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~~g~~pd~~t 44 (87)
.+...-+.++|..+.+.|+.+|..+
T Consensus 12 ~~~~g~~a~IF~~La~~~InVDmI~ 36 (78)
T cd04933 12 LGQYGFLAKVFSIFETLGISVDVVA 36 (78)
T ss_pred CCccCHHHHHHHHHHHcCCcEEEEE
Confidence 3456778899999999999888774
No 370
>PF11013 DUF2851: Protein of unknown function (DUF2851); InterPro: IPR021272 This bacterial family of proteins has no known function.
Probab=28.91 E-value=1.2e+02 Score=20.52 Aligned_cols=52 Identities=8% Similarity=-0.047 Sum_probs=38.9
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI 55 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~ 55 (87)
+.+...+...+......+--+++..+...+...+-.++.+.|..+.++++-.
T Consensus 138 ~v~~~~~~~wl~~l~~eRLe~K~~~i~~~l~~~~~dwe~~~y~~Lar~fG~~ 189 (377)
T PF11013_consen 138 EVPPFILHSWLERLLFERLERKAQRIEQLLEETNNDWEEVLYQLLARNFGFK 189 (377)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCc
Confidence 3455677777777777777778888877777777788888888888877643
No 371
>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=28.69 E-value=81 Score=15.31 Aligned_cols=34 Identities=18% Similarity=0.039 Sum_probs=23.4
Q ss_pred CcHhHHHHHHHHHHh-----cCCchhHHHHHHHHHHcCC
Q 042815 5 RDATTSSAMMLGLAK-----NGKNGMGVELFMSIEKRGP 38 (87)
Q Consensus 5 ~~~~~~~~li~~~~~-----~g~~~~a~~l~~~m~~~g~ 38 (87)
++..+=..++.-..+ ...-++|..+-++|...|+
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 344444555665554 4567899999999998874
No 372
>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding
Probab=28.69 E-value=1.4e+02 Score=18.98 Aligned_cols=35 Identities=14% Similarity=0.037 Sum_probs=29.4
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcC
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRG 37 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g 37 (87)
++....+|..+...+.+.|.++.|...+.++...+
T Consensus 142 ~~~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~ 176 (352)
T PF02259_consen 142 PEELAETWLKFAKLARKAGNFQLALSALNRLFQLN 176 (352)
T ss_pred hhHHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccC
Confidence 34456789999999999999999999999987644
No 373
>PF09517 RE_Eco29kI: Eco29kI restriction endonuclease; InterPro: IPR018575 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry the restriction endonuclease Eco29kI which recognises and cleaves CCGC^GG. ; PDB: 3MX4_A 3NIC_F 3MX1_A.
Probab=28.50 E-value=10 Score=22.50 Aligned_cols=25 Identities=8% Similarity=0.226 Sum_probs=17.3
Q ss_pred HHHHHHHHHHhc----CCchhHHHHHHHH
Q 042815 9 TSSAMMLGLAKN----GKNGMGVELFMSI 33 (87)
Q Consensus 9 ~~~~li~~~~~~----g~~~~a~~l~~~m 33 (87)
.||++|.||.++ |+.+.+..-++.|
T Consensus 112 vWN~~idGFGnhdPG~gR~~~~rs~WD~l 140 (170)
T PF09517_consen 112 VWNSVIDGFGNHDPGKGRYNQARSDWDTL 140 (170)
T ss_dssp HHHHTSTTTT-----TTSTTSB--HHHHH
T ss_pred hhhccccccCCCCCCCCccCCCCCCcccc
Confidence 599999999985 6677777777776
No 374
>PF15297 CKAP2_C: Cytoskeleton-associated protein 2 C-terminus
Probab=28.48 E-value=1.3e+02 Score=20.18 Aligned_cols=45 Identities=7% Similarity=-0.057 Sum_probs=33.9
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~ 53 (87)
=|-.+..-....|.+++++.+|.+....|-.|=...=..+++.+-
T Consensus 142 YWIC~Arl~~~~~~~e~vi~iyEeAi~agAqPieElR~~l~diL~ 186 (353)
T PF15297_consen 142 YWICLARLEPRTGPIEDVIAIYEEAILAGAQPIEELRHVLVDILK 186 (353)
T ss_pred HHHHHHHHHhhcCCHHHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence 466777777888999999999999999999886554444444433
No 375
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=28.36 E-value=53 Score=16.74 Aligned_cols=18 Identities=11% Similarity=0.174 Sum_probs=13.1
Q ss_pred HHhcCCchhHHHHHHHHH
Q 042815 17 LAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~ 34 (87)
+=+.|++++|+.+|.+-.
T Consensus 16 ~D~~g~y~eA~~~Y~~ai 33 (76)
T cd02681 16 RDQEGRYSEAVFYYKEAA 33 (76)
T ss_pred HHHccCHHHHHHHHHHHH
Confidence 445788888888887743
No 376
>KOG0508 consensus Ankyrin repeat protein [General function prediction only]
Probab=28.35 E-value=69 Score=22.68 Aligned_cols=25 Identities=16% Similarity=0.308 Sum_probs=20.2
Q ss_pred HHHhcCCchhHHHHHHH---HHHcCCCC
Q 042815 16 GLAKNGKNGMGVELFMS---IEKRGPRP 40 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~---m~~~g~~p 40 (87)
-|+..|+++.++++|.. |++..+.|
T Consensus 346 vyad~g~~~rCi~LWkyAL~mqQk~l~P 373 (615)
T KOG0508|consen 346 VYADSGEFERCIRLWKYALDMQQKNLEP 373 (615)
T ss_pred eecCCccHHHHHHHHHHHHHHHHhhcCC
Confidence 37889999999999985 66776666
No 377
>PF08673 RsbU_N: Phosphoserine phosphatase RsbU, N-terminal domain; InterPro: IPR014787 The phosphoserine phosphatase RsbU acts as a positive regulator of the general stress-response factor of Gram-positive organisms, sigma-B. RsbU dephosphorylates rsbV in response to environmental stress conveyed from the rsbXST module. The phosphatase activity of RsbU is stimulated during the stress response by associating with the RsbT kinase. This association leads to the induction of sigmaB activity. The N-terminal domain forms a helix-swapped dimer that is otherwise similar to the KaiA domain dimer. Deletions in the N-terminal domain are deleterious to the activity of RsbU. The C-terminal domain of RsbU is similar to the catalytic domains of PP2C-type phosphatases [].; PDB: 2J6Y_D 2J6Z_A 2J70_A 1W53_A.
Probab=28.31 E-value=94 Score=15.90 Aligned_cols=35 Identities=6% Similarity=0.071 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhcCCc---hhHHHHHHHHHHcCCCCCHh
Q 042815 9 TSSAMMLGLAKNGKN---GMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 9 ~~~~li~~~~~~g~~---~~a~~l~~~m~~~g~~pd~~ 43 (87)
.|-.++..|.+.++- -+|.++=+++.+.++.|-..
T Consensus 3 ~Y~~lL~~yl~~~~E~~L~~~~~~~r~~i~~~I~PEeI 40 (77)
T PF08673_consen 3 QYKDLLREYLETQDEQSLYQAQEFGRELIEKDISPEEI 40 (77)
T ss_dssp HHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT--HHHH
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHcCCCHHHH
Confidence 477889999998772 35666777778888888544
No 378
>TIGR01321 TrpR trp operon repressor, proteobacterial. This model represents TrpR, the repressor of the trp operon. It is found so far only in the gamma subdivision of the proteobacteria and in Chlamydia trachomatis. All members belong to species capable of tryptophan biosynthesis.
Probab=28.26 E-value=1.1e+02 Score=16.48 Aligned_cols=27 Identities=19% Similarity=-0.025 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
--|..++..+.+..+.++...++..+.
T Consensus 7 ~~w~~~~~ll~~~~~~~~l~~~l~~lL 33 (94)
T TIGR01321 7 QAWEAFLKLLKKADSEDDMQLLLELIL 33 (94)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHhC
Confidence 669999999999999999999998875
No 379
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=28.18 E-value=1.4e+02 Score=17.90 Aligned_cols=44 Identities=16% Similarity=0.076 Sum_probs=35.0
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
..-.|+-+++.++.++....|..|-......+..+.-+.|..-+
T Consensus 5 all~~d~~~~~~~v~~~l~~g~~~~~i~~~~l~p~m~~iG~~w~ 48 (197)
T TIGR02370 5 AIFEGEEDDVVEGAQKALDAGIDPIELIEKGLMAGMGVVGKLFE 48 (197)
T ss_pred HHHhcCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHc
Confidence 34458899999999999999988887777888888877776544
No 380
>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=28.14 E-value=16 Score=18.36 Aligned_cols=25 Identities=20% Similarity=0.328 Sum_probs=20.0
Q ss_pred cCCchhHHHHHHHHHHcCCCCCHhh
Q 042815 20 NGKNGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~~g~~pd~~t 44 (87)
.+...-+.++|..+.+.|+.+|..+
T Consensus 12 ~~~~g~~~~IF~~La~~~I~vDmI~ 36 (75)
T cd04935 12 WQQVGFLADVFAPFKKHGVSVDLVS 36 (75)
T ss_pred CCccCHHHHHHHHHHHcCCcEEEEE
Confidence 4556777889999999999888774
No 381
>KOG4062 consensus 6-O-methylguanine-DNA methyltransferase MGMT/MGT1, involved in DNA repair [Replication, recombination and repair]
Probab=28.11 E-value=36 Score=20.25 Aligned_cols=57 Identities=21% Similarity=0.135 Sum_probs=34.8
Q ss_pred HHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhcccccccchhhhhhccccC
Q 042815 26 GVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQNLWYYIDGQIDAWQAACQI 87 (87)
Q Consensus 26 a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~~~~g~~~~~~~~~~~~~i 87 (87)
+.++=+.+...+..++..|+...|..+...-+-.. -.+..|. +-.....+|+++++|
T Consensus 43 ~~Evqd~~p~l~~~k~~~t~k~~i~~yf~~le~~~~~p~~~~~~-----~t~F~~kVw~al~~i 101 (178)
T KOG4062|consen 43 AVEVQDPAPVLGGPKPLMTCKAWINAYFHQLEAIEEFPVHPVMR-----GTDFQRKVWDALCEI 101 (178)
T ss_pred hhhccccchhhcCCCcchHHHHHHHHHHhChhhcccCCccceec-----cchHHHHHHHHHhcc
Confidence 45566667777878888899999988876532211 2233332 223344567777764
No 382
>smart00535 RIBOc Ribonuclease III family.
Probab=28.06 E-value=1.1e+02 Score=16.53 Aligned_cols=28 Identities=7% Similarity=-0.003 Sum_probs=22.7
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
-++-++|.+....+..+++.+++.++..
T Consensus 96 ~~~eAliGAi~ld~g~~~~~~~i~~~~~ 123 (129)
T smart00535 96 DVFEALIGAIYLDSGLEAAREFIRDLLG 123 (129)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 4778888887777778999999988764
No 383
>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]
Probab=27.99 E-value=2.3e+02 Score=20.34 Aligned_cols=58 Identities=7% Similarity=-0.024 Sum_probs=35.5
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccch--hHH--HHHHhchhc
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKI--FGV--TLMGIQPQN 69 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~--~~~--~~~~~m~~~ 69 (87)
+.++.-+-+.|-+++|...|..+.... .|...-|.-+|.-=..... +.. +.++.+...
T Consensus 464 s~~l~~~~e~~~~~~ark~y~~l~~lp-p~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~ 525 (568)
T KOG2396|consen 464 SKYLDWAYESGGYKKARKVYKSLQELP-PFSLDLFRKMIQFEKEQESCNLANIREYYDRALRE 525 (568)
T ss_pred HHHHHHHHHhcchHHHHHHHHHHHhCC-CccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHH
Confidence 456666777888888888888876543 4455556555543222221 222 777777766
No 384
>TIGR01914 cas_Csa4 CRISPR-associated protein, Csa4 family. CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein that tends to be found near CRISPR repeats. The species range for this species, so far, is exclusively archaeal. It is found so far in only four different species, and includes two tandem genes in Pyrococcus furiosus DSM 3638. This subfamily is found in a CRISPR/Cas locus we designate APERN, so the family is designated Csa4, for CRISPR/Cas Subtype Protein 4.
Probab=27.82 E-value=2e+02 Score=19.43 Aligned_cols=62 Identities=8% Similarity=-0.119 Sum_probs=35.4
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH-HHHHhchhcccccccchhhhhhccc
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV-TLMGIQPQNLWYYIDGQIDAWQAAC 85 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~~~~~~g~~~~~~~~~~~~ 85 (87)
|.|..+.-...++.+.+... |...-..+.++....+.... .++..+.+. |..++...-+++.
T Consensus 286 ~lK~r~~y~~~kfvd~L~r~----d~e~~~~L~~ai~~~~~~~~Ysa~R~~k~~---g~~~~~~~v~~la 348 (354)
T TIGR01914 286 YLKARDFYSWPKFVDFLARR----DPEISLQLTDAILNGDEEAFYTALRELKKS---GVRYDPEQVDALA 348 (354)
T ss_pred HHhhhhhcchHHHHHHHhcc----ChHHHHHHHHHHHcCChhHHHHHHHHHhhc---CCCCCHHHHHHHH
Confidence 45554444556666665433 33446666666666655544 666666665 6666666555543
No 385
>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=27.69 E-value=1.4e+02 Score=17.60 Aligned_cols=51 Identities=10% Similarity=-0.074 Sum_probs=34.7
Q ss_pred HhcCCchhHHHHHHHHH-HcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchh
Q 042815 18 AKNGKNGMGVELFMSIE-KRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQ 68 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~-~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~ 68 (87)
...++.+......+... .....|+...|..++.++...|+.++ ++.+++..
T Consensus 119 ~~~~~~~~l~~~~~~a~~~l~~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~ 172 (193)
T PF11846_consen 119 RLPPDPEMLEAYIEWAERLLRRRPDPNVYQRYALALALLGDPEEARQWLARARR 172 (193)
T ss_pred cCCCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 35555544444434333 23458999999999999999999998 66665543
No 386
>TIGR02878 spore_ypjB sporulation protein YpjB. Members of this protein, YpjB, family are restricted to a subset of endospore-forming bacteria, including Bacillus species but not CLostridium or some others. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon, where sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect. This protein family is not, however, a part of the endospore formation minimal gene set.
Probab=27.62 E-value=61 Score=20.39 Aligned_cols=42 Identities=14% Similarity=0.248 Sum_probs=28.2
Q ss_pred HHHhcCCchhHHHHHHHHHH----cCCCCC-----------HhhHHHHHHHHcccch
Q 042815 16 GLAKNGKNGMGVELFMSIEK----RGPRPN-----------AVTFVGVLTAYGKIKI 57 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~----~g~~pd-----------~~t~~~ll~~~~~~~~ 57 (87)
-++|+|++++|.+++....+ .+..++ +.+|.-..++......
T Consensus 14 Ql~K~~~yeeAkqvL~yFs~~F~~~~~~~~~~~t~~elR~iT~~~e~a~~al~~~~~ 70 (233)
T TIGR02878 14 QLTKQARYEEAKQVLEYFSKQFVSAGKEKDPMLTMDQLRTITLTYERAVQALTATDM 70 (233)
T ss_pred HHHHhhhHHHHHHHHHHHHHHHHhcccccCcccCHHHHHHHHHHHHHHHHHHhhccC
Confidence 47899999999998877643 333333 2466677777776533
No 387
>PRK15331 chaperone protein SicA; Provisional
Probab=27.55 E-value=1.4e+02 Score=17.74 Aligned_cols=42 Identities=14% Similarity=0.078 Sum_probs=25.9
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHccc-chhHH
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKI-KIFGV 60 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~-~~~~~ 60 (87)
+.+.|++++|..+|+-+...+ |...-|..=|.+|... +..++
T Consensus 47 ~y~~Gk~~eA~~~F~~L~~~d--~~n~~Y~~GLaa~~Q~~k~y~~ 89 (165)
T PRK15331 47 FYNQGRLDEAETFFRFLCIYD--FYNPDYTMGLAAVCQLKKQFQK 89 (165)
T ss_pred HHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHHHHHHH
Confidence 456899999999999887643 3334444444455443 44444
No 388
>KOG2076 consensus RNA polymerase III transcription factor TFIIIC [Transcription]
Probab=27.41 E-value=2.8e+02 Score=21.26 Aligned_cols=60 Identities=8% Similarity=0.103 Sum_probs=41.8
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh-hHHHHHHHHcccchhHH--HHHHhc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV-TFVGVLTAYGKIKIFGV--TLMGIQ 66 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~-t~~~ll~~~~~~~~~~~--~~~~~m 66 (87)
.+...|--+-..|...|.+++|.+.|...... .||.. .=.+|-+.+-+.|+.++ +.++.+
T Consensus 447 ~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~ 509 (895)
T KOG2076|consen 447 QNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQI 509 (895)
T ss_pred cchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcc
Confidence 35678999999999999999999999997754 45433 22333344555666666 555554
No 389
>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=27.01 E-value=2.3e+02 Score=20.01 Aligned_cols=42 Identities=19% Similarity=0.229 Sum_probs=31.7
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCC-CHhhHHHHHHHHcccchhHH
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRP-NAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~~~~~~~~ 60 (87)
+.+.|+.++|.--|+.-+. +.| +.-+|.-++++|-..+.+.+
T Consensus 344 L~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~kE 386 (564)
T KOG1174|consen 344 LIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRFKE 386 (564)
T ss_pred HHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchHHH
Confidence 4556788888888888553 344 66788888888888888877
No 390
>KOG2214 consensus Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]
Probab=26.92 E-value=2.4e+02 Score=20.20 Aligned_cols=59 Identities=15% Similarity=0.096 Sum_probs=39.9
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHH----------------------------------cC-CCCCHhhHHHHHHHHc
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEK----------------------------------RG-PRPNAVTFVGVLTAYG 53 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~----------------------------------~g-~~pd~~t~~~ll~~~~ 53 (87)
.|-..++-|.++|...+-..+-+.|+. +. ..||+..|+++..+|+
T Consensus 248 n~~~~ikr~~~~G~~~Di~~l~~~~~~~~~~lTFqEAY~rTGrIlNItV~p~s~~e~P~lLNylTaPnVLIWSAV~aScs 327 (543)
T KOG2214|consen 248 NLLTIIKRYFTQGALFDISHLACVMKKRLGNLTFQEAYDRTGRILNIVVPPSSKSEPPRLLNYLTAPNVLIWSAVCASCS 327 (543)
T ss_pred hHHHHHHHHHhcchHHHHHHHHHHHHHHhcchhHHHHHHhhCceEEEEECccccCCChhHhhccCCCceehhHHHHHhcc
Confidence 556677778888877776665555532 11 3478888888888888
Q ss_pred ccchhHH-HHHHhch
Q 042815 54 KIKIFGV-TLMGIQP 67 (87)
Q Consensus 54 ~~~~~~~-~~~~~m~ 67 (87)
--|-++. .++++-.
T Consensus 328 ~pgif~~~~Ll~Kd~ 342 (543)
T KOG2214|consen 328 VPGIFESTPLLAKDL 342 (543)
T ss_pred cccccCccHHHHhhc
Confidence 8877777 6666553
No 391
>PRK00270 rpsU 30S ribosomal protein S21; Reviewed
Probab=26.88 E-value=72 Score=15.68 Aligned_cols=21 Identities=14% Similarity=0.156 Sum_probs=15.3
Q ss_pred HhcCC-chhHHHHHHHHH-HcCC
Q 042815 18 AKNGK-NGMGVELFMSIE-KRGP 38 (87)
Q Consensus 18 ~~~g~-~~~a~~l~~~m~-~~g~ 38 (87)
.+.|+ +|.|+.-|.... ..|+
T Consensus 6 V~~~e~ie~Alrrfkr~~~k~gi 28 (64)
T PRK00270 6 VRENESIDKALRRFKRKVEKAGI 28 (64)
T ss_pred eCCCChHHHHHHHHHHHHHHcch
Confidence 45677 899999998866 4454
No 392
>PF09571 RE_XcyI: XcyI restriction endonuclease; InterPro: IPR019071 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the restriction endonuclease XcyI, which recognises and cleaves the double-stranded sequence C^CCGGG. ; GO: 0000287 magnesium ion binding, 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=26.82 E-value=26 Score=22.73 Aligned_cols=36 Identities=19% Similarity=0.273 Sum_probs=28.4
Q ss_pred CCcHhHHHHHHHHHHhcCCch--hHH--HHHHHHHHcCCC
Q 042815 4 PRDATTSSAMMLGLAKNGKNG--MGV--ELFMSIEKRGPR 39 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~--~a~--~l~~~m~~~g~~ 39 (87)
.|-.+.|--|+.||.++..+. +.+ ..|+.|.+.|.-
T Consensus 73 nPrligYYRLL~g~SQK~~yr~~~gl~~g~f~~mE~kG~~ 112 (318)
T PF09571_consen 73 NPRLIGYYRLLLGYSQKSFYRMNKGLGFGKFKSMESKGKI 112 (318)
T ss_pred CcHHHHHHHHHHcccHHHhcccccCccccchhhhhhcCCc
Confidence 477899999999999986655 244 789999978744
No 393
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=26.81 E-value=1.6e+02 Score=18.04 Aligned_cols=43 Identities=9% Similarity=-0.097 Sum_probs=34.3
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhH
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFG 59 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~ 59 (87)
....++.+++.++.++..+.++.|-......+..+..+.|..-
T Consensus 8 Al~~~D~~~~~~~l~~al~~~~~~~~ii~~~l~p~m~~vG~~w 50 (213)
T cd02069 8 ALVKGIRDGIEEDTEEARQQYARPLEIINGPLMDGMKVVGDLF 50 (213)
T ss_pred HHHhCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4456899999999999999988887777778888877777643
No 394
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=26.70 E-value=1.3e+02 Score=17.07 Aligned_cols=32 Identities=16% Similarity=0.166 Sum_probs=21.2
Q ss_pred CCCCcHhHHHHHHHHHHh---------cCCchhHHHHHHHH
Q 042815 2 MPPRDATTSSAMMLGLAK---------NGKNGMGVELFMSI 33 (87)
Q Consensus 2 m~~~~~~~~~~li~~~~~---------~g~~~~a~~l~~~m 33 (87)
|+..|...+..+...|.. .|+.++|.++.++.
T Consensus 3 ~~~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~AeD~vQev 43 (173)
T PRK09645 3 MATAEAALMRALYDEHAAPLWRYALRLTGDRARAEDVVQET 43 (173)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 666677666666655543 47778888877664
No 395
>PRK14529 adenylate kinase; Provisional
Probab=26.67 E-value=11 Score=23.34 Aligned_cols=20 Identities=15% Similarity=0.263 Sum_probs=14.6
Q ss_pred chhHHHHHHHHHHcCCCCCH
Q 042815 23 NGMGVELFMSIEKRGPRPNA 42 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~pd~ 42 (87)
.++|..++..+...|+.||.
T Consensus 89 ~~Qa~~l~~~l~~~~~~~~~ 108 (223)
T PRK14529 89 KVQAEKLWEALQKEGMKLDY 108 (223)
T ss_pred HHHHHHHHHHHHhcCCCCCE
Confidence 57888877777677777774
No 396
>PHA02265 hypothetical protein
Probab=26.59 E-value=1.1e+02 Score=16.21 Aligned_cols=37 Identities=14% Similarity=0.114 Sum_probs=26.8
Q ss_pred hhHHHHHHHHH-HcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 24 GMGVELFMSIE-KRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 24 ~~a~~l~~~m~-~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
++-.+++.+|+ +.|.-|..+..++--.+..-.|-+++
T Consensus 4 ~k~~~i~~~mk~el~~~p~~v~~tsk~~a~~i~~~l~k 41 (103)
T PHA02265 4 DKLRAIYTEMKVELHKFPKEVDITSKSTAIAINQILDK 41 (103)
T ss_pred hHHHHHHHHHHHHhccCCCccccccchhHHHHHHHHHH
Confidence 45567899998 56888888887777667666665554
No 397
>PF15436 PGBA_N: Plasminogen-binding protein pgbA N-terminal
Probab=26.56 E-value=80 Score=19.68 Aligned_cols=44 Identities=16% Similarity=0.203 Sum_probs=26.8
Q ss_pred CCCCHhhHHHHHHHHcccchhHHHHHHhchhcccccccchhhhhhc
Q 042815 38 PRPNAVTFVGVLTAYGKIKIFGVTLMGIQPQNLWYYIDGQIDAWQA 83 (87)
Q Consensus 38 ~~pd~~t~~~ll~~~~~~~~~~~~~~~~m~~~~~~g~~~~~~~~~~ 83 (87)
+.||..||..+-+.+-...-+.-.+|...... .|..|....+..
T Consensus 98 IAPn~e~Y~~i~~~~~~i~fihpDl~aa~L~~--~g~~P~~~dfrk 141 (218)
T PF15436_consen 98 IAPNQETYEKIKSSYPNINFIHPDLFAAFLSE--NGHDPTREDFRK 141 (218)
T ss_pred EcCCHHHHHHHHHhCCCceEecHHHHHHHHHh--cCCCCCHHHHHH
Confidence 67888899888888876655544333333323 255666555443
No 398
>PF12376 DUF3654: Protein of unknown function (DUF3654) ; InterPro: IPR022115 This family of proteins is found in eukaryotes. Proteins in this family are typically between 193 and 612 amino acids in length.
Probab=26.27 E-value=1.4e+02 Score=17.24 Aligned_cols=42 Identities=10% Similarity=0.018 Sum_probs=28.2
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVG 47 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ 47 (87)
...+.-..||++|-+.| .+-+.+|..+|...|-..|....+.
T Consensus 91 ~~~idh~lLi~a~~eyg-~eV~~ELVkq~fLe~k~Id~eyIn~ 132 (137)
T PF12376_consen 91 YHYIDHELLIDAHKEYG-GEVVAELVKQVFLEGKEIDKEYINK 132 (137)
T ss_pred eeeecHHHHHHHHHHHC-chHHHHHHHHHHHcCCCCCHHHHHH
Confidence 34556677888887777 7777778888776665555544443
No 399
>PF08491 SE: Squalene epoxidase; InterPro: IPR013698 This domain is found in squalene epoxidase (SE) and related proteins which are found in taxonomically diverse groups of eukaryotes and also in bacteria. SE was first cloned from Saccharomyces cerevisiae (Baker's yeast) where it was named ERG1. It contains a putative FAD binding site and is a key enzyme in the sterol biosynthetic pathway []. Putative transmembrane regions are found to the protein's C terminus. ; GO: 0004506 squalene monooxygenase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=26.21 E-value=1.9e+02 Score=18.75 Aligned_cols=48 Identities=8% Similarity=0.039 Sum_probs=29.8
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHc
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~ 53 (87)
.|++.+..++.....-++.+...+.+++...++ ++...+.|++-.++-
T Consensus 155 ~Dv~lL~~lL~~~~dl~d~~~v~~~l~~f~~~R-k~~~s~iNiLA~aLY 202 (276)
T PF08491_consen 155 NDVVLLRDLLSPIPDLSDTKAVLEALKKFHWKR-KPLSSVINILAQALY 202 (276)
T ss_pred HHHHHHHHHHhhhcCcccHHHHHHHHHHHHHHH-ccchHHHHHHHHHHH
Confidence 477888888888755555444444444443333 667778887776643
No 400
>PRK03971 putative deoxyhypusine synthase; Provisional
Probab=26.11 E-value=31 Score=22.83 Aligned_cols=28 Identities=18% Similarity=0.235 Sum_probs=23.7
Q ss_pred hHHHHHHHHHHh----cCCchhHHHHHHHHHH
Q 042815 8 TTSSAMMLGLAK----NGKNGMGVELFMSIEK 35 (87)
Q Consensus 8 ~~~~~li~~~~~----~g~~~~a~~l~~~m~~ 35 (87)
.+...|+..|.+ .+++.+|.+++.+|.+
T Consensus 29 ~~~~~l~~~~~~~gF~A~~l~~A~~i~~~M~~ 60 (334)
T PRK03971 29 IDLEEVLDYYAKIGFQATHLGKAIKIWKKIEE 60 (334)
T ss_pred CCHHHHHHHHHHcCccHHHHHHHHHHHHHHHh
Confidence 578899999988 4567899999999985
No 401
>cd02680 MIT_calpain7_2 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=26.02 E-value=64 Score=16.46 Aligned_cols=17 Identities=18% Similarity=0.407 Sum_probs=13.2
Q ss_pred hcCCchhHHHHHHHHHH
Q 042815 19 KNGKNGMGVELFMSIEK 35 (87)
Q Consensus 19 ~~g~~~~a~~l~~~m~~ 35 (87)
..|++++|+.+|..-.+
T Consensus 18 ~~gny~eA~~lY~~ale 34 (75)
T cd02680 18 EKGNAEEAIELYTEAVE 34 (75)
T ss_pred HhhhHHHHHHHHHHHHH
Confidence 36889999999887553
No 402
>smart00031 DED Death effector domain.
Probab=25.97 E-value=1e+02 Score=15.56 Aligned_cols=35 Identities=11% Similarity=0.191 Sum_probs=20.2
Q ss_pred chhHHHHHHHHHHcC-CCCCHhhHHHHHHHHcccchhH
Q 042815 23 NGMGVELFMSIEKRG-PRPNAVTFVGVLTAYGKIKIFG 59 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g-~~pd~~t~~~ll~~~~~~~~~~ 59 (87)
...+.++|.+|.+.| +.|+- ...+.+.+-..++.+
T Consensus 37 ~~~~ldlf~~Le~~~~l~~~n--l~~L~elL~~i~R~D 72 (79)
T smart00031 37 IKTFLDLFSALEEQGLLSEDN--LSLLAELLYRLRRLD 72 (79)
T ss_pred cCCHHHHHHHHHHcCCCCCcc--HHHHHHHHHHcCHHH
Confidence 478888999998776 33432 233444444444443
No 403
>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=25.91 E-value=92 Score=16.24 Aligned_cols=23 Identities=17% Similarity=0.463 Sum_probs=16.5
Q ss_pred chhHHHHHHHHHHcC-CCCCHhhH
Q 042815 23 NGMGVELFMSIEKRG-PRPNAVTF 45 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g-~~pd~~t~ 45 (87)
....+++|.+|.+.+ +.||-..+
T Consensus 39 ~~s~Ldlf~eLEk~~~l~~dnl~~ 62 (83)
T cd08813 39 ETTLLDIFIEMEKKGILGEDNLDM 62 (83)
T ss_pred hccHHHHHHHHHhhCCCCCchHHH
Confidence 455788999998776 66766654
No 404
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=25.88 E-value=1e+02 Score=15.46 Aligned_cols=42 Identities=19% Similarity=0.189 Sum_probs=27.8
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHc
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~ 53 (87)
.+|.-..+...+..=.+|...+.+.|+.....|.+--|+-..
T Consensus 8 ~~I~~li~~~~i~sQ~eL~~~L~~~Gi~vTQaTiSRDLkeL~ 49 (70)
T PF01316_consen 8 ELIKELISEHEISSQEELVELLEEEGIEVTQATISRDLKELG 49 (70)
T ss_dssp HHHHHHHHHS---SHHHHHHHHHHTT-T--HHHHHHHHHHHT
T ss_pred HHHHHHHHHCCcCCHHHHHHHHHHcCCCcchhHHHHHHHHcC
Confidence 355666677778778888999999999999999887776554
No 405
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=25.60 E-value=81 Score=19.81 Aligned_cols=20 Identities=25% Similarity=0.295 Sum_probs=16.8
Q ss_pred HHHhcCCchhHHHHHHHHHH
Q 042815 16 GLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~~ 35 (87)
-+.+.|++++|.+++....+
T Consensus 14 qlvk~~~yeeA~q~l~~fs~ 33 (232)
T PF09577_consen 14 QLVKQGKYEEAKQLLEYFSE 33 (232)
T ss_pred HHHHcccHHHHHHHHHHHHH
Confidence 36899999999999888753
No 406
>COG1899 DYS1 Deoxyhypusine synthase [Posttranslational modification, protein turnover, chaperones]
Probab=25.54 E-value=45 Score=21.96 Aligned_cols=30 Identities=13% Similarity=0.155 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHh-----cCCchhHHHHHHHHHHcC
Q 042815 8 TTSSAMMLGLAK-----NGKNGMGVELFMSIEKRG 37 (87)
Q Consensus 8 ~~~~~li~~~~~-----~g~~~~a~~l~~~m~~~g 37 (87)
.+..-+|..|.+ .++..+|.+++++|.+..
T Consensus 20 ~~~~eli~~~~~~~gF~a~~l~eA~~I~~~m~~~~ 54 (318)
T COG1899 20 ISVSELIDEMYKTGGFQARRLAEAVEILREMLESR 54 (318)
T ss_pred CcHHHHHHHHHhhccccchhHHHHHHHHHHHHhhc
Confidence 467778886655 458899999999999774
No 407
>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=25.43 E-value=54 Score=18.60 Aligned_cols=41 Identities=12% Similarity=0.114 Sum_probs=23.9
Q ss_pred HHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccch
Q 042815 17 LAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKI 57 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~ 57 (87)
|.++.-.++.-.+-.+=++.|-+|..++|+++-+-+-.+|.
T Consensus 7 y~s~~v~~~I~~iVe~r~qeGA~~~dvs~SSv~smLlELGL 47 (127)
T PF05261_consen 7 YVSNKVLEEINDIVEERRQEGATEKDVSFSSVSSMLLELGL 47 (127)
T ss_dssp E--HCHHHHHHHHHHHHHCCT-TTTT--HHHHHHHHHHCCC
T ss_pred hhhHHHHHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHhH
Confidence 34444455666666666677888888888887777666653
No 408
>MTH00169 ATP8 ATP synthase F0 subunit 8; Provisional
Probab=25.41 E-value=54 Score=16.35 Aligned_cols=11 Identities=36% Similarity=0.437 Sum_probs=6.4
Q ss_pred CCCCcHhHHHH
Q 042815 2 MPPRDATTSSA 12 (87)
Q Consensus 2 m~~~~~~~~~~ 12 (87)
||+.|..+|.+
T Consensus 1 MPQLd~~~f~s 11 (67)
T MTH00169 1 MPQLDSVTYLT 11 (67)
T ss_pred CCCCchHHHHH
Confidence 56666655543
No 409
>PF13034 DUF3895: Protein of unknown function (DUF3895)
Probab=25.37 E-value=1.1e+02 Score=15.82 Aligned_cols=31 Identities=19% Similarity=0.177 Sum_probs=25.3
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCCCCC
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGPRPN 41 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd 41 (87)
-.+|.-|.++...-.|.++-+.+..+|-.||
T Consensus 6 ~~~i~~yi~n~~~Isa~elcE~LI~~~~~~~ 36 (78)
T PF13034_consen 6 KEFINWYIQNEEEISARELCEYLIENGGSPN 36 (78)
T ss_pred HHHHHHHHhccccccHHHHHHHHHHcCCCcc
Confidence 3567889999999999999999998775544
No 410
>PF04121 Nup84_Nup100: Nuclear pore protein 84 / 107 ; InterPro: IPR007252 Nup84p forms a complex with five proteins, including Nup120p, Nup85p, Sec13p, and a Sec13p homolog. This Nup84p complex in conjunction with Sec13-type proteins is required for correct nuclear pore biogenesis [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 3CQC_A 3CQG_A 3I4R_A 3IKO_I 3JRO_C.
Probab=25.34 E-value=75 Score=23.08 Aligned_cols=27 Identities=26% Similarity=0.325 Sum_probs=22.6
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
..-|.++..|..+|+...|.+++++++
T Consensus 493 ~~~n~l~R~FL~~gkl~AAr~l~~~~~ 519 (697)
T PF04121_consen 493 KQANALYRRFLLNGKLAAARELFERLP 519 (697)
T ss_dssp HHHHHHHHHHHHTT-HHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHhCC
Confidence 456899999999999999999999976
No 411
>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=25.32 E-value=1.1e+02 Score=15.65 Aligned_cols=34 Identities=21% Similarity=0.091 Sum_probs=24.5
Q ss_pred CcHhHHHHHHHHHHhcC----CchhHHHHHHHHHHcCC
Q 042815 5 RDATTSSAMMLGLAKNG----KNGMGVELFMSIEKRGP 38 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g----~~~~a~~l~~~m~~~g~ 38 (87)
|+..+=+-++.-..+++ .-++|.++.++|.+.|+
T Consensus 27 ~~cF~G~e~VdWL~~~~~~~~~r~eAv~lgq~Ll~~g~ 64 (83)
T cd04449 27 SNCFIGSEAVSWLINNFEDVDTREEAVELGQELMNEGL 64 (83)
T ss_pred CcceEhHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCCC
Confidence 45555666777767663 34789999999998885
No 412
>PTZ00030 60S ribosomal protein L20; Provisional
Probab=25.03 E-value=1.4e+02 Score=16.82 Aligned_cols=13 Identities=31% Similarity=0.404 Sum_probs=6.4
Q ss_pred HHHHHHHHHHhcC
Q 042815 9 TSSAMMLGLAKNG 21 (87)
Q Consensus 9 ~~~~li~~~~~~g 21 (87)
+|+.+|.++-++|
T Consensus 66 ~Ys~fi~~L~k~~ 78 (121)
T PTZ00030 66 TYSRFINGLNNSN 78 (121)
T ss_pred CHHHHHHHHHHcC
Confidence 4555555554443
No 413
>COG4397 Mu-like prophage major head subunit gpT [General function prediction only]
Probab=24.91 E-value=94 Score=19.69 Aligned_cols=25 Identities=16% Similarity=0.402 Sum_probs=17.2
Q ss_pred HHHHHH-HcCCCCCHhhHHHHHHHHc
Q 042815 29 LFMSIE-KRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 29 l~~~m~-~~g~~pd~~t~~~ll~~~~ 53 (87)
+|++|- ..+++||...|..|=.+.+
T Consensus 102 l~~EmGRAaav~pDELVFaaL~~g~~ 127 (308)
T COG4397 102 LFQEMGRAAAVQPDELVFAALRDGIS 127 (308)
T ss_pred HHHHHhHhhccCchHHHHHHHHhhhh
Confidence 566665 4578888888877765544
No 414
>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]
Probab=24.83 E-value=1.4e+02 Score=17.45 Aligned_cols=19 Identities=5% Similarity=0.015 Sum_probs=10.4
Q ss_pred HHHhcCCchhHHHHHHHHH
Q 042815 16 GLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 16 ~~~~~g~~~~a~~l~~~m~ 34 (87)
|+.+.+++++++.+.+.+.
T Consensus 80 g~yRlkeY~~s~~yvd~ll 98 (149)
T KOG3364|consen 80 GHYRLKEYSKSLRYVDALL 98 (149)
T ss_pred HHHHHhhHHHHHHHHHHHH
Confidence 4555555555555555544
No 415
>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]
Probab=24.76 E-value=1.1e+02 Score=20.41 Aligned_cols=43 Identities=12% Similarity=0.071 Sum_probs=31.5
Q ss_pred HHHHhcCCchhHHHHHHHHHHcCCCCCHhhHH-------HHHHHHcccch
Q 042815 15 LGLAKNGKNGMGVELFMSIEKRGPRPNAVTFV-------GVLTAYGKIKI 57 (87)
Q Consensus 15 ~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~-------~ll~~~~~~~~ 57 (87)
....+..++++|...|.++...|+.-|..+-+ .+.+.|...|+
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 44567889999999999999998877765544 45555555544
No 416
>PRK05185 rplT 50S ribosomal protein L20; Provisional
Probab=24.62 E-value=1.4e+02 Score=16.62 Aligned_cols=13 Identities=8% Similarity=0.225 Sum_probs=6.5
Q ss_pred hHHHHHHHHcccc
Q 042815 44 TFVGVLTAYGKIK 56 (87)
Q Consensus 44 t~~~ll~~~~~~~ 56 (87)
+|+.++.++.+.+
T Consensus 74 ~Ys~fi~~L~~~~ 86 (114)
T PRK05185 74 SYSRFINGLKKAG 86 (114)
T ss_pred CHHHHHHHHHHhC
Confidence 3555555555444
No 417
>PF09670 Cas_Cas02710: CRISPR-associated protein (Cas_Cas02710)
Probab=24.54 E-value=2.3e+02 Score=19.06 Aligned_cols=33 Identities=9% Similarity=-0.001 Sum_probs=24.4
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
-|..... ..+.+++..|.++|.++... +.++..
T Consensus 134 ~~~~a~~-l~n~~~y~aA~~~l~~l~~r-l~~~~~ 166 (379)
T PF09670_consen 134 EWRRAKE-LFNRYDYGAAARILEELLRR-LPGREE 166 (379)
T ss_pred HHHHHHH-HHhcCCHHHHHHHHHHHHHh-CCchhh
Confidence 3444444 45889999999999999877 666555
No 418
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.
Probab=24.28 E-value=62 Score=16.41 Aligned_cols=18 Identities=11% Similarity=0.100 Sum_probs=12.8
Q ss_pred HHhcCCchhHHHHHHHHH
Q 042815 17 LAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~ 34 (87)
+=+.|++++|+.+|.+-.
T Consensus 16 ~D~~g~y~eAl~~Y~~ai 33 (77)
T cd02683 16 LDQEGRFQEALVCYQEGI 33 (77)
T ss_pred HHHhccHHHHHHHHHHHH
Confidence 345788888888877743
No 419
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=24.28 E-value=2e+02 Score=20.01 Aligned_cols=33 Identities=9% Similarity=0.023 Sum_probs=24.2
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhh
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t 44 (87)
..++.+ .+.+++++|..++.+|...|..|....
T Consensus 248 ~~li~s-i~~~d~~~Al~~l~~ll~~Gedp~~i~ 280 (472)
T PRK14962 248 RDYINA-IFNGDVKRVFTVLDDVYYSGKDYEVLI 280 (472)
T ss_pred HHHHHH-HHcCCHHHHHHHHHHHHHcCCCHHHHH
Confidence 344443 456889999999999998887776543
No 420
>KOG3279 consensus Uncharacterized conserved protein (melanoma antigen P15) [Function unknown]
Probab=24.14 E-value=1e+02 Score=19.34 Aligned_cols=29 Identities=14% Similarity=0.011 Sum_probs=25.9
Q ss_pred CcHhHHHHHHHHHHhcCCchhHHHHHHHH
Q 042815 5 RDATTSSAMMLGLAKNGKNGMGVELFMSI 33 (87)
Q Consensus 5 ~~~~~~~~li~~~~~~g~~~~a~~l~~~m 33 (87)
++++.|+-+++.|.+---.++++++.++.
T Consensus 115 ~~~v~~s~ild~y~~v~vteRtl~LIDE~ 143 (283)
T KOG3279|consen 115 RRSVVHSHVLDCYMSVVVTERTLELIDEC 143 (283)
T ss_pred hhHHHHHHHHhhhheeeehHHHHHHHHHh
Confidence 68899999999999988889999998884
No 421
>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=24.11 E-value=1.1e+02 Score=15.08 Aligned_cols=33 Identities=27% Similarity=0.171 Sum_probs=21.6
Q ss_pred cHhHHHHHHHHHHhc---CCchhHHHHHHHHHHcCC
Q 042815 6 DATTSSAMMLGLAKN---GKNGMGVELFMSIEKRGP 38 (87)
Q Consensus 6 ~~~~~~~li~~~~~~---g~~~~a~~l~~~m~~~g~ 38 (87)
+..+=..++.-...+ ..-++|.++.+.|...|+
T Consensus 27 ~~F~G~e~v~WL~~~~~~~~r~ea~~~~~~ll~~g~ 62 (81)
T cd04371 27 NCFTGSELVDWLLDNLEAITREEAVELGQALLKHGL 62 (81)
T ss_pred ceeEcHHHHHHHHHhCCCCCHHHHHHHHHHHHHCCC
Confidence 333444455555544 456889999999988875
No 422
>PRK01221 putative deoxyhypusine synthase; Provisional
Probab=23.94 E-value=79 Score=20.81 Aligned_cols=30 Identities=17% Similarity=0.106 Sum_probs=24.8
Q ss_pred hHHHHHHHHHHhc-----CCchhHHHHHHHHHHcC
Q 042815 8 TTSSAMMLGLAKN-----GKNGMGVELFMSIEKRG 37 (87)
Q Consensus 8 ~~~~~li~~~~~~-----g~~~~a~~l~~~m~~~g 37 (87)
.+...|+..|.+. ++..+|.+++++|...+
T Consensus 20 ~~~~~lv~~~~~~~gF~a~~l~~A~~i~~~ml~d~ 54 (312)
T PRK01221 20 TSISDLIEVYRKIGGFMAGHIVRASEILKEMISDA 54 (312)
T ss_pred CCHHHHHHHhhccCCcchHHHHHHHHHHHHHHcCC
Confidence 5788999998885 56789999999998443
No 423
>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=23.92 E-value=1.4e+02 Score=16.27 Aligned_cols=39 Identities=8% Similarity=-0.097 Sum_probs=25.8
Q ss_pred CCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhH
Q 042815 21 GKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFG 59 (87)
Q Consensus 21 g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~ 59 (87)
.+.+...+.........+-|+.+|=+.+++.+.+...++
T Consensus 10 qDp~~GIk~~~~~~~~tv~~hcftGsdVVdWLv~~~~v~ 48 (99)
T cd04445 10 KDPEKGIKELNLEKDKKVFNHCFTGSCVIDWLVSNQSVR 48 (99)
T ss_pred hCcccchhhhhHHHhhccccceecccHHHHHHHHhhccc
Confidence 455666666666666667777777777777776665554
No 424
>PF10414 CysG_dimeriser: Sirohaem synthase dimerisation region; InterPro: IPR019478 Bacterial sulphur metabolism depends on the iron-containing porphinoid sirohaem. CysG is a multi-functional enzyme with S-adenosyl-L-methionine (SAM)-dependent bismethyltransferase, dehydrogenase and ferrochelatase activities. CysG synthesizes sirohaem from uroporphyrinogen III via reactions which encompass two branchpoint intermediates in tetrapyrrole biosynthesis, diverting flux first from protoporphyrin IX biosynthesis and then from cobalamin (vitamin B12) biosynthesis. CysG is a dimer. Its dimerisation region is 74 residues long, and acts to hold the two structurally similar protomers held together asymmetrically through a number of salt-bridges across complementary residues within the dimerisation region []. CysG dimerisation produces a series of active sites, accounting for CysG's multi-functionality, catalysing four diverse reactions: Two SAM-dependent methylations NAD+-dependent tetrapyrrole dehydrogenation Metal chelation ; GO: 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 1PJT_A 1PJS_A 1PJQ_A.
Probab=23.85 E-value=98 Score=14.60 Aligned_cols=23 Identities=13% Similarity=0.057 Sum_probs=16.7
Q ss_pred HHHHHHHhcCCchhHHHHHHHHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
.=+......|+.++|...+++..
T Consensus 37 g~~~~~~~~g~~~~A~~~l~~~L 59 (60)
T PF10414_consen 37 GPFAELVLAGDEEEAEALLEQAL 59 (60)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred CHHHHHHHCCCHHHHHHHHHHhh
Confidence 33456778899999999988754
No 425
>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=23.69 E-value=1.2e+02 Score=15.41 Aligned_cols=28 Identities=11% Similarity=0.092 Sum_probs=12.7
Q ss_pred cHhHHHHHHHHHHhcC----CchhHHHHHHHH
Q 042815 6 DATTSSAMMLGLAKNG----KNGMGVELFMSI 33 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g----~~~~a~~l~~~m 33 (87)
+..+...+-+.|.... -.|.-.++|.++
T Consensus 4 ~~~a~~~l~~rYl~k~~~g~~~Etpq~~~~RV 35 (83)
T PF00317_consen 4 SYNAAKVLYDRYLLKDEDGKVIETPQEMFMRV 35 (83)
T ss_dssp SHHHHHHHHHHTS-BETTSCB--SHHHHHHHH
T ss_pred CHHHHHHHHHhhCccCCCcCEeeCHHHHHHHH
Confidence 3444555566666532 234555555554
No 426
>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=23.67 E-value=66 Score=16.06 Aligned_cols=25 Identities=16% Similarity=0.182 Sum_probs=20.3
Q ss_pred cCCchhHHHHHHHHHHcCCCCCHhh
Q 042815 20 NGKNGMGVELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~~g~~pd~~t 44 (87)
.+...-+.++|..+.+.|+.+|..+
T Consensus 12 ~~~~g~~~~IF~~La~~~I~VDmI~ 36 (75)
T cd04932 12 LHAQGFLAKVFGILAKHNISVDLIT 36 (75)
T ss_pred CCCcCHHHHHHHHHHHcCCcEEEEe
Confidence 3556778889999999999888774
No 427
>CHL00068 rpl20 ribosomal protein L20
Probab=23.19 E-value=1.5e+02 Score=16.52 Aligned_cols=16 Identities=19% Similarity=0.260 Sum_probs=8.8
Q ss_pred CHhhHHHHHHHHcccc
Q 042815 41 NAVTFVGVLTAYGKIK 56 (87)
Q Consensus 41 d~~t~~~ll~~~~~~~ 56 (87)
...+|+.++.++...+
T Consensus 72 ~glsYs~fi~gL~~~~ 87 (115)
T CHL00068 72 NGVSYSKFIHNLYKNQ 87 (115)
T ss_pred cCCCHHHHHHHHHHcC
Confidence 3345666666665554
No 428
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=23.18 E-value=1.6e+02 Score=22.89 Aligned_cols=48 Identities=10% Similarity=0.125 Sum_probs=35.1
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHH--HHHHHHcc
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFV--GVLTAYGK 54 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~--~ll~~~~~ 54 (87)
...|.-+|..|+...++..|.+.+.+|...--..|..+|. +.++..++
T Consensus 1330 ~~~~a~lie~~v~~k~y~~AyRal~el~~k~p~~~~s~~v~~s~vdkv~~ 1379 (1416)
T KOG3617|consen 1330 TRLFALLIEDHVSRKNYKPAYRALTELQKKVPNVDLSTFVETSTVDKVCD 1379 (1416)
T ss_pred HHHHHHHHHHHHhhhhccHHHHHHHHHhhcCCccchhccccHHHHHHHHH
Confidence 4578888999999999999999999998775555666663 34444443
No 429
>PF05476 PET122: PET122; InterPro: IPR008732 The nuclear PET122 gene of Saccharomyces cerevisiae encodes a mitochondrial-localised protein that activates initiation of translation of the mitochondrial mRNA from the COX3 gene, which encodes subunit III of cytochrome c oxidase [].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation, 0005740 mitochondrial envelope
Probab=22.73 E-value=1e+02 Score=19.86 Aligned_cols=50 Identities=6% Similarity=-0.221 Sum_probs=31.9
Q ss_pred HhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH--HHHHhchhc
Q 042815 18 AKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV--TLMGIQPQN 69 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~--~~~~~m~~~ 69 (87)
|-+|+++++++.++.++...+ |..-.-..+.--|+-|+++. -+|.+.+..
T Consensus 21 CLNr~Fd~vL~~~R~~p~~em--d~~fLq~yL~~S~qwgHv~Si~yIW~k~Vmr 72 (267)
T PF05476_consen 21 CLNREFDDVLAELRQIPVDEM--DYSFLQLYLARSCQWGHVPSIDYIWYKYVMR 72 (267)
T ss_pred HhhhhHHHHHHHHHcCcHhHh--hHHHHHHHHHHHHHHhcchHHHHHHHHHHhh
Confidence 456888998888888765543 44444444555556677766 666665544
No 430
>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=22.65 E-value=1.1e+02 Score=14.91 Aligned_cols=35 Identities=14% Similarity=0.099 Sum_probs=24.3
Q ss_pred hhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH
Q 042815 24 GMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
+.+.+++..-... .+...|...|+.++-+.|.-+.
T Consensus 41 ~~~~~~L~~W~~~--~~~~at~~~L~~aL~~~~~~d~ 75 (83)
T PF00531_consen 41 EQTYEMLQRWRQR--EGPNATVDQLIQALRDIGRNDL 75 (83)
T ss_dssp HHHHHHHHHHHHH--HGSTSSHHHHHHHHHHTTHHHH
T ss_pred HHHHHHHHHHHHh--cCCCCcHHHHHHHHHHCCcHHH
Confidence 6666666666555 4466678888888888877655
No 431
>PHA01754 hypothetical protein
Probab=22.41 E-value=1.2e+02 Score=14.94 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=11.0
Q ss_pred hHHHHHHHHHHcCCCC
Q 042815 25 MGVELFMSIEKRGPRP 40 (87)
Q Consensus 25 ~a~~l~~~m~~~g~~p 40 (87)
+...+.++|+...++|
T Consensus 48 EViKvvkemrr~~vkp 63 (69)
T PHA01754 48 EVVKVVKEMRRLQVKP 63 (69)
T ss_pred HHHHHHHHHHHcccCc
Confidence 4455677888777776
No 432
>KOG2127 consensus Calmodulin-binding protein CRAG, contains DENN domain [Signal transduction mechanisms]
Probab=22.34 E-value=2e+02 Score=22.45 Aligned_cols=55 Identities=11% Similarity=-0.096 Sum_probs=42.1
Q ss_pred CCCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccch
Q 042815 3 PPRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKI 57 (87)
Q Consensus 3 ~~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~ 57 (87)
+.||...|-++.+-+...+...+.....-+|+..|+.++..++.-+-++.-+...
T Consensus 415 ~~p~~~~~r~l~~l~~~~~~g~~~V~~~~~~k~s~~~~~~i~~~~l~~~vke~~k 469 (1020)
T KOG2127|consen 415 DVPTEYCYRSLMRLSEHEWAGVESVPGHIEMKLSGIESNAHTQGVLNDHVKESQK 469 (1020)
T ss_pred ccchHHHHHHHHhhcccccchhHHHHHHHHHHhcccccccccchhhhhhhhhhcC
Confidence 3478889999999888887776666667778888999999988877766544433
No 433
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=22.28 E-value=3.2e+02 Score=19.96 Aligned_cols=61 Identities=15% Similarity=0.164 Sum_probs=44.3
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH-HHHHhchh
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV-TLMGIQPQ 68 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~~ 68 (87)
|-...-++|.-|.++....-...+..+|..-| -+...|-.++++|...+.-.. .+|+++.+
T Consensus 65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en~n~~l~~lWer~ve 126 (711)
T COG1747 65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKENGNEQLYSLWERLVE 126 (711)
T ss_pred cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence 44566678888888888888888888888765 367778888888887754444 66665543
No 434
>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=22.19 E-value=80 Score=15.98 Aligned_cols=14 Identities=21% Similarity=0.261 Sum_probs=10.5
Q ss_pred hHHHHHHHHHHcCC
Q 042815 25 MGVELFMSIEKRGP 38 (87)
Q Consensus 25 ~a~~l~~~m~~~g~ 38 (87)
++.+=|++|++.|+
T Consensus 53 D~~kdFerM~~~G~ 66 (70)
T cd00927 53 DAMKDFERMRKAGL 66 (70)
T ss_pred ChHHHHHHHHHcCC
Confidence 45566899998886
No 435
>PRK07143 hypothetical protein; Provisional
Probab=22.05 E-value=97 Score=19.94 Aligned_cols=25 Identities=12% Similarity=0.177 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHhcCCchhHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKNGMGVELFMS 32 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~~~a~~l~~~ 32 (87)
..-++.|.-+.+.|++++|-+++-+
T Consensus 149 ~ISST~IR~~l~~G~i~~A~~lLGr 173 (279)
T PRK07143 149 KISTSLLKEFIEFGDIELLNSLLLY 173 (279)
T ss_pred EEcHHHHHHHHHcCCHHHHHHHcCC
Confidence 3457888999999999999988754
No 436
>PF02631 RecX: RecX family; InterPro: IPR003783 RecX is a putative bacterial regulatory protein []. The gene encoding RecX is found downstream of recA, and it is suggested that the RecX protein might be regulator of RecA activity by interaction with the RecA protein or filament [].; GO: 0006282 regulation of DNA repair; PDB: 3DFG_A 3D5L_B 3C1D_B 3E3V_A.
Probab=21.60 E-value=1.5e+02 Score=16.00 Aligned_cols=45 Identities=11% Similarity=-0.079 Sum_probs=18.7
Q ss_pred hHHHHHHHHHHcCCCCCHhhHHHHHHHHcccchhHH-HHHHhchhc
Q 042815 25 MGVELFMSIEKRGPRPNAVTFVGVLTAYGKIKIFGV-TLMGIQPQN 69 (87)
Q Consensus 25 ~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~~~~~-~~~~~m~~~ 69 (87)
.+..+..++...|..=|..--...+......+.... .+-..+..+
T Consensus 10 ~I~~vi~~l~~~gyidD~~ya~~~v~~~~~~~~~G~~~I~~~L~~k 55 (121)
T PF02631_consen 10 AIEEVIDRLKELGYIDDERYAESYVRSRLRRKGKGPRRIRQKLKQK 55 (121)
T ss_dssp HHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHTT--HHHHHHHHHHT
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHhcccccccHHHHHHHHHHH
Confidence 344455555555554333333344444443233333 444444444
No 437
>PRK13713 conjugal transfer protein TraM; Provisional
Probab=21.54 E-value=1.7e+02 Score=16.46 Aligned_cols=20 Identities=25% Similarity=0.398 Sum_probs=8.9
Q ss_pred HHcCCCCCHhhHHHHHHHHc
Q 042815 34 EKRGPRPNAVTFVGVLTAYG 53 (87)
Q Consensus 34 ~~~g~~pd~~t~~~ll~~~~ 53 (87)
++.|-+|..++|+++-+-+-
T Consensus 17 rqEGA~~~Dvs~SSv~sMLL 36 (118)
T PRK13713 17 RQEGAREKDVSFSSVASMLL 36 (118)
T ss_pred HHcCCCccCccHHHHHHHHH
Confidence 34444444444444444433
No 438
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=21.32 E-value=1.2e+02 Score=14.82 Aligned_cols=17 Identities=18% Similarity=0.425 Sum_probs=8.2
Q ss_pred HHHHHHHHcCCCCCHhh
Q 042815 28 ELFMSIEKRGPRPNAVT 44 (87)
Q Consensus 28 ~l~~~m~~~g~~pd~~t 44 (87)
++|.-+.+.++.||..+
T Consensus 23 eIya~L~ecnMDpnea~ 39 (60)
T PF06972_consen 23 EIYAMLKECNMDPNEAV 39 (60)
T ss_pred HHHHHHHHhCCCHHHHH
Confidence 44444445555555443
No 439
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=21.31 E-value=3.6e+02 Score=20.31 Aligned_cols=40 Identities=15% Similarity=0.137 Sum_probs=28.4
Q ss_pred CcH-hHHHHHHHHHHh---cCCchhHHHHHHHHHHcCCCCCHhhH
Q 042815 5 RDA-TTSSAMMLGLAK---NGKNGMGVELFMSIEKRGPRPNAVTF 45 (87)
Q Consensus 5 ~~~-~~~~~li~~~~~---~g~~~~a~~l~~~m~~~g~~pd~~t~ 45 (87)
|++ -.||+-+.-+.+ .-+.|.|..||++..+ |+.|.-.-+
T Consensus 544 p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKt 587 (835)
T KOG2047|consen 544 PNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKT 587 (835)
T ss_pred ccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHH
Confidence 444 368877776666 2458999999999987 777765544
No 440
>COG4105 ComL DNA uptake lipoprotein [General function prediction only]
Probab=21.30 E-value=2.4e+02 Score=18.12 Aligned_cols=44 Identities=16% Similarity=0.249 Sum_probs=23.0
Q ss_pred HHhcCCchhHHHHHHHHHHcC-CCC-CHhhHHHHHHHHcccchhHH
Q 042815 17 LAKNGKNGMGVELFMSIEKRG-PRP-NAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~g-~~p-d~~t~~~ll~~~~~~~~~~~ 60 (87)
-.+.|++++|...|+.+...- ..| ...+..-++-+.-+.++.+.
T Consensus 44 ~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~ 89 (254)
T COG4105 44 ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDL 89 (254)
T ss_pred HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHH
Confidence 445666666666666665331 222 22344445555555555555
No 441
>COG3099 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.21 E-value=81 Score=16.91 Aligned_cols=31 Identities=13% Similarity=0.280 Sum_probs=21.4
Q ss_pred chhHHHHHHHHHHcCCCC-CHhhHHHHHHHHc
Q 042815 23 NGMGVELFMSIEKRGPRP-NAVTFVGVLTAYG 53 (87)
Q Consensus 23 ~~~a~~l~~~m~~~g~~p-d~~t~~~ll~~~~ 53 (87)
++.|..+|-+|....+.| |..-|+.-+.--+
T Consensus 14 id~AYDIFLEmA~dNLdPADiiLFnlQFeeRG 45 (108)
T COG3099 14 IDQAYDIFLEMAADNLDPADILLFNLQFEERG 45 (108)
T ss_pred HHHHHHHHHHHccccCChhHeEEEeeeecccC
Confidence 578899999998877777 4445655544433
No 442
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=21.12 E-value=63 Score=14.93 Aligned_cols=24 Identities=17% Similarity=0.309 Sum_probs=18.6
Q ss_pred CchhHHHHHHHHHHcCCCCCHhhH
Q 042815 22 KNGMGVELFMSIEKRGPRPNAVTF 45 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g~~pd~~t~ 45 (87)
..+-..++|+.+.+.|+.++..+.
T Consensus 14 ~~~~~~~i~~~l~~~~I~v~~i~~ 37 (66)
T cd04922 14 TPGVAATFFSALAKANVNIRAIAQ 37 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEe
Confidence 455677899999999998877654
No 443
>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=21.02 E-value=1e+02 Score=13.91 Aligned_cols=18 Identities=28% Similarity=0.397 Sum_probs=11.7
Q ss_pred hhHHHHHHHHHHcCCCCC
Q 042815 24 GMGVELFMSIEKRGPRPN 41 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~pd 41 (87)
+...++.+-+.+.|..||
T Consensus 29 ~tr~rI~~~a~~lgY~pN 46 (46)
T PF00356_consen 29 ETRERILEAAEELGYRPN 46 (46)
T ss_dssp HHHHHHHHHHHHHTB-SS
T ss_pred HHHHHHHHHHHHHCCCCC
Confidence 444557777778888886
No 444
>PF08465 Herpes_TK_C: Thymidine kinase from Herpesvirus C-terminal; InterPro: IPR013672 This domain is found towards the C terminus in Herpesvirus Thymidine kinases. ; GO: 0004797 thymidine kinase activity, 0005524 ATP binding
Probab=21.01 E-value=54 Score=14.00 Aligned_cols=21 Identities=19% Similarity=0.230 Sum_probs=11.5
Q ss_pred HHHHhchhcccccccchhhhhhc
Q 042815 61 TLMGIQPQNLWYYIDGQIDAWQA 83 (87)
Q Consensus 61 ~~~~~m~~~~~~g~~~~~~~~~~ 83 (87)
+++.+..++ ..++|-...|++
T Consensus 12 ~IY~qi~kn--~aIKt~~~~W~a 32 (33)
T PF08465_consen 12 EIYTQILKN--PAIKTRFVDWAA 32 (33)
T ss_pred HHHHHHHhC--ccccceeccccc
Confidence 455555554 456665555554
No 445
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=20.90 E-value=1.5e+02 Score=20.95 Aligned_cols=32 Identities=3% Similarity=-0.018 Sum_probs=24.6
Q ss_pred HHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHh
Q 042815 11 SAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAV 43 (87)
Q Consensus 11 ~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~ 43 (87)
-.|+.+. ..|+.++|+.+++++...|..|...
T Consensus 262 f~L~~ai-~~~d~~~Al~~l~~L~~~g~~~~~~ 293 (507)
T PRK06645 262 IEFVEYI-IHRETEKAINLINKLYGSSVNLEIF 293 (507)
T ss_pred HHHHHHH-HcCCHHHHHHHHHHHHHcCCCHHHH
Confidence 3444544 4589999999999999999887654
No 446
>KOG4496 consensus Predicted coiled-coil protein [Function unknown]
Probab=20.86 E-value=81 Score=18.58 Aligned_cols=21 Identities=14% Similarity=0.207 Sum_probs=13.8
Q ss_pred cCCchhHHHHHHHHHHcCCCCCH
Q 042815 20 NGKNGMGVELFMSIEKRGPRPNA 42 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~~g~~pd~ 42 (87)
.|-.+.| +.++|..+|+.||.
T Consensus 144 lGV~~~a--i~nKMiSEGlDPdi 164 (194)
T KOG4496|consen 144 LGVLEAA--IINKMISEGLDPDI 164 (194)
T ss_pred hccHHHH--HHHHHHHccCCHHH
Confidence 4544443 45888888888764
No 447
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=20.86 E-value=1e+02 Score=19.92 Aligned_cols=24 Identities=17% Similarity=0.040 Sum_probs=20.1
Q ss_pred HhcCCchhHHHHHHHHHHcCCCCC
Q 042815 18 AKNGKNGMGVELFMSIEKRGPRPN 41 (87)
Q Consensus 18 ~~~g~~~~a~~l~~~m~~~g~~pd 41 (87)
.-.|+..+|..+++.+...|..|-
T Consensus 222 i~~~~~~~a~~~l~~ll~~g~~p~ 245 (343)
T PRK06585 222 ALAGDLAAFERALDRALAEGTAPV 245 (343)
T ss_pred HHCCCHHHHHHHHHHHHHcCCCHH
Confidence 345789999999999999998774
No 448
>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function.
Probab=20.81 E-value=2.4e+02 Score=18.31 Aligned_cols=34 Identities=18% Similarity=0.165 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhcCCchhHHHHHHHHHHcCC-CCCH
Q 042815 9 TSSAMMLGLAKNGKNGMGVELFMSIEKRGP-RPNA 42 (87)
Q Consensus 9 ~~~~li~~~~~~g~~~~a~~l~~~m~~~g~-~pd~ 42 (87)
.+--+..-..++|..|.|..+|+-+.+..+ .|+.
T Consensus 156 v~~r~~~fl~~aG~~E~Ava~~Qa~lE~n~~~P~~ 190 (321)
T PF08424_consen 156 VFLRLCRFLRQAGYTERAVALWQALLEFNFFRPES 190 (321)
T ss_pred HHHHHHHHHHHCCchHHHHHHHHHHHHHHcCCccc
Confidence 344445556679999999999999987764 4544
No 449
>PF03299 TF_AP-2: Transcription factor AP-2; InterPro: IPR013854 Activator protein-2 (AP-2) transcription factors constitute a family of closely related and evolutionarily conserved proteins that bind to the DNA consensus sequence GCCNNNGGC and stimulate target gene transcription [, ]. Four different isoforms of AP-2 have been identified in mammals, termed AP-2 alpha, beta, gamma and delta. Each family member shares a common structure, possessing a proline/glutamine-rich domain in the N-terminal region, which is responsible for transcriptional activation [], and a helix-span-helix domain in the C-terminal region, which mediates dimerisation and site-specific DNA binding []. The AP-2 family have been shown to be critical regulators of gene expression during embryogenesis. They regulate the development of facial prominence and limb buds, and are essential for cranial closure and development of the lens []; they have also been implicated in tumourigenesis. AP-2 protein expression levels have been found to affect cell transformation, tumour growth and metastasis, and may predict survival in some types of cancer [, ] This entry represents the C-terminal region of these proteins, including the helix-span-helix domain.
Probab=20.80 E-value=2.2e+02 Score=17.55 Aligned_cols=41 Identities=17% Similarity=0.230 Sum_probs=28.0
Q ss_pred HHHHHHHhcCCchhHHHHHHHHH-HcCCCC--------CHhhHHHHHHHH
Q 042815 12 AMMLGLAKNGKNGMGVELFMSIE-KRGPRP--------NAVTFVGVLTAY 52 (87)
Q Consensus 12 ~li~~~~~~g~~~~a~~l~~~m~-~~g~~p--------d~~t~~~ll~~~ 52 (87)
+++.++.+.++....-+.+++.. +.|+.. +..+|++++++=
T Consensus 41 S~lg~~LRraK~k~~g~~lr~~L~~~gi~l~~~rrk~~~~t~~tsL~EgE 90 (209)
T PF03299_consen 41 SLLGGVLRRAKSKNGGRSLREKLEKHGINLPAGRRKAANVTLFTSLVEGE 90 (209)
T ss_pred HHHHHHHHHhcccchHHHHHHHHHHcCCCCccccccccccchhHHHHHHH
Confidence 67888888887766666666654 566553 456778887764
No 450
>TIGR00876 tal_mycobact transaldolase, mycobacterial type. This model describes one of three related but easily separable famiiles of known and putative transaldolases. This family and the family typified by E. coli TalA and TalB both contain experimentally verified examples.
Probab=20.62 E-value=1.6e+02 Score=19.76 Aligned_cols=32 Identities=13% Similarity=0.160 Sum_probs=22.7
Q ss_pred HHHHHhcCCc---------hhHHHHHHHHHHcCCCCCHhhH
Q 042815 14 MLGLAKNGKN---------GMGVELFMSIEKRGPRPNAVTF 45 (87)
Q Consensus 14 i~~~~~~g~~---------~~a~~l~~~m~~~g~~pd~~t~ 45 (87)
|.+|..+|.. ++|..+|..+...||..+.++=
T Consensus 290 l~Af~dhg~~~~~~l~~~~~~a~~~l~~l~~~GId~~~v~~ 330 (350)
T TIGR00876 290 IDAVADDGNIECDTPLGTASDAEAFFDELGAHGIDLEDTAA 330 (350)
T ss_pred HHHHHHcCCcCCCCCCCcHHHHHHHHHHHHHcCCCHHHHHH
Confidence 5667776664 4788889998888887655443
No 451
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=20.58 E-value=1.2e+02 Score=21.57 Aligned_cols=33 Identities=21% Similarity=0.345 Sum_probs=22.3
Q ss_pred hhHHHHHHHHHHcCCCCCHhhHHHHHHHHcccc
Q 042815 24 GMGVELFMSIEKRGPRPNAVTFVGVLTAYGKIK 56 (87)
Q Consensus 24 ~~a~~l~~~m~~~g~~pd~~t~~~ll~~~~~~~ 56 (87)
.++.++-.+-.-.-+.|...||.++|+-|++..
T Consensus 542 r~gkQlASQ~ilq~lHPh~~twGSlLriYGr~s 574 (650)
T KOG4334|consen 542 RQGKQLASQRILQKLHPHLLTWGSLLRIYGRLS 574 (650)
T ss_pred hHHHHHHHHHHHHHhCHHhhhHHHHHHHhhhhh
Confidence 344444444334445899999999999998763
No 452
>PF06855 DUF1250: Protein of unknown function (DUF1250); InterPro: IPR023089 This entry represents the YozE-like domain found in a group of proteins of unknown function.; PDB: 2KVS_A 2FJ6_A 2O6K_B.
Probab=20.53 E-value=99 Score=13.93 Aligned_cols=29 Identities=17% Similarity=0.000 Sum_probs=17.5
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~ 34 (87)
+...|..+..=+-.++....+++.|++.-
T Consensus 14 ~~~~~~eI~~Yle~~~~~~~~~~~fd~aw 42 (46)
T PF06855_consen 14 QETDFDEISSYLESNYDYLESMEIFDRAW 42 (46)
T ss_dssp T-SSHHHHHHHHHCHCCHHCCHHHHHHHH
T ss_pred CCCCHHHHHHHHHHhcCchhHHHHHHHHH
Confidence 44556666655555676667777777653
No 453
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.45 E-value=62 Score=14.96 Aligned_cols=24 Identities=13% Similarity=0.165 Sum_probs=18.6
Q ss_pred CchhHHHHHHHHHHcCCCCCHhhH
Q 042815 22 KNGMGVELFMSIEKRGPRPNAVTF 45 (87)
Q Consensus 22 ~~~~a~~l~~~m~~~g~~pd~~t~ 45 (87)
..+-+.++|..+.+.|+.++..+.
T Consensus 14 ~~~~~~~i~~~L~~~~i~v~~i~~ 37 (66)
T cd04916 14 TVGVSARATAALAKAGINIRMINQ 37 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEe
Confidence 355667799999999999877755
No 454
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.45 E-value=2.5e+02 Score=19.79 Aligned_cols=31 Identities=10% Similarity=0.104 Sum_probs=23.6
Q ss_pred HHHHHHHHHhcCCchhHHHHHHHHHHcCCCCC
Q 042815 10 SSAMMLGLAKNGKNGMGVELFMSIEKRGPRPN 41 (87)
Q Consensus 10 ~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd 41 (87)
.-.|+.+. ..++.++|+.+++++...|..|.
T Consensus 245 if~Li~al-~~~d~~~Al~~l~~Ll~~G~~~~ 275 (504)
T PRK14963 245 LRGIAAAL-AQGDAAEALSGAAQLYRDGFAAR 275 (504)
T ss_pred HHHHHHHH-HcCCHHHHHHHHHHHHHcCCCHH
Confidence 44455555 55889999999999999986654
No 455
>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=20.41 E-value=1.8e+02 Score=20.36 Aligned_cols=44 Identities=14% Similarity=0.055 Sum_probs=26.4
Q ss_pred HHhcCCchhHHHHHHHHHHc---CCCCCHhhHHHHHHHHcccchhHH
Q 042815 17 LAKNGKNGMGVELFMSIEKR---GPRPNAVTFVGVLTAYGKIKIFGV 60 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~~~---g~~pd~~t~~~ll~~~~~~~~~~~ 60 (87)
..++|.+.+|.+.|.+-+.- .++|+..-|...-....+.|++++
T Consensus 259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~e 305 (486)
T KOG0550|consen 259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLRE 305 (486)
T ss_pred HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchh
Confidence 35678888888888885532 244444455544445555555554
No 456
>PF06983 3-dmu-9_3-mt: 3-demethylubiquinone-9 3-methyltransferase; PDB: 1U7I_A 1TSJ_A 1U69_D 3L20_B 3OMS_A.
Probab=20.29 E-value=91 Score=17.00 Aligned_cols=16 Identities=19% Similarity=0.376 Sum_probs=12.5
Q ss_pred cCCchhHHHHHHHHHH
Q 042815 20 NGKNGMGVELFMSIEK 35 (87)
Q Consensus 20 ~g~~~~a~~l~~~m~~ 35 (87)
+|+.++|.++|.+...
T Consensus 10 ~g~a~eA~~fY~~vf~ 25 (116)
T PF06983_consen 10 NGNAEEALEFYKEVFG 25 (116)
T ss_dssp SS-HHHHHHHHHHHST
T ss_pred CCCHHHHHHHHHHHcC
Confidence 6889999999999753
No 457
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.
Probab=20.19 E-value=93 Score=15.45 Aligned_cols=18 Identities=11% Similarity=0.143 Sum_probs=13.5
Q ss_pred HHhcCCchhHHHHHHHHH
Q 042815 17 LAKNGKNGMGVELFMSIE 34 (87)
Q Consensus 17 ~~~~g~~~~a~~l~~~m~ 34 (87)
.=+.|++++|+.+|.+-.
T Consensus 16 ~D~~g~y~eA~~~Y~~ai 33 (75)
T cd02678 16 EDNAGNYEEALRLYQHAL 33 (75)
T ss_pred HHHcCCHHHHHHHHHHHH
Confidence 345788999998888744
No 458
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=20.18 E-value=2.5e+02 Score=21.58 Aligned_cols=40 Identities=3% Similarity=-0.017 Sum_probs=30.8
Q ss_pred CCcHhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhH
Q 042815 4 PRDATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTF 45 (87)
Q Consensus 4 ~~~~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~ 45 (87)
..+...|-.||..|-..+++++|.++..+-.+. .|+...+
T Consensus 28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~ 67 (906)
T PRK14720 28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISA 67 (906)
T ss_pred cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceeh
Confidence 356778999999999999999999998865433 5555533
No 459
>PF03735 ENT: ENT domain; InterPro: IPR005491 This entry represents a protein regulator which is able to repress transcription, possibly via its interaction with a multi protein chromatin re-modeling complex that modifies the chromatin. Its interaction with BRCA2 suggests that it may play a central role in the DNA repair function of BRCA2 []. ; PDB: 1UZ3_B 1UTU_B 2FMM_E.
Probab=20.12 E-value=1.1e+02 Score=15.53 Aligned_cols=27 Identities=11% Similarity=0.129 Sum_probs=16.1
Q ss_pred hHHHHHHHHHHhcCCc-hhHHHHHHHHH
Q 042815 8 TTSSAMMLGLAKNGKN-GMGVELFMSIE 34 (87)
Q Consensus 8 ~~~~~li~~~~~~g~~-~~a~~l~~~m~ 34 (87)
.+|.+++.++...|.+ .+-..++.++.
T Consensus 11 eAY~svl~Af~Aqg~lsweke~lLt~Lr 38 (73)
T PF03735_consen 11 EAYSSVLRAFRAQGPLSWEKEKLLTELR 38 (73)
T ss_dssp HHHHHHHHHHHHHSS--HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence 4677788877777743 22344555554
No 460
>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=20.08 E-value=48 Score=12.99 Aligned_cols=12 Identities=8% Similarity=0.202 Sum_probs=6.0
Q ss_pred CHhhHHHHHHHH
Q 042815 41 NAVTFVGVLTAY 52 (87)
Q Consensus 41 d~~t~~~ll~~~ 52 (87)
|..++..+|++|
T Consensus 14 ~~~~l~~LlS~C 25 (26)
T PF07723_consen 14 DEDSLERLLSGC 25 (26)
T ss_pred ChhHHHHhhccC
Confidence 444555555544
No 461
>KOG3583 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.05 E-value=1.4e+02 Score=18.84 Aligned_cols=36 Identities=14% Similarity=0.045 Sum_probs=24.3
Q ss_pred HhHHHHHHHHHHhcCCchhHHHHHHHHHHcCCCCCHhhHH
Q 042815 7 ATTSSAMMLGLAKNGKNGMGVELFMSIEKRGPRPNAVTFV 46 (87)
Q Consensus 7 ~~~~~~li~~~~~~g~~~~a~~l~~~m~~~g~~pd~~t~~ 46 (87)
+..||-+|++...+ +.++.+-+ ....+.+|+.-||+
T Consensus 139 I~~yNK~is~ll~~--lsk~~re~--tEs~~~~piqQT~n 174 (279)
T KOG3583|consen 139 IAAYNKNISGLLNH--LSKVDREH--TESAIEKPIQQTYN 174 (279)
T ss_pred HHHHHHHHHHHHHH--HHHHHHHH--HHhhhcCccccccC
Confidence 46788888887765 55555544 33566788888875
No 462
>KOG1147 consensus Glutamyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.04 E-value=49 Score=23.77 Aligned_cols=25 Identities=16% Similarity=0.391 Sum_probs=17.8
Q ss_pred HHHHHHHcCCCCCHhhHHH-----HHHHHc
Q 042815 29 LFMSIEKRGPRPNAVTFVG-----VLTAYG 53 (87)
Q Consensus 29 l~~~m~~~g~~pd~~t~~~-----ll~~~~ 53 (87)
++..+...||+||.+||++ +++-|.
T Consensus 255 IleDl~~LgIkpd~~TyTSDyF~~i~dycv 284 (712)
T KOG1147|consen 255 ILEDLSLLGIKPDRVTYTSDYFDEIMDYCV 284 (712)
T ss_pred HHHHHHHhCcCcceeeechhhHHHHHHHHH
Confidence 4555666799999999874 555554
No 463
>PF14858 DUF4486: Domain of unknown function (DUF4486)
Probab=20.03 E-value=2.1e+02 Score=20.53 Aligned_cols=30 Identities=7% Similarity=-0.129 Sum_probs=25.6
Q ss_pred cHhHHHHHHHHHHhcCCchhHHHHHHHHHH
Q 042815 6 DATTSSAMMLGLAKNGKNGMGVELFMSIEK 35 (87)
Q Consensus 6 ~~~~~~~li~~~~~~g~~~~a~~l~~~m~~ 35 (87)
-+..|+++..+|...|..++|+.+-++...
T Consensus 196 R~~Ly~avc~cY~d~~~~~~A~~farraL~ 225 (542)
T PF14858_consen 196 RVTLYTAVCQCYEDCQAGEHAEAFARRALA 225 (542)
T ss_pred HHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence 346799999999999999999998887653
Done!