Query 004549
Match_columns 745
No_of_seqs 141 out of 532
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 01:15:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004549.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004549hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1980 Uncharacterized conser 100.0 4E-166 9E-171 1358.5 46.6 690 2-741 6-702 (754)
2 COG5192 BMS1 GTP-binding prote 100.0 4E-130 9E-135 1059.2 28.6 689 6-742 2-886 (1077)
3 COG5177 Uncharacterized conser 100.0 2E-125 5E-130 1011.1 30.4 681 4-740 8-717 (769)
4 PF04950 DUF663: Protein of un 100.0 7.9E-89 1.7E-93 723.5 3.5 252 486-741 1-257 (297)
5 smart00785 AARP2CN AARP2CN (NU 100.0 1.5E-33 3.2E-38 245.9 10.1 82 228-309 1-83 (83)
6 PF08142 AARP2CN: AARP2CN (NUC 100.0 5.9E-33 1.3E-37 243.6 9.4 82 228-309 1-85 (85)
7 cd01882 BMS1 Bms1. Bms1 is an 100.0 3.5E-31 7.6E-36 273.3 21.6 206 45-263 7-223 (225)
8 PRK12735 elongation factor Tu; 98.6 5.5E-06 1.2E-10 93.1 22.5 214 75-304 8-263 (396)
9 CHL00071 tufA elongation facto 98.6 7.8E-06 1.7E-10 92.2 23.4 215 75-305 8-272 (409)
10 PRK12736 elongation factor Tu; 98.6 8.5E-06 1.8E-10 91.5 22.6 213 76-304 9-261 (394)
11 PRK10512 selenocysteinyl-tRNA- 98.5 7.8E-06 1.7E-10 96.6 21.7 209 80-309 1-228 (614)
12 PRK00049 elongation factor Tu; 98.4 1.3E-05 2.9E-10 90.0 20.6 161 122-297 74-253 (396)
13 PTZ00327 eukaryotic translatio 98.4 2.2E-05 4.8E-10 89.7 21.6 165 122-295 116-289 (460)
14 TIGR00485 EF-Tu translation el 98.4 3.5E-05 7.5E-10 86.6 22.1 170 122-305 74-262 (394)
15 TIGR00475 selB selenocysteine- 98.4 4.6E-05 9.9E-10 89.7 23.4 206 80-310 1-231 (581)
16 PRK04000 translation initiatio 98.4 4.7E-05 1E-09 86.0 22.6 163 123-295 85-257 (411)
17 PLN03126 Elongation factor Tu; 98.3 5.1E-05 1.1E-09 87.2 22.6 162 122-298 143-331 (478)
18 PLN03127 Elongation factor Tu; 98.3 5.8E-05 1.2E-09 86.2 22.2 215 76-305 58-315 (447)
19 TIGR03680 eif2g_arch translati 98.3 5.6E-05 1.2E-09 85.3 21.8 163 122-293 79-251 (406)
20 PF00009 GTP_EFTU: Elongation 98.3 2.1E-05 4.5E-10 78.8 16.4 107 121-237 68-183 (188)
21 PTZ00141 elongation factor 1- 98.0 0.00073 1.6E-08 77.2 21.6 174 122-305 84-283 (446)
22 PF10662 PduV-EutP: Ethanolami 97.9 6.4E-05 1.4E-09 72.7 9.2 130 82-236 4-141 (143)
23 cd01888 eIF2_gamma eIF2-gamma 97.9 0.00033 7.2E-09 71.3 15.0 113 123-243 83-201 (203)
24 cd01884 EF_Tu EF-Tu subfamily. 97.8 0.00087 1.9E-08 68.2 16.8 96 122-226 64-166 (195)
25 CHL00189 infB translation init 97.7 0.0014 2.9E-08 79.0 19.5 207 77-306 242-467 (742)
26 PRK12317 elongation factor 1-a 97.7 0.0044 9.4E-08 70.4 21.6 171 122-305 83-275 (425)
27 TIGR01394 TypA_BipA GTP-bindin 97.7 0.0045 9.7E-08 73.3 22.0 169 122-305 63-253 (594)
28 TIGR00487 IF-2 translation ini 97.6 0.0031 6.8E-08 74.4 19.9 195 78-293 86-298 (587)
29 cd04171 SelB SelB subfamily. 97.6 0.0024 5.1E-08 61.1 15.6 131 81-225 2-148 (164)
30 PRK05306 infB translation init 97.6 0.004 8.8E-08 75.6 20.7 203 77-307 288-510 (787)
31 TIGR00483 EF-1_alpha translati 97.6 0.0085 1.8E-07 68.1 22.4 172 122-306 84-278 (426)
32 cd04165 GTPBP1_like GTPBP1-lik 97.4 0.004 8.6E-08 64.8 15.7 80 122-211 83-168 (224)
33 TIGR02034 CysN sulfate adenyly 97.4 0.0063 1.4E-07 68.8 17.5 171 122-307 79-269 (406)
34 cd01887 IF2_eIF5B IF2/eIF5B (i 97.3 0.0077 1.7E-07 58.0 15.2 144 81-239 2-164 (168)
35 PRK05124 cysN sulfate adenylyl 97.3 0.018 3.9E-07 66.5 19.9 173 122-309 106-299 (474)
36 PLN00043 elongation factor 1-a 97.2 0.027 5.8E-07 64.6 21.0 173 122-306 84-284 (447)
37 TIGR00491 aIF-2 translation in 97.2 0.03 6.5E-07 66.2 21.8 174 125-313 71-287 (590)
38 PRK10218 GTP-binding protein; 97.2 0.028 6.1E-07 66.7 21.3 168 122-304 67-256 (607)
39 cd01889 SelB_euk SelB subfamil 97.2 0.0078 1.7E-07 60.4 14.4 113 122-244 67-189 (192)
40 PRK05506 bifunctional sulfate 97.2 0.029 6.3E-07 67.1 21.4 172 122-309 103-295 (632)
41 TIGR01393 lepA GTP-binding pro 97.0 0.08 1.7E-06 62.9 22.9 166 122-305 69-239 (595)
42 cd04166 CysN_ATPS CysN_ATPS su 97.0 0.015 3.2E-07 59.5 13.9 65 122-194 76-142 (208)
43 PRK00089 era GTPase Era; Revie 97.0 0.019 4.2E-07 61.6 15.4 142 81-241 7-171 (292)
44 PRK04004 translation initiatio 96.9 0.093 2E-06 62.2 22.0 213 80-312 7-288 (586)
45 PRK05433 GTP-binding protein L 96.9 0.14 3E-06 60.9 23.1 166 122-305 73-243 (600)
46 cd01895 EngA2 EngA2 subfamily. 96.9 0.034 7.3E-07 53.2 15.1 133 79-225 2-157 (174)
47 cd01886 EF-G Elongation factor 96.8 0.022 4.9E-07 60.9 14.0 81 122-212 63-146 (270)
48 PRK00093 GTP-binding protein D 96.7 0.043 9.3E-07 62.3 16.6 132 77-225 171-326 (435)
49 cd04170 EF-G_bact Elongation f 96.7 0.026 5.7E-07 60.0 13.7 78 123-210 64-144 (268)
50 cd04169 RF3 RF3 subfamily. Pe 96.7 0.026 5.7E-07 60.3 13.4 64 122-194 70-135 (267)
51 COG3276 SelB Selenocysteine-sp 96.6 0.047 1E-06 61.4 15.4 163 123-306 50-222 (447)
52 cd01883 EF1_alpha Eukaryotic e 96.6 0.033 7.2E-07 57.4 13.4 102 122-225 76-187 (219)
53 cd04168 TetM_like Tet(M)-like 96.5 0.041 9E-07 57.7 13.5 81 122-211 63-145 (237)
54 cd01891 TypA_BipA TypA (tyrosi 96.5 0.1 2.2E-06 52.3 15.9 111 122-241 64-192 (194)
55 TIGR03598 GTPase_YsxC ribosome 96.5 0.05 1.1E-06 53.9 13.1 133 77-225 17-172 (179)
56 PRK15494 era GTPase Era; Provi 96.4 0.069 1.5E-06 59.0 15.3 141 79-241 52-216 (339)
57 KOG0461 Selenocysteine-specifi 96.4 0.15 3.3E-06 55.7 16.6 163 126-304 73-251 (522)
58 TIGR03594 GTPase_EngA ribosome 96.4 0.086 1.9E-06 59.7 16.0 132 77-225 170-326 (429)
59 TIGR00436 era GTP-binding prot 96.3 0.085 1.8E-06 56.2 14.6 139 81-239 2-162 (270)
60 PRK14845 translation initiatio 96.2 0.22 4.9E-06 62.4 19.3 177 124-315 527-746 (1049)
61 cd04163 Era Era subfamily. Er 96.0 0.19 4.1E-06 47.4 13.8 140 79-236 3-164 (168)
62 cd00154 Rab Rab family. Rab G 95.9 0.15 3.2E-06 47.7 12.6 139 82-236 3-157 (159)
63 cd01890 LepA LepA subfamily. 95.9 0.22 4.9E-06 48.5 14.3 106 122-239 66-175 (179)
64 cd04160 Arfrp1 Arfrp1 subfamil 95.9 0.17 3.7E-06 48.7 13.2 134 82-225 2-151 (167)
65 COG0532 InfB Translation initi 95.8 0.14 3.1E-06 58.9 14.1 148 78-240 4-172 (509)
66 cd00881 GTP_translation_factor 95.6 0.44 9.6E-06 46.4 15.4 110 122-240 61-186 (189)
67 PRK00454 engB GTP-binding prot 95.5 0.38 8.2E-06 47.7 14.5 127 80-224 25-175 (196)
68 PRK12739 elongation factor G; 95.5 0.17 3.7E-06 61.3 14.0 79 122-210 72-153 (691)
69 cd00880 Era_like Era (E. coli 95.4 0.39 8.4E-06 44.4 13.5 103 123-236 45-159 (163)
70 PRK00007 elongation factor G; 95.3 0.18 4E-06 61.0 13.7 82 122-212 74-157 (693)
71 KOG0458 Elongation factor 1 al 95.3 0.55 1.2E-05 54.6 16.6 179 121-310 253-460 (603)
72 COG5257 GCD11 Translation init 95.3 0.38 8.3E-06 52.4 14.2 133 120-259 83-220 (415)
73 PRK13351 elongation factor G; 95.3 0.25 5.3E-06 59.8 14.6 81 122-211 72-154 (687)
74 COG1159 Era GTPase [General fu 94.9 0.41 8.8E-06 51.7 13.2 143 81-241 8-172 (298)
75 cd01897 NOG NOG1 is a nucleola 94.8 0.64 1.4E-05 44.7 13.4 138 81-237 2-164 (168)
76 cd01885 EF2 EF2 (for archaea a 94.8 0.37 7.9E-06 50.2 12.3 64 122-194 72-137 (222)
77 PRK03003 GTP-binding protein D 94.8 0.83 1.8E-05 52.8 16.4 128 78-224 210-363 (472)
78 PRK00741 prfC peptide chain re 94.7 0.38 8.1E-06 56.5 13.6 80 122-210 78-159 (526)
79 PRK12740 elongation factor G; 94.7 0.93 2E-05 54.7 17.2 80 122-211 59-141 (668)
80 cd04167 Snu114p Snu114p subfam 94.7 0.46 1E-05 48.6 12.6 65 121-194 69-135 (213)
81 PRK03003 GTP-binding protein D 94.6 0.27 6E-06 56.7 12.1 109 70-194 29-158 (472)
82 cd00876 Ras Ras family. The R 94.6 0.63 1.4E-05 43.9 12.6 102 82-194 2-116 (160)
83 TIGR02528 EutP ethanolamine ut 94.5 0.25 5.4E-06 46.4 9.4 90 82-194 3-100 (142)
84 cd01878 HflX HflX subfamily. 94.5 0.63 1.4E-05 46.8 13.0 101 80-194 42-165 (204)
85 TIGR00503 prfC peptide chain r 94.4 0.42 9.1E-06 56.1 13.0 82 122-212 79-162 (527)
86 cd04152 Arl4_Arl7 Arl4/Arl7 su 94.3 0.99 2.2E-05 44.8 13.7 104 79-194 3-121 (183)
87 PRK09518 bifunctional cytidyla 94.2 0.93 2E-05 55.2 15.8 127 79-224 450-602 (712)
88 smart00175 RAB Rab subfamily o 94.1 0.58 1.3E-05 44.6 11.4 101 82-194 3-117 (164)
89 KOG1145 Mitochondrial translat 94.1 0.42 9.1E-06 55.3 11.6 133 77-224 151-297 (683)
90 TIGR03594 GTPase_EngA ribosome 94.1 0.31 6.7E-06 55.1 10.9 97 81-194 1-119 (429)
91 cd01894 EngA1 EngA1 subfamily. 94.0 0.73 1.6E-05 43.3 11.7 63 123-194 45-117 (157)
92 cd04146 RERG_RasL11_like RERG/ 94.0 1 2.2E-05 43.4 12.8 137 82-238 2-161 (165)
93 cd01876 YihA_EngB The YihA (En 93.9 1.6 3.4E-05 41.2 13.7 73 142-224 79-152 (170)
94 PRK07560 elongation factor EF- 93.8 2 4.2E-05 52.6 17.6 64 122-194 86-151 (731)
95 cd04114 Rab30 Rab30 subfamily. 93.8 0.62 1.3E-05 44.9 11.0 102 80-194 8-124 (169)
96 cd01866 Rab2 Rab2 subfamily. 93.8 1 2.2E-05 43.7 12.5 102 81-194 6-121 (168)
97 TIGR00484 EF-G translation elo 93.7 0.66 1.4E-05 56.2 13.3 80 122-210 74-155 (689)
98 cd04159 Arl10_like Arl10-like 93.7 1.2 2.5E-05 41.7 12.2 99 82-194 2-113 (159)
99 cd04161 Arl2l1_Arl13_like Arl2 93.6 0.47 1E-05 46.3 9.8 99 82-194 2-112 (167)
100 PRK12296 obgE GTPase CgtA; Rev 93.6 1.3 2.9E-05 51.5 14.8 132 82-225 162-322 (500)
101 cd04151 Arl1 Arl1 subfamily. 93.6 1.1 2.5E-05 42.8 12.2 139 82-237 2-156 (158)
102 cd04157 Arl6 Arl6 subfamily. 93.5 1.4 3.1E-05 41.8 12.8 100 82-194 2-116 (162)
103 cd04153 Arl5_Arl8 Arl5/Arl8 su 93.5 1.5 3.2E-05 43.1 13.1 144 79-237 15-172 (174)
104 cd01861 Rab6 Rab6 subfamily. 93.4 1.1 2.4E-05 42.6 11.8 101 82-194 3-117 (161)
105 TIGR00231 small_GTP small GTP- 93.4 1 2.2E-05 41.6 11.2 100 80-194 2-120 (161)
106 cd04156 ARLTS1 ARLTS1 subfamil 93.2 2.3 4.9E-05 40.5 13.7 100 82-194 2-113 (160)
107 PRK12298 obgE GTPase CgtA; Rev 93.2 1.4 2.9E-05 49.9 13.8 144 82-239 162-331 (390)
108 cd01898 Obg Obg subfamily. Th 93.2 1.2 2.6E-05 42.8 11.8 142 82-237 3-167 (170)
109 COG5256 TEF1 Translation elong 92.9 0.44 9.5E-06 53.5 9.1 101 122-224 84-192 (428)
110 cd01862 Rab7 Rab7 subfamily. 92.8 2.1 4.6E-05 41.1 12.8 102 81-194 2-121 (172)
111 KOG0466 Translation initiation 92.7 0.73 1.6E-05 49.8 9.9 163 123-293 125-296 (466)
112 COG1160 Predicted GTPases [Gen 92.6 1.7 3.7E-05 49.5 13.3 133 78-225 177-333 (444)
113 cd04113 Rab4 Rab4 subfamily. 92.5 1.5 3.3E-05 41.8 11.3 136 82-237 3-158 (161)
114 PTZ00416 elongation factor 2; 92.4 0.57 1.2E-05 58.0 10.2 64 122-194 91-156 (836)
115 cd01860 Rab5_related Rab5-rela 92.3 2.3 5E-05 40.5 12.3 102 81-194 3-118 (163)
116 cd01863 Rab18 Rab18 subfamily. 92.2 2.4 5.2E-05 40.4 12.3 100 82-194 3-118 (161)
117 cd04136 Rap_like Rap-like subf 92.1 1.9 4.1E-05 41.0 11.4 102 81-194 3-118 (163)
118 cd04149 Arf6 Arf6 subfamily. 92.0 2.7 5.8E-05 41.1 12.6 101 80-194 10-122 (168)
119 cd04106 Rab23_lke Rab23-like s 92.0 2.4 5.3E-05 40.3 12.1 137 82-238 3-160 (162)
120 smart00173 RAS Ras subfamily o 91.8 2.5 5.4E-05 40.4 11.9 101 82-194 3-117 (164)
121 cd04158 ARD1 ARD1 subfamily. 91.7 3 6.6E-05 40.6 12.6 100 82-194 2-112 (169)
122 cd04145 M_R_Ras_like M-Ras/R-R 91.7 3.1 6.7E-05 39.6 12.4 106 81-194 4-119 (164)
123 PRK15467 ethanolamine utilizat 91.6 2.3 4.9E-05 41.5 11.5 139 81-244 3-150 (158)
124 TIGR03156 GTP_HflX GTP-binding 91.6 2.6 5.6E-05 47.0 13.3 103 77-194 188-313 (351)
125 PRK09866 hypothetical protein; 91.6 0.91 2E-05 54.0 9.9 93 123-225 230-335 (741)
126 cd04125 RabA_like RabA-like su 91.4 4.1 8.9E-05 40.3 13.4 101 82-194 3-117 (188)
127 PF01926 MMR_HSR1: 50S ribosom 91.3 1.2 2.6E-05 40.6 8.8 90 82-187 2-113 (116)
128 cd04124 RabL2 RabL2 subfamily. 91.3 9.4 0.0002 36.7 15.5 100 82-194 3-116 (161)
129 cd01868 Rab11_like Rab11-like. 91.3 3.1 6.8E-05 39.8 12.1 102 81-194 5-120 (165)
130 cd04110 Rab35 Rab35 subfamily. 91.3 4.3 9.3E-05 40.9 13.5 103 80-194 7-122 (199)
131 cd00879 Sar1 Sar1 subfamily. 91.0 4.7 0.0001 39.8 13.4 102 79-194 19-132 (190)
132 cd04123 Rab21 Rab21 subfamily. 91.0 3.5 7.7E-05 38.9 11.9 104 82-194 3-117 (162)
133 PRK00093 GTP-binding protein D 90.7 2.1 4.6E-05 48.6 11.9 98 81-194 3-121 (435)
134 cd04150 Arf1_5_like Arf1-Arf5- 90.7 4.1 8.9E-05 39.3 12.3 100 82-194 3-113 (159)
135 PRK04213 GTP-binding protein; 90.7 6.6 0.00014 39.2 14.2 150 79-238 9-189 (201)
136 cd01869 Rab1_Ypt1 Rab1/Ypt1 su 90.6 3.4 7.4E-05 39.7 11.6 101 81-194 4-119 (166)
137 cd01864 Rab19 Rab19 subfamily. 90.6 2.1 4.6E-05 41.2 10.2 102 81-194 5-120 (165)
138 TIGR00490 aEF-2 translation el 90.6 1.7 3.6E-05 53.1 11.4 64 122-194 85-150 (720)
139 cd04139 RalA_RalB RalA/RalB su 90.5 4 8.7E-05 38.6 11.9 102 81-194 2-117 (164)
140 PF08477 Miro: Miro-like prote 90.5 1.3 2.9E-05 40.1 8.2 74 82-156 2-85 (119)
141 cd04142 RRP22 RRP22 subfamily. 90.4 4.6 0.0001 40.9 12.9 141 82-237 3-170 (198)
142 cd04135 Tc10 TC10 subfamily. 90.1 4.1 8.9E-05 39.4 11.8 101 82-194 3-116 (174)
143 cd00157 Rho Rho (Ras homology) 90.1 4.3 9.3E-05 38.9 11.8 103 81-194 2-116 (171)
144 smart00178 SAR Sar1p-like memb 89.9 2.4 5.2E-05 42.2 10.1 100 80-194 18-130 (184)
145 PLN00116 translation elongatio 89.9 1.5 3.2E-05 54.5 10.3 63 122-193 97-161 (843)
146 cd01852 AIG1 AIG1 (avrRpt2-ind 89.8 6 0.00013 39.7 13.0 150 81-242 2-185 (196)
147 PRK11058 GTPase HflX; Provisio 89.5 5.1 0.00011 45.9 13.6 105 76-194 195-321 (426)
148 cd04119 RJL RJL (RabJ-Like) su 89.5 4.4 9.5E-05 38.4 11.3 101 82-194 3-122 (168)
149 cd00878 Arf_Arl Arf (ADP-ribos 89.5 6.5 0.00014 37.3 12.5 99 82-194 2-112 (158)
150 cd00882 Ras_like_GTPase Ras-li 89.4 5.5 0.00012 35.9 11.4 67 121-194 43-114 (157)
151 cd01892 Miro2 Miro2 subfamily. 89.3 2.6 5.5E-05 41.3 9.7 102 80-194 5-120 (169)
152 PTZ00133 ADP-ribosylation fact 89.2 6.3 0.00014 39.2 12.5 102 80-194 18-130 (182)
153 cd04155 Arl3 Arl3 subfamily. 88.8 8 0.00017 37.3 12.7 102 78-194 13-127 (173)
154 cd04111 Rab39 Rab39 subfamily. 88.7 5.9 0.00013 40.5 12.2 103 81-194 4-121 (211)
155 cd01893 Miro1 Miro1 subfamily. 88.6 11 0.00023 36.4 13.5 102 82-194 3-115 (166)
156 cd04120 Rab12 Rab12 subfamily. 88.5 5.6 0.00012 40.7 11.8 101 81-194 2-117 (202)
157 cd04104 p47_IIGP_like p47 (47- 88.3 6.8 0.00015 39.5 12.3 132 79-226 1-165 (197)
158 cd04108 Rab36_Rab34 Rab34/Rab3 88.3 7.1 0.00015 38.2 12.1 101 82-194 3-118 (170)
159 cd04105 SR_beta Signal recogni 88.3 6.1 0.00013 40.2 11.9 103 81-194 2-121 (203)
160 cd04154 Arl2 Arl2 subfamily. 88.2 16 0.00034 35.6 14.4 102 79-194 14-127 (173)
161 PRK12299 obgE GTPase CgtA; Rev 88.1 4.9 0.00011 44.5 11.9 98 82-194 161-283 (335)
162 cd04115 Rab33B_Rab33A Rab33B/R 87.9 6.3 0.00014 38.2 11.4 101 81-194 4-121 (170)
163 cd04138 H_N_K_Ras_like H-Ras/N 87.7 12 0.00026 35.2 13.0 101 82-194 4-118 (162)
164 cd01867 Rab8_Rab10_Rab13_like 87.7 3.9 8.4E-05 39.5 9.7 102 80-194 4-120 (167)
165 cd04162 Arl9_Arfrp2_like Arl9/ 87.6 4.7 0.0001 39.2 10.2 101 82-194 2-111 (164)
166 cd04176 Rap2 Rap2 subgroup. T 87.4 8.5 0.00018 36.7 11.8 102 81-194 3-118 (163)
167 cd04164 trmE TrmE (MnmE, ThdF, 87.3 4.3 9.3E-05 38.0 9.5 96 81-194 3-119 (157)
168 PRK09518 bifunctional cytidyla 87.0 3.8 8.2E-05 50.0 11.1 101 80-194 276-395 (712)
169 cd04147 Ras_dva Ras-dva subfam 86.9 11 0.00023 37.9 12.6 101 82-194 2-116 (198)
170 cd04112 Rab26 Rab26 subfamily. 86.5 8.4 0.00018 38.4 11.6 100 82-194 3-118 (191)
171 PLN03118 Rab family protein; P 86.5 9.5 0.00021 38.7 12.2 105 78-194 13-132 (211)
172 cd04177 RSR1 RSR1 subgroup. R 86.5 8.7 0.00019 37.1 11.4 106 81-194 3-118 (168)
173 PF02421 FeoB_N: Ferrous iron 86.4 2.1 4.6E-05 42.3 7.0 98 81-194 2-117 (156)
174 cd01870 RhoA_like RhoA-like su 86.3 14 0.00029 35.7 12.7 101 82-194 4-117 (175)
175 cd04143 Rhes_like Rhes_like su 86.2 16 0.00034 38.6 13.9 155 82-251 3-181 (247)
176 PRK09435 membrane ATPase/prote 86.1 9.6 0.00021 42.3 12.6 34 123-157 149-182 (332)
177 cd01865 Rab3 Rab3 subfamily. 86.0 9.4 0.0002 36.7 11.3 101 82-194 4-118 (165)
178 COG0050 TufB GTPases - transla 85.8 45 0.00097 36.6 16.7 204 78-298 11-252 (394)
179 PRK05291 trmE tRNA modificatio 85.6 8.8 0.00019 44.2 12.6 98 79-194 215-333 (449)
180 smart00177 ARF ARF-like small 85.5 5.4 0.00012 39.2 9.5 103 79-194 13-126 (175)
181 COG1084 Predicted GTPase [Gene 85.4 6 0.00013 43.5 10.3 104 81-194 170-292 (346)
182 cd04118 Rab24 Rab24 subfamily. 85.3 6.7 0.00015 38.8 10.2 100 82-194 3-117 (193)
183 PTZ00369 Ras-like protein; Pro 85.3 12 0.00027 37.1 12.1 103 80-194 6-122 (189)
184 PRK12297 obgE GTPase CgtA; Rev 85.0 20 0.00044 41.0 15.0 102 81-194 160-286 (424)
185 PF00025 Arf: ADP-ribosylation 84.8 3.2 7E-05 41.1 7.6 103 77-194 12-127 (175)
186 cd04122 Rab14 Rab14 subfamily. 84.6 16 0.00034 35.2 12.2 101 82-194 5-119 (166)
187 TIGR02729 Obg_CgtA Obg family 84.2 16 0.00035 40.3 13.4 143 82-237 160-325 (329)
188 cd04140 ARHI_like ARHI subfami 83.8 16 0.00035 35.1 11.8 102 81-194 3-120 (165)
189 smart00174 RHO Rho (Ras homolo 83.8 19 0.00042 34.6 12.4 101 82-194 1-114 (174)
190 TIGR00450 mnmE_trmE_thdF tRNA 83.7 8.4 0.00018 44.3 11.3 100 78-194 202-322 (442)
191 cd04117 Rab15 Rab15 subfamily. 83.6 16 0.00035 35.1 11.8 102 81-194 2-117 (161)
192 cd04116 Rab9 Rab9 subfamily. 83.6 19 0.00041 34.6 12.3 107 79-194 5-126 (170)
193 cd01896 DRG The developmentall 83.5 5.7 0.00012 41.5 9.1 84 82-182 3-106 (233)
194 COG1160 Predicted GTPases [Gen 83.1 7.2 0.00016 44.6 10.1 134 80-239 4-163 (444)
195 cd04148 RGK RGK subfamily. Th 83.0 15 0.00032 37.9 11.8 99 82-194 3-118 (221)
196 cd04137 RheB Rheb (Ras Homolog 83.0 36 0.00078 33.0 14.1 102 81-194 3-118 (180)
197 cd01881 Obg_like The Obg-like 83.0 18 0.0004 34.5 11.9 33 123-156 44-86 (176)
198 cd04132 Rho4_like Rho4-like su 82.5 11 0.00024 37.1 10.3 101 82-194 3-117 (187)
199 cd01857 HSR1_MMR1 HSR1/MMR1. 82.4 4.5 9.8E-05 38.5 7.2 50 136-194 3-54 (141)
200 cd01858 NGP_1 NGP-1. Autoanti 82.3 6.9 0.00015 37.8 8.6 48 138-194 2-51 (157)
201 COG1163 DRG Predicted GTPase [ 81.5 31 0.00068 38.2 13.7 87 81-182 65-169 (365)
202 cd01879 FeoB Ferrous iron tran 81.4 13 0.00029 34.8 10.1 61 123-194 43-113 (158)
203 cd04121 Rab40 Rab40 subfamily. 81.3 40 0.00086 34.0 14.0 144 80-243 7-173 (189)
204 PRK09554 feoB ferrous iron tra 80.9 15 0.00033 45.2 12.7 137 80-238 4-165 (772)
205 PLN00223 ADP-ribosylation fact 80.8 12 0.00026 37.2 9.8 102 80-194 18-130 (181)
206 cd02036 MinD Bacterial cell di 80.1 9.1 0.0002 37.2 8.7 63 124-194 64-126 (179)
207 cd04109 Rab28 Rab28 subfamily. 79.6 23 0.0005 36.1 11.8 101 82-194 3-121 (215)
208 cd04101 RabL4 RabL4 (Rab-like4 78.4 31 0.00067 32.7 11.6 100 82-194 3-119 (164)
209 PLN03110 Rab GTPase; Provision 78.3 26 0.00057 35.8 11.7 101 81-194 14-129 (216)
210 PF00071 Ras: Ras family; Int 78.1 32 0.00068 32.6 11.6 101 82-194 2-116 (162)
211 COG2262 HflX GTPases [General 77.5 20 0.00044 40.6 11.1 53 134-193 261-315 (411)
212 cd04130 Wrch_1 Wrch-1 subfamil 77.2 15 0.00032 35.8 9.1 101 82-194 3-116 (173)
213 cd01871 Rac1_like Rac1-like su 76.7 19 0.00041 35.4 9.8 102 81-194 3-117 (174)
214 cd01850 CDC_Septin CDC/Septin. 76.7 82 0.0018 33.8 15.4 69 145-225 115-184 (276)
215 cd04175 Rap1 Rap1 subgroup. T 76.6 35 0.00076 32.5 11.5 103 80-194 2-118 (164)
216 cd00877 Ran Ran (Ras-related n 76.5 20 0.00042 34.8 9.8 101 81-194 2-116 (166)
217 cd04144 Ras2 Ras2 subfamily. 76.4 38 0.00083 33.6 12.1 100 82-194 2-118 (190)
218 cd01856 YlqF YlqF. Proteins o 75.4 11 0.00024 37.0 7.8 89 134-239 9-99 (171)
219 cd01853 Toc34_like Toc34-like 75.2 41 0.0009 35.7 12.4 110 76-194 28-161 (249)
220 KOG1486 GTP-binding protein DR 74.8 5.6 0.00012 42.3 5.5 83 81-182 64-168 (364)
221 cd04141 Rit_Rin_Ric Rit/Rin/Ri 74.2 60 0.0013 31.7 12.6 101 81-194 4-119 (172)
222 cd04134 Rho3 Rho3 subfamily. 74.1 21 0.00045 35.5 9.5 102 81-194 2-116 (189)
223 cd01874 Cdc42 Cdc42 subfamily. 73.6 68 0.0015 31.5 12.9 101 82-194 4-117 (175)
224 cd01849 YlqF_related_GTPase Yl 73.0 12 0.00026 36.2 7.2 80 146-239 1-83 (155)
225 PLN03108 Rab family protein; P 72.4 38 0.00082 34.4 11.0 72 80-156 7-90 (210)
226 cd01859 MJ1464 MJ1464. This f 71.9 19 0.0004 34.6 8.2 42 144-194 12-53 (156)
227 KOG0410 Predicted GTP binding 71.6 26 0.00056 38.8 9.8 98 76-185 175-291 (410)
228 cd03110 Fer4_NifH_child This p 71.5 24 0.00052 34.7 9.1 64 122-194 92-155 (179)
229 COG1763 MobB Molybdopterin-gua 71.1 16 0.00035 36.3 7.6 68 78-150 1-98 (161)
230 cd04128 Spg1 Spg1p. Spg1p (se 71.1 33 0.00071 34.1 10.0 99 82-194 3-116 (182)
231 PLN03071 GTP-binding nuclear p 70.5 41 0.00088 34.6 10.8 106 76-194 10-129 (219)
232 cd04127 Rab27A Rab27a subfamil 70.1 54 0.0012 31.7 11.2 66 122-194 62-132 (180)
233 COG0486 ThdF Predicted GTPase 69.4 31 0.00068 39.7 10.3 99 79-194 217-336 (454)
234 TIGR03596 GTPase_YlqF ribosome 68.4 24 0.00052 37.8 8.9 87 135-238 12-100 (276)
235 TIGR02836 spore_IV_A stage IV 68.0 1E+02 0.0022 35.7 13.7 85 144-237 144-233 (492)
236 PF13460 NAD_binding_10: NADH( 67.2 30 0.00064 33.7 8.7 91 82-188 1-96 (183)
237 cd04107 Rab32_Rab38 Rab38/Rab3 66.1 57 0.0012 32.6 10.7 101 82-194 3-122 (201)
238 PHA02518 ParA-like protein; Pr 65.4 36 0.00077 34.1 9.1 75 124-207 78-158 (211)
239 COG0218 Predicted GTPase [Gene 65.3 39 0.00086 34.8 9.2 83 145-237 107-193 (200)
240 TIGR01007 eps_fam capsular exo 62.2 26 0.00056 35.4 7.3 63 124-194 129-192 (204)
241 KOG0468 U5 snRNP-specific prot 62.2 49 0.0011 39.9 10.2 68 112-188 183-256 (971)
242 cd03706 mtEFTU_III Domain III 62.1 43 0.00094 29.6 7.9 71 611-695 21-93 (93)
243 PRK09563 rbgA GTPase YlqF; Rev 61.9 38 0.00083 36.5 9.0 49 135-194 15-63 (287)
244 TIGR00157 ribosome small subun 61.6 1.1E+02 0.0023 32.3 12.1 84 142-237 34-119 (245)
245 PRK01889 GTPase RsgA; Reviewed 61.4 33 0.00071 38.4 8.6 80 142-236 110-192 (356)
246 PF03205 MobB: Molybdopterin g 61.2 27 0.0006 33.6 6.9 27 81-108 2-28 (140)
247 TIGR00991 3a0901s02IAP34 GTP-b 60.9 1.1E+02 0.0023 33.9 12.1 159 76-259 35-213 (313)
248 KOG1423 Ras-like GTPase ERA [C 60.7 52 0.0011 36.3 9.4 50 137-194 148-197 (379)
249 cd02038 FleN-like FleN is a me 59.3 60 0.0013 30.8 8.9 75 123-207 45-121 (139)
250 cd04126 Rab20 Rab20 subfamily. 59.0 72 0.0016 33.1 10.1 101 82-194 3-112 (220)
251 PF00350 Dynamin_N: Dynamin fa 59.0 20 0.00044 34.4 5.8 63 121-191 99-167 (168)
252 cd01854 YjeQ_engC YjeQ/EngC. 56.8 1.1E+02 0.0024 33.1 11.4 45 142-194 76-121 (287)
253 PTZ00388 40S ribosomal protein 55.7 18 0.00038 37.1 4.6 76 623-698 106-188 (223)
254 cd03111 CpaE_like This protein 54.8 1.2E+02 0.0026 27.4 9.7 51 124-183 44-95 (106)
255 PF09439 SRPRB: Signal recogni 53.5 93 0.002 31.6 9.5 107 81-193 5-123 (181)
256 PTZ00258 GTP-binding protein; 51.8 43 0.00093 38.0 7.5 71 79-155 21-126 (390)
257 TIGR01969 minD_arch cell divis 50.9 80 0.0017 32.4 9.0 64 123-194 109-172 (251)
258 cd04174 Rnd1_Rho6 Rnd1/Rho6 su 50.8 1.6E+02 0.0035 30.9 11.2 103 80-194 14-129 (232)
259 PF06858 NOG1: Nucleolar GTP-b 50.2 59 0.0013 27.0 6.0 22 135-156 4-25 (58)
260 cd04178 Nucleostemin_like Nucl 48.9 28 0.0006 34.7 4.9 40 146-194 1-42 (172)
261 PTZ00132 GTP-binding nuclear p 48.8 2.8E+02 0.0061 27.9 12.5 107 76-194 6-125 (215)
262 KOG1832 HIV-1 Vpr-binding prot 48.0 17 0.00038 44.5 3.7 16 306-321 1302-1317(1516)
263 KOG1144 Translation initiation 47.8 29 0.00062 42.2 5.4 156 142-314 561-757 (1064)
264 cd01900 YchF YchF subfamily. 47.3 46 0.001 35.9 6.6 69 82-156 1-104 (274)
265 cd04129 Rho2 Rho2 subfamily. 47.1 1.3E+02 0.0029 29.5 9.6 103 81-194 3-117 (187)
266 cd04173 Rnd2_Rho7 Rnd2/Rho7 su 47.0 1.8E+02 0.0039 30.2 10.7 101 82-194 4-117 (222)
267 KOG0780 Signal recognition par 46.9 26 0.00057 39.6 4.7 58 122-194 181-252 (483)
268 PRK00098 GTPase RsgA; Reviewed 46.7 63 0.0014 35.1 7.6 47 141-194 77-123 (298)
269 PRK12289 GTPase RsgA; Reviewed 46.4 69 0.0015 35.8 8.0 82 142-237 87-171 (352)
270 PRK04000 translation initiatio 45.4 2.9E+02 0.0064 31.4 13.0 114 553-692 285-410 (411)
271 smart00053 DYNc Dynamin, GTPas 44.7 62 0.0013 34.3 6.9 42 144-194 162-204 (240)
272 TIGR00483 EF-1_alpha translati 44.5 2.8E+02 0.0061 31.5 12.8 129 553-697 282-424 (426)
273 CHL00071 tufA elongation facto 43.5 3.7E+02 0.008 30.5 13.5 125 553-695 277-407 (409)
274 PRK15367 type III secretion sy 43.2 76 0.0016 36.0 7.6 118 166-292 262-392 (395)
275 COG1866 PckA Phosphoenolpyruva 43.2 22 0.00048 40.8 3.4 98 590-700 147-250 (529)
276 COG0480 FusA Translation elong 42.8 75 0.0016 38.9 8.1 62 123-193 76-139 (697)
277 TIGR03680 eif2g_arch translati 42.3 3.1E+02 0.0066 31.2 12.6 64 611-692 341-405 (406)
278 cd04131 Rnd Rnd subfamily. Th 41.9 2.2E+02 0.0048 28.1 10.1 102 82-194 4-117 (178)
279 PF05049 IIGP: Interferon-indu 41.9 2.2E+02 0.0048 32.3 11.0 102 76-194 32-153 (376)
280 KOG0462 Elongation factor-type 41.8 3.5E+02 0.0077 32.3 12.7 201 80-305 64-294 (650)
281 KOG1489 Predicted GTP-binding 40.9 4E+02 0.0086 29.8 12.2 86 138-235 268-364 (366)
282 PRK12317 elongation factor 1-a 40.8 2.9E+02 0.0063 31.4 12.2 131 553-699 280-424 (425)
283 PRK09602 translation-associate 40.7 85 0.0018 35.7 7.7 72 79-156 1-114 (396)
284 KOG1832 HIV-1 Vpr-binding prot 40.6 31 0.00068 42.5 4.3 8 217-224 1207-1214(1516)
285 cd01855 YqeH YqeH. YqeH is an 39.6 73 0.0016 31.6 6.3 48 136-194 25-73 (190)
286 cd04172 Rnd3_RhoE_Rho8 Rnd3/Rh 39.4 2.3E+02 0.0051 28.1 9.9 102 82-194 8-121 (182)
287 KOG0400 40S ribosomal protein 38.8 55 0.0012 31.4 4.8 75 167-247 65-140 (151)
288 KOG1191 Mitochondrial GTPase [ 38.3 72 0.0016 37.2 6.5 89 79-183 268-379 (531)
289 TIGR01425 SRP54_euk signal rec 38.2 3.4E+02 0.0074 31.4 12.0 18 76-93 97-114 (429)
290 COG2895 CysN GTPases - Sulfate 38.2 55 0.0012 36.8 5.4 64 122-194 85-151 (431)
291 PRK10512 selenocysteinyl-tRNA- 38.0 3E+02 0.0065 33.2 12.1 115 553-700 229-345 (614)
292 KOG0463 GTP-binding protein GP 37.4 2.7E+02 0.0059 31.6 10.4 141 144-298 244-411 (641)
293 PRK13768 GTPase; Provisional 37.3 1.2E+02 0.0026 32.1 7.8 64 124-194 98-174 (253)
294 TIGR01968 minD_bact septum sit 37.2 93 0.002 32.1 6.9 64 123-194 112-175 (261)
295 PF14731 Staphopain_pro: Staph 37.2 14 0.00031 36.1 0.7 23 708-738 44-66 (169)
296 PRK10751 molybdopterin-guanine 36.5 1.2E+02 0.0025 30.6 7.1 28 78-106 5-32 (173)
297 CHL00175 minD septum-site dete 35.5 1.1E+02 0.0025 32.3 7.4 62 124-194 128-190 (281)
298 PTZ00141 elongation factor 1- 35.2 5.4E+02 0.012 29.7 13.3 129 553-697 288-431 (446)
299 COG4108 PrfC Peptide chain rel 34.3 56 0.0012 37.7 4.8 44 142-194 102-145 (528)
300 PRK00049 elongation factor Tu; 34.3 6.4E+02 0.014 28.5 13.5 120 553-695 269-394 (396)
301 PRK13796 GTPase YqeH; Provisio 34.1 1.5E+02 0.0033 33.1 8.4 94 133-238 57-156 (365)
302 cd02042 ParA ParA and ParB of 33.8 3.3E+02 0.0071 23.9 9.4 73 81-156 1-73 (104)
303 TIGR00750 lao LAO/AO transport 33.8 2E+02 0.0043 31.2 9.0 33 123-156 127-159 (300)
304 cd01899 Ygr210 Ygr210 subfamil 33.6 1.2E+02 0.0027 33.4 7.4 32 124-156 70-111 (318)
305 PLN03126 Elongation factor Tu; 33.2 6E+02 0.013 29.7 13.2 126 553-695 346-476 (478)
306 PRK13849 putative crown gall t 32.3 1.5E+02 0.0033 30.9 7.5 62 123-194 84-152 (231)
307 PRK09601 GTP-binding protein Y 32.0 1.2E+02 0.0025 34.3 6.9 72 80-156 3-108 (364)
308 PRK12735 elongation factor Tu; 31.7 6.5E+02 0.014 28.4 13.0 120 553-695 269-394 (396)
309 KOG3163 Uncharacterized conser 31.7 19 0.0004 36.9 0.5 77 624-700 144-227 (260)
310 TIGR03597 GTPase_YqeH ribosome 30.3 1.8E+02 0.004 32.4 8.2 94 133-238 51-150 (360)
311 PRK00285 ihfA integration host 30.2 25 0.00055 31.7 1.1 21 282-302 37-57 (99)
312 cd04103 Centaurin_gamma Centau 29.9 3.8E+02 0.0083 25.7 9.5 67 82-156 3-77 (158)
313 cd01875 RhoG RhoG subfamily. 29.6 4.9E+02 0.011 25.7 10.5 103 80-194 4-119 (191)
314 TIGR00437 feoB ferrous iron tr 29.3 3.3E+02 0.0072 32.7 10.5 99 123-238 41-152 (591)
315 PRK14722 flhF flagellar biosyn 28.5 3.3E+02 0.0072 30.8 9.8 18 77-94 135-152 (374)
316 cd00591 HU_IHF Integration hos 28.4 30 0.00065 30.0 1.2 21 282-302 34-54 (87)
317 TIGR00485 EF-Tu translation el 28.1 7.6E+02 0.016 27.8 12.7 120 553-695 267-392 (394)
318 PRK10416 signal recognition pa 28.0 4E+02 0.0088 29.3 10.2 17 77-93 112-128 (318)
319 cd03708 GTPBP_III Domain III o 27.7 2.3E+02 0.0051 24.3 6.8 68 611-694 16-86 (87)
320 smart00411 BHL bacterial (prok 27.7 29 0.00062 30.4 1.0 21 282-302 35-55 (90)
321 cd01513 Translation_factor_III 27.1 4.1E+02 0.0089 23.2 8.5 77 611-692 16-102 (102)
322 smart00176 RAN Ran (Ras-relate 27.0 4.6E+02 0.0099 26.6 9.8 71 116-194 37-111 (200)
323 cd03707 EFTU_III Domain III of 26.9 2.7E+02 0.0059 24.2 7.1 68 611-692 21-90 (90)
324 PF00216 Bac_DNA_binding: Bact 26.5 25 0.00054 30.7 0.4 20 282-301 35-54 (90)
325 cd04133 Rop_like Rop subfamily 26.2 3.8E+02 0.0082 26.5 8.8 102 82-194 4-117 (176)
326 KOG1954 Endocytosis/signaling 26.1 3E+02 0.0065 31.4 8.5 77 122-212 162-239 (532)
327 PF01656 CbiA: CobQ/CobB/MinD/ 25.8 1.9E+02 0.0042 28.1 6.7 62 124-194 96-160 (195)
328 COG0240 GpsA Glycerol-3-phosph 25.7 96 0.0021 34.5 4.7 71 143-233 70-142 (329)
329 PF04548 AIG1: AIG1 family; I 25.4 7.3E+02 0.016 25.2 11.3 143 82-239 3-184 (212)
330 TIGR00475 selB selenocysteine- 25.3 6.3E+02 0.014 30.3 11.9 111 553-700 231-342 (581)
331 TIGR03018 pepcterm_TyrKin exop 25.3 2.1E+02 0.0045 29.0 6.9 55 124-189 150-205 (207)
332 PLN02775 Probable dihydrodipic 24.7 1.3E+02 0.0029 32.8 5.5 44 133-188 66-111 (286)
333 PRK05506 bifunctional sulfate 24.5 6.3E+02 0.014 30.5 11.8 130 553-697 296-435 (632)
334 PRK14495 putative molybdopteri 24.1 2.1E+02 0.0045 33.3 7.1 68 80-150 2-98 (452)
335 COG5258 GTPBP1 GTPase [General 23.9 1.1E+03 0.024 27.2 12.3 130 145-292 227-384 (527)
336 TIGR03815 CpaE_hom_Actino heli 23.7 2.6E+02 0.0056 30.4 7.8 59 124-191 206-264 (322)
337 cd01851 GBP Guanylate-binding 23.4 4.4E+02 0.0095 27.3 9.0 20 76-96 4-23 (224)
338 cd06375 PBP1_mGluR_groupII Lig 23.3 9.9E+02 0.021 27.4 12.8 156 77-259 102-268 (458)
339 PRK00771 signal recognition pa 22.5 7.1E+02 0.015 28.8 11.2 18 77-94 93-110 (437)
340 KOG0460 Mitochondrial translat 22.0 1.2E+03 0.026 26.5 14.3 159 121-296 115-294 (449)
341 TIGR00993 3a0901s04IAP86 chlor 21.8 8.4E+02 0.018 30.2 11.7 109 78-194 117-248 (763)
342 PRK10664 transcriptional regul 21.6 48 0.001 29.6 1.2 20 282-301 35-54 (90)
343 TIGR03453 partition_RepA plasm 21.6 3E+02 0.0065 30.9 7.9 78 124-210 236-325 (387)
344 TIGR03878 thermo_KaiC_2 KaiC d 21.6 4.6E+02 0.01 27.7 8.9 33 69-102 26-58 (259)
345 smart00763 AAA_PrkA PrkA AAA d 21.5 2E+02 0.0043 32.5 6.2 42 75-117 74-116 (361)
346 PTZ00327 eukaryotic translatio 21.1 1.2E+03 0.026 27.2 12.8 67 611-694 384-451 (460)
347 PF00448 SRP54: SRP54-type pro 21.1 5.2E+02 0.011 26.3 8.8 18 79-96 1-18 (196)
348 cd04102 RabL3 RabL3 (Rab-like3 20.9 5.5E+02 0.012 26.2 9.0 101 82-194 3-141 (202)
349 PF14908 DUF4496: Domain of un 20.2 72 0.0016 30.5 2.3 24 283-306 16-39 (140)
350 TIGR03371 cellulose_yhjQ cellu 20.1 3.7E+02 0.008 27.5 7.7 33 124-156 116-148 (246)
No 1
>KOG1980 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=4e-166 Score=1358.48 Aligned_cols=690 Identities=35% Similarity=0.552 Sum_probs=591.3
Q ss_pred CCCCccCCCCCCCCCCChhhhhhhhhhcCCcCcCCccccccccchHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCEE
Q 004549 2 TGSRVQVNKSHKSRFSTKSSRNLHKTAAKDKSRIGKSDCNVAKGAKAARVQRNKMLRDQKRLALLKEKRASSGIASPPRV 81 (745)
Q Consensus 2 ~g~~kq~nK~hK~rh~sk~~~k~~~~~kgr~~~k~~~~~~~~~~~K~~Rr~~~~q~r~~Kr~~v~~~~R~~~~~~~pP~i 81 (745)
+|+||+.||+||+||+|||+++. ..||+++.+..+.+..++.+|.+||||++|+|+|||+.++..+|.+||.+++|++
T Consensus 6 ~s~lk~~~k~~kskhrskg~l~~--~~kg~~~~~~~~~k~~~~~sk~~rrn~akqlr~qk~~~v~e~~~~~~g~n~a~~l 83 (754)
T KOG1980|consen 6 RSPLKNANKPHKSKHRSKGALKR--DYKGKVELKPLGHKPDKTVSKLQRRNQAKQLRKQKREDVLENTRLLGGQNGAPKL 83 (754)
T ss_pred cccccccCccccccccccchhhh--hcCCcccccccCCCchhhhhHHHHHhHHHHHHHhHHHHHHHhhhhccccccccce
Confidence 35899999999999999999999 9999999998887778999999999999999999999999999999999999999
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCCcceEEEecCceeeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccc
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGALSSTVSSSKYRLRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEES 161 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~g~~tv~~~r~k~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~ 161 (745)
|+++||++.+++.++ +--..-.+...+.|.+.++|||+|+.|+.|. .+++++||+|||||+|||+++|+
T Consensus 84 i~~~pl~~~id~~~~----l~E~i~~~~~~~~i~~~i~rFK~~~~fl~P~-~n~~~~lD~~kv~D~~~f~~s~~------ 152 (754)
T KOG1980|consen 84 ITGLPLKNQIDPLDI----LYEGIMVQEVDSKINVHIPRFKSNLKFLTPK-TNFLNILDAAKVSDFVVFLLSAV------ 152 (754)
T ss_pred eeccchhhhcchhhh----hhhhhccccCCccceecchhhhhceeeeccc-cchhhhhhhhhhcceeeeecchh------
Confidence 999999999987766 2211111222388899999999999999996 99999999999999999999999
Q ss_pred cccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhHHHHHHHHhhcccccCCCCeeEEeCCHHHHHHHHHHHhhcc
Q 004549 162 MSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRKDLKKMCISSLTSEFPEDCKFYAADTKDELHKFLWLFKEQR 240 (745)
Q Consensus 162 ~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~~~~e~~nL~R~I~~~k 240 (745)
+++|+||+.+++++++||+|++++|+.+|.. +.|++.++||.+.+++.++|+....|+.|+..+|.+||+|.||+++
T Consensus 153 --~~~~e~ge~i~~~~~~qGi~s~v~~v~~L~sv~~K~r~~vkK~l~~~~~k~f~s~~~v~~ld~~~dalnllR~l~~~k 230 (754)
T KOG1980|consen 153 --EEDDEFGEQIIRALEAQGIPSYVSVVSDLSSVHEKFRLDVKKALEKRISKFFPSEKRVMRLDTSQDALNLLRGLCVQK 230 (754)
T ss_pred --hhhhHHHHHHHHHHhhcCCccceeeecccchhchhhhHHHHHHHHHHHHHhCCCcchheeccccchhHHHHHHhhhcc
Confidence 5699999999999999999999999776663 4499999999999999999998888999999999999999999999
Q ss_pred ccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCceeecee-eccC---CCCCCCcccc
Q 004549 241 LTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGDFQLGKI-EILK---DPFPLNARKE 316 (745)
Q Consensus 241 ~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I-~~~~---DP~pl~~~~~ 316 (745)
+++|.||++|+||+++-+++. .+.+...|+|.+.|||||..||+|+||||||+|||||.+| ++.. ||.|+....+
T Consensus 231 ~r~l~~rd~r~Yl~~~~vdf~-s~~s~~~gtL~i~G~vRG~~ln~NrLvHI~g~GDFqi~~I~~~p~~~qdp~~ik~~~~ 309 (754)
T KOG1980|consen 231 PRVLHWRDNRGYLFADLVDFV-SELSYSEGTLVIFGYVRGQELNVNRLVHIPGFGDFQINKIDEAPIDGQDPKIIKKFID 309 (754)
T ss_pred chheecccchhhhHHHhhhhc-cccCCCcceEEEEEEeecccccccceEeecCccceeEEEeecCCcccCCCcccCccCC
Confidence 999999999999999999876 2225567999999999999999999999999999999999 5555 7888775443
Q ss_pred CCcccccccccceeeecc-CCCCCCCccccccCCCCCccCCCCCCChhhhhHhhhhhhhhhcccccCCCCCchhhhcccc
Q 004549 317 SDAMESDEIHDLEVIRTL-SPDPLKLEPLLVENVPDPLAGEQTWPTEAEMAEADQNQKHRKQKKRALPRGTSEYQAAWIV 395 (745)
Q Consensus 317 ~d~m~~~~~~~~~~~~~l-~~~~~~~e~L~~e~~~d~~~~eqt~pteeel~~a~~~~~~~~~~k~~vpkG~s~yqaawi~ 395 (745)
.. -. ..+. ..+|..+.+|.++..||+|+.||+|||++|...++.+....+..++ ||||||+|||+||+
T Consensus 310 ~s-------~e---~~i~~qsdpd~~~~l~~~~~pD~md~e~~~~t~de~~~~~~~~~~~~~~~~-VPKg~S~yqa~wi~ 378 (754)
T KOG1980|consen 310 LS-------LE---FCISTQSDPDKADSLESEHTPDDMDVEQDWPTRDESNVAIKETEPMKRPKR-VPKGTSDYQAAWIL 378 (754)
T ss_pred CC-------cc---eeeecccChhHhhhhhhcCCCchhhhhccccchhhhhhhccccchhccccc-cCCCccccceeeec
Confidence 11 11 2333 6677889999999999999999999999998887665554455566 99999999999999
Q ss_pred CCCCcCCCCCCCcccCCcccccccCCCCCCCCCCCCCCccchhcccccccCCCCCccccccccCCCCHHH-HHHHHHHHH
Q 004549 396 DDSDEADSDSDNDADDGMVLDQEDRGFPGYEGTNNSDIDDDQASLNFRYADDGTENDSVMMEGEILTREQ-IEDEIKKIK 474 (745)
Q Consensus 396 dd~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~d~e~~~~~~~~e~~d~~~~~~s~~~~~~~~d~e~-e~~~~~~~~ 474 (745)
|+++++|..+++ ++.+|.+++. ++++ +++.|| ..++.+.+...+..+++++|+.+++++ +.+++++++
T Consensus 379 de~~~~dk~d~~-ed~~m~ied~---~~de----~~~~EE---~~ds~~~~~~~~~~~d~~~D~~~dee~re~~e~~k~~ 447 (754)
T KOG1980|consen 379 DEEEESDKEDDN-EDTEMEIEDE---FEDE----DSDEEE---LRDSIEAGGTEAEESDGFYDESSDEEARESEELEKYQ 447 (754)
T ss_pred CCcccccccccc-cchhhhhhhh---hhhc----cccchh---hhccccccccchhhccccccccchhhHHhHHHHHHHH
Confidence 965443221111 1122211110 0000 001010 001111111111334455667777776 667788888
Q ss_pred hhcccCCCCCCCCCCCCCchHHHHHHHHhcCccccCCCCCCCCCChhHHhhhhchhcHHHHHHHHHHHHhhhhccccCCC
Q 004549 475 EAHAEDEEFPDEVDTPLDVPARKRFAKYRGLKSFRTSSWDPKESLPPEYARIFAFDKFTRTQKHVFANALKMEQENMDDS 554 (745)
Q Consensus 475 ~~~~ed~~FpDEvdtp~~~~ar~Rf~kyRgLkSfrts~WD~~E~lP~~y~ri~~fe~~~~~~k~~~~~~~~~~~~~~~~g 554 (745)
++ +++.+||||||||++.+||+||+|||||||||||+||++||||.+|+|||+|+||++|+|+++++.... .+|
T Consensus 448 ke-r~e~~fPDEvdt~~d~~ArerfqkYRGLksl~Ts~Wd~~En~P~dy~rlfqF~Nyrntkk~i~kk~~~e-----~~~ 521 (754)
T KOG1980|consen 448 KE-REESEFPDEVDTPPDESARERFQKYRGLKSLRTSPWDAKENLPADYARLFQFQNYRNTKKRILKKEDNE-----AEA 521 (754)
T ss_pred HH-hHhhhCCCccccCCChHHHHHHHHhccccccccCCCcccccCcHHHHHHHhhhhhhhHHHHhhhhcccc-----ccc
Confidence 87 778899999999999999999999999999999999999999999999999999999999999973221 133
Q ss_pred CCCCcEEEEEEecCchhHHHhhccccCCCcEEEEecccccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeeeeeecc
Q 004549 555 VPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGLLQHESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQFVARPI 634 (745)
Q Consensus 555 ~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gLl~hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRFq~~Pi 634 (745)
.+|+||||+|+|||.++++.|... .+|||||||||||||+|+||.++||+.|+.|||||++|||+||||||.++|+
T Consensus 522 -~~G~~V~v~l~nvP~~i~E~~~~~---~~lvvfglL~hEhKmtV~Nfvl~r~p~~e~Plkske~livq~G~Rrf~i~Pl 597 (754)
T KOG1980|consen 522 -IPGQYVRVFLRNVPVSILEAIKKQ---LLLVVFGLLPHEHKMTVLNFVLQRHPGYEEPLKSKEELIVQCGFRRFDINPL 597 (754)
T ss_pred -CCCceEEEEeecCcHHHHHHHhhc---cceeeeeccchhhhheeeEEEEecCCCCCccccccceeEEEeccceEEeccc
Confidence 699999999999999999999866 9999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCCcceeecccCCCceEEEEEEeecCCCCccEEEEEecCCCCCCeEeEeeeeeccCccceeEEeEEEEeeeEEE
Q 004549 635 FSSDNMNSDKHKMERFLHAGCFSVASIYAPICFPPLPLIVLKSADGGVAPAVAAVGSLRSIDPDRIILKKIVLTGYPQRV 714 (745)
Q Consensus 635 fS~~~~~~~k~K~~ry~p~~~~~vAt~ygPi~~p~~pvl~f~~~~~~~~~~l~atG~vl~~d~~riIvKrl~LtG~P~KI 714 (745)
||+ |++|++|||+||+|+.++.||||||||+|||+|||+|+.+++ ++.+|+|||+++++||+|||+||.||+||||||
T Consensus 598 fSs-~t~ndkhK~eRfl~~~~a~vaTviaPI~F~ps~vL~FK~s~~-~~~~LiAtG~~l~~dpdRiv~KRaVLsGhPfKi 675 (754)
T KOG1980|consen 598 FSS-HTPNDKHKYERFLPPDEAVVATVIAPITFGPSPVLIFKKSSD-GSLELIATGSLLNCDPDRIVAKRAVLSGHPFKI 675 (754)
T ss_pred ccc-CCccchhhhhhhcCccceEEEEEEeccccCCcceEEEEeCCC-cccceeeeeeeeccCCcceeEeeeeecCCCcee
Confidence 998 999999999999999999999999999999999999999988 799999999999999999999999999999999
Q ss_pred eeeeEEEeccCCChhhhcCcceeeEEE
Q 004549 715 SKLKAIVRYMFHNPEDVRWFKVKRALF 741 (745)
Q Consensus 715 ~K~tA~Ir~MFfn~~DV~wFkpv~~~~ 741 (745)
||+.|+|||||||+|||.|||||+||-
T Consensus 676 ~kk~v~VRYMFFn~EDV~wFKpIqL~T 702 (754)
T KOG1980|consen 676 HKKYVVVRYMFFNREDVEWFKPIQLYT 702 (754)
T ss_pred eeeeEEEeeecCCHhHeeeecceeeec
Confidence 999999999999999999999999984
No 2
>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.1e-130 Score=1059.21 Aligned_cols=689 Identities=22% Similarity=0.337 Sum_probs=469.2
Q ss_pred ccCCCCCCCCCCChhhhhhhhhhcCCcCcCCccccccccchHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCEEEEEe
Q 004549 6 VQVNKSHKSRFSTKSSRNLHKTAAKDKSRIGKSDCNVAKGAKAARVQRNKMLRDQKRLALLKEKRASSGIASPPRVIVLF 85 (745)
Q Consensus 6 kq~nK~hK~rh~sk~~~k~~~~~kgr~~~k~~~~~~~~~~~K~~Rr~~~~q~r~~Kr~~v~~~~R~~~~~~~pP~iV~Vv 85 (745)
.|+|++|.+ +.|+.+++.+..+...|+|||+.... .+.+|..++..+-.+|++|||+++|++. ..|||+|||||
T Consensus 2 de~~~kh~k--a~~k~~~k~~dg~~g~naKafavAa~---G~mar~~~rtadi~ekklhVPmvdrtp~-d~PPPfIvavv 75 (1077)
T COG5192 2 DEKKAKHSK--AEKKKLKKVMDGKVGNNAKAFAVAAI---GQMARQAMRTADIEEKKLHVPMVDRTPK-DLPPPFIVAVV 75 (1077)
T ss_pred cchhhhhhh--HHHhhhhhhhccccccchhhhhhhch---HHHHHHHhhccchhhhccccccccCCcc-cCCCCeEEEee
Confidence 356666653 22222333112222356888877664 4555666688888999999999999975 67999999999
Q ss_pred cCCC---ccChhhHHHHHHHhhccCCCCC--cceEEEecCceeeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCcccc
Q 004549 86 GLSA---SVNLNSVREDLLRQLSSEGTGA--LSSTVSSSKYRLRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEE 160 (745)
Q Consensus 86 ~l~~---~~~~~sl~~~~vk~~~~~~~~~--g~~tv~~~r~k~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~ 160 (745)
|||+ +|+|+|| |+.|+++.+.. |||||+++ ++|||||++|| +||++|||+|||||||||+|||.||
T Consensus 76 GPpGtGKsTLirSl----Vrr~tk~ti~~i~GPiTvvsg-K~RRiTflEcp-~Dl~~miDvaKIaDLVlLlIdgnfG--- 146 (1077)
T COG5192 76 GPPGTGKSTLIRSL----VRRFTKQTIDEIRGPITVVSG-KTRRITFLECP-SDLHQMIDVAKIADLVLLLIDGNFG--- 146 (1077)
T ss_pred cCCCCChhHHHHHH----HHHHHHhhhhccCCceEEeec-ceeEEEEEeCh-HHHHHHHhHHHhhheeEEEeccccC---
Confidence 9998 4567777 99999999887 99999998 58999999999 9999999999999999999999976
Q ss_pred ccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhh---hHHHHHHHHhhcccccCCCCeeEEeCC-------HHHHH
Q 004549 161 SMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKK---RKDLKKMCISSLTSEFPEDCKFYAADT-------KDELH 230 (745)
Q Consensus 161 ~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk---~~~~kK~lk~~f~~e~~~~~Klf~l~~-------~~e~~ 230 (745)
|+|||+||||+|+.||||+|+||+||||. +|+ .+..||.||||||+|+|+|+|||||++ +.||+
T Consensus 147 -----fEMETmEFLnil~~HGmPrvlgV~ThlDl-fk~~stLr~~KKrlkhRfWtEiyqGaKlFylsgV~nGRYpDreil 220 (1077)
T COG5192 147 -----FEMETMEFLNILISHGMPRVLGVVTHLDL-FKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLSGVENGRYPDREIL 220 (1077)
T ss_pred -----ceehHHHHHHHHhhcCCCceEEEEeeccc-ccChHHHHHHHHHHhhhHHHHHcCCceEEEecccccCCCCCHHHH
Confidence 99999999999999999999999999997 444 456899999999999999999999994 99999
Q ss_pred HHHHHHhhccccCCccccCCCeEEEEeeEeccCCC-----CCCCceEEEEEEEeCCCC-CCCCeEEeCCCCceeeceeec
Q 004549 231 KFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDC-----NSGKCTLLLHGYLRAHCL-SVNQLVHISGAGDFQLGKIEI 304 (745)
Q Consensus 231 nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~-----~~~~~~l~v~GyvRG~~l-~~n~lVHIpG~GDFqi~~I~~ 304 (745)
||+|||++||+|||.||+.||||||||+++.+-+. ....+.++|||||+|++| +...-|||||+|||.+++|+.
T Consensus 221 nLsRfisVMKfRPl~Wrn~HPy~laDR~~Dlt~p~~ieq~~kv~rki~vYGYlhGt~Lp~~d~~vHIpGvGDf~~adve~ 300 (1077)
T COG5192 221 NLSRFISVMKFRPLEWRNMHPYVLADRVDDLTLPVDIEQNPKVGRKITVYGYLHGTGLPRKDMEVHIPGVGDFRMADVEV 300 (1077)
T ss_pred HHHHHHhhhcccccccccCCceeehhhhccccchhhhhhccccCceEEEEEEecCCCCCCCCceEeccCccccchhhhhh
Confidence 99999999999999999999999999999754221 445789999999999999 478889999999999999999
Q ss_pred cCCCCCCCccc--------------------------cCCcccccc-------------cccceeeeccCCCCCCCcccc
Q 004549 305 LKDPFPLNARK--------------------------ESDAMESDE-------------IHDLEVIRTLSPDPLKLEPLL 345 (745)
Q Consensus 305 ~~DP~pl~~~~--------------------------~~d~m~~~~-------------~~~~~~~~~l~~~~~~~e~L~ 345 (745)
|+||||-+... ++|+++++- ++++.|...| +
T Consensus 301 L~DPcPp~~a~~~rrRrLs~k~KliY~PMsdiGGil~dKD~vyiev~~~n~s~~~~~eaGegekm~~~l----------q 370 (1077)
T COG5192 301 LIDPCPPPDADHGRRRRLSLKSKLIYSPMSDIGGILKDKDRVYIEVPTSNFSKDENSEAGEGEKMKMQL----------Q 370 (1077)
T ss_pred cCCCCCCCcccchhhcccchhhceeecccccccceeecccceeeeccccCcCcCcccccchhhHHHHHH----------h
Confidence 99999955421 233333220 1121221111 1
Q ss_pred c-cCC--CCCccCCCCCCChhhhhHhhhh-----hhhhhcccccCCCCCchhh-hccccCCCCcCCCCCCCcccCCcccc
Q 004549 346 V-ENV--PDPLAGEQTWPTEAEMAEADQN-----QKHRKQKKRALPRGTSEYQ-AAWIVDDSDEADSDSDNDADDGMVLD 416 (745)
Q Consensus 346 ~-e~~--~d~~~~eqt~pteeel~~a~~~-----~~~~~~~k~~vpkG~s~yq-aawi~dd~~~~~~~~~~~~~d~~~~~ 416 (745)
+ |.. .|- -|-|.|...+-+.-++-+ +..++. +| -|.|-.--| .+- .|+...++++-.. +|+..+.+
T Consensus 371 ~~eq~~g~dg-vglqlFsnsd~~d~~d~e~~eid~~gr~t-~r-qp~Gk~i~eE~~~-~Del~~dd~~~~~-~De~ed~d 445 (1077)
T COG5192 371 EIEQDPGVDG-VGLQLFSNSDAIDTVDRESSEIDNVGRKT-RR-QPTGKAIAEETSR-EDELSFDDSDVST-SDENEDVD 445 (1077)
T ss_pred hhccCCCcCc-eeeEEecCCcchhhccccccccccccccc-cc-CCCCcchhhhhcc-ccccCcccccccc-cccccccc
Confidence 0 000 010 133444443322222111 111222 33 566631111 110 0111001110000 11111111
Q ss_pred cc--cCCCCCCCCCCCCCCcc---chhcc-cccccC---CCCC--------------ccccccccCCCCHHHHHHHHHHH
Q 004549 417 QE--DRGFPGYEGTNNSDIDD---DQASL-NFRYAD---DGTE--------------NDSVMMEGEILTREQIEDEIKKI 473 (745)
Q Consensus 417 ~~--~~~~~~~~~~~~~d~e~---~~~~~-~~e~~d---~~~~--------------~~s~~~~~~~~d~e~e~~~~~~~ 473 (745)
-. ...++...+ ++.++ |.++. |+++.. .++. +-...+|++.+++++- +++|
T Consensus 446 ~~~~~~~~nn~~e---~~~e~~a~dsDSqfdese~~~~w~~~~a~kl~~sqs~kr~~ni~ki~y~e~lspeec---i~e~ 519 (1077)
T COG5192 446 FTGKKGAINNEDE---SDNEEVAFDSDSQFDESEGNLRWKEGLASKLAYSQSGKRGRNIQKIFYDESLSPEEC---IEEY 519 (1077)
T ss_pred cccccccccCccc---ccchhhccccccccccccccchhhhhhhhhhhhhhcccccccccceeccccCCHHHH---HHHh
Confidence 00 000110000 00000 00010 000000 0000 0011367888888763 3444
Q ss_pred Hhh-----------cccCCCCCC---C------CCCCCCc-hHHHHHHH-Hhc---Ccc-cc-CCCCCCC----------
Q 004549 474 KEA-----------HAEDEEFPD---E------VDTPLDV-PARKRFAK-YRG---LKS-FR-TSSWDPK---------- 516 (745)
Q Consensus 474 ~~~-----------~~ed~~FpD---E------vdtp~~~-~ar~Rf~k-yRg---LkS-fr-ts~WD~~---------- 516 (745)
+-+ ++++..|=| + ++...-+ ..-++++| |.. ||| |- .+--|..
T Consensus 520 kge~~~s~e~~~v~~D~~edff~vsk~~n~~~s~~~ek~~~~~fe~L~kkw~s~~~lk~RF~~~~~lds~eg~EEl~qd~ 599 (1077)
T COG5192 520 KGESAKSSESDLVVQDEPEDFFDVSKVANESISSNHEKLMESEFEELKKKWSSLAQLKSRFQKDATLDSIEGEEELIQDD 599 (1077)
T ss_pred ccccccccccccccccCchhhhhhhhhcccccccchhhhchhHHHHHHHHHhhHHHHHHHhhcccccccccchhhhhhch
Confidence 322 011111111 0 0000000 01233322 322 222 11 1111110
Q ss_pred -----CCC----------------------------hhHHh--hh----------hchh--c-----------HHHHHHH
Q 004549 517 -----ESL----------------------------PPEYA--RI----------FAFD--K-----------FTRTQKH 538 (745)
Q Consensus 517 -----E~l----------------------------P~~y~--ri----------~~fe--~-----------~~~~~k~ 538 (745)
|+| ..+|. |- .+|+ . |...+++
T Consensus 600 E~gn~ed~~d~e~~~d~e~ees~G~s~t~~~~e~~~e~~~e~ErE~na~kKE~lr~~Fe~eer~d~e~~d~dwy~~eK~k 679 (1077)
T COG5192 600 EKGNFEDLEDEENSSDNEMEESRGSSVTAENEESADEVDYETEREENARKKEELRGNFELEERGDPEKKDVDWYTEEKRK 679 (1077)
T ss_pred hccCcccccccccccccchhhccCCcccccchhhccccchHHHhhhhhhhhhhhhcceeehhccCccccccchHHHHHHH
Confidence 000 00010 00 0111 0 1111222
Q ss_pred HHHH-------Hhhhhc--cccCCCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEecccccceeeEEEEEEEecCC
Q 004549 539 VFAN-------ALKMEQ--ENMDDSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGLLQHESKMSVLHFSVKKHDT 609 (745)
Q Consensus 539 ~~~~-------~~~~~~--~~~~~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gLl~hE~k~svv~~~ikrh~~ 609 (745)
+-++ ++.|+. +..++|+++|.||||+|+.||.+|+++|++. +|+|+|||||.|.+||+|+.+||||+|
T Consensus 680 i~~ql~inr~e~e~M~Pe~r~~Ieg~raG~YVriv~~~vP~efv~~fn~r---~piV~GGlLp~E~~~giVq~rikrhrW 756 (1077)
T COG5192 680 IEEQLKINRSEFETMVPESRVVIEGYRAGRYVRIVLSHVPLEFVDEFNSR---YPIVLGGLLPAEKEMGIVQGRIKRHRW 756 (1077)
T ss_pred HHHHHhhhhhhhhhcCCcceeEeecccccceEEEEeccCCHHHHhhcCCC---CcEEeccccchhhhhhhhhhHHHHhHH
Confidence 2221 233443 3458999999999999999999999999998 999999999999999999999999999
Q ss_pred CCCCCCCCceEEEEeeeeeeeeeccccccCCCCCcceeecccCCCceEEEEEEeecCCCCccEEEEEecCCCCCCeEeEe
Q 004549 610 YDAPIKAKEELIFHVGFRQFVARPIFSSDNMNSDKHKMERFLHAGCFSVASIYAPICFPPLPLIVLKSADGGVAPAVAAV 689 (745)
Q Consensus 610 ~~~~lKSkdpLif~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~ygPi~~p~~pvl~f~~~~~~~~~~l~at 689 (745)
|.++||++||||||+||||||++||||+.| ..+|+||+||||+||||.+|||||+++||||++++|+.. |.|||+|+
T Consensus 757 hKKILKTNdPlifS~GWRRFQsiPvys~~D-srTRnRMlKYTPEhmhCn~sFYGP~v~pntgFc~Vqse~--g~frv~a~ 833 (1077)
T COG5192 757 HKKILKTNDPLIFSVGWRRFQSIPVYSMKD-SRTRNRMLKYTPEHMHCNVSFYGPVVPPNTGFCAVQSEK--GDFRVLAL 833 (1077)
T ss_pred HHHHhccCCCeEEEechhhhcccceeeecc-hhhhhhhhhcCccceeeeeeeecCccCCCCCceeEEecC--CceEEEEe
Confidence 999999999999999999999999999955 456999999999999999999999999999999999853 68999999
Q ss_pred eeeeccCccceeEEeEEEEeeeEEEeeeeEEEeccCCChhhhcCcceeeEEEE
Q 004549 690 GSLRSIDPDRIILKKIVLTGYPQRVSKLKAIVRYMFHNPEDVRWFKVKRALFV 742 (745)
Q Consensus 690 G~vl~~d~~riIvKrl~LtG~P~KI~K~tA~Ir~MFfn~~DV~wFkpv~~~~~ 742 (745)
|+|.++|.+..|||||+|+|||++|++||||||.||.|.+||++|.-.+|--|
T Consensus 834 g~i~dv~~~~~lvkklklvg~p~qi~qnt~fvrdmfts~lev~kfega~lk~v 886 (1077)
T COG5192 834 GTITDVNGDAKLVKKLKLVGYPKQIVQNTVFVRDMFTSDLEVLKFEGASLKAV 886 (1077)
T ss_pred eeeEeccccHHHHhhhhhccCcHHHhhhhHhHHHhhhhhhHHHhhcccceeee
Confidence 99999999999999999999999999999999999999999999988777544
No 3
>COG5177 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.2e-125 Score=1011.08 Aligned_cols=681 Identities=24% Similarity=0.352 Sum_probs=542.4
Q ss_pred CCccCCCCCCCCCCChhhhhhhhhhcCCcCcCC-ccccccccchHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCEEE
Q 004549 4 SRVQVNKSHKSRFSTKSSRNLHKTAAKDKSRIG-KSDCNVAKGAKAARVQRNKMLRDQKRLALLKEKRASSGIASPPRVI 82 (745)
Q Consensus 4 ~~kq~nK~hK~rh~sk~~~k~~~~~kgr~~~k~-~~~~~~~~~~K~~Rr~~~~q~r~~Kr~~v~~~~R~~~~~~~pP~iV 82 (745)
+|| .||+||++|+|||++|+ ..||++++.. .+.+..++++|++|||+++|++.+++..+.+.+|.++|.+|||+||
T Consensus 8 s~k-~~k~ykskhask~alk~--~yk~kve~~~~g~~~~~~~~~k~dRrN~aKq~~~~~i~~~~en~~~f~gknGa~kvI 84 (769)
T COG5177 8 SLK-GHKSYKSKHASKGALKR--LYKGKVEKEPVGTGKPDKQMKKRDRRNRAKQKSIGSIARIKENKLPFSGKNGAYKVI 84 (769)
T ss_pred hhc-cCCcccccccchhHHHH--HhcCCccccCCCCCCchhhhHHhhhhhhHHHhhhhHHHHHHhhcCcccCCCCCceEE
Confidence 566 88999999999999999 9999988743 5566678999999999999999999999999999999999999999
Q ss_pred EEecCCCccChhhHHHHHHHhhccCCCCC-------c--ceEEEecCceeeEEEEeCCCCChHHHHhHHhhcceEEEEee
Q 004549 83 VLFGLSASVNLNSVREDLLRQLSSEGTGA-------L--SSTVSSSKYRLRTSVLQAPHGDLVGCMEMAKVADLVAFVAS 153 (745)
Q Consensus 83 ~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-------g--~~tv~~~r~k~R~tfie~~~~dl~~mLD~aKvADlVlllid 153 (745)
+||||+..++...+. -|+|...+-+. | ...+.+.+||+++.|+.|+.-++.+++|+|||||+|+|+++
T Consensus 85 tIVpL~n~~d~~dil---~klL~~~d~e~~m~q~~~~~~~ys~~i~~fK~Nllf~~pd~~~f~~l~d~ckVsD~VvF~ls 161 (769)
T COG5177 85 TIVPLGNECDGYDIL---DKLLHGNDDEGIMVQEVDGGLFYSVHIEEFKMNLLFKRPDELSFFQLGDVCKVSDIVVFGLS 161 (769)
T ss_pred EEeecccccchHHHH---HHHHccCCcccccceeccCceEEeeeHHHhhcceeEeccchhhhhhhhhhheeccEEEEEec
Confidence 999999999988772 34444333222 2 35566789999999999987779999999999999999999
Q ss_pred CCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc--chhhhHHHHHHHHhhcccccCCCCeeEEeCCHHHHHH
Q 004549 154 ASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT--DLKKRKDLKKMCISSLTSEFPEDCKFYAADTKDELHK 231 (745)
Q Consensus 154 as~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~--~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~~~~e~~n 231 (745)
+. +++|+.|+.+.+.|+.||+.++|+++..|.. ..|.+..+||+|++++.++||+..++|.++..+|++|
T Consensus 162 ~v--------qEVDefge~i~r~l~~qgI~s~i~~~~~ls~v~s~k~~~~vKqslesf~~~fFp~~ERV~~~~~~~DALn 233 (769)
T COG5177 162 DV--------QEVDEFGEQIGRKLKLQGIKSFIPSCLFLSSVQSEKRDAAVKQSLESFVRRFFPSKERVVEIGGLMDALN 233 (769)
T ss_pred ch--------hhhhHHHHHHHHHHHhhhHHHHhHHHHHHHHhHHHHHHHHHHHHHHHHHHHhCCchhheeeccccHHHHH
Confidence 98 6799999999999999999999999555542 2478899999999999999999999999999999999
Q ss_pred HHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCceeeceeeccCCCCCC
Q 004549 232 FLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGDFQLGKIEILKDPFPL 311 (745)
Q Consensus 232 L~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I~~~~DP~pl 311 (745)
.+|.+|+.-||.|.||++|||+|+...++. +|.|.+.|.|||.+|++|+|+||||+|||++.+|...+.-.
T Consensus 234 v~R~lcts~pR~i~wrdnR~Yiv~~e~sys-------~G~l~~~g~VrG~g~n~nrL~Hi~~fgdF~~nkI~~~~q~~-- 304 (769)
T COG5177 234 VVRILCTSVPRSINWRDNRPYIVPSEASYS-------DGELFYEGTVRGIGFNANRLKHIPDFGDFLSNKIIVNGQYE-- 304 (769)
T ss_pred HHHHHhccCCcccccccCCceeeecccccC-------CCceEEEEEeeccccCchheeecCccchhhhheeeeccchh--
Confidence 999999999999999999999999665543 68999999999999999999999999999999999875311
Q ss_pred CccccCCcccccccccceeeeccCCCCCCCccccccCCCCCccCCCCCCC-hhhhhHhhhh----------hhhhhcccc
Q 004549 312 NARKESDAMESDEIHDLEVIRTLSPDPLKLEPLLVENVPDPLAGEQTWPT-EAEMAEADQN----------QKHRKQKKR 380 (745)
Q Consensus 312 ~~~~~~d~m~~~~~~~~~~~~~l~~~~~~~e~L~~e~~~d~~~~eqt~pt-eeel~~a~~~----------~~~~~~~k~ 380 (745)
.+.. +--|+-+..-..++..+..++ ..|++|. +..|. ++..|.. +++...+... ..+....++
T Consensus 305 q~~r-~I~~d~at~l~~~l~~v~~~~-~~rdtld-~~~p~---g~d~~sd~d~d~~~d~~~~vr~Dd~~f~~~~eq~~~~ 378 (769)
T COG5177 305 QTIR-EIFADRATKLELDLQTVFESN-MNRDTLD-EYAPE---GEDLRSDYDEDFEYDGLTTVRIDDHGFLPGREQTSKK 378 (769)
T ss_pred hhHH-HHhhhhccccccchhhhcccc-ccccchh-hcCCc---cccchhhhhhhhcccccceeEecccccCCcccccchh
Confidence 1000 000000000000112222333 3345554 22222 4444522 2222211000 000011122
Q ss_pred -cCCCCCchhhhccccCCCCcCCCCCCCcccCCcccccccCCCCCCCCCCCCCCccchhcccccccCCCCCccccccccC
Q 004549 381 -ALPRGTSEYQAAWIVDDSDEADSDSDNDADDGMVLDQEDRGFPGYEGTNNSDIDDDQASLNFRYADDGTENDSVMMEGE 459 (745)
Q Consensus 381 -~vpkG~s~yqaawi~dd~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~d~e~~~~~~~~e~~d~~~~~~s~~~~~~ 459 (745)
+||||||.|||.|++|++.+++...+.| +-.+.+|+++....+++ ++.. |+ + .++.++++ .+
T Consensus 379 aavpkGts~yqa~w~~deeee~~q~nd~e-~tm~~idd~d~~E~dne-----ev~~-----De-E---~~idDne~--f~ 441 (769)
T COG5177 379 AAVPKGTSFYQAKWAEDEEEEDGQCNDEE-STMSAIDDDDPKENDNE-----EVAG-----DE-E---SAIDDNEG--FE 441 (769)
T ss_pred hccCCCCcccceeecccchhhccccCchh-hhhhhhcccCchhcccc-----cccC-----ch-h---hccccccc--ch
Confidence 2999999999999998655433321111 11111111100000000 0000 00 0 11112333 47
Q ss_pred CCCHHHHHHHHHHHHhhcccCCCCCCCCCCCCCchHHHHHHHHhcCccccCCCCCCCC---CChhHHhhhhchhcHHHHH
Q 004549 460 ILTREQIEDEIKKIKEAHAEDEEFPDEVDTPLDVPARKRFAKYRGLKSFRTSSWDPKE---SLPPEYARIFAFDKFTRTQ 536 (745)
Q Consensus 460 ~~d~e~e~~~~~~~~~~~~ed~~FpDEvdtp~~~~ar~Rf~kyRgLkSfrts~WD~~E---~lP~~y~ri~~fe~~~~~~ 536 (745)
++++|+|++|++++|+.++||.+||||++..+...|++||.+||||+++-||.|+..| +.|++|.+++.|+||++++
T Consensus 442 els~eee~rq~~efr~~eked~efpde~elqPse~aier~k~YRGlrnLytc~w~~de~dps~P~ewk~L~~f~nyrn~k 521 (769)
T COG5177 442 ELSPEEEERQLREFRDMEKEDREFPDEAELQPSESAIERYKEYRGLRNLYTCSWRSDEKDPSFPEEWKSLVFFDNYRNAK 521 (769)
T ss_pred hcChHHHHHHHHHHHhhhhhhccCchhhccCccHHHHHHHHHhcccccccccccccccCCCCChHHHhhheeccchhhhh
Confidence 8999999999999999779999999999999999999999999999999999999876 5899999999999999999
Q ss_pred HHHHHHHhhhhccccCCCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEecccccceeeEEEEEEEecCCCCCCCCC
Q 004549 537 KHVFANALKMEQENMDDSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGLLQHESKMSVLHFSVKKHDTYDAPIKA 616 (745)
Q Consensus 537 k~~~~~~~~~~~~~~~~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gLl~hE~k~svv~~~ikrh~~~~~~lKS 616 (745)
++++++--+ ..+.+|+.|||.|+ ||..+++.++... .-|+|+|||.||+|.+|.||+++||..|++||+|
T Consensus 522 n~~vk~~~~-------~~a~~G~~vri~lr-~p~~l~E~~~~p~--~llvvygll~yE~k~tV~nFs~~rh~eye~P~~s 591 (769)
T COG5177 522 NLVVKKDNE-------SVAPDGQMVRIKLR-FPKFLYEGLIEPQ--ILLVVYGLLEYEDKKTVHNFSLQRHFEYEVPLKS 591 (769)
T ss_pred hheecCCcc-------ccCCCCcEEEEEEe-ccHHHHhhhcccc--eeeeeeehhhhcchhhhhhhhhhhhhcccCCCCc
Confidence 999875421 34789999999998 9999999987652 5677799999999999999999999999999999
Q ss_pred CceEEEEeeeeeeeeecccccc-CCCCCcceeecccCCCceEEEEEEeecCCCCccEEEEEecCCC-CCCeEeEeeeeec
Q 004549 617 KEELIFHVGFRQFVARPIFSSD-NMNSDKHKMERFLHAGCFSVASIYAPICFPPLPLIVLKSADGG-VAPAVAAVGSLRS 694 (745)
Q Consensus 617 kdpLif~~G~RRFq~~PifS~~-~~~~~k~K~~ry~p~~~~~vAt~ygPi~~p~~pvl~f~~~~~~-~~~~l~atG~vl~ 694 (745)
+++|++|+|.|||.++|+||+. +..||.|||.||+|+....||||+|||.|++.|+|+|+.+... .+.+++|||+.++
T Consensus 592 ~E~~vvq~G~rr~~i~Pl~s~~s~s~Nn~qKy~r~l~p~~~~vas~I~Pi~Fg~spvi~fkkS~~d~~s~~l~a~g~~~n 671 (769)
T COG5177 592 EESMVVQLGHRRVDICPLISKGSNSPNNNQKYFRRLKPLESGVASFIGPISFGLSPVIIFKKSALDELSATLLASGGMNN 671 (769)
T ss_pred ccceeeeeccceEEEeehhccCCCCCcchHHHHhhcCccceeeeEEEcceeccCcceEEEccCccchhhhhhhhcccccc
Confidence 9999999999999999999984 4457899999999999999999999999999999999987432 6899999999999
Q ss_pred cCccceeEEeEEEEeeeEEEeeeeEEEeccCCChhhhcCcceeeEE
Q 004549 695 IDPDRIILKKIVLTGYPQRVSKLKAIVRYMFHNPEDVRWFKVKRAL 740 (745)
Q Consensus 695 ~d~~riIvKrl~LtG~P~KI~K~tA~Ir~MFfn~~DV~wFkpv~~~ 740 (745)
+|++|+|+||.||||||||.||+.++|||||||||||.|||||+|+
T Consensus 672 ~d~~rviakrAvLtGhPFk~hK~~vtvryMFf~pEdV~wFk~Iqlf 717 (769)
T COG5177 672 FDGDRVIAKRAVLTGHPFKNHKRYVTVRYMFFSPEDVMWFKNIQLF 717 (769)
T ss_pred cCcchhhhhhhhhcCCCcccceeEEEEeeecCCHhHeeeecchhhh
Confidence 9999999999999999999999999999999999999999999997
No 4
>PF04950 DUF663: Protein of unknown function (DUF663); InterPro: IPR007034 This domain is found at the C terminus of the ribosome biogenesis protein BMS1 and TSR1 families, which may act as a molecular switch during maturation of the 40S ribosomal subunit in the nucleolus.; PDB: 1WB1_D 1WB3_B 1WB2_A.
Probab=100.00 E-value=7.9e-89 Score=723.55 Aligned_cols=252 Identities=49% Similarity=0.868 Sum_probs=48.6
Q ss_pred CCCCCCCchHHHHHHHHhcCccccCCCCCCCC---CChhHHhhhhchhcHHHHHHHHHHHH-hhhhccccCCCCCCCcEE
Q 004549 486 EVDTPLDVPARKRFAKYRGLKSFRTSSWDPKE---SLPPEYARIFAFDKFTRTQKHVFANA-LKMEQENMDDSVPASLYV 561 (745)
Q Consensus 486 Evdtp~~~~ar~Rf~kyRgLkSfrts~WD~~E---~lP~~y~ri~~fe~~~~~~k~~~~~~-~~~~~~~~~~g~~~G~YV 561 (745)
|||||.|++||+||+|||||||||||+||++| +||.+|+|||+|+||+++++++++++ .+.+.+.+.+|+.+|+||
T Consensus 1 Evdt~~~~~ar~Rf~KyRgLKs~r~s~wD~~E~~~~lP~~y~ri~~f~n~~~~k~~~~~~~~~~~~~~~~~~g~~~G~YV 80 (297)
T PF04950_consen 1 EVDTPPDEPARERFQKYRGLKSFRTSEWDPDEKDPNLPEDYSRIFQFENFKRTKKRALKEAELDEEEREQEEGVRPGTYV 80 (297)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CCcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 79999999999999999999999999999999 99999999999999999999998875 122223446899999999
Q ss_pred EEEEecCchhHHHhhccccCCCcEEEEecccccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeeeeeeccccccCCC
Q 004549 562 RLHIKEVPAGIAHRLCEMAERSPLIASGLLQHESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQFVARPIFSSDNMN 641 (745)
Q Consensus 562 ri~i~~VP~~~~~~~~~~~~~~Plil~gLl~hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRFq~~PifS~~~~~ 641 (745)
||+|++||++++++|++. +||||||||+||+||||||++|+||+||++||||||||||||||||||++||||+ +++
T Consensus 81 rI~i~~vP~~~~~~~~~~---~Plil~gLl~~E~k~svv~~~ikrh~~~~~~lkSkd~li~~~G~Rrf~~~Pifs~-~~~ 156 (297)
T PF04950_consen 81 RIEISNVPCEFVENFDPS---YPLILGGLLPHEQKMSVVNFRIKRHRWYEKPLKSKDPLIFSCGWRRFQTIPIFSQ-EDN 156 (297)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccccccccccccc---ccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccc
Confidence 999999999999999998 9999999999999999999999999999999999999999999999999999999 667
Q ss_pred CCcceeecccCCCceEEEEEEeecCCCCccEEEEEecCCCC-CCeEeEeeeeeccCccceeEEeEEEEeeeEEEeeeeEE
Q 004549 642 SDKHKMERFLHAGCFSVASIYAPICFPPLPLIVLKSADGGV-APAVAAVGSLRSIDPDRIILKKIVLTGYPQRVSKLKAI 720 (745)
Q Consensus 642 ~~k~K~~ry~p~~~~~vAt~ygPi~~p~~pvl~f~~~~~~~-~~~l~atG~vl~~d~~riIvKrl~LtG~P~KI~K~tA~ 720 (745)
|+||||+||||+|+||+||||||++|||||||+|++.++.+ +|+|+|||+|+++||+++|+|||+||||||||||||||
T Consensus 157 ~~r~k~~k~~~~~~~~~at~ygPi~~~~~~vl~f~~~~~~~~~~~l~atG~v~~~d~~~~i~Kki~L~G~P~ki~k~~a~ 236 (297)
T PF04950_consen 157 NNRHKYEKYLPEGMHCVATFYGPITFPPTPVLAFKESSNSGSSFRLVATGSVLNVDPDRIIVKKIKLTGYPFKIHKRTAV 236 (297)
T ss_dssp ---------------------------------------TTTSS-B-EEEEEEEE--GGGS-B--EEEEEEEEEESSSCE
T ss_pred ccccccccccccccccccccccccccccccccccccccccCCCceEEEeeeEeCCCCcchhheeeeecCchheEECceEE
Confidence 88999999999999999999999999999999999964434 79999999999999999999999999999999999999
Q ss_pred EeccCCChhhhcCcceeeEEE
Q 004549 721 VRYMFHNPEDVRWFKVKRALF 741 (745)
Q Consensus 721 Ir~MFfn~~DV~wFkpv~~~~ 741 (745)
|||||||++||+|||||+|.-
T Consensus 237 vr~MF~~~~dv~~F~~~~l~T 257 (297)
T PF04950_consen 237 VRGMFFNPEDVAWFKGAELRT 257 (297)
T ss_dssp ECSSSSTCCHHHHS-S--BEE
T ss_pred hhhhcCCHHHHHhhcCCEEEe
Confidence 999999999999999999974
No 5
>smart00785 AARP2CN AARP2CN (NUC121) domain. This domain is the central domain of AARP2. It is weakly similar to the GTP-binding domain of elongation factor TU PUBMED:15112237.
Probab=100.00 E-value=1.5e-33 Score=245.94 Aligned_cols=82 Identities=39% Similarity=0.699 Sum_probs=77.3
Q ss_pred HHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCC-CCCCceEEEEEEEeCCCCCCCCeEEeCCCCceeeceeeccC
Q 004549 228 ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDC-NSGKCTLLLHGYLRAHCLSVNQLVHISGAGDFQLGKIEILK 306 (745)
Q Consensus 228 e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~-~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I~~~~ 306 (745)
|++||+|+||+||+++|+||++|||||||+++++++.. ..++++|+|||||||++|++|++|||||+|||||++|+.++
T Consensus 1 e~~nL~R~i~~~k~~~l~WR~~rpY~lad~~e~~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDfqi~~I~~~~ 80 (83)
T smart00785 1 EILNLLRFLSVMKPRPLSWRDQHPYMLADRVEDITDEEDPKVDRTLVVYGYVRGTGLNANQLVHIPGLGDFQISKIEALP 80 (83)
T ss_pred CHHHHHHHHHhccCCCCcccCCCCeEEEEEeEecCCCCCCccCcEEEEEEEEcCCCCCCCCEEEeCCcCCeEeeEEeecC
Confidence 68999999999999999999999999999999987643 45678999999999999999999999999999999999999
Q ss_pred CCC
Q 004549 307 DPF 309 (745)
Q Consensus 307 DP~ 309 (745)
|||
T Consensus 81 dP~ 83 (83)
T smart00785 81 DPC 83 (83)
T ss_pred CCC
Confidence 998
No 6
>PF08142 AARP2CN: AARP2CN (NUC121) domain; InterPro: IPR012948 This domain is the central domain of AARP2 (asparagine and aspartate rich protein 2). It is weakly similar to the GTP-binding domain of elongation factor TU []. PfAARP2 is an antigen from Plasmodium falciparum of 150 kDa, which is encoded by a unique gene on chromosome 1 []. The central region of Pfaarp2 contains blocks of repetitions encoding asparagine and aspartate residues. ; GO: 0042254 ribosome biogenesis, 0005634 nucleus
Probab=99.98 E-value=5.9e-33 Score=243.56 Aligned_cols=82 Identities=45% Similarity=0.747 Sum_probs=76.6
Q ss_pred HHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCC---CCceEEEEEEEeCCCCCCCCeEEeCCCCceeeceeec
Q 004549 228 ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNS---GKCTLLLHGYLRAHCLSVNQLVHISGAGDFQLGKIEI 304 (745)
Q Consensus 228 e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~---~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I~~ 304 (745)
|++||+|+||++|+++|+||++|||||||++++.++.+.. .+++|+|||||||.+|++|++|||||+|||||++|+.
T Consensus 1 e~~nl~R~i~~~k~~~i~WR~~r~y~lad~~e~~~~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I~~ 80 (85)
T PF08142_consen 1 EILNLLRFISVQKPRPISWRDQRPYMLADRVEFVPDPEDESENEDGTLKVYGYVRGSPLSVNQLVHIPGVGDFQISKIES 80 (85)
T ss_pred CHHHHHHHHHhCccCCCccccCCCeEEEEEEEecCCccccccCCceEEEEEEEEccccccCCCEEEeCCcCCeEeeEeee
Confidence 6899999999999999999999999999999998764422 2579999999999999999999999999999999999
Q ss_pred cCCCC
Q 004549 305 LKDPF 309 (745)
Q Consensus 305 ~~DP~ 309 (745)
++|||
T Consensus 81 ~~DPc 85 (85)
T PF08142_consen 81 LPDPC 85 (85)
T ss_pred cCCCC
Confidence 99999
No 7
>cd01882 BMS1 Bms1. Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.
Probab=99.98 E-value=3.5e-31 Score=273.33 Aligned_cols=206 Identities=20% Similarity=0.341 Sum_probs=177.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC--cceEEEecCce
Q 004549 45 GAKAARVQRNKMLRDQKRLALLKEKRASSGIASPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA--LSSTVSSSKYR 122 (745)
Q Consensus 45 ~~K~~Rr~~~~q~r~~Kr~~v~~~~R~~~~~~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~--g~~tv~~~r~k 122 (745)
+-.++||||++|+|++||++++..+|. +..+||++|+|+|+++++. .+|++.|+..+....... |++++..+ ..
T Consensus 7 ~~~~~r~~~~~~~~~~k~~~~~~~~r~--~~~~~~~~i~ivG~~~~GK-stl~~~l~~~~~~~~~~~~~g~i~i~~~-~~ 82 (225)
T cd01882 7 AVAAARQFQRTADIEEKKLHVPVVDRT--PEEPPPLVVAVVGPPGVGK-TTLIKSLVKNYTKQNISDIKGPITVVTG-KK 82 (225)
T ss_pred chHHHHHHHHHHHhhhccccceeeccc--cccCCCCEEEEECCCCCCH-HHHHHHHHhhcccCccccccccEEEEec-CC
Confidence 345789999999999999999999998 4589999999999998753 356455465544333322 88888776 57
Q ss_pred eeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc--chhhhH
Q 004549 123 LRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT--DLKKRK 200 (745)
Q Consensus 123 ~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~--~~Kk~~ 200 (745)
++++|+.|| +++..++++++.||+||||+|++. ++++.+.+++++++.+|+|.+++|++.+|. +.++..
T Consensus 83 ~~i~~vDtP-g~~~~~l~~ak~aDvVllviDa~~--------~~~~~~~~i~~~l~~~g~p~vi~VvnK~D~~~~~~~~~ 153 (225)
T cd01882 83 RRLTFIECP-NDINAMIDIAKVADLVLLLIDASF--------GFEMETFEFLNILQVHGFPRVMGVLTHLDLFKKNKTLR 153 (225)
T ss_pred ceEEEEeCC-chHHHHHHHHHhcCEEEEEEecCc--------CCCHHHHHHHHHHHHcCCCeEEEEEeccccCCcHHHHH
Confidence 999999999 899999999999999999999994 488889999999999999999999999995 223456
Q ss_pred HHHHHHHhhcccccCCCCeeEEeC-------CHHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccC
Q 004549 201 DLKKMCISSLTSEFPEDCKFYAAD-------TKDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVAD 263 (745)
Q Consensus 201 ~~kK~lk~~f~~e~~~~~Klf~l~-------~~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~ 263 (745)
++++.|+++|++++..++|+|++| +.+|+.|++|.|++++++.++||+.|||||||+++|+++
T Consensus 154 ~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~~~~~e~~~~~r~i~~~~~~~~~~r~~r~y~~~~~~~~~~~ 223 (225)
T cd01882 154 KTKKRLKHRFWTEVYQGAKLFYLSGIVHGRYPKTEIHNLARFISVMKFRPLNWRNSHPYVLADRMEDITN 223 (225)
T ss_pred HHHHHHHHHHHHhhCCCCcEEEEeeccCCCCCHHHHHHHHHHHHhCCCCCCeeecCCCeEEEeeeecccC
Confidence 788999998888777799999999 899999999999999999999999999999999998865
No 8
>PRK12735 elongation factor Tu; Reviewed
Probab=98.59 E-value=5.5e-06 Score=93.08 Aligned_cols=214 Identities=13% Similarity=0.122 Sum_probs=139.7
Q ss_pred CCCCCEEEEEecCCCccChhhHHHHHHHhhcc-----------CCC--CC--cceEEE-----ecCceeeEEEEeCCCC-
Q 004549 75 IASPPRVIVLFGLSASVNLNSVREDLLRQLSS-----------EGT--GA--LSSTVS-----SSKYRLRTSVLQAPHG- 133 (745)
Q Consensus 75 ~~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~-----------~~~--~~--g~~tv~-----~~r~k~R~tfie~~~~- 133 (745)
...|...|+|+|-.+.+.. +|++.|+..... .+. .+ .-+|+. ...-+..++|+-+| +
T Consensus 8 ~~~~~~~i~iiGhvd~GKS-TL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtP-Gh 85 (396)
T PRK12735 8 RTKPHVNVGTIGHVDHGKT-TLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCP-GH 85 (396)
T ss_pred CCCCeEEEEEECcCCCCHH-HHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECC-CH
Confidence 4567777999998875543 443333432110 010 11 222322 11224678999998 5
Q ss_pred -C-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhh-HHHHHHHHhh
Q 004549 134 -D-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKR-KDLKKMCISS 209 (745)
Q Consensus 134 -d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~-~~~kK~lk~~ 209 (745)
+ +..|+-.+..||.+|||+|+..| +...+.+.|..+...|+|.++.|++.+|. +.... ..+++.++.+
T Consensus 86 ~~f~~~~~~~~~~aD~~llVvda~~g--------~~~qt~e~l~~~~~~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~ 157 (396)
T PRK12735 86 ADYVKNMITGAAQMDGAILVVSAADG--------PMPQTREHILLARQVGVPYIVVFLNKCDMVDDEELLELVEMEVREL 157 (396)
T ss_pred HHHHHHHHhhhccCCEEEEEEECCCC--------CchhHHHHHHHHHHcCCCeEEEEEEecCCcchHHHHHHHHHHHHHH
Confidence 3 46788888899999999999954 66778899999999999999889998885 11111 2244455555
Q ss_pred ccccc-C-CCCeeEEeCCHH------------HHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEE
Q 004549 210 LTSEF-P-EDCKFYAADTKD------------ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLH 275 (745)
Q Consensus 210 f~~e~-~-~~~Klf~l~~~~------------e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~ 275 (745)
+...- + ....++++|..+ .+..|+..|....+.|-.+.+....|..+++-.++. .| .+++
T Consensus 158 l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~~~p~~~~~~p~r~~I~~~f~v~g-----~G-tvv~ 231 (396)
T PRK12735 158 LSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYIPEPERAIDKPFLMPIEDVFSISG-----RG-TVVT 231 (396)
T ss_pred HHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcCCCCCccCCCCeEEEEEEEEecCC-----ce-EEEE
Confidence 54422 1 235677777533 468899999887665655555444566776654432 35 4599
Q ss_pred EEEeCCCCCCCCeEEeCCCCc---eeeceeec
Q 004549 276 GYLRAHCLSVNQLVHISGAGD---FQLGKIEI 304 (745)
Q Consensus 276 GyvRG~~l~~n~lVHIpG~GD---Fqi~~I~~ 304 (745)
|.|....++.|+.|.|.+.|. .+|.+|+.
T Consensus 232 G~v~~G~i~~gd~v~i~p~~~~~~~~VksI~~ 263 (396)
T PRK12735 232 GRVERGIVKVGDEVEIVGIKETQKTTVTGVEM 263 (396)
T ss_pred EEEEecEEeCCCEEEEecCCCCeEEEEEEEEE
Confidence 999999999999999887654 34666654
No 9
>CHL00071 tufA elongation factor Tu
Probab=98.58 E-value=7.8e-06 Score=92.23 Aligned_cols=215 Identities=13% Similarity=0.107 Sum_probs=140.2
Q ss_pred CCCCCEEEEEecCCCccChhhHHHHHHHhhcc-----------CCC--CC--cceEEE-----ecCceeeEEEEeCCCC-
Q 004549 75 IASPPRVIVLFGLSASVNLNSVREDLLRQLSS-----------EGT--GA--LSSTVS-----SSKYRLRTSVLQAPHG- 133 (745)
Q Consensus 75 ~~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~-----------~~~--~~--g~~tv~-----~~r~k~R~tfie~~~~- 133 (745)
...|.+-|+|+|-...+.. +|++.|+..... .+. .+ .-+|+. ....+++++|+-+| .
T Consensus 8 ~~~~~~~i~i~Gh~d~GKS-TL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtP-Gh 85 (409)
T CHL00071 8 RKKPHVNIGTIGHVDHGKT-TLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCP-GH 85 (409)
T ss_pred CCCCeEEEEEECCCCCCHH-HHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECC-Ch
Confidence 4567777999999876653 453333533110 011 01 223332 12224688999998 4
Q ss_pred -C-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhh-hHHHHHHHHhh
Q 004549 134 -D-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKK-RKDLKKMCISS 209 (745)
Q Consensus 134 -d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk-~~~~kK~lk~~ 209 (745)
+ +..|+.++..||.+|||+||.. ++...+.++|..+...|+|.+|.|++.+|. +... ...+++.++.+
T Consensus 86 ~~~~~~~~~~~~~~D~~ilVvda~~--------g~~~qt~~~~~~~~~~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~ 157 (409)
T CHL00071 86 ADYVKNMITGAAQMDGAILVVSAAD--------GPMPQTKEHILLAKQVGVPNIVVFLNKEDQVDDEELLELVELEVREL 157 (409)
T ss_pred HHHHHHHHHHHHhCCEEEEEEECCC--------CCcHHHHHHHHHHHHcCCCEEEEEEEccCCCCHHHHHHHHHHHHHHH
Confidence 3 5678889999999999999994 477889999999999999999999999995 1111 12345566666
Q ss_pred cccccCC--CCeeEEeCCHH--------------------HHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCC
Q 004549 210 LTSEFPE--DCKFYAADTKD--------------------ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNS 267 (745)
Q Consensus 210 f~~e~~~--~~Klf~l~~~~--------------------e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~ 267 (745)
|...-++ ...++++|..+ .+..|+-.|....+.|....+....|.++++...+.
T Consensus 158 l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~~~~~~~~~w~~~~~~ll~~l~~~~~~p~~~~~~p~r~~I~~v~~~~g---- 233 (409)
T CHL00071 158 LSKYDFPGDDIPIVSGSALLALEALTENPKIKRGENKWVDKIYNLMDAVDSYIPTPERDTDKPFLMAIEDVFSITG---- 233 (409)
T ss_pred HHHhCCCCCcceEEEcchhhcccccccCccccccCCchhhhHHHHHHHHHhhCCCCCCCCCCCEEEEEEEEEEeCC----
Confidence 5543221 24566655211 246777777776655555545555677887765432
Q ss_pred CCceEEEEEEEeCCCCCCCCeEEeCCCCc---eeeceeecc
Q 004549 268 GKCTLLLHGYLRAHCLSVNQLVHISGAGD---FQLGKIEIL 305 (745)
Q Consensus 268 ~~~~l~v~GyvRG~~l~~n~lVHIpG~GD---Fqi~~I~~~ 305 (745)
.|+ +++|-|....+++|..|.|.+.+. -+|.+|+.-
T Consensus 234 -~G~-Vv~G~V~sG~l~~Gd~v~i~p~~~~~~~~VksI~~~ 272 (409)
T CHL00071 234 -RGT-VATGRIERGTVKVGDTVEIVGLRETKTTTVTGLEMF 272 (409)
T ss_pred -CeE-EEEEEEecCEEeeCCEEEEeeCCCCcEEEEEEEEEc
Confidence 354 599999988899999999865433 356666653
No 10
>PRK12736 elongation factor Tu; Reviewed
Probab=98.55 E-value=8.5e-06 Score=91.49 Aligned_cols=213 Identities=14% Similarity=0.135 Sum_probs=139.6
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhcc-----------CCC--CC--cceEEE-----ecCceeeEEEEeCCCC--
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLSS-----------EGT--GA--LSSTVS-----SSKYRLRTSVLQAPHG-- 133 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~-----------~~~--~~--g~~tv~-----~~r~k~R~tfie~~~~-- 133 (745)
..|.+-|+|+|-.+++.. +|+..|++.... .+. .+ .-+|+. ....+++++|+-+| .
T Consensus 9 ~k~~~ni~i~Ghvd~GKS-TL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtP-Gh~ 86 (394)
T PRK12736 9 SKPHVNIGTIGHVDHGKT-TLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCP-GHA 86 (394)
T ss_pred CCCeeEEEEEccCCCcHH-HHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECC-CHH
Confidence 466788999998876543 443333442110 110 01 112222 11225689999998 5
Q ss_pred C-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhHH-HHHHHHhhc
Q 004549 134 D-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRKD-LKKMCISSL 210 (745)
Q Consensus 134 d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~~-~kK~lk~~f 210 (745)
+ +..|+-.+..||.+|||+|+..| +...+.+.|..+...|+|.+|.|++.+|. +.....+ +++.++.++
T Consensus 87 ~f~~~~~~~~~~~d~~llVvd~~~g--------~~~~t~~~~~~~~~~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l 158 (394)
T PRK12736 87 DYVKNMITGAAQMDGAILVVAATDG--------PMPQTREHILLARQVGVPYLVVFLNKVDLVDDEELLELVEMEVRELL 158 (394)
T ss_pred HHHHHHHHHHhhCCEEEEEEECCCC--------CchhHHHHHHHHHHcCCCEEEEEEEecCCcchHHHHHHHHHHHHHHH
Confidence 3 57788889999999999999854 67789999999999999999999999985 1112222 344555554
Q ss_pred ccccC--CCCeeEEeCCHH----------HHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEE
Q 004549 211 TSEFP--EDCKFYAADTKD----------ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYL 278 (745)
Q Consensus 211 ~~e~~--~~~Klf~l~~~~----------e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~Gyv 278 (745)
...-. ....++++|..+ .+..|+..|...-+.|-..-+....|.++++-..+. .|+ +++|.|
T Consensus 159 ~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp~~~~~~~~p~r~~I~~~~~~~g-----~G~-Vv~G~v 232 (394)
T PRK12736 159 SEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIPTPERDTDKPFLMPVEDVFTITG-----RGT-VVTGRV 232 (394)
T ss_pred HHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCCCCCCCCCCCeEEEEEEEEecCC-----cEE-EEEEEE
Confidence 43322 245788888644 367888888776555544444445567777665432 354 599999
Q ss_pred eCCCCCCCCeEEeCCCCc---eeeceeec
Q 004549 279 RAHCLSVNQLVHISGAGD---FQLGKIEI 304 (745)
Q Consensus 279 RG~~l~~n~lVHIpG~GD---Fqi~~I~~ 304 (745)
....++.|+.|-|.+.|. ..|.+|+.
T Consensus 233 ~~G~l~~gd~v~i~p~~~~~~~~V~sI~~ 261 (394)
T PRK12736 233 ERGTVKVGDEVEIVGIKETQKTVVTGVEM 261 (394)
T ss_pred eecEEecCCEEEEecCCCCeEEEEEEEEE
Confidence 999999999998866654 45666664
No 11
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=98.51 E-value=7.8e-06 Score=96.59 Aligned_cols=209 Identities=12% Similarity=0.133 Sum_probs=143.7
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCC----CC--cceEEEec------CceeeEEEEeCCCC--C-hHHHHhHHhh
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGT----GA--LSSTVSSS------KYRLRTSVLQAPHG--D-LVGCMEMAKV 144 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~----~~--g~~tv~~~------r~k~R~tfie~~~~--d-l~~mLD~aKv 144 (745)
.||+++|-.+.+.. +| ++.|++.+. ++ ..+|+..+ ...++++|+-+| + + +..|+-.+.-
T Consensus 1 ~ii~~~GhvdhGKT-tL----i~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtP-Ghe~fi~~m~~g~~~ 74 (614)
T PRK10512 1 MIIATAGHVDHGKT-TL----LQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVP-GHEKFLSNMLAGVGG 74 (614)
T ss_pred CEEEEECCCCCCHH-HH----HHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECC-CHHHHHHHHHHHhhc
Confidence 37888888776654 67 666664321 11 23343321 013579999998 5 3 4778999999
Q ss_pred cceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhh-hHHHHHHHHhhcccccCCCCeeEEe
Q 004549 145 ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKK-RKDLKKMCISSLTSEFPEDCKFYAA 223 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk-~~~~kK~lk~~f~~e~~~~~Klf~l 223 (745)
||++|||+|+.. ++...+.+.|.+|...|.|.+|.|+|.+|...+. ...++..++..+.........+|.+
T Consensus 75 ~D~~lLVVda~e--------g~~~qT~ehl~il~~lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~V 146 (614)
T PRK10512 75 IDHALLVVACDD--------GVMAQTREHLAILQLTGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVT 146 (614)
T ss_pred CCEEEEEEECCC--------CCcHHHHHHHHHHHHcCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEE
Confidence 999999999994 4778899999999999999999999999961122 2345566666655443335678888
Q ss_pred CC--HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCC-ceeec
Q 004549 224 DT--KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAG-DFQLG 300 (745)
Q Consensus 224 ~~--~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G-DFqi~ 300 (745)
|. ..-+..|...|... +.+..+.+....|.+|++--++ ..| .+|+|.|....+++|+.|-|.+.| ..+|.
T Consensus 147 SA~tG~gI~~L~~~L~~~-~~~~~~~~~~~rl~Id~vf~v~-----G~G-tVvtGtv~sG~l~~Gd~v~i~p~~~~~~Vr 219 (614)
T PRK10512 147 AATEGRGIDALREHLLQL-PEREHAAQHRFRLAIDRAFTVK-----GAG-LVVTGTALSGEVKVGDTLWLTGVNKPMRVR 219 (614)
T ss_pred eCCCCCCCHHHHHHHHHh-hccccCcCCCceEEEEEEeccC-----CCe-EEEEEEEecceEecCCEEEEcCCCCcEEEE
Confidence 84 33355666666654 3445556666778888865332 234 579999999999999999887655 46777
Q ss_pred eeeccCCCC
Q 004549 301 KIEILKDPF 309 (745)
Q Consensus 301 ~I~~~~DP~ 309 (745)
+|..-..|+
T Consensus 220 sIq~~~~~v 228 (614)
T PRK10512 220 GLHAQNQPT 228 (614)
T ss_pred EEecCCcCC
Confidence 777655443
No 12
>PRK00049 elongation factor Tu; Reviewed
Probab=98.45 E-value=1.3e-05 Score=90.02 Aligned_cols=161 Identities=14% Similarity=0.136 Sum_probs=114.0
Q ss_pred eeeEEEEeCCCC--C-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchh-
Q 004549 122 RLRTSVLQAPHG--D-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK- 197 (745)
Q Consensus 122 k~R~tfie~~~~--d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~K- 197 (745)
+.+++|+-+| + + +..|+..+..||.+|||+|+..| +...+.+++..+...|+|.++.+++.+|.-.+
T Consensus 74 ~~~i~~iDtP-G~~~f~~~~~~~~~~aD~~llVVDa~~g--------~~~qt~~~~~~~~~~g~p~iiVvvNK~D~~~~~ 144 (396)
T PRK00049 74 KRHYAHVDCP-GHADYVKNMITGAAQMDGAILVVSAADG--------PMPQTREHILLARQVGVPYIVVFLNKCDMVDDE 144 (396)
T ss_pred CeEEEEEECC-CHHHHHHHHHhhhccCCEEEEEEECCCC--------CchHHHHHHHHHHHcCCCEEEEEEeecCCcchH
Confidence 5689999998 4 3 56678888999999999999954 77789999999999999998889999985111
Q ss_pred hh-HHHHHHHHhhcccc-c-CCCCeeEEeCCHH------------HHHHHHHHHhhccccCCccccCCCeEEEEeeEecc
Q 004549 198 KR-KDLKKMCISSLTSE-F-PEDCKFYAADTKD------------ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVA 262 (745)
Q Consensus 198 k~-~~~kK~lk~~f~~e-~-~~~~Klf~l~~~~------------e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~ 262 (745)
.. ...++.++.+|... + +....++++|..+ .+..|+..|....+.|-..-+.-..|..+++-..+
T Consensus 145 ~~~~~~~~~i~~~l~~~~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~~~p~~~~~~p~r~~I~~~f~v~ 224 (396)
T PRK00049 145 ELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSYIPTPERAIDKPFLMPIEDVFSIS 224 (396)
T ss_pred HHHHHHHHHHHHHHHhcCCCccCCcEEEeecccccCCCCcccccccHHHHHHHHHhcCCCCCCCCCCCeEEEEEEEEeeC
Confidence 11 22445566666442 2 2345667777532 45788889888655554444444455666655432
Q ss_pred CCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCce
Q 004549 263 DDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGDF 297 (745)
Q Consensus 263 ~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDF 297 (745)
. .| .+++|.|....+++|+.|.|.+.+++
T Consensus 225 g-----~G-~Vv~G~v~~G~i~~gd~v~i~p~~~~ 253 (396)
T PRK00049 225 G-----RG-TVVTGRVERGIIKVGEEVEIVGIRDT 253 (396)
T ss_pred C-----ce-EEEEEEEeeeEEecCCEEEEeecCCC
Confidence 2 35 46899999999999999999776543
No 13
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=98.42 E-value=2.2e-05 Score=89.72 Aligned_cols=165 Identities=13% Similarity=0.097 Sum_probs=114.8
Q ss_pred eeeEEEEeCCCCC---hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chh
Q 004549 122 RLRTSVLQAPHGD---LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLK 197 (745)
Q Consensus 122 k~R~tfie~~~~d---l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~K 197 (745)
+++++||.|| .- +..|+-.+..||++|||+||..| +....|.+.|.++.+.|++.+|.||+.+|. +..
T Consensus 116 ~~~i~~IDtP-GH~~fi~~m~~g~~~~D~alLVVda~~g-------~~~~qT~ehl~i~~~lgi~~iIVvlNKiDlv~~~ 187 (460)
T PTZ00327 116 KRHVSFVDCP-GHDILMATMLNGAAVMDAALLLIAANES-------CPQPQTSEHLAAVEIMKLKHIIILQNKIDLVKEA 187 (460)
T ss_pred cceEeeeeCC-CHHHHHHHHHHHHhhCCEEEEEEECCCC-------ccchhhHHHHHHHHHcCCCcEEEEEecccccCHH
Confidence 4689999998 43 56889999999999999999942 145678899999999999999999999985 112
Q ss_pred hhHHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccC--CC-CCCCceE
Q 004549 198 KRKDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVAD--DC-NSGKCTL 272 (745)
Q Consensus 198 k~~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~--~~-~~~~~~l 272 (745)
........++.++...+..+..+|++|. -..+..|+-.|...-+.|-...+....|.++|.-.+.. .. .+..| .
T Consensus 188 ~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp~~~r~~~~p~r~~Idr~F~V~~~g~~~~~~~G-t 266 (460)
T PTZ00327 188 QAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIPIPKRDLTSPPRMIVIRSFDVNKPGEDIENLKG-G 266 (460)
T ss_pred HHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCCCCCCCCCCCcEEEEEEEEeecccCCcccCCce-E
Confidence 2233444555555444456789999994 33466777777754444433335566677787532221 10 11123 5
Q ss_pred EEEEEEeCCCCCCCCeEEeCCCC
Q 004549 273 LLHGYLRAHCLSVNQLVHISGAG 295 (745)
Q Consensus 273 ~v~GyvRG~~l~~n~lVHIpG~G 295 (745)
+++|.|....+++|+.|.|...|
T Consensus 267 Vv~G~v~~G~l~~Gd~v~i~P~~ 289 (460)
T PTZ00327 267 VAGGSILQGVLKVGDEIEIRPGI 289 (460)
T ss_pred EEEEEEeeceEecCCEEEEccCc
Confidence 68999999999999999887543
No 14
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=98.39 E-value=3.5e-05 Score=86.57 Aligned_cols=170 Identities=14% Similarity=0.111 Sum_probs=119.4
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhh
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKK 198 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk 198 (745)
+++++|+-+|- .+ +..|+-.+..||.+|||+|+..| ....+++.|..+...|+|.++.|++.+|. +...
T Consensus 74 ~~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g--------~~~qt~e~l~~~~~~gi~~iIvvvNK~Dl~~~~~ 145 (394)
T TIGR00485 74 NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDG--------PMPQTREHILLARQVGVPYIVVFLNKCDMVDDEE 145 (394)
T ss_pred CEEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCC--------CcHHHHHHHHHHHHcCCCEEEEEEEecccCCHHH
Confidence 56899999982 13 56788888999999999999954 67789999999999999999999999985 1111
Q ss_pred h-HHHHHHHHhhcccccCC--CCeeEEeCCH----------HHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCC
Q 004549 199 R-KDLKKMCISSLTSEFPE--DCKFYAADTK----------DELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDC 265 (745)
Q Consensus 199 ~-~~~kK~lk~~f~~e~~~--~~Klf~l~~~----------~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~ 265 (745)
. ..+++.++.++...-.. ...+++.|.. +.+..|+..|....+.|-.+-+.-..|.++++-..+.
T Consensus 146 ~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~g~~~~~~~~~~ll~~l~~~~~~~~~~~~~p~r~~V~~vf~~~g-- 223 (394)
T TIGR00485 146 LLELVEMEVRELLSEYDFPGDDTPIIRGSALKALEGDAEWEAKILELMDAVDEYIPTPERETDKPFLMPIEDVFSITG-- 223 (394)
T ss_pred HHHHHHHHHHHHHHhcCCCccCccEEECccccccccCCchhHhHHHHHHHHHhcCCCCCCCCCCCeEEEEEEEEeeCC--
Confidence 1 22344555555433222 2577877742 1346778877776665656655555577777664432
Q ss_pred CCCCceEEEEEEEeCCCCCCCCeEEeCCCC---ceeeceeecc
Q 004549 266 NSGKCTLLLHGYLRAHCLSVNQLVHISGAG---DFQLGKIEIL 305 (745)
Q Consensus 266 ~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G---DFqi~~I~~~ 305 (745)
.| .+++|.|...-++.|..|.|.+.+ ...|.+|..-
T Consensus 224 ---~G-~Vv~G~v~~G~l~~gd~v~i~p~~~~~~~~VksI~~~ 262 (394)
T TIGR00485 224 ---RG-TVVTGRVERGIVKVGEEVEIVGLKDTRKTTVTGVEMF 262 (394)
T ss_pred ---ce-EEEEEEEEeeEEeCCCEEEEecCCCCcEEEEEEEEEC
Confidence 34 568999999999999999986543 4567777654
No 15
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=98.37 E-value=4.6e-05 Score=89.71 Aligned_cols=206 Identities=16% Similarity=0.171 Sum_probs=134.9
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCC----C--cceEE-------EecCceeeEEEEeCCCCC---hHHHHhHHh
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTG----A--LSSTV-------SSSKYRLRTSVLQAPHGD---LVGCMEMAK 143 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~----~--g~~tv-------~~~r~k~R~tfie~~~~d---l~~mLD~aK 143 (745)
.+|+++|..+.+.. +| ++.|++.+.. + ..+|+ ..+ ..+++|+.+| .. +..|+..++
T Consensus 1 ~~I~iiG~~d~GKT-TL----i~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~--~~~v~~iDtP-Ghe~f~~~~~~g~~ 72 (581)
T TIGR00475 1 MIIATAGHVDHGKT-TL----LKALTGIAADRLPEEKKRGMTIDLGFAYFPLP--DYRLGFIDVP-GHEKFISNAIAGGG 72 (581)
T ss_pred CEEEEECCCCCCHH-HH----HHHHhCccCcCChhHhcCCceEEeEEEEEEeC--CEEEEEEECC-CHHHHHHHHHhhhc
Confidence 37899999887764 66 6666543211 1 22332 222 2689999998 42 567888899
Q ss_pred hcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhh-hHHHHHHHHhhcccccC-CCCeeE
Q 004549 144 VADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKK-RKDLKKMCISSLTSEFP-EDCKFY 221 (745)
Q Consensus 144 vADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk-~~~~kK~lk~~f~~e~~-~~~Klf 221 (745)
-||.+|||+|++.| +...+++.|.+++..|+|+++.|+|..|...+. ...+.+.++..++.... .+..+|
T Consensus 73 ~aD~aILVVDa~~G--------~~~qT~ehl~il~~lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii 144 (581)
T TIGR00475 73 GIDAALLVVDADEG--------VMTQTGEHLAVLDLLGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIF 144 (581)
T ss_pred cCCEEEEEEECCCC--------CcHHHHHHHHHHHHcCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEE
Confidence 99999999999954 667899999999999999999999999851122 22345555555554322 267899
Q ss_pred EeCC-----HHHHHHHH-HHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCC
Q 004549 222 AADT-----KDELHKFL-WLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAG 295 (745)
Q Consensus 222 ~l~~-----~~e~~nL~-R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G 295 (745)
.+|. -.+..+.+ ..+.....+. -+....|..|++--... .| .+|+|.|....+++|..|-|-..|
T Consensus 145 ~vSA~tG~GI~eL~~~L~~l~~~~~~~~---~~~p~r~~Id~~f~v~G-----~G-tVv~G~v~~G~i~~Gd~l~i~P~~ 215 (581)
T TIGR00475 145 KTSAKTGQGIGELKKELKNLLESLDIKR---IQKPLRMAIDRAFKVKG-----AG-TVVTGTAFSGEVKVGDNLRLLPIN 215 (581)
T ss_pred EEeCCCCCCchhHHHHHHHHHHhCCCcC---cCCCcEEEEEEEEecCC-----cE-EEEEEEEecceEecCCEEEECCCC
Confidence 9883 22333222 2222222211 13444577777653322 34 579999999999999999887655
Q ss_pred -ceeeceeeccCCCCC
Q 004549 296 -DFQLGKIEILKDPFP 310 (745)
Q Consensus 296 -DFqi~~I~~~~DP~p 310 (745)
..+|.+|..-..|+.
T Consensus 216 ~~~~Vr~iq~~~~~v~ 231 (581)
T TIGR00475 216 HEVRVKAIQAQNQDVE 231 (581)
T ss_pred ceEEEeEEEECCccCC
Confidence 577888876555443
No 16
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=98.36 E-value=4.7e-05 Score=86.02 Aligned_cols=163 Identities=15% Similarity=0.132 Sum_probs=109.8
Q ss_pred eeEEEEeCCCCC---hHHHHhHHhhcceEEEEeeCCCcccccccccc-ChHHHHHHHHHHhcCCCceEEEeccCCcchh-
Q 004549 123 LRTSVLQAPHGD---LVGCMEMAKVADLVAFVASASSFSEESMSYYI-DSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK- 197 (745)
Q Consensus 123 ~R~tfie~~~~d---l~~mLD~aKvADlVlllidas~g~~~~~~~~f-d~eg~e~L~~l~~qGlP~vigvl~~L~~~~K- 197 (745)
++++|+-+| .. +..++..+..||.+|+|+|++.| + ..++.+.|..++..|++.++.|++.+|....
T Consensus 85 ~~i~liDtP-G~~~f~~~~~~~~~~~D~~llVVDa~~~--------~~~~~t~~~l~~l~~~~i~~iiVVlNK~Dl~~~~ 155 (411)
T PRK04000 85 RRVSFVDAP-GHETLMATMLSGAALMDGAILVIAANEP--------CPQPQTKEHLMALDIIGIKNIVIVQNKIDLVSKE 155 (411)
T ss_pred cEEEEEECC-CHHHHHHHHHHHHhhCCEEEEEEECCCC--------CCChhHHHHHHHHHHcCCCcEEEEEEeeccccch
Confidence 689999998 42 45677888889999999999953 4 6778889999999999999999999885111
Q ss_pred hhHHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCC---CCCCceE
Q 004549 198 KRKDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDC---NSGKCTL 272 (745)
Q Consensus 198 k~~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~---~~~~~~l 272 (745)
......+.++..+...+..+..+|.+|. ...+..|...|...-+.|-...+....|.++++-.+.... .+..| .
T Consensus 156 ~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~~~~~~~~~~r~~I~~~f~v~~~g~~~~~~~G-~ 234 (411)
T PRK04000 156 RALENYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIPTPERDLDKPPRMYVARSFDVNKPGTPPEKLKG-G 234 (411)
T ss_pred hHHHHHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCCCCCCCCCCCceEEEEeeeeecCCCccccCCcc-e
Confidence 1122334444444433344677888884 3345566666665444444444555578888764332210 11223 4
Q ss_pred EEEEEEeCCCCCCCCeEEeCCCC
Q 004549 273 LLHGYLRAHCLSVNQLVHISGAG 295 (745)
Q Consensus 273 ~v~GyvRG~~l~~n~lVHIpG~G 295 (745)
+++|.|....+++|+.|.|..-|
T Consensus 235 Vv~G~v~~G~l~~gd~v~i~P~~ 257 (411)
T PRK04000 235 VIGGSLIQGVLKVGDEIEIRPGI 257 (411)
T ss_pred EEEEEEEeCEEecCCEEEEcCCc
Confidence 68999999999999999995333
No 17
>PLN03126 Elongation factor Tu; Provisional
Probab=98.35 E-value=5.1e-05 Score=87.25 Aligned_cols=162 Identities=14% Similarity=0.140 Sum_probs=114.8
Q ss_pred eeeEEEEeCCCC--C-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhh
Q 004549 122 RLRTSVLQAPHG--D-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKK 198 (745)
Q Consensus 122 k~R~tfie~~~~--d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk 198 (745)
+++++||-+| + + +..|+..+..||.+|||+||..| ....+.+.+..++..|+|..+.+++.+|.-.+.
T Consensus 143 ~~~i~liDtP-Gh~~f~~~~~~g~~~aD~ailVVda~~G--------~~~qt~e~~~~~~~~gi~~iIvvvNK~Dl~~~~ 213 (478)
T PLN03126 143 NRHYAHVDCP-GHADYVKNMITGAAQMDGAILVVSGADG--------PMPQTKEHILLAKQVGVPNMVVFLNKQDQVDDE 213 (478)
T ss_pred CcEEEEEECC-CHHHHHHHHHHHHhhCCEEEEEEECCCC--------CcHHHHHHHHHHHHcCCCeEEEEEecccccCHH
Confidence 5799999998 4 3 57889999999999999999954 677899999999999999999999999851111
Q ss_pred --hHHHHHHHHhhcccc-cC-CCCeeEEeCCHH--------------------HHHHHHHHHhhccccCCccccCCCeEE
Q 004549 199 --RKDLKKMCISSLTSE-FP-EDCKFYAADTKD--------------------ELHKFLWLFKEQRLTVPHWRNQRPFLM 254 (745)
Q Consensus 199 --~~~~kK~lk~~f~~e-~~-~~~Klf~l~~~~--------------------e~~nL~R~I~~~k~r~l~WR~~rpYmL 254 (745)
...+++.++.++... |+ ....++++|..+ .+..|+-.|-...+-|-.+-+.-..|.
T Consensus 214 ~~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~n~~~~~~~~~~g~~~wy~~i~~Ll~~l~~~~~~p~r~~~~p~r~~ 293 (478)
T PLN03126 214 ELLELVELEVRELLSSYEFPGDDIPIISGSALLALEALMENPNIKRGDNKWVDKIYELMDAVDSYIPIPQRQTDLPFLLA 293 (478)
T ss_pred HHHHHHHHHHHHHHHhcCCCcCcceEEEEEccccccccccccccccCCCchhhhHHHHHHHHHHhCCCCCCccccceeeE
Confidence 223445555555442 22 234555554211 245677777765444444445555677
Q ss_pred EEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCcee
Q 004549 255 AQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGDFQ 298 (745)
Q Consensus 255 adr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFq 298 (745)
.+++-.++. .| .+++|.|....+++|+.|.|...|+++
T Consensus 294 I~~vf~v~g-----~G-tVv~G~V~sG~i~~Gd~v~i~p~~~~~ 331 (478)
T PLN03126 294 VEDVFSITG-----RG-TVATGRVERGTVKVGETVDIVGLRETR 331 (478)
T ss_pred EEEEEEeCC-----ce-EEEEEEEEcCeEecCCEEEEecCCCce
Confidence 777664432 34 568999999999999999998888754
No 18
>PLN03127 Elongation factor Tu; Provisional
Probab=98.32 E-value=5.8e-05 Score=86.18 Aligned_cols=215 Identities=14% Similarity=0.138 Sum_probs=136.3
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhcc-----------CCC--CC--cceEE-----EecCceeeEEEEeCCC-CC
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLSS-----------EGT--GA--LSSTV-----SSSKYRLRTSVLQAPH-GD 134 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~-----------~~~--~~--g~~tv-----~~~r~k~R~tfie~~~-~d 134 (745)
.-|.+.|+++|-.+.+.. +|++.|.+.... ++. ++ .-+|+ .....+++++|+-+|- .+
T Consensus 58 ~k~~~ni~iiGhvd~GKS-TL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~ 136 (447)
T PLN03127 58 TKPHVNVGTIGHVDHGKT-TLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHAD 136 (447)
T ss_pred CCceEEEEEECcCCCCHH-HHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCccc
Confidence 466778999998775543 453333332111 111 11 11222 2222356899999982 23
Q ss_pred -hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhH-HHHHHHHhhcc
Q 004549 135 -LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRK-DLKKMCISSLT 211 (745)
Q Consensus 135 -l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~-~~kK~lk~~f~ 211 (745)
+..|+-.+..||++|||+||..| +...+.+.|..+..+|+|.+|.|++.+|. +.+... .+++.++.++.
T Consensus 137 f~~~~~~g~~~aD~allVVda~~g--------~~~qt~e~l~~~~~~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~ 208 (447)
T PLN03127 137 YVKNMITGAAQMDGGILVVSAPDG--------PMPQTKEHILLARQVGVPSLVVFLNKVDVVDDEELLELVEMELRELLS 208 (447)
T ss_pred hHHHHHHHHhhCCEEEEEEECCCC--------CchhHHHHHHHHHHcCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHH
Confidence 56788888889999999999854 67789999999999999999999999985 111222 23334544443
Q ss_pred cc-cC-CCCeeEEeCC------------HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEE
Q 004549 212 SE-FP-EDCKFYAADT------------KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGY 277 (745)
Q Consensus 212 ~e-~~-~~~Klf~l~~------------~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~Gy 277 (745)
.. ++ ...-++++|. ...+..|+..|...-+.|..+-+....|..+++-.++. .| .+++|-
T Consensus 209 ~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp~p~r~~~~pfr~~I~~vf~v~g-----~G-tVvtG~ 282 (447)
T PLN03127 209 FYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYIPEPVRVLDKPFLMPIEDVFSIQG-----RG-TVATGR 282 (447)
T ss_pred HhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhCCCCCcccccceEeeEEEEEEcCC-----ce-EEEEEE
Confidence 21 21 1233444332 23467888888887776666655555567777654322 34 569999
Q ss_pred EeCCCCCCCCeEEeCCCC-----ceeeceeecc
Q 004549 278 LRAHCLSVNQLVHISGAG-----DFQLGKIEIL 305 (745)
Q Consensus 278 vRG~~l~~n~lVHIpG~G-----DFqi~~I~~~ 305 (745)
|...-+++|+.|-|-|.+ ..+|.+|+.-
T Consensus 283 v~~G~i~~Gd~v~i~p~~~~g~~~~~VksI~~~ 315 (447)
T PLN03127 283 VEQGTIKVGEEVEIVGLRPGGPLKTTVTGVEMF 315 (447)
T ss_pred EEccEEecCCEEEEcccCCCCcEEEEEEEEEEE
Confidence 999999999999887542 3466666654
No 19
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=98.32 E-value=5.6e-05 Score=85.28 Aligned_cols=163 Identities=15% Similarity=0.129 Sum_probs=109.9
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCcccccccccc-ChHHHHHHHHHHhcCCCceEEEeccCCcchh-
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYI-DSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK- 197 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~f-d~eg~e~L~~l~~qGlP~vigvl~~L~~~~K- 197 (745)
.++++|+-+|- .+ +..|+-.+..||.+|||+|++.| + ..++.+.|..++..|++.++.|++.+|....
T Consensus 79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g--------~~~~qt~e~l~~l~~~gi~~iIVvvNK~Dl~~~~ 150 (406)
T TIGR03680 79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEP--------CPQPQTKEHLMALEIIGIKNIVIVQNKIDLVSKE 150 (406)
T ss_pred ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCC--------ccccchHHHHHHHHHcCCCeEEEEEEccccCCHH
Confidence 36899999982 12 56788888999999999999954 4 5678889999999999999999999985111
Q ss_pred hhHHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCC---CCCCceE
Q 004549 198 KRKDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDC---NSGKCTL 272 (745)
Q Consensus 198 k~~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~---~~~~~~l 272 (745)
........++..+...+..+..+|.+|. ...+..|.-.|...-+.|-..-+....|..+++-.+.... .+..| .
T Consensus 151 ~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~~~~~~~~~~~~~~I~~~f~v~~~g~~~~~~~G-~ 229 (406)
T TIGR03680 151 KALENYEEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIPTPERDLDKPPLMYVARSFDVNKPGTPPEKLKG-G 229 (406)
T ss_pred HHHHHHHHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCCCCCCCCCCCcEEEEEEEEeecCCCccccCCce-e
Confidence 1222333444444333334567888883 3345566666665444444444566678888765432210 11123 4
Q ss_pred EEEEEEeCCCCCCCCeEEe-CC
Q 004549 273 LLHGYLRAHCLSVNQLVHI-SG 293 (745)
Q Consensus 273 ~v~GyvRG~~l~~n~lVHI-pG 293 (745)
+++|.|....+++|+.|.| |+
T Consensus 230 Vv~G~v~~G~i~~gd~v~i~P~ 251 (406)
T TIGR03680 230 VIGGSLIQGKLKVGDEIEIRPG 251 (406)
T ss_pred EEEEEEEeCEEeCCCEEEEccC
Confidence 7899999999999999999 66
No 20
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=98.31 E-value=2.1e-05 Score=78.84 Aligned_cols=107 Identities=18% Similarity=0.315 Sum_probs=80.1
Q ss_pred ceeeEEEEeCCCCC---hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchh
Q 004549 121 YRLRTSVLQAPHGD---LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK 197 (745)
Q Consensus 121 ~k~R~tfie~~~~d---l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~K 197 (745)
..++++||-|| .. +..|+-+++.||.+|+|+||.. ++...+.++|..++..|+| +|.||+.+|.-.+
T Consensus 68 ~~~~i~~iDtP-G~~~f~~~~~~~~~~~D~ailvVda~~--------g~~~~~~~~l~~~~~~~~p-~ivvlNK~D~~~~ 137 (188)
T PF00009_consen 68 NNRKITLIDTP-GHEDFIKEMIRGLRQADIAILVVDAND--------GIQPQTEEHLKILRELGIP-IIVVLNKMDLIEK 137 (188)
T ss_dssp SSEEEEEEEES-SSHHHHHHHHHHHTTSSEEEEEEETTT--------BSTHHHHHHHHHHHHTT-S-EEEEEETCTSSHH
T ss_pred cccceeecccc-cccceeecccceecccccceeeeeccc--------ccccccccccccccccccc-eEEeeeeccchhh
Confidence 35899999998 54 5678899999999999999994 4889999999999999999 8999999996223
Q ss_pred hhHHHHHHHHhhcccccCCC----CeeEEeCC--HHHHHHHHHHHh
Q 004549 198 KRKDLKKMCISSLTSEFPED----CKFYAADT--KDELHKFLWLFK 237 (745)
Q Consensus 198 k~~~~kK~lk~~f~~e~~~~----~Klf~l~~--~~e~~nL~R~I~ 237 (745)
...++.+.++..|...++.+ ..++++|. ..-+..|+..|.
T Consensus 138 ~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~ 183 (188)
T PF00009_consen 138 ELEEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALV 183 (188)
T ss_dssp HHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHH
T ss_pred hHHHHHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHH
Confidence 44567777776665555422 46888884 223444555443
No 21
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=97.97 E-value=0.00073 Score=77.24 Aligned_cols=174 Identities=16% Similarity=0.119 Sum_probs=117.1
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCcccccccccc--ChHHHHHHHHHHhcCCCceEEEeccCCcc--
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYI--DSFGNQCLSVFRSLGLPSTAVLIRDLPTD-- 195 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~f--d~eg~e~L~~l~~qGlP~vigvl~~L~~~-- 195 (745)
..+++||-+|- .+ +..|+-++..||.+|||+||+.|.-+ .+| +-.|.+.|.++.+.|+|.+|.+++.+|..
T Consensus 84 ~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e---~~~~~~~qT~eh~~~~~~~gi~~iiv~vNKmD~~~~ 160 (446)
T PTZ00141 84 KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFE---AGISKDGQTREHALLAFTLGVKQMIVCINKMDDKTV 160 (446)
T ss_pred CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCcee---cccCCCccHHHHHHHHHHcCCCeEEEEEEccccccc
Confidence 57899999982 23 67899999999999999999976211 233 36899999999999999999999999831
Q ss_pred --h-hhhHHHHHHHHhhcccccC--CCCeeEEeCCHHH--------------HHHHHHHHhhccccCCccccCCCeEEEE
Q 004549 196 --L-KKRKDLKKMCISSLTSEFP--EDCKFYAADTKDE--------------LHKFLWLFKEQRLTVPHWRNQRPFLMAQ 256 (745)
Q Consensus 196 --~-Kk~~~~kK~lk~~f~~e~~--~~~Klf~l~~~~e--------------~~nL~R~I~~~k~r~l~WR~~rpYmLad 256 (745)
. ..-..+++.++.+|...-. ....++++|..+. .-.|+..|-...+ |-.+.+.-..|..+
T Consensus 161 ~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~~~~~~~Wy~G~tL~~~l~~~~~-~~~~~~~p~r~~I~ 239 (446)
T PTZ00141 161 NYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIEKSDNMPWYKGPTLLEALDTLEP-PKRPVDKPLRLPLQ 239 (446)
T ss_pred hhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCcccCCCCCcccchHHHHHHHhCCCC-CCcCCCCCeEEEEE
Confidence 1 1224567777777764322 2466777773111 1136666655432 33344444457777
Q ss_pred eeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCC-ceeeceeecc
Q 004549 257 KVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAG-DFQLGKIEIL 305 (745)
Q Consensus 257 r~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G-DFqi~~I~~~ 305 (745)
++--.+. .| .+++|.|....+++|+.|.+.--| ..+|.+|+.-
T Consensus 240 ~v~~v~g-----~G-tvv~G~V~~G~l~~Gd~v~i~P~~~~~~VksI~~~ 283 (446)
T PTZ00141 240 DVYKIGG-----IG-TVPVGRVETGILKPGMVVTFAPSGVTTEVKSVEMH 283 (446)
T ss_pred EEEecCC-----ce-EEEEEEEEcceEecCCEEEEccCCcEEEEEEEEec
Confidence 7654322 24 577999999999999988775434 3566666543
No 22
>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways. Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process
Probab=97.87 E-value=6.4e-05 Score=72.71 Aligned_cols=130 Identities=15% Similarity=0.142 Sum_probs=85.2
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC----cceEEEecCceeeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCc
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA----LSSTVSSSKYRLRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSF 157 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----g~~tv~~~r~k~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g 157 (745)
|.+||+.+++.. +|++.|.........+- ...++-+|. .|+|+| +-..++|..|.-||+|++|.||+..
T Consensus 4 imliG~~g~GKT-TL~q~L~~~~~~~~KTq~i~~~~~~IDTPG-----EyiE~~-~~y~aLi~ta~dad~V~ll~dat~~ 76 (143)
T PF10662_consen 4 IMLIGPSGSGKT-TLAQALNGEEIRYKKTQAIEYYDNTIDTPG-----EYIENP-RFYHALIVTAQDADVVLLLQDATEP 76 (143)
T ss_pred EEEECCCCCCHH-HHHHHHcCCCCCcCccceeEecccEEECCh-----hheeCH-HHHHHHHHHHhhCCEEEEEecCCCC
Confidence 678898887665 56222232221111111 334455554 589998 8899999999999999999999953
Q ss_pred cccccccccChHHHHHHHHHHhcCCCceEEEeccCCcc--hhhhHHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHH
Q 004549 158 SEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTD--LKKRKDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFL 233 (745)
Q Consensus 158 ~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~--~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~ 233 (745)
+..+--.|.+++. ..||||+|++|.. ......+++.|+..-++ ++|.+|. ..-+..|.
T Consensus 77 --------~~~~pP~fa~~f~----~pvIGVITK~Dl~~~~~~i~~a~~~L~~aG~~------~if~vS~~~~eGi~eL~ 138 (143)
T PF10662_consen 77 --------RSVFPPGFASMFN----KPVIGVITKIDLPSDDANIERAKKWLKNAGVK------EIFEVSAVTGEGIEELK 138 (143)
T ss_pred --------CccCCchhhcccC----CCEEEEEECccCccchhhHHHHHHHHHHcCCC------CeEEEECCCCcCHHHHH
Confidence 5555566666654 5799999999962 23345577777777553 5688874 33344555
Q ss_pred HHH
Q 004549 234 WLF 236 (745)
Q Consensus 234 R~I 236 (745)
++|
T Consensus 139 ~~L 141 (143)
T PF10662_consen 139 DYL 141 (143)
T ss_pred HHH
Confidence 554
No 23
>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2). eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel
Probab=97.87 E-value=0.00033 Score=71.29 Aligned_cols=113 Identities=12% Similarity=0.130 Sum_probs=80.7
Q ss_pred eeEEEEeCCCCC---hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchh-h
Q 004549 123 LRTSVLQAPHGD---LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK-K 198 (745)
Q Consensus 123 ~R~tfie~~~~d---l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~K-k 198 (745)
++++|+-+| .. +..++.++..+|.+|+|+|++.+ +....++++|..+...|+|.++.|++.+|...+ +
T Consensus 83 ~~i~~iDtP-G~~~~~~~~~~~~~~~D~~llVvd~~~~-------~~~~~t~~~l~~~~~~~~~~iiivvNK~Dl~~~~~ 154 (203)
T cd01888 83 RHVSFVDCP-GHEILMATMLSGAAVMDGALLLIAANEP-------CPQPQTSEHLAALEIMGLKHIIIVQNKIDLVKEEQ 154 (203)
T ss_pred cEEEEEECC-ChHHHHHHHHHhhhcCCEEEEEEECCCC-------CCCcchHHHHHHHHHcCCCcEEEEEEchhccCHHH
Confidence 689999998 43 56788889999999999999842 245678889999999999989999999996111 2
Q ss_pred hHHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhccccC
Q 004549 199 RKDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQRLTV 243 (745)
Q Consensus 199 ~~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~k~r~ 243 (745)
.....+.++..+......+..+|.+|. ...+..|...|+..-+.|
T Consensus 155 ~~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~~ 201 (203)
T cd01888 155 ALENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIPTP 201 (203)
T ss_pred HHHHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCCCC
Confidence 233445566555544334567888884 344667777777655554
No 24
>cd01884 EF_Tu EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=97.81 E-value=0.00087 Score=68.20 Aligned_cols=96 Identities=16% Similarity=0.131 Sum_probs=72.7
Q ss_pred eeeEEEEeCCCC--C-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chh
Q 004549 122 RLRTSVLQAPHG--D-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLK 197 (745)
Q Consensus 122 k~R~tfie~~~~--d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~K 197 (745)
+++++|+-+| + + +..++-++..||.+|||+|++. ++...+.++++.+..+|+|.+|.|++.+|. ...
T Consensus 64 ~~~i~~iDtP-G~~~~~~~~~~~~~~~D~~ilVvda~~--------g~~~~~~~~~~~~~~~~~~~iIvviNK~D~~~~~ 134 (195)
T cd01884 64 NRHYAHVDCP-GHADYIKNMITGAAQMDGAILVVSATD--------GPMPQTREHLLLARQVGVPYIVVFLNKADMVDDE 134 (195)
T ss_pred CeEEEEEECc-CHHHHHHHHHHHhhhCCEEEEEEECCC--------CCcHHHHHHHHHHHHcCCCcEEEEEeCCCCCCcH
Confidence 5789999998 4 3 4668888999999999999995 477889999999999999999999999985 112
Q ss_pred hh-HHHHHHHHhhccccc--CCCCeeEEeCCH
Q 004549 198 KR-KDLKKMCISSLTSEF--PEDCKFYAADTK 226 (745)
Q Consensus 198 k~-~~~kK~lk~~f~~e~--~~~~Klf~l~~~ 226 (745)
.. ..+++.+++++...- +.+..++++|..
T Consensus 135 ~~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~ 166 (195)
T cd01884 135 ELLELVEMEVRELLSKYGFDGDNTPIVRGSAL 166 (195)
T ss_pred HHHHHHHHHHHHHHHHhcccccCCeEEEeeCc
Confidence 22 235566666665432 235778888853
No 25
>CHL00189 infB translation initiation factor 2; Provisional
Probab=97.74 E-value=0.0014 Score=78.98 Aligned_cols=207 Identities=11% Similarity=0.128 Sum_probs=116.5
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEec--CceeeEEEEeCCC-CChHHHHh-HH
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSS--KYRLRTSVLQAPH-GDLVGCME-MA 142 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~--r~k~R~tfie~~~-~dl~~mLD-~a 142 (745)
..|.+|+|+|..+.+.. +| +..++...... +...+... ....+|+|+-+|- .++..|.. .+
T Consensus 242 ~r~p~V~IvGhvdvGKT-SL----ld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~ 316 (742)
T CHL00189 242 NRPPIVTILGHVDHGKT-TL----LDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGA 316 (742)
T ss_pred ccCCEEEEECCCCCCHH-HH----HHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHH
Confidence 45678999999887664 56 44443222111 22222221 1247899999972 24556554 78
Q ss_pred hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhh--cccccCCCCee
Q 004549 143 KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISS--LTSEFPEDCKF 220 (745)
Q Consensus 143 KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~--f~~e~~~~~Kl 220 (745)
..||++|||+|++.| +...+++.|..++..|+| +|.|++.+|........+++.|..+ +...+.....+
T Consensus 317 ~~aDiaILVVDA~dG--------v~~QT~E~I~~~k~~~iP-iIVViNKiDl~~~~~e~v~~eL~~~~ll~e~~g~~vpv 387 (742)
T CHL00189 317 NVTDIAILIIAADDG--------VKPQTIEAINYIQAANVP-IIVAINKIDKANANTERIKQQLAKYNLIPEKWGGDTPM 387 (742)
T ss_pred HHCCEEEEEEECcCC--------CChhhHHHHHHHHhcCce-EEEEEECCCccccCHHHHHHHHHHhccchHhhCCCceE
Confidence 999999999999854 677899999999999999 7778898885112223345555432 11222223568
Q ss_pred EEeCC--HHHHHHHHHHHhhcccc-CCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCce
Q 004549 221 YAADT--KDELHKFLWLFKEQRLT-VPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGDF 297 (745)
Q Consensus 221 f~l~~--~~e~~nL~R~I~~~k~r-~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDF 297 (745)
+.+|. ...+..|+-.|+..... .+.-.... ...+--++..-+ ...-.+++|-|....|++|.-|.+..
T Consensus 388 v~VSAktG~GIdeLle~I~~l~e~~~lk~~~~~-~~~g~V~e~~iD----~~~G~V~~~~V~sGtLr~GD~vv~g~---- 458 (742)
T CHL00189 388 IPISASQGTNIDKLLETILLLAEIEDLKADPTQ-LAQGIILEAHLD----KTKGPVATILVQNGTLHIGDIIVIGT---- 458 (742)
T ss_pred EEEECCCCCCHHHHHHhhhhhhhhhcccCCCCC-CceEEEEEEEEc----CCCceEEEEEEEcCEEecCCEEEECC----
Confidence 88884 22344444444432211 11111111 122222221111 11235677777766788888886654
Q ss_pred eeceeeccC
Q 004549 298 QLGKIEILK 306 (745)
Q Consensus 298 qi~~I~~~~ 306 (745)
...+|..+-
T Consensus 459 ~~gkVr~m~ 467 (742)
T CHL00189 459 SYAKIRGMI 467 (742)
T ss_pred cceEEEEEE
Confidence 234555543
No 26
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=97.68 E-value=0.0044 Score=70.38 Aligned_cols=171 Identities=15% Similarity=0.109 Sum_probs=108.8
Q ss_pred eeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcch--h
Q 004549 122 RLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDL--K 197 (745)
Q Consensus 122 k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~--K 197 (745)
+.+++|+-+|- .++ ..|+..++.||.+|||+|++.. .++...+.+.+..+...|.|.++.|++.+|... .
T Consensus 83 ~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~------~~~~~~~~~~~~~~~~~~~~~iivviNK~Dl~~~~~ 156 (425)
T PRK12317 83 KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDA------GGVMPQTREHVFLARTLGINQLIVAINKMDAVNYDE 156 (425)
T ss_pred CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccC------CCCCcchHHHHHHHHHcCCCeEEEEEEccccccccH
Confidence 56899998872 344 4577888999999999999841 146677888888899999998999999988511 1
Q ss_pred h-hHHHHHHHHhhcccccC--CCCeeEEeCCHH-----H---------HHHHHHHHhhccccCCccccCCCeEEEEeeEe
Q 004549 198 K-RKDLKKMCISSLTSEFP--EDCKFYAADTKD-----E---------LHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDV 260 (745)
Q Consensus 198 k-~~~~kK~lk~~f~~e~~--~~~Klf~l~~~~-----e---------~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~ 260 (745)
. ...+++.++.++...-. ....+|.+|..+ + ...|+-.|....+ |-.+-+.-..|..+++-.
T Consensus 157 ~~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~~~~wy~g~~L~~~l~~~~~-~~~~~~~p~r~~i~~~~~ 235 (425)
T PRK12317 157 KRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSENMPWYNGPTLLEALDNLKP-PEKPTDKPLRIPIQDVYS 235 (425)
T ss_pred HHHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCccccccCCCcccHHHHHHHHhcCCC-CccccCCCcEEEEEEEEe
Confidence 1 12344555555433211 135678777311 1 1235555554432 223323333466676554
Q ss_pred ccCCCCCCCceEEEEEEEeCCCCCCCCeEEe-CCCCceeeceeecc
Q 004549 261 VADDCNSGKCTLLLHGYLRAHCLSVNQLVHI-SGAGDFQLGKIEIL 305 (745)
Q Consensus 261 ~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHI-pG~GDFqi~~I~~~ 305 (745)
... .| .+++|.|....+++|..|.| |+--..+|.+|+.-
T Consensus 236 ~~g-----~G-~vv~G~v~~G~v~~Gd~v~i~P~~~~~~VksI~~~ 275 (425)
T PRK12317 236 ISG-----VG-TVPVGRVETGVLKVGDKVVFMPAGVVGEVKSIEMH 275 (425)
T ss_pred eCC-----Ce-EEEEEEEeeccEecCCEEEECCCCCeEEEEEEEEC
Confidence 322 34 57799999999999999987 54335777777754
No 27
>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA. This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.
Probab=97.66 E-value=0.0045 Score=73.28 Aligned_cols=169 Identities=12% Similarity=0.077 Sum_probs=115.8
Q ss_pred eeeEEEEeCCC-CChH-HHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GDLV-GCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~dl~-~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
..+|+|+-+|- .|+. .+.-+++.||.+|||+||+.| ....+...|..+...|+| +|.|++.+|......
T Consensus 63 ~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G--------~~~qT~~~l~~a~~~~ip-~IVviNKiD~~~a~~ 133 (594)
T TIGR01394 63 GTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEG--------PMPQTRFVLKKALELGLK-PIVVINKIDRPSARP 133 (594)
T ss_pred CEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCC--------CcHHHHHHHHHHHHCCCC-EEEEEECCCCCCcCH
Confidence 57899998872 3443 567788999999999999954 567889999999999999 467899998511222
Q ss_pred HHHHHHHHhhcccccCC----CCeeEEeCCHH------------HHHHHHHHHhhccccCCccccCCCeEEEEeeEeccC
Q 004549 200 KDLKKMCISSLTSEFPE----DCKFYAADTKD------------ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVAD 263 (745)
Q Consensus 200 ~~~kK~lk~~f~~e~~~----~~Klf~l~~~~------------e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~ 263 (745)
..+...++..|...-.+ ...+++.|..+ .+..|+..|...-|.|...-+.-.-|++.++.+.+.
T Consensus 134 ~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P~~~~~~pl~~~V~~i~~d~~ 213 (594)
T TIGR01394 134 DEVVDEVFDLFAELGADDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAPKGDLDEPLQMLVTNLDYDEY 213 (594)
T ss_pred HHHHHHHHHHHHhhccccccccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCCCCCCCCCCCEEEEEEEEEeeCC
Confidence 34555555555321010 12366766433 366888888888887765444444577777765432
Q ss_pred CCCCCCceEEEEEEEeCCCCCCCCeEEeCCC-Cc---eeeceeecc
Q 004549 264 DCNSGKCTLLLHGYLRAHCLSVNQLVHISGA-GD---FQLGKIEIL 305 (745)
Q Consensus 264 ~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~-GD---Fqi~~I~~~ 305 (745)
.|.| ++|-|-...|++|+.|.+... |. ..|.+|...
T Consensus 214 -----~Grv-~~gRV~sG~lk~G~~V~~~~~~~~~~~~kV~~i~~~ 253 (594)
T TIGR01394 214 -----LGRI-AIGRVHRGTVKKGQQVALMKRDGTIENGRISKLLGF 253 (594)
T ss_pred -----CceE-EEEEEEeCEEccCCEEEEecCCCceeEEEEEEEEEc
Confidence 3554 788888888999999998765 43 456666543
No 28
>TIGR00487 IF-2 translation initiation factor IF-2. This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.
Probab=97.62 E-value=0.0031 Score=74.44 Aligned_cols=195 Identities=16% Similarity=0.169 Sum_probs=116.9
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhccCCCCC---cceE-------EEecCceeeEEEEeCCC-CChHHHHh-HHhhc
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA---LSST-------VSSSKYRLRTSVLQAPH-GDLVGCME-MAKVA 145 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---g~~t-------v~~~r~k~R~tfie~~~-~dl~~mLD-~aKvA 145 (745)
-|.+|+|+|..+.+.. +| +..|++..... +.+| +.... .++++|+-+|- .++.+|.. .+..|
T Consensus 86 r~p~V~I~Ghvd~GKT-SL----l~~l~~~~v~~~e~~GIT~~ig~~~v~~~~-~~~i~~iDTPGhe~F~~~r~rga~~a 159 (587)
T TIGR00487 86 RPPVVTIMGHVDHGKT-SL----LDSIRKTKVAQGEAGGITQHIGAYHVENED-GKMITFLDTPGHEAFTSMRARGAKVT 159 (587)
T ss_pred CCCEEEEECCCCCCHH-HH----HHHHHhCCcccccCCceeecceEEEEEECC-CcEEEEEECCCCcchhhHHHhhhccC
Confidence 3457899999987765 66 55554333221 2233 33222 23899999872 35666655 68999
Q ss_pred ceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhh-cc-cccCCCCeeEEe
Q 004549 146 DLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISS-LT-SEFPEDCKFYAA 223 (745)
Q Consensus 146 DlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~-f~-~e~~~~~Klf~l 223 (745)
|++|||+|++.| ....+.+.|+.+...|+| ++.+++.+|........+++.++.. +. ..+.....+|..
T Consensus 160 DiaILVVda~dg--------v~~qT~e~i~~~~~~~vP-iIVviNKiDl~~~~~e~v~~~L~~~g~~~~~~~~~~~~v~i 230 (587)
T TIGR00487 160 DIVVLVVAADDG--------VMPQTIEAISHAKAANVP-IIVAINKIDKPEANPDRVKQELSEYGLVPEDWGGDTIFVPV 230 (587)
T ss_pred CEEEEEEECCCC--------CCHhHHHHHHHHHHcCCC-EEEEEECcccccCCHHHHHHHHHHhhhhHHhcCCCceEEEE
Confidence 999999999844 678899999999999999 7888898885111122344444432 11 122223568888
Q ss_pred CC--HHHHHHHHHHHhhccc-cCCcc-ccCCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCC
Q 004549 224 DT--KDELHKFLWLFKEQRL-TVPHW-RNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISG 293 (745)
Q Consensus 224 ~~--~~e~~nL~R~I~~~k~-r~l~W-R~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG 293 (745)
|. ..-+..|+..|..+.. ..+.- .+...-+++.++...+. .| .+++|-|+...|++|..|.+..
T Consensus 231 SAktGeGI~eLl~~I~~~~~~~~l~~~~~~~~~~~V~ev~~~~g-----~G-~v~~~~V~~GtL~~Gd~iv~~~ 298 (587)
T TIGR00487 231 SALTGDGIDELLDMILLQSEVEELKANPNGQASGVVIEAQLDKG-----RG-PVATVLVQSGTLRVGDIVVVGA 298 (587)
T ss_pred ECCCCCChHHHHHhhhhhhhhccccCCCCCCceeEEEEEEEeCC-----Cc-EEEEEEEEeCEEeCCCEEEECC
Confidence 73 2234445555543211 01110 12333445555544321 34 5689999888899999887643
No 29
>cd04171 SelB SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo
Probab=97.60 E-value=0.0024 Score=61.13 Aligned_cols=131 Identities=15% Similarity=0.137 Sum_probs=83.5
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC-------------cceEEEecCceeeEEEEeCCCC-Ch-HHHHhHHhhc
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA-------------LSSTVSSSKYRLRTSVLQAPHG-DL-VGCMEMAKVA 145 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-------------g~~tv~~~r~k~R~tfie~~~~-dl-~~mLD~aKvA 145 (745)
+|+|+|.++.+.. +| ++.|++..... +..++..+. ...++|+-+|-. ++ ..++..+.-|
T Consensus 2 ~i~i~G~~~~GKs-sl----~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~a 75 (164)
T cd04171 2 IIGTAGHIDHGKT-TL----IKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGI 75 (164)
T ss_pred EEEEEecCCCCHH-HH----HHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcC
Confidence 6899999987765 66 55554322110 122222221 357888988731 22 3466677789
Q ss_pred ceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchh-hhHHHHHHHHhhcccccCCCCeeEEeC
Q 004549 146 DLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK-KRKDLKKMCISSLTSEFPEDCKFYAAD 224 (745)
Q Consensus 146 DlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~K-k~~~~kK~lk~~f~~e~~~~~Klf~l~ 224 (745)
|.+|+|+|++. ++..+.++.+..++..|.+.++.|++..|.... ......+.++..+......+..+|.+|
T Consensus 76 d~ii~V~d~~~--------~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S 147 (164)
T cd04171 76 DLVLLVVAADE--------GIMPQTREHLEILELLGIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVS 147 (164)
T ss_pred CEEEEEEECCC--------CccHhHHHHHHHHHHhCCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEe
Confidence 99999999984 366777888888888898778899999885112 123344555555554322356788888
Q ss_pred C
Q 004549 225 T 225 (745)
Q Consensus 225 ~ 225 (745)
.
T Consensus 148 a 148 (164)
T cd04171 148 A 148 (164)
T ss_pred C
Confidence 4
No 30
>PRK05306 infB translation initiation factor IF-2; Validated
Probab=97.59 E-value=0.004 Score=75.56 Aligned_cols=203 Identities=16% Similarity=0.203 Sum_probs=117.8
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC---cceE-------EEecCceeeEEEEeCCC-CChHHHHh-HHhh
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA---LSST-------VSSSKYRLRTSVLQAPH-GDLVGCME-MAKV 144 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---g~~t-------v~~~r~k~R~tfie~~~-~dl~~mLD-~aKv 144 (745)
.-|-+|+|+|..+.+.. +| +..|+...... +.+| +..+ .++|+|+-+|- .++..|.. .+.+
T Consensus 288 ~R~pvV~ImGhvd~GKT-SL----l~~Lr~~~v~~~e~~GIT~~iga~~v~~~--~~~ItfiDTPGhe~F~~m~~rga~~ 360 (787)
T PRK05306 288 PRPPVVTIMGHVDHGKT-SL----LDAIRKTNVAAGEAGGITQHIGAYQVETN--GGKITFLDTPGHEAFTAMRARGAQV 360 (787)
T ss_pred cCCCEEEEECCCCCCHH-HH----HHHHHhCCccccccCceeeeccEEEEEEC--CEEEEEEECCCCccchhHHHhhhhh
Confidence 45667899998876654 56 55444332221 2233 3333 36899999872 45666666 6899
Q ss_pred cceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhh--cccccCCCCeeEE
Q 004549 145 ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISS--LTSEFPEDCKFYA 222 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~--f~~e~~~~~Klf~ 222 (745)
||++|||+|+..| +..++++.|+.+...|+| +|.|++.+|........++..|... +-..+.....+|.
T Consensus 361 aDiaILVVdAddG--------v~~qT~e~i~~a~~~~vP-iIVviNKiDl~~a~~e~V~~eL~~~~~~~e~~g~~vp~vp 431 (787)
T PRK05306 361 TDIVVLVVAADDG--------VMPQTIEAINHAKAAGVP-IIVAINKIDKPGANPDRVKQELSEYGLVPEEWGGDTIFVP 431 (787)
T ss_pred CCEEEEEEECCCC--------CCHhHHHHHHHHHhcCCc-EEEEEECccccccCHHHHHHHHHHhcccHHHhCCCceEEE
Confidence 9999999999854 778899999999999999 8888998885111122344433321 1111222367888
Q ss_pred eCC--HHHHHHHHHHHhhc----cccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCc
Q 004549 223 ADT--KDELHKFLWLFKEQ----RLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGD 296 (745)
Q Consensus 223 l~~--~~e~~nL~R~I~~~----k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GD 296 (745)
+|. ..-+..|+..|... ..+.-. +..+-.++.+....+ ....+++|-|....|++|..|.+ |.
T Consensus 432 vSAktG~GI~eLle~I~~~~e~~~l~~~~--~~~~~g~V~es~~dk------g~G~v~~v~V~sGtLk~Gd~vv~---g~ 500 (787)
T PRK05306 432 VSAKTGEGIDELLEAILLQAEVLELKANP--DRPARGTVIEAKLDK------GRGPVATVLVQNGTLKVGDIVVA---GT 500 (787)
T ss_pred EeCCCCCCchHHHHhhhhhhhhhhcccCC--CCCcEEEEEEEEEcC------CCeEEEEEEEecCeEecCCEEEE---CC
Confidence 884 22233444444321 111100 111222222322211 22356888888888999888866 22
Q ss_pred eeeceeeccCC
Q 004549 297 FQLGKIEILKD 307 (745)
Q Consensus 297 Fqi~~I~~~~D 307 (745)
...+|..+.+
T Consensus 501 -~~gkVr~m~~ 510 (787)
T PRK05306 501 -TYGRVRAMVD 510 (787)
T ss_pred -cEEEEEEEEC
Confidence 3456666554
No 31
>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha. This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.
Probab=97.59 E-value=0.0085 Score=68.09 Aligned_cols=172 Identities=15% Similarity=0.208 Sum_probs=108.6
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-c-hh
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-D-LK 197 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~-~K 197 (745)
+.+++|+-+|- .+ +..|+..++-||.+|||+|++.|. ......+.+.+..++..|.+.++.|++.+|. + .+
T Consensus 84 ~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~-----~~~~~~t~~~~~~~~~~~~~~iIVviNK~Dl~~~~~ 158 (426)
T TIGR00483 84 KYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGE-----FEVQPQTREHAFLARTLGINQLIVAINKMDSVNYDE 158 (426)
T ss_pred CeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCC-----cccCCchHHHHHHHHHcCCCeEEEEEEChhccCccH
Confidence 46889999872 23 346788889999999999999641 1133456677777788899999999999885 1 01
Q ss_pred -hhHHHHHHHHhhcccc-c-CCCCeeEEeCCHHH--------------HHHHHHHHhhccccCCccccCCC-eEEEEeeE
Q 004549 198 -KRKDLKKMCISSLTSE-F-PEDCKFYAADTKDE--------------LHKFLWLFKEQRLTVPHWRNQRP-FLMAQKVD 259 (745)
Q Consensus 198 -k~~~~kK~lk~~f~~e-~-~~~~Klf~l~~~~e--------------~~nL~R~I~~~k~r~l~WR~~rp-YmLadr~e 259 (745)
....+++.++.++... + +....++.+|..+. ...|+..|....+. -. ....| -|..+++-
T Consensus 159 ~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~~~~~w~~g~~l~~~l~~~~~~-~~-~~~~p~r~~i~~v~ 236 (426)
T TIGR00483 159 EEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKSENTPWYKGKTLLEALDALEPP-EK-PTDKPLRIPIQDVY 236 (426)
T ss_pred HHHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccccccCCccccchHHHHHHhcCCCC-CC-ccCCCcEEEEEEEE
Confidence 1223455555554332 1 12356777773211 22577888655432 22 23344 46677665
Q ss_pred eccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCC-ceeeceeeccC
Q 004549 260 VVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAG-DFQLGKIEILK 306 (745)
Q Consensus 260 ~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G-DFqi~~I~~~~ 306 (745)
..+. .| .+++|.|....+++|+.|.|.-.| ..+|.+|+.-.
T Consensus 237 ~~~g-----~G-~vv~G~v~~G~i~~gd~v~i~P~~~~~~VksI~~~~ 278 (426)
T TIGR00483 237 SITG-----VG-TVPVGRVETGVLKPGDKVVFEPAGVSGEVKSIEMHH 278 (426)
T ss_pred ecCC-----Ce-EEEEEEEccceeecCCEEEECCCCcEEEEEEEEECC
Confidence 4322 34 458999999999999999884434 45677776543
No 32
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=97.44 E-value=0.004 Score=64.79 Aligned_cols=80 Identities=15% Similarity=0.133 Sum_probs=59.6
Q ss_pred eeeEEEEeCCCCC---hHHHHhHHh--hcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcch
Q 004549 122 RLRTSVLQAPHGD---LVGCMEMAK--VADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDL 196 (745)
Q Consensus 122 k~R~tfie~~~~d---l~~mLD~aK--vADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~ 196 (745)
.+.++|+-+| +. +..|+-++. .+|++|+|+|+..| +...+.+++..++.+|+| ++.|++.+|.-.
T Consensus 83 ~~~i~liDtp-G~~~~~~~~~~~~~~~~~D~~llVvda~~g--------~~~~d~~~l~~l~~~~ip-~ivvvNK~D~~~ 152 (224)
T cd04165 83 SKLVTFIDLA-GHERYLKTTLFGLTGYAPDYAMLVVAANAG--------IIGMTKEHLGLALALNIP-VFVVVTKIDLAP 152 (224)
T ss_pred CcEEEEEECC-CcHHHHHHHHHhhcccCCCEEEEEEECCCC--------CcHHHHHHHHHHHHcCCC-EEEEEECccccC
Confidence 4689999998 44 344565554 79999999999854 678899999999999999 788899998511
Q ss_pred h-hhHHHHHHHHhhcc
Q 004549 197 K-KRKDLKKMCISSLT 211 (745)
Q Consensus 197 K-k~~~~kK~lk~~f~ 211 (745)
+ ....+++.++..+.
T Consensus 153 ~~~~~~~~~~l~~~L~ 168 (224)
T cd04165 153 ANILQETLKDLKRILK 168 (224)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 2 23455666666554
No 33
>TIGR02034 CysN sulfate adenylyltransferase, large subunit. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).
Probab=97.37 E-value=0.0063 Score=68.83 Aligned_cols=171 Identities=12% Similarity=0.067 Sum_probs=108.2
Q ss_pred eeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcch--h
Q 004549 122 RLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDL--K 197 (745)
Q Consensus 122 k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~--K 197 (745)
+++++|+-+|- .++ ..|+..+..||.+|||+||+.| +...+.+.+.++...|+|.+|.|++.+|... .
T Consensus 79 ~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G--------~~~qt~~~~~~~~~~~~~~iivviNK~D~~~~~~ 150 (406)
T TIGR02034 79 KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKG--------VLEQTRRHSYIASLLGIRHVVLAVNKMDLVDYDE 150 (406)
T ss_pred CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCC--------CccccHHHHHHHHHcCCCcEEEEEEecccccchH
Confidence 57899999872 244 5789999999999999999954 6678899999999999999999999998511 1
Q ss_pred h-hHHHHHHHHhhcccccCCCCeeEEeCCHH--------------HHHHHHHHHhhccccCCccccCCCeEEEEeeEecc
Q 004549 198 K-RKDLKKMCISSLTSEFPEDCKFYAADTKD--------------ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVA 262 (745)
Q Consensus 198 k-~~~~kK~lk~~f~~e~~~~~Klf~l~~~~--------------e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~ 262 (745)
. ....+..++.++...-.....++++|..+ +...|+-.|....+. ....+.-..|..+++.-.
T Consensus 151 ~~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~~~~~~wy~g~tL~~~L~~~~~~-~~~~~~p~r~~i~~v~~~- 228 (406)
T TIGR02034 151 EVFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVSRSESMPWYSGPTLLEILETVEVE-RDAQDLPLRFPVQYVNRP- 228 (406)
T ss_pred HHHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCcccccCCCccchhHHHHHHHhcCCC-CCcCCCCcccceEEEeec-
Confidence 1 12244444444332222245677777311 123466666655432 233333333445554211
Q ss_pred CCCCCCCceEEEEEEEeCCCCCCCCeEEe-CCCCceeeceeeccCC
Q 004549 263 DDCNSGKCTLLLHGYLRAHCLSVNQLVHI-SGAGDFQLGKIEILKD 307 (745)
Q Consensus 263 ~~~~~~~~~l~v~GyvRG~~l~~n~lVHI-pG~GDFqi~~I~~~~D 307 (745)
. ....-++|.|...-+++|+.|.| |+-=..+|.+|+.-..
T Consensus 229 ~-----~~~~g~~G~v~~G~l~~gd~v~i~P~~~~~~VksI~~~~~ 269 (406)
T TIGR02034 229 N-----LDFRGYAGTIASGSVHVGDEVVVLPSGRSSRVARIVTFDG 269 (406)
T ss_pred C-----CCcEEEEEEEecceeecCCEEEEeCCCcEEEEEEEEECCc
Confidence 0 00122678888888999998885 6533567777765443
No 34
>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.
Probab=97.31 E-value=0.0077 Score=57.99 Aligned_cols=144 Identities=12% Similarity=0.149 Sum_probs=85.0
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEec-CceeeEEEEeCCCCC--hHHHHh-HHhhcc
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSS-KYRLRTSVLQAPHGD--LVGCME-MAKVAD 146 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~-r~k~R~tfie~~~~d--l~~mLD-~aKvAD 146 (745)
+|+|+|.++.+.. +| +..|+...... +...+... .....++|+.+| .. +..+.+ ....||
T Consensus 2 ~i~iiG~~~~GKt-sl----i~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtp-G~~~~~~~~~~~~~~~d 75 (168)
T cd01887 2 VVTVMGHVDHGKT-TL----LDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTP-GHEAFTNMRARGASLTD 75 (168)
T ss_pred EEEEEecCCCCHH-HH----HHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCC-CcHHHHHHHHHHHhhcC
Confidence 4899999987765 56 44443322111 11222221 024688999987 43 445544 668999
Q ss_pred eEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhccc---ccCCCCeeEEe
Q 004549 147 LVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTS---EFPEDCKFYAA 223 (745)
Q Consensus 147 lVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~---e~~~~~Klf~l 223 (745)
++|+++|++.+ ...+++++++.++..|.| ++.|+++.|........+...++.+... .+.....++..
T Consensus 76 ~il~v~d~~~~--------~~~~~~~~~~~~~~~~~p-~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 146 (168)
T cd01887 76 IAILVVAADDG--------VMPQTIEAIKLAKAANVP-FIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPT 146 (168)
T ss_pred EEEEEEECCCC--------ccHHHHHHHHHHHHcCCC-EEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEe
Confidence 99999999853 456788899999999998 6778898885101112233333332211 12234577777
Q ss_pred CC--HHHHHHHHHHHhhc
Q 004549 224 DT--KDELHKFLWLFKEQ 239 (745)
Q Consensus 224 ~~--~~e~~nL~R~I~~~ 239 (745)
|. ...+..|.-.|..+
T Consensus 147 Sa~~~~gi~~l~~~l~~~ 164 (168)
T cd01887 147 SAKTGEGIDDLLEAILLL 164 (168)
T ss_pred ecccCCCHHHHHHHHHHh
Confidence 73 33455555555443
No 35
>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional
Probab=97.26 E-value=0.018 Score=66.53 Aligned_cols=173 Identities=12% Similarity=0.075 Sum_probs=108.8
Q ss_pred eeeEEEEeCC-CCCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhh-
Q 004549 122 RLRTSVLQAP-HGDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKK- 198 (745)
Q Consensus 122 k~R~tfie~~-~~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk- 198 (745)
+++++||-+| +.++ ..|+-.++.||++|||+||..| +...+.+.+.++...|++.+|.|++.+|.....
T Consensus 106 ~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G--------~~~qt~~~~~l~~~lg~~~iIvvvNKiD~~~~~~ 177 (474)
T PRK05124 106 KRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKG--------VLDQTRRHSFIATLLGIKHLVVAVNKMDLVDYSE 177 (474)
T ss_pred CcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCC--------ccccchHHHHHHHHhCCCceEEEEEeeccccchh
Confidence 4689999987 2344 4788889999999999999954 666778888889999999999999999851011
Q ss_pred --hHHHHHHHHhhcccc-cCCCCeeEEeCCH--------H------HHHHHHHHHhhccccCCccccCCCeEEEEeeEec
Q 004549 199 --RKDLKKMCISSLTSE-FPEDCKFYAADTK--------D------ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVV 261 (745)
Q Consensus 199 --~~~~kK~lk~~f~~e-~~~~~Klf~l~~~--------~------e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~ 261 (745)
...+++.++.++... +.....++++|.. + +...|+-.|....+ |-.+.+.-..|..+++.-.
T Consensus 178 ~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~~~~~wy~G~tLl~~L~~i~~-~~~~~~~p~r~~I~~v~~~ 256 (474)
T PRK05124 178 EVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQSESMPWYSGPTLLEVLETVDI-QRVVDAQPFRFPVQYVNRP 256 (474)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccccccccccchhhHHHHHhhcCC-CCCCCCCCceeeEEEEEec
Confidence 123444444433221 1125778888731 1 11235555555433 3334333334556665311
Q ss_pred cCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCC-ceeeceeeccCCCC
Q 004549 262 ADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAG-DFQLGKIEILKDPF 309 (745)
Q Consensus 262 ~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G-DFqi~~I~~~~DP~ 309 (745)
.- ...+ +.|.|....+.+|+.|.|--.| ..+|.+|..-..|+
T Consensus 257 ~~---~~~g---~~G~V~sG~l~~Gd~v~i~P~~~~~~VksI~~~~~~v 299 (474)
T PRK05124 257 NL---DFRG---YAGTLASGVVKVGDRVKVLPSGKESNVARIVTFDGDL 299 (474)
T ss_pred CC---cccc---eEEEEEeEEEecCCEEEEecCCceEEEEEEEEcCccc
Confidence 00 0011 5688888888999888665445 67888888765554
No 36
>PLN00043 elongation factor 1-alpha; Provisional
Probab=97.25 E-value=0.027 Score=64.58 Aligned_cols=173 Identities=15% Similarity=0.143 Sum_probs=110.5
Q ss_pred eeeEEEEeCCCC--C-hHHHHhHHhhcceEEEEeeCCCc-cccccccccC--hHHHHHHHHHHhcCCCceEEEeccCCcc
Q 004549 122 RLRTSVLQAPHG--D-LVGCMEMAKVADLVAFVASASSF-SEESMSYYID--SFGNQCLSVFRSLGLPSTAVLIRDLPTD 195 (745)
Q Consensus 122 k~R~tfie~~~~--d-l~~mLD~aKvADlVlllidas~g-~~~~~~~~fd--~eg~e~L~~l~~qGlP~vigvl~~L~~~ 195 (745)
+++++||.+| . | +..|+-.+..||.+|||+||..| ++ .+|+ ..+.+.+.++...|+|.+|.+++.+|..
T Consensus 84 ~~~i~liDtP-Gh~df~~~~~~g~~~aD~aIlVVda~~G~~e----~g~~~~~qT~eh~~~~~~~gi~~iIV~vNKmD~~ 158 (447)
T PLN00043 84 KYYCTVIDAP-GHRDFIKNMITGTSQADCAVLIIDSTTGGFE----AGISKDGQTREHALLAFTLGVKQMICCCNKMDAT 158 (447)
T ss_pred CEEEEEEECC-CHHHHHHHHHhhhhhccEEEEEEEcccCcee----cccCCCchHHHHHHHHHHcCCCcEEEEEEcccCC
Confidence 5799999998 4 3 56788999999999999999965 11 1232 6889999999999999999999999841
Q ss_pred ---h-hh-hHHHHHHHHhhccccc--CCCCeeEEeCCHH--------H------HHHHHHHHhhccccCCccccCCCeEE
Q 004549 196 ---L-KK-RKDLKKMCISSLTSEF--PEDCKFYAADTKD--------E------LHKFLWLFKEQRLTVPHWRNQRPFLM 254 (745)
Q Consensus 196 ---~-Kk-~~~~kK~lk~~f~~e~--~~~~Klf~l~~~~--------e------~~nL~R~I~~~k~r~l~WR~~rpYmL 254 (745)
. +. -..+.+.++.++...- +....++.+|..+ + .-.|+-.|....+ |-.+.+.---|.
T Consensus 159 ~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~~~~~~~Wy~g~tLl~~l~~i~~-p~~~~~~plr~~ 237 (447)
T PLN00043 159 TPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIERSTNLDWYKGPTLLEALDQINE-PKRPSDKPLRLP 237 (447)
T ss_pred chhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccccccCCcccchHHHHHHHhhcCC-CccccCCCcEEE
Confidence 1 11 2345666776665432 2235566666311 0 1135555554432 333333222344
Q ss_pred EEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCC-ceeeceeeccC
Q 004549 255 AQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAG-DFQLGKIEILK 306 (745)
Q Consensus 255 adr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G-DFqi~~I~~~~ 306 (745)
++++--.+ ..| .+++|-|-...+++|+.|-+.-.| -.+|.+|+.-.
T Consensus 238 I~~v~~~~-----g~G-~vv~G~V~~G~l~~Gd~v~~~P~~~~~~VksI~~~~ 284 (447)
T PLN00043 238 LQDVYKIG-----GIG-TVPVGRVETGVIKPGMVVTFGPTGLTTEVKSVEMHH 284 (447)
T ss_pred EEEEEEeC-----CcE-EEEEEEEECCEEeeCCEEEEcCCCCEEEEEEEEECC
Confidence 45443222 234 457999988889999988775434 35666666543
No 37
>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2. This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.
Probab=97.24 E-value=0.03 Score=66.25 Aligned_cols=174 Identities=11% Similarity=0.172 Sum_probs=103.6
Q ss_pred EEEEeCCC-CChHHHH-hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcc--h----
Q 004549 125 TSVLQAPH-GDLVGCM-EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTD--L---- 196 (745)
Q Consensus 125 ~tfie~~~-~dl~~mL-D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~--~---- 196 (745)
++|+-+|- .++..|. -.++.||++|||+|++.| +...+++.++.++..|+| ++.|++.+|.. .
T Consensus 71 l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g--------~~~qt~e~i~~l~~~~vp-iIVv~NK~Dl~~~~~~~~ 141 (590)
T TIGR00491 71 LLFIDTPGHEAFTNLRKRGGALADLAILIVDINEG--------FKPQTQEALNILRMYKTP-FVVAANKIDRIPGWRSHE 141 (590)
T ss_pred EEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcC--------CCHhHHHHHHHHHHcCCC-EEEEEECCCccchhhhcc
Confidence 88888762 2344433 356899999999999944 778899999999999998 56677877741 0
Q ss_pred --------hhh-HHHHHHHHhh------------ccc-------ccCCCCeeEEeCCHH--HHHHHHHHHhhccc----c
Q 004549 197 --------KKR-KDLKKMCISS------------LTS-------EFPEDCKFYAADTKD--ELHKFLWLFKEQRL----T 242 (745)
Q Consensus 197 --------Kk~-~~~kK~lk~~------------f~~-------e~~~~~Klf~l~~~~--e~~nL~R~I~~~k~----r 242 (745)
.++ ..++..+..+ |.. ++.....++.+|..+ -+-.|+-.|..... .
T Consensus 142 ~~~f~e~sak~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~~~l~~ 221 (590)
T TIGR00491 142 GRPFMESFSKQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQQYLEE 221 (590)
T ss_pred CchHHHHHHhhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHHHHhhh
Confidence 011 1233222211 111 234456788888422 33344444432221 2
Q ss_pred CCcccc-CCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCceeeceeeccCCCCCCCc
Q 004549 243 VPHWRN-QRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGDFQLGKIEILKDPFPLNA 313 (745)
Q Consensus 243 ~l~WR~-~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I~~~~DP~pl~~ 313 (745)
.|.... ...-+.+.++-... .. -.+++|-|....|++|..|=+-+.+-=...+|-.+-+|-|+..
T Consensus 222 ~l~~~~~~~~~~~V~e~~~~~-----G~-G~v~t~~v~~G~l~~GD~iv~~~~~~~i~~kVr~l~~~~~l~e 287 (590)
T TIGR00491 222 QLKLEEEGPARGTILEVKEET-----GL-GMTIDAVIYDGILRKGDTIAMAGSDDVIVTRVRALLKPRPLEE 287 (590)
T ss_pred hhccCCCCCeEEEEEEEEEcC-----CC-ceEEEEEEEcCEEeCCCEEEEccCCCcccEEEEEecCCCcccc
Confidence 333322 22234444444332 12 3567999988889998887776654333567888888877654
No 38
>PRK10218 GTP-binding protein; Provisional
Probab=97.22 E-value=0.028 Score=66.72 Aligned_cols=168 Identities=13% Similarity=0.063 Sum_probs=112.8
Q ss_pred eeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
..+|.|+-+|- .++ ..+..+++.||.+|||+|++.| ....+...|..+...|+|. +.|++.+|.....-
T Consensus 67 ~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G--------~~~qt~~~l~~a~~~gip~-IVviNKiD~~~a~~ 137 (607)
T PRK10218 67 DYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDG--------PMPQTRFVTKKAFAYGLKP-IVVINKVDRPGARP 137 (607)
T ss_pred CEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccC--------ccHHHHHHHHHHHHcCCCE-EEEEECcCCCCCch
Confidence 57899999872 344 3567788999999999999954 6668889999999999996 56899888521222
Q ss_pred HHHHHHHHhhcccc--cC--CCCeeEEeCCHH------------HHHHHHHHHhhccccCCccccCCCeEEEEeeEeccC
Q 004549 200 KDLKKMCISSLTSE--FP--EDCKFYAADTKD------------ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVAD 263 (745)
Q Consensus 200 ~~~kK~lk~~f~~e--~~--~~~Klf~l~~~~------------e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~ 263 (745)
..+...++..|... .. .+.-+++.|..+ .+..|+-.|...-|.|....+.-.-|++.++.+.+-
T Consensus 138 ~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~P~~~~~~Pl~~~V~k~~~d~~ 217 (607)
T PRK10218 138 DWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPAPDVDLDGPFQMQISQLDYNSY 217 (607)
T ss_pred hHHHHHHHHHHhccCccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCCCCCCCCCCeEEEEEeeEecCC
Confidence 33445555555321 00 123367777422 356788888888887765444434677777766432
Q ss_pred CCCCCCceEEEEEEEeCCCCCCCCeEEeCCC-Cc---eeeceeec
Q 004549 264 DCNSGKCTLLLHGYLRAHCLSVNQLVHISGA-GD---FQLGKIEI 304 (745)
Q Consensus 264 ~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~-GD---Fqi~~I~~ 304 (745)
.|+| ++|-|-...|++|+.|.++.- |- ..|.+|..
T Consensus 218 -----~G~i-~~gRV~sG~lk~Gd~v~~~~~~~~~~~~rv~~l~~ 256 (607)
T PRK10218 218 -----VGVI-GIGRIKRGKVKPNQQVTIIDSEGKTRNAKVGKVLG 256 (607)
T ss_pred -----CcEE-EEEEEEeCcCcCCCEEEEecCCCcEeeEEEEEEEE
Confidence 3554 788887778999999999876 43 33445543
No 39
>cd01889 SelB_euk SelB subfamily. SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk
Probab=97.21 E-value=0.0078 Score=60.35 Aligned_cols=113 Identities=14% Similarity=0.156 Sum_probs=73.5
Q ss_pred eeeEEEEeCCCC--C-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchh-
Q 004549 122 RLRTSVLQAPHG--D-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK- 197 (745)
Q Consensus 122 k~R~tfie~~~~--d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~K- 197 (745)
+.+++|+.+| + + +..++..++.||.|++|+|++.| ......+.+..++..|.| ++.|++..|...+
T Consensus 67 ~~~~~i~Dtp-G~~~~~~~~~~~~~~~d~vi~VvD~~~~--------~~~~~~~~~~~~~~~~~~-~iiv~NK~Dl~~~~ 136 (192)
T cd01889 67 NLQITLVDCP-GHASLIRTIIGGAQIIDLMLLVVDATKG--------IQTQTAECLVIGEILCKK-LIVVLNKIDLIPEE 136 (192)
T ss_pred CceEEEEECC-CcHHHHHHHHHHHhhCCEEEEEEECCCC--------ccHHHHHHHHHHHHcCCC-EEEEEECcccCCHH
Confidence 4688999997 4 3 35666778899999999999854 445556666677777875 6678898885111
Q ss_pred hhHHHHHHHHhhccccc----CCCCeeEEeCCHH--HHHHHHHHHhhccccCC
Q 004549 198 KRKDLKKMCISSLTSEF----PEDCKFYAADTKD--ELHKFLWLFKEQRLTVP 244 (745)
Q Consensus 198 k~~~~kK~lk~~f~~e~----~~~~Klf~l~~~~--e~~nL~R~I~~~k~r~l 244 (745)
.+....+.+++.|...+ ..+..+|++|..+ -+..|.-.|..+-+-|+
T Consensus 137 ~~~~~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~~~~ 189 (192)
T cd01889 137 ERERKIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIVLPL 189 (192)
T ss_pred HHHHHHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhcccccc
Confidence 22233444444433222 2357899998533 36667777777666554
No 40
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=97.19 E-value=0.029 Score=67.07 Aligned_cols=172 Identities=12% Similarity=0.070 Sum_probs=107.5
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcch--h
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDL--K 197 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~--K 197 (745)
+++++|+-+|- .+ +..|+-.+..||++|||+|+..| +...+.+.+.++...|.|.++.|++.+|.-. +
T Consensus 103 ~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g--------~~~~t~e~~~~~~~~~~~~iivvvNK~D~~~~~~ 174 (632)
T PRK05506 103 KRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKG--------VLTQTRRHSFIASLLGIRHVVLAVNKMDLVDYDQ 174 (632)
T ss_pred CceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCC--------ccccCHHHHHHHHHhCCCeEEEEEEecccccchh
Confidence 56889998872 23 34688889999999999999854 6667888899999999999999999998510 1
Q ss_pred h-hHHHHHHHHhhcccccCCCCeeEEeCCHH--------------HHHHHHHHHhhccccCCccccCCCe-EEEEeeEec
Q 004549 198 K-RKDLKKMCISSLTSEFPEDCKFYAADTKD--------------ELHKFLWLFKEQRLTVPHWRNQRPF-LMAQKVDVV 261 (745)
Q Consensus 198 k-~~~~kK~lk~~f~~e~~~~~Klf~l~~~~--------------e~~nL~R~I~~~k~r~l~WR~~rpY-mLadr~e~~ 261 (745)
. ...+++.++.++...-.....++++|..+ +...|+-.|....+. -.+ ...|+ |-.+++.-.
T Consensus 175 ~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~~~~~~~wy~g~tL~~~l~~~~~~-~~~-~~~p~r~~i~~v~~~ 252 (632)
T PRK05506 175 EVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVTRSARMPWYEGPSLLEHLETVEIA-SDR-NLKDFRFPVQYVNRP 252 (632)
T ss_pred HHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccccccCCCcccHhHHHHHHhcCCCC-CCc-CCCCceeeEEEEEec
Confidence 1 12244444443322212345677877311 112355555544332 222 34444 445554311
Q ss_pred cCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCC-ceeeceeeccCCCC
Q 004549 262 ADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAG-DFQLGKIEILKDPF 309 (745)
Q Consensus 262 ~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~G-DFqi~~I~~~~DP~ 309 (745)
. ....-+.|.|....+++|+.|.|...| -..|.+|+.-..|+
T Consensus 253 -~-----~~~~g~~G~v~~G~l~~gd~v~i~P~~~~~~VksI~~~~~~~ 295 (632)
T PRK05506 253 -N-----LDFRGFAGTVASGVVRPGDEVVVLPSGKTSRVKRIVTPDGDL 295 (632)
T ss_pred -C-----CCceEEEEEEecceeecCCEEEEcCCCceEEEEEEEECCcee
Confidence 0 011226799998899999999886555 56777877655443
No 41
>TIGR01393 lepA GTP-binding protein LepA. LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.
Probab=97.05 E-value=0.08 Score=62.89 Aligned_cols=166 Identities=7% Similarity=0.004 Sum_probs=108.8
Q ss_pred eeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
+..|+|+-+|- .|+ ..+....+.||.+|||+|++.| ....+.+.+..+...|+| ++.|++.+|......
T Consensus 69 ~~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g--------~~~qt~~~~~~~~~~~ip-iIiViNKiDl~~~~~ 139 (595)
T TIGR01393 69 TYVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQG--------IEAQTLANVYLALENDLE-IIPVINKIDLPSADP 139 (595)
T ss_pred EEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCC--------CCHhHHHHHHHHHHcCCC-EEEEEECcCCCccCH
Confidence 46788998862 333 3456678899999999999954 555676666666778998 777899888521222
Q ss_pred HHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEE
Q 004549 200 KDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGY 277 (745)
Q Consensus 200 ~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~Gy 277 (745)
..+.+.+...+.. . ...+|..|. ..-+..|+..|...-|.|...-+...-+++....+.+ ..-..++|-
T Consensus 140 ~~~~~el~~~lg~--~-~~~vi~vSAktG~GI~~Lle~I~~~lp~p~~~~~~pl~~~V~~~~~d~------~~G~v~~~r 210 (595)
T TIGR01393 140 ERVKKEIEEVIGL--D-ASEAILASAKTGIGIEEILEAIVKRVPPPKGDPDAPLKALIFDSHYDN------YRGVVALVR 210 (595)
T ss_pred HHHHHHHHHHhCC--C-cceEEEeeccCCCCHHHHHHHHHHhCCCCCCCCCCCeEEEEEEEEEeC------CCcEEEEEE
Confidence 3344455554431 1 234677774 3346677888877777776543333234444444432 234568888
Q ss_pred EeCCCCCCCCeEEeCCCC-ceeeceeecc
Q 004549 278 LRAHCLSVNQLVHISGAG-DFQLGKIEIL 305 (745)
Q Consensus 278 vRG~~l~~n~lVHIpG~G-DFqi~~I~~~ 305 (745)
|....|++|..|.+..-| -+.+.+|...
T Consensus 211 V~sG~lk~Gd~v~~~~~~~~~~v~~i~~~ 239 (595)
T TIGR01393 211 VFEGTIKPGDKIRFMSTGKEYEVDEVGVF 239 (595)
T ss_pred EECCEEecCCEEEEecCCCeeEEeEEEEe
Confidence 888889999999887766 5888888843
No 42
>cd04166 CysN_ATPS CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.
Probab=96.96 E-value=0.015 Score=59.46 Aligned_cols=65 Identities=14% Similarity=0.171 Sum_probs=52.9
Q ss_pred eeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 122 RLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+++.|+-+|- .++ ..++.+++.||.+|||+|++.| +...+.+.+..++..|.|.+|.|++.+|.
T Consensus 76 ~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~--------~~~~~~~~~~~~~~~~~~~iIvviNK~D~ 142 (208)
T cd04166 76 KRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKG--------VLEQTRRHSYILSLLGIRHVVVAVNKMDL 142 (208)
T ss_pred CceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCC--------ccHhHHHHHHHHHHcCCCcEEEEEEchhc
Confidence 56888998872 233 4688889999999999999954 66677778888888999999999999985
No 43
>PRK00089 era GTPase Era; Reviewed
Probab=96.95 E-value=0.019 Score=61.55 Aligned_cols=142 Identities=14% Similarity=0.182 Sum_probs=84.9
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEecCceeeEEEEeCCCCC-----------hHHHH
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSSKYRLRTSVLQAPHGD-----------LVGCM 139 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~r~k~R~tfie~~~~d-----------l~~mL 139 (745)
+|+|+|.++++.. +| ++.+.+..... ....+... -...+.|+.+| +- ...+.
T Consensus 7 ~V~iiG~pn~GKS-TL----in~L~g~~~~~vs~~~~tt~~~i~~i~~~-~~~qi~~iDTP-G~~~~~~~l~~~~~~~~~ 79 (292)
T PRK00089 7 FVAIVGRPNVGKS-TL----LNALVGQKISIVSPKPQTTRHRIRGIVTE-DDAQIIFVDTP-GIHKPKRALNRAMNKAAW 79 (292)
T ss_pred EEEEECCCCCCHH-HH----HHHHhCCceeecCCCCCcccccEEEEEEc-CCceEEEEECC-CCCCchhHHHHHHHHHHH
Confidence 6899999998775 56 44444333211 11111111 13578999987 31 12344
Q ss_pred hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCe
Q 004549 140 EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCK 219 (745)
Q Consensus 140 D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~K 219 (745)
.++.-||++|+|+|++. .+.....+++..|+..+.| ++.|++..|. .+........++. +...++ ...
T Consensus 80 ~~~~~~D~il~vvd~~~--------~~~~~~~~i~~~l~~~~~p-vilVlNKiDl-~~~~~~l~~~~~~-l~~~~~-~~~ 147 (292)
T PRK00089 80 SSLKDVDLVLFVVDADE--------KIGPGDEFILEKLKKVKTP-VILVLNKIDL-VKDKEELLPLLEE-LSELMD-FAE 147 (292)
T ss_pred HHHhcCCEEEEEEeCCC--------CCChhHHHHHHHHhhcCCC-EEEEEECCcC-CCCHHHHHHHHHH-HHhhCC-CCe
Confidence 56778999999999984 3666678888888877777 5567898886 1122222222222 222222 467
Q ss_pred eEEeCC--HHHHHHHHHHHhhccc
Q 004549 220 FYAADT--KDELHKFLWLFKEQRL 241 (745)
Q Consensus 220 lf~l~~--~~e~~nL~R~I~~~k~ 241 (745)
+|.+|. ...+..|...|...-+
T Consensus 148 i~~iSA~~~~gv~~L~~~L~~~l~ 171 (292)
T PRK00089 148 IVPISALKGDNVDELLDVIAKYLP 171 (292)
T ss_pred EEEecCCCCCCHHHHHHHHHHhCC
Confidence 888874 3446667777766554
No 44
>PRK04004 translation initiation factor IF-2; Validated
Probab=96.93 E-value=0.093 Score=62.23 Aligned_cols=213 Identities=13% Similarity=0.125 Sum_probs=119.1
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCCC---cceEEE-------ec------Cc----------eeeEEEEeCCC-
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTGA---LSSTVS-------SS------KY----------RLRTSVLQAPH- 132 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---g~~tv~-------~~------r~----------k~R~tfie~~~- 132 (745)
-+|+|+|..+.+.. +| +..|++..... |-+|-. .. .. ...++|+-+|-
T Consensus 7 p~V~i~Gh~~~GKT-SL----l~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~ 81 (586)
T PRK04004 7 PIVVVLGHVDHGKT-TL----LDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGH 81 (586)
T ss_pred cEEEEECCCCCCHH-HH----HHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCCh
Confidence 37999999987775 56 55554443321 322211 00 00 01378998873
Q ss_pred CChHHHHh-HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcc--hh------------
Q 004549 133 GDLVGCME-MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTD--LK------------ 197 (745)
Q Consensus 133 ~dl~~mLD-~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~--~K------------ 197 (745)
.++..+.. .++.||++|||+|++.| +...+++.++.++..|+| ++.|++.+|.. ..
T Consensus 82 e~f~~~~~~~~~~aD~~IlVvDa~~g--------~~~qt~e~i~~~~~~~vp-iIvviNK~D~~~~~~~~~~~~~~e~~~ 152 (586)
T PRK04004 82 EAFTNLRKRGGALADIAILVVDINEG--------FQPQTIEAINILKRRKTP-FVVAANKIDRIPGWKSTEDAPFLESIE 152 (586)
T ss_pred HHHHHHHHHhHhhCCEEEEEEECCCC--------CCHhHHHHHHHHHHcCCC-EEEEEECcCCchhhhhhcCchHHHHHh
Confidence 34554443 56889999999999954 788999999999999999 66778877741 11
Q ss_pred hh-HHHHH-------HHHhhc-----cc-------ccCCCCeeEEeCC-----HHHHHHHHHHHhhc-cccCCcccc-CC
Q 004549 198 KR-KDLKK-------MCISSL-----TS-------EFPEDCKFYAADT-----KDELHKFLWLFKEQ-RLTVPHWRN-QR 250 (745)
Q Consensus 198 k~-~~~kK-------~lk~~f-----~~-------e~~~~~Klf~l~~-----~~e~~nL~R~I~~~-k~r~l~WR~-~r 250 (745)
++ ..++. .+..++ +. ++....-++.+|. -.+.+..+-.++.. -+.++.... ..
T Consensus 153 ~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~~~~l~~~l~~~~~~~ 232 (586)
T PRK04004 153 KQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLAQRYLEERLKIDVEGP 232 (586)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHHHHHHHHhhccCCCCC
Confidence 00 11111 111222 12 2334566777773 33433333222221 123344322 22
Q ss_pred CeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCceeeceeeccCCCCCCC
Q 004549 251 PFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGDFQLGKIEILKDPFPLN 312 (745)
Q Consensus 251 pYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I~~~~DP~pl~ 312 (745)
..+.+..+.... ..| .+++|-|....|++|..|.+-+.+=-...+|..+.+|-|+.
T Consensus 233 ~~~~V~ev~~~~-----g~G-~v~~~~v~~GtL~~Gd~vv~~~~~~~i~~kVr~l~~~~~~~ 288 (586)
T PRK04004 233 GKGTVLEVKEER-----GLG-TTIDVILYDGTLRKGDTIVVGGKDGPIVTKVRALLKPRPLD 288 (586)
T ss_pred eEEEEEEEEEeC-----CCc-eEEEEEEEcCEEECCCEEEECcCCCcceEEEEEEecCcchh
Confidence 244444544332 234 46899998888999999987655321123555555555553
No 45
>PRK05433 GTP-binding protein LepA; Provisional
Probab=96.89 E-value=0.14 Score=60.93 Aligned_cols=166 Identities=7% Similarity=0.001 Sum_probs=109.5
Q ss_pred eeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
...++|+-+|- .|+ ..+..+...||.+|||+|++.| .+..+.+.+..+...|+| ++.|++.+|......
T Consensus 73 ~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~g--------v~~qt~~~~~~~~~~~lp-iIvViNKiDl~~a~~ 143 (600)
T PRK05433 73 TYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQG--------VEAQTLANVYLALENDLE-IIPVLNKIDLPAADP 143 (600)
T ss_pred cEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCC--------CCHHHHHHHHHHHHCCCC-EEEEEECCCCCcccH
Confidence 46788998872 343 3456678899999999999954 566777778778888999 778899988511222
Q ss_pred HHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEE
Q 004549 200 KDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGY 277 (745)
Q Consensus 200 ~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~Gy 277 (745)
..+.+.++..+.. + ...++..|. ..-+..|+..|...-|.|...-+...-+++-...+.+ ..-..++|-
T Consensus 144 ~~v~~ei~~~lg~--~-~~~vi~iSAktG~GI~~Ll~~I~~~lp~P~~~~~~pl~~~Vfd~~~d~------~~G~v~~~r 214 (600)
T PRK05433 144 ERVKQEIEDVIGI--D-ASDAVLVSAKTGIGIEEVLEAIVERIPPPKGDPDAPLKALIFDSWYDN------YRGVVVLVR 214 (600)
T ss_pred HHHHHHHHHHhCC--C-cceEEEEecCCCCCHHHHHHHHHHhCccccCCCCCCceEEEEEEEecC------CCceEEEEE
Confidence 2344445444321 1 234777774 3346677777777767665444443344444444332 233568899
Q ss_pred EeCCCCCCCCeEEeCCCC-ceeeceeecc
Q 004549 278 LRAHCLSVNQLVHISGAG-DFQLGKIEIL 305 (745)
Q Consensus 278 vRG~~l~~n~lVHIpG~G-DFqi~~I~~~ 305 (745)
|-...|++|..|.+..-| .+.+.+|...
T Consensus 215 V~sG~Lk~Gd~i~~~~~~~~~~V~~i~~~ 243 (600)
T PRK05433 215 VVDGTLKKGDKIKMMSTGKEYEVDEVGVF 243 (600)
T ss_pred EEcCEEecCCEEEEecCCceEEEEEeecc
Confidence 988889999999876655 6888888743
No 46
>cd01895 EngA2 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=96.89 E-value=0.034 Score=53.21 Aligned_cols=133 Identities=14% Similarity=0.117 Sum_probs=76.8
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhcc--CCCCC-----cceEEEecCceeeEEEEeCCCC--------Ch-----HHH
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSS--EGTGA-----LSSTVSSSKYRLRTSVLQAPHG--------DL-----VGC 138 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~--~~~~~-----g~~tv~~~r~k~R~tfie~~~~--------dl-----~~m 138 (745)
|.-|+++|.++.+.. +|++.|++.... .+... ....+... ..+++++.+|.- .+ ..+
T Consensus 2 ~~~i~i~G~~~~GKs-tli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~ 78 (174)
T cd01895 2 PIRIAIIGRPNVGKS-SLVNALLGEERVIVSDIAGTTRDSIDVPFEYD--GKKYTLIDTAGIRRKGKVEEGIEKYSVLRT 78 (174)
T ss_pred CcEEEEEcCCCCCHH-HHHHHHhCccceeccCCCCCccCceeeEEEEC--CeeEEEEECCCCccccchhccHHHHHHHHH
Confidence 667899999987765 563332332100 00000 11223333 257889999721 11 234
Q ss_pred HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchh---hhHHHHHHHHhhcccccC
Q 004549 139 MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK---KRKDLKKMCISSLTSEFP 215 (745)
Q Consensus 139 LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~K---k~~~~kK~lk~~f~~e~~ 215 (745)
+.+..-||++|+++|++.+ .......++..+..+|.| ++.|+++.|.... ......+.+++.+...
T Consensus 79 ~~~~~~~d~vi~v~d~~~~--------~~~~~~~~~~~~~~~~~~-~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~-- 147 (174)
T cd01895 79 LKAIERADVVLLVIDATEG--------ITEQDLRIAGLILEEGKA-LVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFL-- 147 (174)
T ss_pred HHHHhhcCeEEEEEeCCCC--------cchhHHHHHHHHHhcCCC-EEEEEeccccCCccHHHHHHHHHHHHhhcccc--
Confidence 4566789999999999853 334556777888878865 5568898885111 1233455555544322
Q ss_pred CCCeeEEeCC
Q 004549 216 EDCKFYAADT 225 (745)
Q Consensus 216 ~~~Klf~l~~ 225 (745)
....+|.+|.
T Consensus 148 ~~~~~~~~Sa 157 (174)
T cd01895 148 DYAPIVFISA 157 (174)
T ss_pred cCCceEEEec
Confidence 2477888884
No 47
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=96.78 E-value=0.022 Score=60.92 Aligned_cols=81 Identities=11% Similarity=0.120 Sum_probs=61.3
Q ss_pred eeeEEEEeCCCCC---hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhh
Q 004549 122 RLRTSVLQAPHGD---LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKK 198 (745)
Q Consensus 122 k~R~tfie~~~~d---l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk 198 (745)
+.++.|+-+| .- ...+.-+.+.||.+|||+||+.| +...+..+++.++..|+|.+ .+++.+|.....
T Consensus 63 ~~~i~liDTP-G~~df~~~~~~~l~~aD~ailVVDa~~g--------~~~~t~~~~~~~~~~~~p~i-vviNK~D~~~a~ 132 (270)
T cd01886 63 DHRINIIDTP-GHVDFTIEVERSLRVLDGAVAVFDAVAG--------VEPQTETVWRQADRYNVPRI-AFVNKMDRTGAD 132 (270)
T ss_pred CEEEEEEECC-CcHHHHHHHHHHHHHcCEEEEEEECCCC--------CCHHHHHHHHHHHHcCCCEE-EEEECCCCCCCC
Confidence 4688999998 43 35677789999999999999954 67788999999999999975 589998852123
Q ss_pred hHHHHHHHHhhccc
Q 004549 199 RKDLKKMCISSLTS 212 (745)
Q Consensus 199 ~~~~kK~lk~~f~~ 212 (745)
...+...++.++..
T Consensus 133 ~~~~~~~l~~~l~~ 146 (270)
T cd01886 133 FFRVVEQIREKLGA 146 (270)
T ss_pred HHHHHHHHHHHhCC
Confidence 33455666666644
No 48
>PRK00093 GTP-binding protein Der; Reviewed
Probab=96.72 E-value=0.043 Score=62.32 Aligned_cols=132 Identities=14% Similarity=0.121 Sum_probs=85.0
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCCC---CC--cc----eEEEecCceeeEEEEeCCCCC-------------
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEGT---GA--LS----STVSSSKYRLRTSVLQAPHGD------------- 134 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~--g~----~tv~~~r~k~R~tfie~~~~d------------- 134 (745)
..+.-|+|+|.++.+.. +| +..+...+. .. |. +........++++++.++ +-
T Consensus 171 ~~~~~v~ivG~~n~GKS-tl----in~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~-G~~~~~~~~~~~e~~ 244 (435)
T PRK00093 171 DEPIKIAIIGRPNVGKS-SL----INALLGEERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTA-GIRRKGKVTEGVEKY 244 (435)
T ss_pred ccceEEEEECCCCCCHH-HH----HHHHhCCCceeecCCCCceEEEEEEEEEECCeeEEEEECC-CCCCCcchhhHHHHH
Confidence 45788999999988775 66 444443321 11 11 111121224678999987 41
Q ss_pred -hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcc-hhhhHHHHHHHHhhccc
Q 004549 135 -LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTD-LKKRKDLKKMCISSLTS 212 (745)
Q Consensus 135 -l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~-~Kk~~~~kK~lk~~f~~ 212 (745)
...++.+...||++|+|+|++.| +......++..+..+|.| ++.|++..|.. .......++.+...+.
T Consensus 245 ~~~~~~~~~~~ad~~ilViD~~~~--------~~~~~~~i~~~~~~~~~~-~ivv~NK~Dl~~~~~~~~~~~~~~~~l~- 314 (435)
T PRK00093 245 SVIRTLKAIERADVVLLVIDATEG--------ITEQDLRIAGLALEAGRA-LVIVVNKWDLVDEKTMEEFKKELRRRLP- 314 (435)
T ss_pred HHHHHHHHHHHCCEEEEEEeCCCC--------CCHHHHHHHHHHHHcCCc-EEEEEECccCCCHHHHHHHHHHHHHhcc-
Confidence 13456788899999999999954 667778899999999988 55578877751 1223445555655543
Q ss_pred ccCCCCeeEEeCC
Q 004549 213 EFPEDCKFYAADT 225 (745)
Q Consensus 213 e~~~~~Klf~l~~ 225 (745)
+++ .+.++.+|.
T Consensus 315 ~~~-~~~i~~~SA 326 (435)
T PRK00093 315 FLD-YAPIVFISA 326 (435)
T ss_pred ccc-CCCEEEEeC
Confidence 222 577888884
No 49
>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group
Probab=96.69 E-value=0.026 Score=59.95 Aligned_cols=78 Identities=14% Similarity=0.154 Sum_probs=58.0
Q ss_pred eeEEEEeCCCCCh---HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 123 LRTSVLQAPHGDL---VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 123 ~R~tfie~~~~dl---~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
.+++++-|| ... ..+..++..||.+|+++|++.| ....+..+++.+...|+|.++ |++.+|......
T Consensus 64 ~~i~liDtP-G~~~f~~~~~~~l~~aD~~i~Vvd~~~g--------~~~~~~~~~~~~~~~~~p~ii-vvNK~D~~~~~~ 133 (268)
T cd04170 64 HKINLIDTP-GYADFVGETRAALRAADAALVVVSAQSG--------VEVGTEKLWEFADEAGIPRII-FINKMDRERADF 133 (268)
T ss_pred EEEEEEECc-CHHHHHHHHHHHHHHCCEEEEEEeCCCC--------CCHHHHHHHHHHHHcCCCEEE-EEECCccCCCCH
Confidence 588999998 432 5588899999999999999954 666788899999999999776 889998621222
Q ss_pred HHHHHHHHhhc
Q 004549 200 KDLKKMCISSL 210 (745)
Q Consensus 200 ~~~kK~lk~~f 210 (745)
..+...++..|
T Consensus 134 ~~~~~~l~~~~ 144 (268)
T cd04170 134 DKTLAALQEAF 144 (268)
T ss_pred HHHHHHHHHHh
Confidence 33445555444
No 50
>cd04169 RF3 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.
Probab=96.65 E-value=0.026 Score=60.26 Aligned_cols=64 Identities=19% Similarity=0.271 Sum_probs=51.6
Q ss_pred eeeEEEEeCCC-CChHH-HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 122 RLRTSVLQAPH-GDLVG-CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~-~dl~~-mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+.++.|+-+|- .++.. +..+.+.||.+|+|+|++.| ++.++..+++.++..|+| ++.+++.+|.
T Consensus 70 ~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g--------~~~~~~~i~~~~~~~~~P-~iivvNK~D~ 135 (267)
T cd04169 70 DCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKG--------VEPQTRKLFEVCRLRGIP-IITFINKLDR 135 (267)
T ss_pred CEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCC--------ccHHHHHHHHHHHhcCCC-EEEEEECCcc
Confidence 57899998872 23333 67788999999999999854 677888999999999999 6668898885
No 51
>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]
Probab=96.63 E-value=0.047 Score=61.41 Aligned_cols=163 Identities=15% Similarity=0.188 Sum_probs=111.5
Q ss_pred eeEEEEeCCC--CChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhh
Q 004549 123 LRTSVLQAPH--GDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKR 199 (745)
Q Consensus 123 ~R~tfie~~~--~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~ 199 (745)
.+++||.+|. .=+.+||+.+-..|..||+|++. ++...+|-|.|-+|..-|+++-+.||+..|. +..+.
T Consensus 50 ~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~d--------eGl~~qtgEhL~iLdllgi~~giivltk~D~~d~~r~ 121 (447)
T COG3276 50 GVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAAD--------EGLMAQTGEHLLILDLLGIKNGIIVLTKADRVDEARI 121 (447)
T ss_pred CceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCc--------cCcchhhHHHHHHHHhcCCCceEEEEeccccccHHHH
Confidence 4899999974 44999999999999999999998 4589999999999999999999999999885 32333
Q ss_pred HHHHHHHHhhcccccCCCCeeEEeCC-----HHHHHHHHHHHhhccccCCccccCCCeEE-EEeeEeccCCCCCCCceEE
Q 004549 200 KDLKKMCISSLTSEFPEDCKFYAADT-----KDELHKFLWLFKEQRLTVPHWRNQRPFLM-AQKVDVVADDCNSGKCTLL 273 (745)
Q Consensus 200 ~~~kK~lk~~f~~e~~~~~Klf~l~~-----~~e~~nL~R~I~~~k~r~l~WR~~rpYmL-adr~e~~~~~~~~~~~~l~ 273 (745)
....+.+..... + ..+++|..|. -.|..|=+=.+.. ...=-.+.|+-+ .||+=-+. ..| .+
T Consensus 122 e~~i~~Il~~l~--l-~~~~i~~~s~~~g~GI~~Lk~~l~~L~~----~~e~d~~~~fri~IDraFtVK-----GvG-TV 188 (447)
T COG3276 122 EQKIKQILADLS--L-ANAKIFKTSAKTGRGIEELKNELIDLLE----EIERDEQKPFRIAIDRAFTVK-----GVG-TV 188 (447)
T ss_pred HHHHHHHHhhcc--c-ccccccccccccCCCHHHHHHHHHHhhh----hhhhccCCceEEEEeeEEEec-----ccc-EE
Confidence 334444444444 3 4788888772 2222222222222 111123445555 56643222 234 56
Q ss_pred EEEEEeCCCCCCCCeEEeCCCC-ceeeceeeccC
Q 004549 274 LHGYLRAHCLSVNQLVHISGAG-DFQLGKIEILK 306 (745)
Q Consensus 274 v~GyvRG~~l~~n~lVHIpG~G-DFqi~~I~~~~ 306 (745)
|+|++--....+|.-+-+-++| .-+|.+|..-.
T Consensus 189 VtGtv~sG~V~v~D~L~l~p~~k~v~VRsIq~~d 222 (447)
T COG3276 189 VTGTVLSGEVKVGDKLYLSPINKEVRVRSIQAHD 222 (447)
T ss_pred EEeEEeeeeEEECCEEEEecCCCeEEEEeeeecC
Confidence 7787765556788888888888 67788887654
No 52
>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily. EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in
Probab=96.60 E-value=0.033 Score=57.37 Aligned_cols=102 Identities=20% Similarity=0.220 Sum_probs=67.5
Q ss_pred eeeEEEEeCCCCC---hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcc---
Q 004549 122 RLRTSVLQAPHGD---LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTD--- 195 (745)
Q Consensus 122 k~R~tfie~~~~d---l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~--- 195 (745)
..+++|+.+| .. +..++.+++.||.+|||+|++.+..+ ...+...++.+.+..++..|.|.++.|++.+|..
T Consensus 76 ~~~i~liDtp-G~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl~~~~ 153 (219)
T cd01883 76 KYRFTILDAP-GHRDFVPNMITGASQADVAVLVVDARKGEFE-AGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVTVN 153 (219)
T ss_pred CeEEEEEECC-ChHHHHHHHHHHhhhCCEEEEEEECCCCccc-cccccccchHHHHHHHHHcCCCeEEEEEEcccccccc
Confidence 5789999998 42 45678888999999999999964100 0002344677777888888999999999988851
Q ss_pred --hhhhHHHHHHHHhhcccccC--CCCeeEEeCC
Q 004549 196 --LKKRKDLKKMCISSLTSEFP--EDCKFYAADT 225 (745)
Q Consensus 196 --~Kk~~~~kK~lk~~f~~e~~--~~~Klf~l~~ 225 (745)
......+.+.++.++...-. ....++.+|.
T Consensus 154 ~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA 187 (219)
T cd01883 154 WSEERYDEIKKELSPFLKKVGYNPKDVPFIPISG 187 (219)
T ss_pred ccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeec
Confidence 01123455555555544211 2466888774
No 53
>cd04168 TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.
Probab=96.51 E-value=0.041 Score=57.70 Aligned_cols=81 Identities=14% Similarity=0.199 Sum_probs=60.1
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
+.+++|+.+|- .+ ...+..+.+.||.++||+|++.| +..++.++++.++.+|+|.+ .|++.+|......
T Consensus 63 ~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g--------~~~~~~~~~~~~~~~~~P~i-ivvNK~D~~~a~~ 133 (237)
T cd04168 63 DTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEG--------VQAQTRILWRLLRKLNIPTI-IFVNKIDRAGADL 133 (237)
T ss_pred CEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCC--------CCHHHHHHHHHHHHcCCCEE-EEEECccccCCCH
Confidence 57899999872 23 44577788999999999999954 66788999999999999965 5889888521123
Q ss_pred HHHHHHHHhhcc
Q 004549 200 KDLKKMCISSLT 211 (745)
Q Consensus 200 ~~~kK~lk~~f~ 211 (745)
.++...++..|.
T Consensus 134 ~~~~~~i~~~~~ 145 (237)
T cd04168 134 EKVYQEIKEKLS 145 (237)
T ss_pred HHHHHHHHHHHC
Confidence 445556665553
No 54
>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co
Probab=96.50 E-value=0.1 Score=52.33 Aligned_cols=111 Identities=15% Similarity=0.146 Sum_probs=66.7
Q ss_pred eeeEEEEeCCC-CChHH-HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GDLVG-CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~dl~~-mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
+.+++|+.+|- .++.+ +.-.++-||.+|+|+|++.+ .......+|..+..+|+| ++.|++.+|......
T Consensus 64 ~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~--------~~~~~~~~~~~~~~~~~p-~iiv~NK~Dl~~~~~ 134 (194)
T cd01891 64 DTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEG--------PMPQTRFVLKKALELGLK-PIVVINKIDRPDARP 134 (194)
T ss_pred CEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCC--------ccHHHHHHHHHHHHcCCC-EEEEEECCCCCCCCH
Confidence 57899999973 23444 34457899999999999853 334456667777788999 566899888511222
Q ss_pred HHHHHHHHhhccc---cc-CCCCeeEEeCC------------HHHHHHHHHHHhhccc
Q 004549 200 KDLKKMCISSLTS---EF-PEDCKFYAADT------------KDELHKFLWLFKEQRL 241 (745)
Q Consensus 200 ~~~kK~lk~~f~~---e~-~~~~Klf~l~~------------~~e~~nL~R~I~~~k~ 241 (745)
..+...++.++.. .. .-+..++..|. ...+..|+-.|.+.-|
T Consensus 135 ~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~g~~~~~~~~~~~~~~~l~~~~~~~~~ 192 (194)
T cd01891 135 EEVVDEVFDLFIELGATEEQLDFPVLYASAKNGWASLNLEDPSEDLEPLFDTIIEHVP 192 (194)
T ss_pred HHHHHHHHHHHHHhCCccccCccCEEEeehhccccccccccchhhHHHHHHHHHhcCC
Confidence 2333444444321 10 01456777663 3445556555554433
No 55
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=96.46 E-value=0.05 Score=53.89 Aligned_cols=133 Identities=13% Similarity=0.110 Sum_probs=76.3
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCC-CC---C-cceEEEec--CceeeEEEEeCCCC-----------ChHHH
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEG-TG---A-LSSTVSSS--KYRLRTSVLQAPHG-----------DLVGC 138 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~-~~---~-g~~tv~~~--r~k~R~tfie~~~~-----------dl~~m 138 (745)
..| -|+|+|.++.+.. +| ++.++... .. . ...|..+. .....+.|+-.|-- ++..+
T Consensus 17 ~~~-~i~ivG~~~~GKS-tl----in~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~ 90 (179)
T TIGR03598 17 DGP-EIAFAGRSNVGKS-SL----INALTNRKKLARTSKTPGRTQLINFFEVNDGFRLVDLPGYGYAKVSKEEKEKWQKL 90 (179)
T ss_pred CCC-EEEEEcCCCCCHH-HH----HHHHhCCCCcccccCCCCcceEEEEEEeCCcEEEEeCCCCccccCChhHHHHHHHH
Confidence 344 4589999988775 66 55554432 11 1 11221111 01246888887721 12222
Q ss_pred H----hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhHHHHHHHHhhcccc
Q 004549 139 M----EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRKDLKKMCISSLTSE 213 (745)
Q Consensus 139 L----D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~~~kK~lk~~f~~e 213 (745)
+ ..+..+|.+|+++|++.+ +.....++++.|...|+| ++.|++++|. +..........++..+...
T Consensus 91 ~~~~l~~~~~~~~ii~vvd~~~~--------~~~~~~~~~~~~~~~~~p-viiv~nK~D~~~~~~~~~~~~~i~~~l~~~ 161 (179)
T TIGR03598 91 IEEYLEKRENLKGVVLLMDIRHP--------LKELDLEMLEWLRERGIP-VLIVLTKADKLKKSELNKQLKKIKKALKKD 161 (179)
T ss_pred HHHHHHhChhhcEEEEEecCCCC--------CCHHHHHHHHHHHHcCCC-EEEEEECcccCCHHHHHHHHHHHHHHHhhc
Confidence 2 223357899999999843 666677888999999998 7788998885 1111222333444444433
Q ss_pred cCCCCeeEEeCC
Q 004549 214 FPEDCKFYAADT 225 (745)
Q Consensus 214 ~~~~~Klf~l~~ 225 (745)
. ...++|..|.
T Consensus 162 ~-~~~~v~~~Sa 172 (179)
T TIGR03598 162 A-DDPSVQLFSS 172 (179)
T ss_pred c-CCCceEEEEC
Confidence 2 2357777764
No 56
>PRK15494 era GTPase Era; Provisional
Probab=96.43 E-value=0.069 Score=59.03 Aligned_cols=141 Identities=17% Similarity=0.266 Sum_probs=83.9
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCC---C------cceE--EEecCceeeEEEEeCCCCC------hH-HHH-
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTG---A------LSST--VSSSKYRLRTSVLQAPHGD------LV-GCM- 139 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~---~------g~~t--v~~~r~k~R~tfie~~~~d------l~-~mL- 139 (745)
..-|+|+|.++.+.. +| ++.|...... . +.++ +..+ ...+.|+.+| +- +. .|.
T Consensus 52 ~~kV~ivG~~nvGKS-TL----in~l~~~k~~ivs~k~~tTr~~~~~~~~~~--~~qi~~~DTp-G~~~~~~~l~~~~~r 123 (339)
T PRK15494 52 TVSVCIIGRPNSGKS-TL----LNRIIGEKLSIVTPKVQTTRSIITGIITLK--DTQVILYDTP-GIFEPKGSLEKAMVR 123 (339)
T ss_pred eeEEEEEcCCCCCHH-HH----HHHHhCCceeeccCCCCCccCcEEEEEEeC--CeEEEEEECC-CcCCCcccHHHHHHH
Confidence 346899999987765 56 4444332221 0 1121 2222 3578999887 32 22 232
Q ss_pred ---hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCC
Q 004549 140 ---EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPE 216 (745)
Q Consensus 140 ---D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~ 216 (745)
.+++-||+||||+|++. .|+.....+++.++..+.|.+ .|++.+|...+...+..+.++. ..+
T Consensus 124 ~~~~~l~~aDvil~VvD~~~--------s~~~~~~~il~~l~~~~~p~I-lViNKiDl~~~~~~~~~~~l~~----~~~- 189 (339)
T PRK15494 124 CAWSSLHSADLVLLIIDSLK--------SFDDITHNILDKLRSLNIVPI-FLLNKIDIESKYLNDIKAFLTE----NHP- 189 (339)
T ss_pred HHHHHhhhCCEEEEEEECCC--------CCCHHHHHHHHHHHhcCCCEE-EEEEhhcCccccHHHHHHHHHh----cCC-
Confidence 34678999999999884 377766788999988898875 4789888511222233333332 222
Q ss_pred CCeeEEeCC--HHHHHHHHHHHhhccc
Q 004549 217 DCKFYAADT--KDELHKFLWLFKEQRL 241 (745)
Q Consensus 217 ~~Klf~l~~--~~e~~nL~R~I~~~k~ 241 (745)
...+|.+|. ...+..|...|...-+
T Consensus 190 ~~~i~~iSAktg~gv~eL~~~L~~~l~ 216 (339)
T PRK15494 190 DSLLFPISALSGKNIDGLLEYITSKAK 216 (339)
T ss_pred CcEEEEEeccCccCHHHHHHHHHHhCC
Confidence 457788774 3445566666655443
No 57
>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]
Probab=96.36 E-value=0.15 Score=55.72 Aligned_cols=163 Identities=15% Similarity=0.233 Sum_probs=105.0
Q ss_pred EEEeCCC--CChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc--chhhhHH
Q 004549 126 SVLQAPH--GDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT--DLKKRKD 201 (745)
Q Consensus 126 tfie~~~--~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~--~~Kk~~~ 201 (745)
||+.||- .=|..+|-.|.|-|+.+|+||+.-| ..-.+-|+|-+-+. =-|+.+.|++.+|. +++++.+
T Consensus 73 tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG--------~QtQtAEcLiig~~-~c~klvvvinkid~lpE~qr~sk 143 (522)
T KOG0461|consen 73 TLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKG--------KQTQTAECLIIGEL-LCKKLVVVINKIDVLPENQRASK 143 (522)
T ss_pred EEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcc--------cccccchhhhhhhh-hccceEEEEeccccccchhhhhH
Confidence 9999983 2278899999999999999999965 56678888855322 24677777777662 3344333
Q ss_pred ---HHHHHHhhccc-ccCCCCeeEEeCC------HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCce
Q 004549 202 ---LKKMCISSLTS-EFPEDCKFYAADT------KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCT 271 (745)
Q Consensus 202 ---~kK~lk~~f~~-e~~~~~Klf~l~~------~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~ 271 (745)
..|++++-+++ -|...+-+..++. ++-+.+|.-.|-++-+.|-+= ..-|++++=.+-|-- +.-||
T Consensus 144 i~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~Rd-~~gpflm~vDHCF~I----KGQGT 218 (522)
T KOG0461|consen 144 IEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEPKRD-EEGPFLMAVDHCFAI----KGQGT 218 (522)
T ss_pred HHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCCCcC-CCCCeEEEeeeeEEe----ccCce
Confidence 45556666654 4554577777662 455667766666666665443 345666665544321 12344
Q ss_pred EEEEEEE-eCCCCCCCCeEEeCCCCce-eeceeec
Q 004549 272 LLLHGYL-RAHCLSVNQLVHISGAGDF-QLGKIEI 304 (745)
Q Consensus 272 l~v~Gyv-RG~~l~~n~lVHIpG~GDF-qi~~I~~ 304 (745)
+++|.| ||. ++.|.-|-+|-+|.- .+++++.
T Consensus 219 -V~TGTvl~G~-~~ln~~iE~PAL~e~rkVKslqm 251 (522)
T KOG0461|consen 219 -VLTGTVLRGV-LRLNTEIEFPALNEKRKVKSLQM 251 (522)
T ss_pred -EEeeeEEEeE-EecCcEEeecccchhhhhhhHHH
Confidence 456654 554 899999999998842 2444443
No 58
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=96.36 E-value=0.086 Score=59.67 Aligned_cols=132 Identities=15% Similarity=0.153 Sum_probs=82.3
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCCC---CC------cceEEEecCceeeEEEEeCCCCC---------h---
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEGT---GA------LSSTVSSSKYRLRTSVLQAPHGD---------L--- 135 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~------g~~tv~~~r~k~R~tfie~~~~d---------l--- 135 (745)
..+.-|+|+|.++.+.. +| +..+...+. .. .++........++++++..+ +- +
T Consensus 170 ~~~~~v~ivG~~~~GKS-sL----in~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~-G~~~~~~~~~~~e~~ 243 (429)
T TIGR03594 170 DGPIKIAIIGRPNVGKS-TL----VNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTA-GIRRKGKVTEGVEKY 243 (429)
T ss_pred CCceEEEEECCCCCCHH-HH----HHHHHCCCeeecCCCCCceECcEeEEEEECCcEEEEEECC-CccccccchhhHHHH
Confidence 34567899999887765 66 444433221 11 11112211123578899887 41 1
Q ss_pred --HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc--chhhhHHHHHHHHhhcc
Q 004549 136 --VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT--DLKKRKDLKKMCISSLT 211 (745)
Q Consensus 136 --~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~--~~Kk~~~~kK~lk~~f~ 211 (745)
...+.+++-||++|+|+|++.| +.....+++..+..+|.| +|.|++..|. +.......++.+...+.
T Consensus 244 ~~~~~~~~~~~ad~~ilV~D~~~~--------~~~~~~~~~~~~~~~~~~-iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~ 314 (429)
T TIGR03594 244 SVLRTLKAIERADVVLLVLDATEG--------ITEQDLRIAGLILEAGKA-LVIVVNKWDLVKDEKTREEFKKELRRKLP 314 (429)
T ss_pred HHHHHHHHHHhCCEEEEEEECCCC--------ccHHHHHHHHHHHHcCCc-EEEEEECcccCCCHHHHHHHHHHHHHhcc
Confidence 2346678899999999999954 667778899999999987 5557887775 11223345555555543
Q ss_pred cccCCCCeeEEeCC
Q 004549 212 SEFPEDCKFYAADT 225 (745)
Q Consensus 212 ~e~~~~~Klf~l~~ 225 (745)
.. .+..++.+|.
T Consensus 315 ~~--~~~~vi~~SA 326 (429)
T TIGR03594 315 FL--DFAPIVFISA 326 (429)
T ss_pred cC--CCCceEEEeC
Confidence 22 2577888874
No 59
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=96.30 E-value=0.085 Score=56.21 Aligned_cols=139 Identities=12% Similarity=0.106 Sum_probs=77.7
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC---------cce-EEEecCceeeEEEEeCCCC-----ChH-----HHHh
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA---------LSS-TVSSSKYRLRTSVLQAPHG-----DLV-----GCME 140 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---------g~~-tv~~~r~k~R~tfie~~~~-----dl~-----~mLD 140 (745)
.|+|+|.++.+.. +| +..+++..... ..+ .+.... ...+.|+..|-- .+. .+..
T Consensus 2 ~V~liG~pnvGKS-TL----ln~L~~~~~~~vs~~~~TTr~~i~~i~~~~-~~qii~vDTPG~~~~~~~l~~~~~~~~~~ 75 (270)
T TIGR00436 2 FVAILGRPNVGKS-TL----LNQLHGQKISITSPKAQTTRNRISGIHTTG-ASQIIFIDTPGFHEKKHSLNRLMMKEARS 75 (270)
T ss_pred EEEEECCCCCCHH-HH----HHHHhCCcEeecCCCCCcccCcEEEEEEcC-CcEEEEEECcCCCCCcchHHHHHHHHHHH
Confidence 4889999987765 66 44444333211 111 111121 245889988721 122 2345
Q ss_pred HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCee
Q 004549 141 MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKF 220 (745)
Q Consensus 141 ~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Kl 220 (745)
+++-||+||+|+|++.+ ...+ ..+++.|+..+.| ++.|++..|. .........+..+... . ...++
T Consensus 76 ~l~~aDvvl~VvD~~~~--------~~~~-~~i~~~l~~~~~p-~ilV~NK~Dl--~~~~~~~~~~~~~~~~-~-~~~~v 141 (270)
T TIGR00436 76 AIGGVDLILFVVDSDQW--------NGDG-EFVLTKLQNLKRP-VVLTRNKLDN--KFKDKLLPLIDKYAIL-E-DFKDI 141 (270)
T ss_pred HHhhCCEEEEEEECCCC--------CchH-HHHHHHHHhcCCC-EEEEEECeeC--CCHHHHHHHHHHHHhh-c-CCCce
Confidence 67889999999999853 1122 6778888888887 5678888886 2222222222222111 1 13478
Q ss_pred EEeCC--HHHHHHHHHHHhhc
Q 004549 221 YAADT--KDELHKFLWLFKEQ 239 (745)
Q Consensus 221 f~l~~--~~e~~nL~R~I~~~ 239 (745)
|.+|. ..-+..|...|...
T Consensus 142 ~~iSA~~g~gi~~L~~~l~~~ 162 (270)
T TIGR00436 142 VPISALTGDNTSFLAAFIEVH 162 (270)
T ss_pred EEEecCCCCCHHHHHHHHHHh
Confidence 88883 33344555555443
No 60
>PRK14845 translation initiation factor IF-2; Provisional
Probab=96.18 E-value=0.22 Score=62.36 Aligned_cols=177 Identities=12% Similarity=0.139 Sum_probs=110.3
Q ss_pred eEEEEeCCC-CChHHH-HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc--ch---
Q 004549 124 RTSVLQAPH-GDLVGC-MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT--DL--- 196 (745)
Q Consensus 124 R~tfie~~~-~dl~~m-LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~--~~--- 196 (745)
.++|+-+|- .++.++ .-.+..||++|||+|++. ++...+++.+..++..|.| +|.|++.+|. ..
T Consensus 527 ~i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~--------Gi~~qT~e~I~~lk~~~iP-iIVViNKiDL~~~~~~~ 597 (1049)
T PRK14845 527 GLLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINE--------GFKPQTIEAINILRQYKTP-FVVAANKIDLIPGWNIS 597 (1049)
T ss_pred cEEEEECCCcHHHHHHHHhhcccCCEEEEEEECcc--------cCCHhHHHHHHHHHHcCCC-EEEEEECCCCccccccc
Confidence 389998872 223333 234577999999999994 4888999999999999998 6667777663 10
Q ss_pred ---------hhh-HHHHHHHHhhc------------c-------cccCCCCeeEEeCCHH--HHHHHHHHHhhccc----
Q 004549 197 ---------KKR-KDLKKMCISSL------------T-------SEFPEDCKFYAADTKD--ELHKFLWLFKEQRL---- 241 (745)
Q Consensus 197 ---------Kk~-~~~kK~lk~~f------------~-------~e~~~~~Klf~l~~~~--e~~nL~R~I~~~k~---- 241 (745)
+++ ..++..+..++ . .+|....-++.+|..+ -+-.|+-.|.....
T Consensus 598 ~~~~~~~~~~~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~~~l~ 677 (1049)
T PRK14845 598 EDEPFLLNFNEQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQKYLE 677 (1049)
T ss_pred cchhhhhhhhhhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhHHhhh
Confidence 111 12333322111 1 1344566778888422 23444445543332
Q ss_pred cCCccccCCC-eEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCceeeceeeccCCCCCCCccc
Q 004549 242 TVPHWRNQRP-FLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGDFQLGKIEILKDPFPLNARK 315 (745)
Q Consensus 242 r~l~WR~~rp-YmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I~~~~DP~pl~~~~ 315 (745)
..+......| -+.++++.... ..-.+++|-|....|++|..|-+-+.+.=...+|-++-+|-|+..-.
T Consensus 678 ~~L~~~~~~~~~g~VlEv~~~k------G~G~vvt~iv~~G~Lk~GD~iv~g~~~~~i~~kVRaLl~p~pl~e~r 746 (1049)
T PRK14845 678 ERLKLNVEGYAKGTILEVKEEK------GLGTTIDAIIYDGTLRRGDTIVVGGPDDVIVTKVRALLKPKPLDEIR 746 (1049)
T ss_pred hhhccCCCCceEEEEEEEEEec------CceeEEEEEEEcCEEecCCEEEEccCCCcceEEEEEecCcccccccc
Confidence 2343322221 13333433322 23478899998888999999999887776788999999998876543
No 61
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=95.96 E-value=0.19 Score=47.35 Aligned_cols=140 Identities=16% Similarity=0.175 Sum_probs=78.4
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCCC---------cceEEEecCceeeEEEEeCCCCCh-----------HHH
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA---------LSSTVSSSKYRLRTSVLQAPHGDL-----------VGC 138 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---------g~~tv~~~r~k~R~tfie~~~~dl-----------~~m 138 (745)
...|+++|+++++.. +| +..+.+..... ..........+.++.++.+| .-. ...
T Consensus 3 ~~~i~~~G~~g~GKt-tl----~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtp-G~~~~~~~~~~~~~~~~ 76 (168)
T cd04163 3 SGFVAIVGRPNVGKS-TL----LNALVGQKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTP-GIHKPKKKLGERMVKAA 76 (168)
T ss_pred eeEEEEECCCCCCHH-HH----HHHHhCCceEeccCCCCceeceEEEEEEcCCeEEEEEECC-CCCcchHHHHHHHHHHH
Confidence 457999999998876 56 44443332211 11111112224678899886 311 123
Q ss_pred HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCC
Q 004549 139 MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDC 218 (745)
Q Consensus 139 LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~ 218 (745)
...+.-+|++++++|++. .+......++..++..+.|- +.|+++.|.. ...... ..+...+...++ ..
T Consensus 77 ~~~~~~~d~i~~v~d~~~--------~~~~~~~~~~~~~~~~~~~~-iiv~nK~Dl~-~~~~~~-~~~~~~~~~~~~-~~ 144 (168)
T cd04163 77 WSALKDVDLVLFVVDASE--------PIGEGDEFILELLKKSKTPV-ILVLNKIDLV-KDKEDL-LPLLEKLKELGP-FA 144 (168)
T ss_pred HHHHHhCCEEEEEEECCC--------ccCchHHHHHHHHHHhCCCE-EEEEEchhcc-ccHHHH-HHHHHHHHhccC-CC
Confidence 445778999999999984 24555667778888778774 5667887751 112222 222233333333 35
Q ss_pred eeEEeCC--HHHHHHHHHHH
Q 004549 219 KFYAADT--KDELHKFLWLF 236 (745)
Q Consensus 219 Klf~l~~--~~e~~nL~R~I 236 (745)
.++.++. ...+..|...|
T Consensus 145 ~~~~~s~~~~~~~~~l~~~l 164 (168)
T cd04163 145 EIFPISALKGENVDELLEEI 164 (168)
T ss_pred ceEEEEeccCCChHHHHHHH
Confidence 6776663 33344444444
No 62
>cd00154 Rab Rab family. Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di
Probab=95.89 E-value=0.15 Score=47.75 Aligned_cols=139 Identities=11% Similarity=0.111 Sum_probs=76.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEecCceeeEEEEeCCCC-ChHH-HHhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSSKYRLRTSVLQAPHG-DLVG-CMEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~r~k~R~tfie~~~~-dl~~-mLD~aKvADlVl 149 (745)
|+++|+++++.. +| +..+....... ...++........++++.+|.. .+.+ ...+++-+|.+|
T Consensus 3 i~~~G~~~~GKS-tl----~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii 77 (159)
T cd00154 3 IVLIGDSGVGKT-SL----LLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAI 77 (159)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEE
Confidence 789999998876 67 44443322111 3344444444577888888731 2222 345567799999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcC--CCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCeeEEeCCH-
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLG--LPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKFYAADTK- 226 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qG--lP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~~~- 226 (745)
+++|++.. ..++.-. .+++.+..++ -+.++.|+++.|.. .......+.++..... .+..++.+|..
T Consensus 78 ~v~d~~~~------~~~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~~~~~~~~~~~~~~---~~~~~~~~sa~~ 146 (159)
T cd00154 78 LVYDITNR------ESFENLD-KWLKELKEYAPENIPIILVGNKIDLE-DQRQVSTEEAQQFAKE---NGLLFFETSAKT 146 (159)
T ss_pred EEEECCCH------HHHHHHH-HHHHHHHHhCCCCCcEEEEEEccccc-ccccccHHHHHHHHHH---cCCeEEEEecCC
Confidence 99999842 2344333 3666666655 34456778888861 1111122223332222 24567777742
Q ss_pred -HHHHHHHHHH
Q 004549 227 -DELHKFLWLF 236 (745)
Q Consensus 227 -~e~~nL~R~I 236 (745)
..+..+...|
T Consensus 147 ~~~i~~~~~~i 157 (159)
T cd00154 147 GENVEELFQSL 157 (159)
T ss_pred CCCHHHHHHHH
Confidence 2344444443
No 63
>cd01890 LepA LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.
Probab=95.86 E-value=0.22 Score=48.54 Aligned_cols=106 Identities=8% Similarity=0.020 Sum_probs=62.2
Q ss_pred eeeEEEEeCCC-CChHHH-HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GDLVGC-MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~dl~~m-LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
+..++|+-+|- .++..+ ...++-||.+|+|+|++.+ ...+..+.+..+...|+| ++.|++.+|......
T Consensus 66 ~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~--------~~~~~~~~~~~~~~~~~~-iiiv~NK~Dl~~~~~ 136 (179)
T cd01890 66 EYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQG--------VEAQTLANFYLALENNLE-IIPVINKIDLPSADP 136 (179)
T ss_pred cEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCC--------ccHhhHHHHHHHHHcCCC-EEEEEECCCCCcCCH
Confidence 55678888762 234433 4467889999999999853 334455555566678888 677899988511222
Q ss_pred HHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhc
Q 004549 200 KDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQ 239 (745)
Q Consensus 200 ~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~ 239 (745)
....+.+.+.+. ++ ...+|.+|. ..-+..|...|+..
T Consensus 137 ~~~~~~~~~~~~--~~-~~~~~~~Sa~~g~gi~~l~~~l~~~ 175 (179)
T cd01890 137 ERVKQQIEDVLG--LD-PSEAILVSAKTGLGVEDLLEAIVER 175 (179)
T ss_pred HHHHHHHHHHhC--CC-cccEEEeeccCCCCHHHHHHHHHhh
Confidence 223344444332 11 235777773 23344555555543
No 64
>cd04160 Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.
Probab=95.85 E-value=0.17 Score=48.72 Aligned_cols=134 Identities=13% Similarity=0.140 Sum_probs=73.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccC-CC-------CC--cceEEEecCceeeEEEEeCCC-CChHHH-HhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSE-GT-------GA--LSSTVSSSKYRLRTSVLQAPH-GDLVGC-MEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~-~~-------~~--g~~tv~~~r~k~R~tfie~~~-~dl~~m-LD~aKvADlVl 149 (745)
|+|+|+++.+.. +|++.|...+... .. +. ...++..+ +.+++++.++- .++.++ ....+-||.++
T Consensus 2 i~~vG~~~~GKs-tLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v 78 (167)
T cd04160 2 VLILGLDNAGKT-TFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEVG--NARLKFWDLGGQESLRSLWDKYYAECHAII 78 (167)
T ss_pred EEEEecCCCCHH-HHHHHHhhhcccccCCcccccCCccccceEEEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCEEE
Confidence 688999987765 5644434332210 00 00 12233333 46888898872 234443 34478899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHH---hcCCCceEEEeccCCcchh-hhHHHHHHHHhhcccccCCCCeeEEeCC
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFR---SLGLPSTAVLIRDLPTDLK-KRKDLKKMCISSLTSEFPEDCKFYAADT 225 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~---~qGlP~vigvl~~L~~~~K-k~~~~kK~lk~~f~~e~~~~~Klf~l~~ 225 (745)
||+|++.. ..++..-..+..+++ .+|+| ++.|++..|.... ......+.++.+....-..+.+++.+|.
T Consensus 79 ~vvd~~~~------~~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa 151 (167)
T cd04160 79 YVIDSTDR------ERFEESKSALEKVLRNEALEGVP-LLILANKQDLPDALSVEEIKEVFQDKAEEIGRRDCLVLPVSA 151 (167)
T ss_pred EEEECchH------HHHHHHHHHHHHHHhChhhcCCC-EEEEEEccccccCCCHHHHHHHhccccccccCCceEEEEeeC
Confidence 99999842 224433333333333 46888 6667888874111 1233444444443322223567888884
No 65
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.81 E-value=0.14 Score=58.86 Aligned_cols=148 Identities=17% Similarity=0.216 Sum_probs=93.6
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEecC-ceeeEEEEeCCCCChHHHHh--HHhh
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSSK-YRLRTSVLQAPHGDLVGCME--MAKV 144 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~r-~k~R~tfie~~~~dl~~mLD--~aKv 144 (745)
-|-||+|+|==..+.. +| +..+.+.+... |-+++..+. .-..||||--|.---.+.|- -|++
T Consensus 4 R~PvVtimGHVDHGKT-tL----LD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~v 78 (509)
T COG0532 4 RPPVVTIMGHVDHGKT-TL----LDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASV 78 (509)
T ss_pred CCCEEEEeCcccCCcc-ch----hhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCcc
Confidence 3668899986443332 34 44454444332 444454431 13689999887433333333 3799
Q ss_pred cceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh-HHHHHHHHh-hcccccC-CCCeeE
Q 004549 145 ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR-KDLKKMCIS-SLTSEFP-EDCKFY 221 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~-~~~kK~lk~-~f~~e~~-~~~Klf 221 (745)
+|+|+|++++.. ++-..|.|-++.+++.|.|-++.+ +.+|. ...+ -+++..|+. =|..|-+ ....+.
T Consensus 79 tDIaILVVa~dD--------Gv~pQTiEAI~hak~a~vP~iVAi-NKiDk-~~~np~~v~~el~~~gl~~E~~gg~v~~V 148 (509)
T COG0532 79 TDIAILVVAADD--------GVMPQTIEAINHAKAAGVPIVVAI-NKIDK-PEANPDKVKQELQEYGLVPEEWGGDVIFV 148 (509)
T ss_pred ccEEEEEEEccC--------CcchhHHHHHHHHHHCCCCEEEEE-ecccC-CCCCHHHHHHHHHHcCCCHhhcCCceEEE
Confidence 999999999994 589999999999999999988876 44432 0111 123333332 3444433 346666
Q ss_pred EeC-----CHHHHHHHHHHHhhcc
Q 004549 222 AAD-----TKDELHKFLWLFKEQR 240 (745)
Q Consensus 222 ~l~-----~~~e~~nL~R~I~~~k 240 (745)
..| +-.|.+.+++.++.+-
T Consensus 149 pvSA~tg~Gi~eLL~~ill~aev~ 172 (509)
T COG0532 149 PVSAKTGEGIDELLELILLLAEVL 172 (509)
T ss_pred EeeccCCCCHHHHHHHHHHHHHHH
Confidence 777 5888998888888766
No 66
>cd00881 GTP_translation_factor GTP translation factor family. This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.
Probab=95.64 E-value=0.44 Score=46.44 Aligned_cols=110 Identities=15% Similarity=0.111 Sum_probs=68.2
Q ss_pred eeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcch-hh
Q 004549 122 RLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDL-KK 198 (745)
Q Consensus 122 k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~-Kk 198 (745)
+.+++|+.+|- .++ .....+.+-||.+++|+|++.+ ...+..+++..+...+.| ++.|++..|.-. -.
T Consensus 61 ~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~--------~~~~~~~~~~~~~~~~~~-i~iv~nK~D~~~~~~ 131 (189)
T cd00881 61 DRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEG--------VQPQTREHLRIAREGGLP-IIVAINKIDRVGEED 131 (189)
T ss_pred CEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCC--------CcHHHHHHHHHHHHCCCC-eEEEEECCCCcchhc
Confidence 46899999872 123 3355667889999999999853 556677788888877766 666778777511 11
Q ss_pred hHHHHHHHHhhcccc-----------cCCCCeeEEeCC--HHHHHHHHHHHhhcc
Q 004549 199 RKDLKKMCISSLTSE-----------FPEDCKFYAADT--KDELHKFLWLFKEQR 240 (745)
Q Consensus 199 ~~~~kK~lk~~f~~e-----------~~~~~Klf~l~~--~~e~~nL~R~I~~~k 240 (745)
.....+.++..+... .+....+|.+|. ...+..|...|+..-
T Consensus 132 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l 186 (189)
T cd00881 132 LEEVLREIKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL 186 (189)
T ss_pred HHHHHHHHHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence 222333344443321 233677888885 234566666666543
No 67
>PRK00454 engB GTP-binding protein YsxC; Reviewed
Probab=95.50 E-value=0.38 Score=47.72 Aligned_cols=127 Identities=13% Similarity=0.134 Sum_probs=70.7
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCC-CCC----cceEE--EecCceeeEEEEeCCCCC------------h----H
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEG-TGA----LSSTV--SSSKYRLRTSVLQAPHGD------------L----V 136 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~-~~~----g~~tv--~~~r~k~R~tfie~~~~d------------l----~ 136 (745)
.-|+|+|.++.+.. +| ++.++... ... ...|. ........++|+..| +- . .
T Consensus 25 ~~v~ivG~~~~GKS-sl----i~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~l~l~Dtp-G~~~~~~~~~~~~~~~~~~~ 98 (196)
T PRK00454 25 PEIAFAGRSNVGKS-SL----INALTNRKNLARTSKTPGRTQLINFFEVNDKLRLVDLP-GYGYAKVSKEEKEKWQKLIE 98 (196)
T ss_pred CEEEEEcCCCCCHH-HH----HHHHhCCCCcccccCCCCceeEEEEEecCCeEEEeCCC-CCCCcCCCchHHHHHHHHHH
Confidence 44889999987765 66 44444332 111 11111 111123578888887 41 1 1
Q ss_pred HHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhHHHHHHHHhhcccccC
Q 004549 137 GCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRKDLKKMCISSLTSEFP 215 (745)
Q Consensus 137 ~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~~~kK~lk~~f~~e~~ 215 (745)
..+..+..++++++++|++.+ +.....+++..+...|+| ++.|++..|. +...+......++.++...
T Consensus 99 ~~~~~~~~~~~~~~v~d~~~~--------~~~~~~~i~~~l~~~~~~-~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~-- 167 (196)
T PRK00454 99 EYLRTRENLKGVVLLIDSRHP--------LKELDLQMIEWLKEYGIP-VLIVLTKADKLKKGERKKQLKKVRKALKFG-- 167 (196)
T ss_pred HHHHhCccceEEEEEEecCCC--------CCHHHHHHHHHHHHcCCc-EEEEEECcccCCHHHHHHHHHHHHHHHHhc--
Confidence 223334455789999998843 444445677777888988 6667787774 1122233444455555443
Q ss_pred CCCeeEEeC
Q 004549 216 EDCKFYAAD 224 (745)
Q Consensus 216 ~~~Klf~l~ 224 (745)
..++|..|
T Consensus 168 -~~~~~~~S 175 (196)
T PRK00454 168 -DDEVILFS 175 (196)
T ss_pred -CCceEEEE
Confidence 35677766
No 68
>PRK12739 elongation factor G; Reviewed
Probab=95.46 E-value=0.17 Score=61.26 Aligned_cols=79 Identities=15% Similarity=0.121 Sum_probs=59.8
Q ss_pred eeeEEEEeCCCC---ChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhh
Q 004549 122 RLRTSVLQAPHG---DLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKK 198 (745)
Q Consensus 122 k~R~tfie~~~~---dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk 198 (745)
++.++|+-+| + -+..+..+...||.+|||+||+.| ++..+..+++.+..+|+|.+ .+++.+|.....
T Consensus 72 ~~~i~liDTP-G~~~f~~e~~~al~~~D~~ilVvDa~~g--------~~~qt~~i~~~~~~~~~p~i-v~iNK~D~~~~~ 141 (691)
T PRK12739 72 GHRINIIDTP-GHVDFTIEVERSLRVLDGAVAVFDAVSG--------VEPQSETVWRQADKYGVPRI-VFVNKMDRIGAD 141 (691)
T ss_pred CEEEEEEcCC-CHHHHHHHHHHHHHHhCeEEEEEeCCCC--------CCHHHHHHHHHHHHcCCCEE-EEEECCCCCCCC
Confidence 4689999987 4 256788899999999999999954 77889999999999999975 678888851122
Q ss_pred hHHHHHHHHhhc
Q 004549 199 RKDLKKMCISSL 210 (745)
Q Consensus 199 ~~~~kK~lk~~f 210 (745)
...+.+.++..|
T Consensus 142 ~~~~~~~i~~~l 153 (691)
T PRK12739 142 FFRSVEQIKDRL 153 (691)
T ss_pred HHHHHHHHHHHh
Confidence 334455555544
No 69
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=95.43 E-value=0.39 Score=44.42 Aligned_cols=103 Identities=14% Similarity=0.133 Sum_probs=60.2
Q ss_pred eeEEEEeCCCC------Ch---HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCC
Q 004549 123 LRTSVLQAPHG------DL---VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLP 193 (745)
Q Consensus 123 ~R~tfie~~~~------dl---~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~ 193 (745)
.+++|+.+|.- .. ..+..++..+|++++++|++.+ .......++..+...+.| ++.|+++.|
T Consensus 45 ~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~--------~~~~~~~~~~~~~~~~~~-~ivv~nK~D 115 (163)
T cd00880 45 GPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLR--------ADEEEEKLLELLRERGKP-VLLVLNKID 115 (163)
T ss_pred CcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCC--------CCHHHHHHHHHHHhcCCe-EEEEEEccc
Confidence 47888888731 11 4566788999999999999953 333333356666667777 567899988
Q ss_pred cchhhhHHHHHHH-HhhcccccCCCCeeEEeCCHH--HHHHHHHHH
Q 004549 194 TDLKKRKDLKKMC-ISSLTSEFPEDCKFYAADTKD--ELHKFLWLF 236 (745)
Q Consensus 194 ~~~Kk~~~~kK~l-k~~f~~e~~~~~Klf~l~~~~--e~~nL~R~I 236 (745)
. .......... ..........+..+|..+..+ .+..|...|
T Consensus 116 ~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l 159 (163)
T cd00880 116 L--LPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDELREAL 159 (163)
T ss_pred c--CChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHH
Confidence 5 1111111111 122222333477888887422 344444444
No 70
>PRK00007 elongation factor G; Reviewed
Probab=95.35 E-value=0.18 Score=60.97 Aligned_cols=82 Identities=11% Similarity=0.095 Sum_probs=60.8
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
+++++||-+|- .| +..+..+...||.+|||+||..| +...+.+++..+..+|+|.+ .+++.+|......
T Consensus 74 ~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g--------~~~qt~~~~~~~~~~~~p~i-v~vNK~D~~~~~~ 144 (693)
T PRK00007 74 DHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGG--------VEPQSETVWRQADKYKVPRI-AFVNKMDRTGADF 144 (693)
T ss_pred CeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCC--------cchhhHHHHHHHHHcCCCEE-EEEECCCCCCCCH
Confidence 57899999872 12 45688899999999999999954 78899999999999999975 6788888411223
Q ss_pred HHHHHHHHhhccc
Q 004549 200 KDLKKMCISSLTS 212 (745)
Q Consensus 200 ~~~kK~lk~~f~~ 212 (745)
..+...++..|..
T Consensus 145 ~~~~~~i~~~l~~ 157 (693)
T PRK00007 145 YRVVEQIKDRLGA 157 (693)
T ss_pred HHHHHHHHHHhCC
Confidence 3455555555443
No 71
>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]
Probab=95.33 E-value=0.55 Score=54.62 Aligned_cols=179 Identities=18% Similarity=0.199 Sum_probs=120.6
Q ss_pred ceeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCc-cccccccccC--hHHHHHHHHHHhcCCCceEEEeccCCc-
Q 004549 121 YRLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSF-SEESMSYYID--SFGNQCLSVFRSLGLPSTAVLIRDLPT- 194 (745)
Q Consensus 121 ~k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g-~~~~~~~~fd--~eg~e~L~~l~~qGlP~vigvl~~L~~- 194 (745)
.+.++|++-.|- .| +-.||--|--||..+|++||+.| +| -+|| ..|.|.+..|++.|+..+|.+++.+|.
T Consensus 253 ~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE----~gfd~~gQtrEha~llr~Lgi~qlivaiNKmD~V 328 (603)
T KOG0458|consen 253 KSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFE----SGFDPGGQTREHALLLRSLGISQLIVAINKMDLV 328 (603)
T ss_pred CceeEEEecCCCccccchhhhccccccceEEEEEECCcchhh----hccCCCCchHHHHHHHHHcCcceEEEEeeccccc
Confidence 357999999874 46 56799999999999999999986 22 3555 578999999999999999999999984
Q ss_pred c-hhhhH-HHHHHHHhhccc---ccCCCCeeEEeCC-----------HHHH------HHHHHHHhhccccCCccccCCCe
Q 004549 195 D-LKKRK-DLKKMCISSLTS---EFPEDCKFYAADT-----------KDEL------HKFLWLFKEQRLTVPHWRNQRPF 252 (745)
Q Consensus 195 ~-~Kk~~-~~kK~lk~~f~~---e~~~~~Klf~l~~-----------~~e~------~nL~R~I~~~k~r~l~WR~~rpY 252 (745)
+ .+.|- .++..|+.++.. |+-..-++..+|+ .++. -+|+-.|=..++-.=. -..|.
T Consensus 329 ~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~~~~~~l~~WY~Gp~LL~~id~~~~p~~~--~~kPl 406 (603)
T KOG0458|consen 329 SWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKIEQENELSQWYKGPTLLSQIDSFKIPERP--IDKPL 406 (603)
T ss_pred CccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCcccccccchhhhhhhcCChHHHHHhhccCCCCc--ccCCe
Confidence 2 14443 478888888822 2223336666663 2122 2455566553331111 22355
Q ss_pred EEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEEe-CCCCceeeceeeccCCCCC
Q 004549 253 LMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVHI-SGAGDFQLGKIEILKDPFP 310 (745)
Q Consensus 253 mLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHI-pG~GDFqi~~I~~~~DP~p 310 (745)
.+.=.- +.+. ... .++|+|=|--..+-.|+.|.| |+.=|++|..|+.=..||-
T Consensus 407 ~ltIsd-i~~~---~~~-~~~i~gkiesG~iq~gqkl~i~~s~e~~~vk~l~~~~~~~~ 460 (603)
T KOG0458|consen 407 RLTISD-IYPL---PSS-GVSISGKIESGYIQPGQKLYIMTSREDATVKGLTSNDEPKT 460 (603)
T ss_pred EEEhhh-eeec---CCC-eeEEEEEEeccccccCCEEEEecCcceEEEEeeecCCCcce
Confidence 543221 1111 112 289999999888889998876 7888999999987655543
No 72
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=95.29 E-value=0.38 Score=52.39 Aligned_cols=133 Identities=11% Similarity=0.111 Sum_probs=111.3
Q ss_pred CceeeEEEEeCCCCC--hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-ch
Q 004549 120 KYRLRTSVLQAPHGD--LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DL 196 (745)
Q Consensus 120 r~k~R~tfie~~~~d--l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~ 196 (745)
.+-||++|+.||--+ |..||--|-+-|=+||||.|+. .+=..+|.|=|-+|.--|+-+++-|=+.+|. .-
T Consensus 83 ~l~R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANE-------pcPQPQT~EHl~AleIigik~iiIvQNKIDlV~~ 155 (415)
T COG5257 83 ELVRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANE-------PCPQPQTREHLMALEIIGIKNIIIVQNKIDLVSR 155 (415)
T ss_pred cEEEEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCC-------CCCCCchHHHHHHHhhhccceEEEEecccceecH
Confidence 567999999998433 6779999999999999999994 3346799999999999999999999888884 21
Q ss_pred hhhHHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhccccCCccccCCCeEEEEeeE
Q 004549 197 KKRKDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVD 259 (745)
Q Consensus 197 Kk~~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e 259 (745)
.+..+.-+.+|.+++--...++.+..+|. ...|--|+-+|...-|.|.+==+..|-|++-|-=
T Consensus 156 E~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~rd~~~~p~m~v~RSF 220 (415)
T COG5257 156 ERALENYEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTPERDLDKPPRMYVARSF 220 (415)
T ss_pred HHHHHHHHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCCccCCCCCceEEEEeec
Confidence 23456778889999999999999999995 4557789999999999998888999999888843
No 73
>PRK13351 elongation factor G; Reviewed
Probab=95.28 E-value=0.25 Score=59.81 Aligned_cols=81 Identities=12% Similarity=0.075 Sum_probs=59.0
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
+.+|+|+-+|- .| ...+..+.+.||.+|||+|++.| ....+..+++.+...|+|-+ .|++.+|......
T Consensus 72 ~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~--------~~~~~~~~~~~~~~~~~p~i-iviNK~D~~~~~~ 142 (687)
T PRK13351 72 NHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTG--------VQPQTETVWRQADRYGIPRL-IFINKMDRVGADL 142 (687)
T ss_pred CEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCC--------CCHHHHHHHHHHHhcCCCEE-EEEECCCCCCCCH
Confidence 57899999972 23 34567889999999999999954 67788899999999999965 4888888521233
Q ss_pred HHHHHHHHhhcc
Q 004549 200 KDLKKMCISSLT 211 (745)
Q Consensus 200 ~~~kK~lk~~f~ 211 (745)
..+...++.+|.
T Consensus 143 ~~~~~~i~~~l~ 154 (687)
T PRK13351 143 FKVLEDIEERFG 154 (687)
T ss_pred HHHHHHHHHHHC
Confidence 344455554443
No 74
>COG1159 Era GTPase [General function prediction only]
Probab=94.92 E-value=0.41 Score=51.71 Aligned_cols=143 Identities=15% Similarity=0.163 Sum_probs=80.4
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC--------CC--cceEEEecCceeeEEEEeCCC-----CChH-----HHHh
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT--------GA--LSSTVSSSKYRLRTSVLQAPH-----GDLV-----GCME 140 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~--------~~--g~~tv~~~r~k~R~tfie~~~-----~dl~-----~mLD 140 (745)
.|||||.|..+.. .| +.++.++.+ +. ....++.. -...+.|+-.|- +-|+ ....
T Consensus 8 fVaIiGrPNvGKS-TL----lN~l~G~KisIvS~k~QTTR~~I~GI~t~-~~~QiIfvDTPGih~pk~~l~~~m~~~a~~ 81 (298)
T COG1159 8 FVAIIGRPNVGKS-TL----LNALVGQKISIVSPKPQTTRNRIRGIVTT-DNAQIIFVDTPGIHKPKHALGELMNKAARS 81 (298)
T ss_pred EEEEEcCCCCcHH-HH----HHHHhcCceEeecCCcchhhhheeEEEEc-CCceEEEEeCCCCCCcchHHHHHHHHHHHH
Confidence 5999999986553 44 333333332 11 22223333 256777876652 2232 3456
Q ss_pred HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCee
Q 004549 141 MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKF 220 (745)
Q Consensus 141 ~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Kl 220 (745)
+.+=||+||||+|+.. ++...-+.+|+.|+....| ++.+++.+|. -+.......+......-++ -..+
T Consensus 82 sl~dvDlilfvvd~~~--------~~~~~d~~il~~lk~~~~p-vil~iNKID~--~~~~~~l~~~~~~~~~~~~-f~~i 149 (298)
T COG1159 82 ALKDVDLILFVVDADE--------GWGPGDEFILEQLKKTKTP-VILVVNKIDK--VKPKTVLLKLIAFLKKLLP-FKEI 149 (298)
T ss_pred HhccCcEEEEEEeccc--------cCCccHHHHHHHHhhcCCC-eEEEEEcccc--CCcHHHHHHHHHHHHhhCC-cceE
Confidence 6778999999999994 4777888899999983344 5666777774 1111111233333333333 3467
Q ss_pred EEeCC--HHHHHHHHHHHhhccc
Q 004549 221 YAADT--KDELHKFLWLFKEQRL 241 (745)
Q Consensus 221 f~l~~--~~e~~nL~R~I~~~k~ 241 (745)
|.+|. -..+..|+..|...-+
T Consensus 150 vpiSA~~g~n~~~L~~~i~~~Lp 172 (298)
T COG1159 150 VPISALKGDNVDTLLEIIKEYLP 172 (298)
T ss_pred EEeeccccCCHHHHHHHHHHhCC
Confidence 77663 3344555555554443
No 75
>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.
Probab=94.81 E-value=0.64 Score=44.73 Aligned_cols=138 Identities=14% Similarity=0.161 Sum_probs=72.1
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC----cc-eEEEecC---ceeeEEEEeCCCCC------------hHHHHh
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA----LS-STVSSSK---YRLRTSVLQAPHGD------------LVGCME 140 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----g~-~tv~~~r---~k~R~tfie~~~~d------------l~~mLD 140 (745)
.|+|+|.++.+.. +| ++.++...... ++ ..+..+. ...+++|+..| .- ..++..
T Consensus 2 ~i~~~G~~~~GKs-sl----i~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~-G~~~~~~~~~~~~~~~~~~~ 75 (168)
T cd01897 2 TLVIAGYPNVGKS-SL----VNKLTRAKPEVAPYPFTTKSLFVGHFDYKYLRWQVIDTP-GLLDRPLEERNTIEMQAITA 75 (168)
T ss_pred eEEEEcCCCCCHH-HH----HHHHhcCCCccCCCCCcccceeEEEEccCceEEEEEECC-CcCCccccCCchHHHHHHHH
Confidence 4789999987765 66 55554433321 11 1122111 13688999876 32 122333
Q ss_pred HHhhcceEEEEeeCCCccccccccccC-hHHHHHHHHHHhc--CCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCC
Q 004549 141 MAKVADLVAFVASASSFSEESMSYYID-SFGNQCLSVFRSL--GLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPED 217 (745)
Q Consensus 141 ~aKvADlVlllidas~g~~~~~~~~fd-~eg~e~L~~l~~q--GlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~ 217 (745)
.+-.+|.+|+|+|++.. ..+. ....+++..++.. +.| ++.|++..|. .......+ ++.+. ... .
T Consensus 76 ~~~~~d~~l~v~d~~~~------~~~~~~~~~~~~~~l~~~~~~~p-vilv~NK~Dl--~~~~~~~~-~~~~~--~~~-~ 142 (168)
T cd01897 76 LAHLRAAVLFLFDPSET------CGYSLEEQLSLFEEIKPLFKNKP-VIVVLNKIDL--LTFEDLSE-IEEEE--ELE-G 142 (168)
T ss_pred HHhccCcEEEEEeCCcc------cccchHHHHHHHHHHHhhcCcCC-eEEEEEcccc--CchhhHHH-HHHhh--hhc-c
Confidence 33457999999999842 1221 2234566666554 554 6677888885 22112211 22221 112 4
Q ss_pred CeeEEeCC--HHHHHHHHHHHh
Q 004549 218 CKFYAADT--KDELHKFLWLFK 237 (745)
Q Consensus 218 ~Klf~l~~--~~e~~nL~R~I~ 237 (745)
.++|..|. ...+..|...|+
T Consensus 143 ~~~~~~Sa~~~~gi~~l~~~l~ 164 (168)
T cd01897 143 EEVLKISTLTEEGVDEVKNKAC 164 (168)
T ss_pred CceEEEEecccCCHHHHHHHHH
Confidence 56777773 334555555554
No 76
>cd01885 EF2 EF2 (for archaea and eukarya). Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco
Probab=94.79 E-value=0.37 Score=50.23 Aligned_cols=64 Identities=11% Similarity=0.069 Sum_probs=51.7
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+..+.|+-+|- .+ ...+..+++.||.+|||+|++.| +...+.++++.+...|+| ++.|++.+|.
T Consensus 72 ~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g--------~~~~t~~~l~~~~~~~~p-~ilviNKiD~ 137 (222)
T cd01885 72 EYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEG--------VCVQTETVLRQALKERVK-PVLVINKIDR 137 (222)
T ss_pred ceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCC--------CCHHHHHHHHHHHHcCCC-EEEEEECCCc
Confidence 56788998872 23 45678889999999999999954 677889999999999997 6777887774
No 77
>PRK03003 GTP-binding protein Der; Reviewed
Probab=94.76 E-value=0.83 Score=52.79 Aligned_cols=128 Identities=16% Similarity=0.123 Sum_probs=74.6
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhccCCC---CC--c----c--eEEEecCceeeEEEEeCCCC-----------Ch
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSSEGT---GA--L----S--STVSSSKYRLRTSVLQAPHG-----------DL 135 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~--g----~--~tv~~~r~k~R~tfie~~~~-----------dl 135 (745)
-+.-|+|+|.++.+.. +| +..|..... .. | + .++... .+.+.|+-.+ . ..
T Consensus 210 ~~~kI~iiG~~nvGKS-SL----in~l~~~~~~~~s~~~gtT~d~~~~~~~~~--~~~~~l~DTa-G~~~~~~~~~~~e~ 281 (472)
T PRK03003 210 GPRRVALVGKPNVGKS-SL----LNKLAGEERSVVDDVAGTTVDPVDSLIELG--GKTWRFVDTA-GLRRRVKQASGHEY 281 (472)
T ss_pred cceEEEEECCCCCCHH-HH----HHHHhCCCcccccCCCCccCCcceEEEEEC--CEEEEEEECC-CccccccccchHHH
Confidence 3677899999987765 66 444433221 11 1 1 122222 2467777665 3 22
Q ss_pred HHH---HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcch-hhhHHHHHHHHhhcc
Q 004549 136 VGC---MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDL-KKRKDLKKMCISSLT 211 (745)
Q Consensus 136 ~~m---LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~-Kk~~~~kK~lk~~f~ 211 (745)
.+. +.+.+-||++|+|+|++.+ +......++..+...|.| ++.|++..|... ..+....+.+...+.
T Consensus 282 ~~~~~~~~~i~~ad~vilV~Da~~~--------~s~~~~~~~~~~~~~~~p-iIiV~NK~Dl~~~~~~~~~~~~i~~~l~ 352 (472)
T PRK03003 282 YASLRTHAAIEAAEVAVVLIDASEP--------ISEQDQRVLSMVIEAGRA-LVLAFNKWDLVDEDRRYYLEREIDRELA 352 (472)
T ss_pred HHHHHHHHHHhcCCEEEEEEeCCCC--------CCHHHHHHHHHHHHcCCC-EEEEEECcccCChhHHHHHHHHHHHhcc
Confidence 222 3466889999999999954 445555778888888987 566788777511 112233444444443
Q ss_pred cccCCCCeeEEeC
Q 004549 212 SEFPEDCKFYAAD 224 (745)
Q Consensus 212 ~e~~~~~Klf~l~ 224 (745)
.. ..+.++.+|
T Consensus 353 ~~--~~~~~~~~S 363 (472)
T PRK03003 353 QV--PWAPRVNIS 363 (472)
T ss_pred cC--CCCCEEEEE
Confidence 22 136777777
No 78
>PRK00741 prfC peptide chain release factor 3; Provisional
Probab=94.74 E-value=0.38 Score=56.45 Aligned_cols=80 Identities=18% Similarity=0.179 Sum_probs=57.7
Q ss_pred eeeEEEEeCCC-CChHH-HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GDLVG-CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~dl~~-mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
..+++++-+|- .|+.. +.-+...||.+|+|+|++.| ++..+..+++.++..|+| ++.+++.+|......
T Consensus 78 ~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~g--------v~~~t~~l~~~~~~~~iP-iiv~iNK~D~~~a~~ 148 (526)
T PRK00741 78 DCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKG--------VEPQTRKLMEVCRLRDTP-IFTFINKLDRDGREP 148 (526)
T ss_pred CEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCC--------CCHHHHHHHHHHHhcCCC-EEEEEECCcccccCH
Confidence 46799999872 23433 66677899999999999954 778899999999999999 777899888521222
Q ss_pred HHHHHHHHhhc
Q 004549 200 KDLKKMCISSL 210 (745)
Q Consensus 200 ~~~kK~lk~~f 210 (745)
..+...++..|
T Consensus 149 ~~~l~~i~~~l 159 (526)
T PRK00741 149 LELLDEIEEVL 159 (526)
T ss_pred HHHHHHHHHHh
Confidence 23444444443
No 79
>PRK12740 elongation factor G; Reviewed
Probab=94.70 E-value=0.93 Score=54.65 Aligned_cols=80 Identities=11% Similarity=0.123 Sum_probs=60.3
Q ss_pred eeeEEEEeCCCCC--h-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhh
Q 004549 122 RLRTSVLQAPHGD--L-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKK 198 (745)
Q Consensus 122 k~R~tfie~~~~d--l-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk 198 (745)
..+++|+-+| .. + ..+..+...||.+|+++|++.| ....+..+++.+...|+|.++ |++.+|.....
T Consensus 59 ~~~i~liDtP-G~~~~~~~~~~~l~~aD~vllvvd~~~~--------~~~~~~~~~~~~~~~~~p~ii-v~NK~D~~~~~ 128 (668)
T PRK12740 59 GHKINLIDTP-GHVDFTGEVERALRVLDGAVVVVCAVGG--------VEPQTETVWRQAEKYGVPRII-FVNKMDRAGAD 128 (668)
T ss_pred CEEEEEEECC-CcHHHHHHHHHHHHHhCeEEEEEeCCCC--------cCHHHHHHHHHHHHcCCCEEE-EEECCCCCCCC
Confidence 4689999998 43 2 4577889999999999999954 566788899999999999665 88998852123
Q ss_pred hHHHHHHHHhhcc
Q 004549 199 RKDLKKMCISSLT 211 (745)
Q Consensus 199 ~~~~kK~lk~~f~ 211 (745)
..++.+.++.+|.
T Consensus 129 ~~~~~~~l~~~l~ 141 (668)
T PRK12740 129 FFRVLAQLQEKLG 141 (668)
T ss_pred HHHHHHHHHHHHC
Confidence 3456666766654
No 80
>cd04167 Snu114p Snu114p subfamily. Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.
Probab=94.67 E-value=0.46 Score=48.57 Aligned_cols=65 Identities=14% Similarity=0.171 Sum_probs=48.8
Q ss_pred ceeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 121 YRLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 121 ~k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+.+++|+-+|- .++ ..++.....||.+|+|+|++.+ ...++.++++.+..+|+| ++.|++.+|.
T Consensus 69 ~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~--------~~~~~~~~~~~~~~~~~p-~iiviNK~D~ 135 (213)
T cd04167 69 KSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEG--------VTSNTERLIRHAILEGLP-IVLVINKIDR 135 (213)
T ss_pred CEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCC--------CCHHHHHHHHHHHHcCCC-EEEEEECccc
Confidence 357899998872 233 4677788999999999999854 445667888888888977 5567777774
No 81
>PRK03003 GTP-binding protein Der; Reviewed
Probab=94.63 E-value=0.27 Score=56.73 Aligned_cols=109 Identities=15% Similarity=0.162 Sum_probs=66.3
Q ss_pred ccCCCCCCCCEEEEEecCCCccChhhHHHHHHHhhccCCC---CC--cce----E--EEecCceeeEEEEeCCCCC----
Q 004549 70 RASSGIASPPRVIVLFGLSASVNLNSVREDLLRQLSSEGT---GA--LSS----T--VSSSKYRLRTSVLQAPHGD---- 134 (745)
Q Consensus 70 R~~~~~~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~--g~~----t--v~~~r~k~R~tfie~~~~d---- 134 (745)
|.+|+..+.+..|+|||.++.+.. +| +..|+.... .. |.. . +... ...+.++.++--+
T Consensus 29 ~~~~~~~~~~~~V~IvG~~nvGKS-SL----~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~--~~~~~l~DT~G~~~~~~ 101 (472)
T PRK03003 29 ELEAAEGGPLPVVAVVGRPNVGKS-TL----VNRILGRREAVVEDVPGVTRDRVSYDAEWN--GRRFTVVDTGGWEPDAK 101 (472)
T ss_pred hhhcccCCCCCEEEEEcCCCCCHH-HH----HHHHhCcCcccccCCCCCCEeeEEEEEEEC--CcEEEEEeCCCcCCcch
Confidence 334444445557999999998775 67 444433221 11 211 1 1112 2468888876211
Q ss_pred -h----HH-HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 135 -L----VG-CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 135 -l----~~-mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+ .. +.-+.+-||+||||+|++.+ ....-.++++.|+..|.| ++.|++.+|.
T Consensus 102 ~~~~~~~~~~~~~~~~aD~il~VvD~~~~--------~s~~~~~i~~~l~~~~~p-iilV~NK~Dl 158 (472)
T PRK03003 102 GLQASVAEQAEVAMRTADAVLFVVDATVG--------ATATDEAVARVLRRSGKP-VILAANKVDD 158 (472)
T ss_pred hHHHHHHHHHHHHHHhCCEEEEEEECCCC--------CCHHHHHHHHHHHHcCCC-EEEEEECccC
Confidence 1 11 23357889999999999965 333346788888888877 6678888885
No 82
>cd00876 Ras Ras family. The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m
Probab=94.60 E-value=0.63 Score=43.95 Aligned_cols=102 Identities=9% Similarity=0.016 Sum_probs=60.7
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC---------cceEEEecCceeeEEEEeCCCC-ChHHH-HhHHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA---------LSSTVSSSKYRLRTSVLQAPHG-DLVGC-MEMAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---------g~~tv~~~r~k~R~tfie~~~~-dl~~m-LD~aKvADlVll 150 (745)
|+|+|+++++.. +| +..+....... -...+..+...-+++++.++.. +..++ ....+-+|.+++
T Consensus 2 i~i~G~~~~GKT-sl----i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~ 76 (160)
T cd00876 2 VVVLGAGGVGKS-AI----TIQFVKGTFVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFIL 76 (160)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEE
Confidence 689999998775 56 44443222111 1223333434567888999842 22332 244567999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhcC--CCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSLG--LPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~qG--lP~vigvl~~L~~ 194 (745)
|+|.+.. ..++....-...+++..+ -+.++.|+++.|.
T Consensus 77 v~d~~~~------~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~ 116 (160)
T cd00876 77 VYSITDR------ESFEEIKGYREQILRVKDDEDIPIVLVGNKCDL 116 (160)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcc
Confidence 9998742 335544444444444444 4566778898886
No 83
>TIGR02528 EutP ethanolamine utilization protein, EutP. This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.
Probab=94.49 E-value=0.25 Score=46.45 Aligned_cols=90 Identities=19% Similarity=0.183 Sum_probs=53.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC-cceEEEecCceeeEEEEeCCCCC-------hHHHHhHHhhcceEEEEee
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA-LSSTVSSSKYRLRTSVLQAPHGD-------LVGCMEMAKVADLVAFVAS 153 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-g~~tv~~~r~k~R~tfie~~~~d-------l~~mLD~aKvADlVlllid 153 (745)
|+|+|.++.+.. +| +..|....... ..+++... . .++..+ +. ..+++...+-||.+|+|+|
T Consensus 3 v~liG~~~vGKS-sL----~~~l~~~~~~~~~t~~~~~~---~--~~iDt~-G~~~~~~~~~~~~~~~~~~ad~vilv~d 71 (142)
T TIGR02528 3 IMFIGSVGCGKT-TL----TQALQGEEILYKKTQAVEYN---D--GAIDTP-GEYVENRRLYSALIVTAADADVIALVQS 71 (142)
T ss_pred EEEECCCCCCHH-HH----HHHHcCCccccccceeEEEc---C--eeecCc-hhhhhhHHHHHHHHHHhhcCCEEEEEec
Confidence 789999998776 67 55554443322 33333322 1 456665 32 4456667889999999999
Q ss_pred CCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 154 ASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 154 as~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
++.+ ..|.. ..++..+ +- .++.|++..|.
T Consensus 72 ~~~~------~s~~~--~~~~~~~---~~-p~ilv~NK~Dl 100 (142)
T TIGR02528 72 ATDP------ESRFP--PGFASIF---VK-PVIGLVTKIDL 100 (142)
T ss_pred CCCC------CcCCC--hhHHHhc---cC-CeEEEEEeecc
Confidence 9854 22332 2344332 33 45667788885
No 84
>cd01878 HflX HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.
Probab=94.49 E-value=0.63 Score=46.80 Aligned_cols=101 Identities=15% Similarity=0.169 Sum_probs=57.7
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCC--C------cce--EEEecCceeeEEEEeCCCCC-----------hHHH
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTG--A------LSS--TVSSSKYRLRTSVLQAPHGD-----------LVGC 138 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~--~------g~~--tv~~~r~k~R~tfie~~~~d-----------l~~m 138 (745)
..|+|+|+++++.. +| ++.++..... . .+. .+..+. ...++|+..| +- +.++
T Consensus 42 ~~I~iiG~~g~GKS-tL----l~~l~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~i~Dt~-G~~~~~~~~~~~~~~~~ 114 (204)
T cd01878 42 PTVALVGYTNAGKS-TL----FNALTGADVYAEDQLFATLDPTTRRLRLPD-GREVLLTDTV-GFIRDLPHQLVEAFRST 114 (204)
T ss_pred CeEEEECCCCCCHH-HH----HHHHhcchhccCCccceeccceeEEEEecC-CceEEEeCCC-ccccCCCHHHHHHHHHH
Confidence 57889999998765 66 4444433211 1 111 122222 2378888776 42 2344
Q ss_pred HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 139 MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 139 LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
+..+.-||.+++++|++.+ ..++ ....++..++..|. ..++.|++..|.
T Consensus 115 ~~~~~~~d~ii~v~D~~~~------~~~~-~~~~~~~~l~~~~~~~~~viiV~NK~Dl 165 (204)
T cd01878 115 LEEVAEADLLLHVVDASDP------DYEE-QIETVEKVLKELGAEDIPMILVLNKIDL 165 (204)
T ss_pred HHHHhcCCeEEEEEECCCC------Chhh-HHHHHHHHHHHcCcCCCCEEEEEEcccc
Confidence 4556679999999999853 1122 12233444444443 347788898885
No 85
>TIGR00503 prfC peptide chain release factor 3. This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.
Probab=94.42 E-value=0.42 Score=56.06 Aligned_cols=82 Identities=16% Similarity=0.200 Sum_probs=60.1
Q ss_pred eeeEEEEeCCC-CChHH-HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GDLVG-CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~dl~~-mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
..++.|+-+|- .|+.. +..+...||.+|+|+|++. +++..+..++..++..|+| +|.+++.+|......
T Consensus 79 ~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~--------gv~~~t~~l~~~~~~~~~P-iivviNKiD~~~~~~ 149 (527)
T TIGR00503 79 DCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAK--------GVETRTRKLMEVTRLRDTP-IFTFMNKLDRDIRDP 149 (527)
T ss_pred CeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCC--------CCCHHHHHHHHHHHhcCCC-EEEEEECccccCCCH
Confidence 46888898872 24443 6777889999999999995 4788899999999999998 667889888521233
Q ss_pred HHHHHHHHhhccc
Q 004549 200 KDLKKMCISSLTS 212 (745)
Q Consensus 200 ~~~kK~lk~~f~~ 212 (745)
.++...++.++..
T Consensus 150 ~~ll~~i~~~l~~ 162 (527)
T TIGR00503 150 LELLDEVENELKI 162 (527)
T ss_pred HHHHHHHHHHhCC
Confidence 3455566655543
No 86
>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.
Probab=94.29 E-value=0.99 Score=44.80 Aligned_cols=104 Identities=16% Similarity=0.132 Sum_probs=61.3
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCC-----Cc----ceEEEec-CceeeEEEEeCCC-CChHHHHhH-Hhhcc
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTG-----AL----SSTVSSS-KYRLRTSVLQAPH-GDLVGCMEM-AKVAD 146 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-----~g----~~tv~~~-r~k~R~tfie~~~-~dl~~mLD~-aKvAD 146 (745)
+.-|+++|.++++.. +| +..+...... .| .+++..+ .....+.++..+- ..+..+... .+.||
T Consensus 3 ~~kv~~vG~~~~GKT-sl----i~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d 77 (183)
T cd04152 3 SLHIVMLGLDSAGKT-TV----LYRLKFNEFVNTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTD 77 (183)
T ss_pred ceEEEEECCCCCCHH-HH----HHHHhcCCcCCcCCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCC
Confidence 456899999998876 66 4444322111 12 2233221 1235677887652 225555554 67899
Q ss_pred eEEEEeeCCCccccccccccC---hHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 147 LVAFVASASSFSEESMSYYID---SFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 147 lVlllidas~g~~~~~~~~fd---~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+|+|+|++.. ..|+ .+-.++++.+...+.| ++.|++..|.
T Consensus 78 ~ii~v~D~~~~------~~~~~~~~~~~~i~~~~~~~~~p-~iiv~NK~D~ 121 (183)
T cd04152 78 GIVFVVDSVDV------ERMEEAKTELHKITRFSENQGVP-VLVLANKQDL 121 (183)
T ss_pred EEEEEEECCCH------HHHHHHHHHHHHHHhhhhcCCCc-EEEEEECcCc
Confidence 99999999853 1233 2444566655556776 5666787775
No 87
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=94.21 E-value=0.93 Score=55.17 Aligned_cols=127 Identities=16% Similarity=0.154 Sum_probs=75.5
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCC---CC------cceE--EEecCceeeEEEEeCCCC-----------ChH
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGT---GA------LSST--VSSSKYRLRTSVLQAPHG-----------DLV 136 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~------g~~t--v~~~r~k~R~tfie~~~~-----------dl~ 136 (745)
+.-|+|+|.++.+.. +| +..+..... .. .++. +... ...++|+-++ . ...
T Consensus 450 ~~kI~ivG~~nvGKS-SL----in~l~~~~~~~v~~~~gtT~d~~~~~~~~~--~~~~~liDTa-G~~~~~~~~~~~e~~ 521 (712)
T PRK09518 450 LRRVALVGRPNVGKS-SL----LNQLTHEERAVVNDLAGTTRDPVDEIVEID--GEDWLFIDTA-GIKRRQHKLTGAEYY 521 (712)
T ss_pred CcEEEEECCCCCCHH-HH----HHHHhCccccccCCCCCCCcCcceeEEEEC--CCEEEEEECC-CcccCcccchhHHHH
Confidence 356789999988775 67 444433321 11 2221 2223 3467788876 3 222
Q ss_pred HH---HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhHHHHHHHHhhccc
Q 004549 137 GC---MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRKDLKKMCISSLTS 212 (745)
Q Consensus 137 ~m---LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~~~kK~lk~~f~~ 212 (745)
+. +.+.+-||++|+|+|++.+ +......+++.+...|.| ++.|++..|. +.......++.+...|..
T Consensus 522 ~~~r~~~~i~~advvilViDat~~--------~s~~~~~i~~~~~~~~~p-iIiV~NK~DL~~~~~~~~~~~~~~~~l~~ 592 (712)
T PRK09518 522 SSLRTQAAIERSELALFLFDASQP--------ISEQDLKVMSMAVDAGRA-LVLVFNKWDLMDEFRRQRLERLWKTEFDR 592 (712)
T ss_pred HHHHHHHHhhcCCEEEEEEECCCC--------CCHHHHHHHHHHHHcCCC-EEEEEEchhcCChhHHHHHHHHHHHhccC
Confidence 22 3456789999999999954 556666788888888887 5567887774 111122344445444432
Q ss_pred ccCCCCeeEEeC
Q 004549 213 EFPEDCKFYAAD 224 (745)
Q Consensus 213 e~~~~~Klf~l~ 224 (745)
+ ..+.++.+|
T Consensus 593 -~-~~~~ii~iS 602 (712)
T PRK09518 593 -V-TWARRVNLS 602 (712)
T ss_pred -C-CCCCEEEEE
Confidence 2 256777777
No 88
>smart00175 RAB Rab subfamily of small GTPases. Rab GTPases are implicated in vesicle trafficking.
Probab=94.15 E-value=0.58 Score=44.58 Aligned_cols=101 Identities=12% Similarity=0.090 Sum_probs=60.7
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEecCceeeEEEEeCCCCC-hHHH-HhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSSKYRLRTSVLQAPHGD-LVGC-MEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~r~k~R~tfie~~~~d-l~~m-LD~aKvADlVl 149 (745)
|+|+|+++++.. +| ++.+....... ...++.....+.++.++.++..+ ...+ .-.++-||.++
T Consensus 3 v~v~G~~~~GKT-tl----i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i 77 (164)
T smart00175 3 IILIGDSGVGKS-SL----LSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGAL 77 (164)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEE
Confidence 789999998775 56 45554333211 22334444455788899887322 3333 33456799999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
+++|++.. ..|+.- ..+|+.+..+.- +.++.|.++.|.
T Consensus 78 lv~d~~~~------~s~~~~-~~~l~~~~~~~~~~~pivvv~nK~D~ 117 (164)
T smart00175 78 LVYDITNR------ESFENL-KNWLKELREYADPNVVIMLVGNKSDL 117 (164)
T ss_pred EEEECCCH------HHHHHH-HHHHHHHHHhCCCCCeEEEEEEchhc
Confidence 99999842 234432 236666665542 245566788875
No 89
>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=94.12 E-value=0.42 Score=55.25 Aligned_cols=133 Identities=17% Similarity=0.219 Sum_probs=85.9
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEecCceeeEEEEeCCC-CChHHHH-hHHhh
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSSKYRLRTSVLQAPH-GDLVGCM-EMAKV 144 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~r~k~R~tfie~~~-~dl~~mL-D~aKv 144 (745)
+-|-||+|+|-=.-+.. .| +..+.+....+ |-++|..+ .=+++||+--|- .-+.+|= --|+|
T Consensus 151 ~RpPVVTiMGHVDHGKT-TL----LD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~v 224 (683)
T KOG1145|consen 151 PRPPVVTIMGHVDHGKT-TL----LDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRARGANV 224 (683)
T ss_pred CCCCeEEEeecccCChh-hH----HHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHHhccCcc
Confidence 56778999996443222 33 44444333322 66666666 348999998872 2355553 34899
Q ss_pred cceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhh-ccc-ccCCCCeeEE
Q 004549 145 ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISS-LTS-EFPEDCKFYA 222 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~-f~~-e~~~~~Klf~ 222 (745)
+|+|+||+.|.. ++=..|-|-+.-.+..++|=|+. ++.+|.....--++++.|... +-- .++.+.-+..
T Consensus 225 tDIvVLVVAadD--------GVmpQT~EaIkhAk~A~VpiVvA-inKiDkp~a~pekv~~eL~~~gi~~E~~GGdVQvip 295 (683)
T KOG1145|consen 225 TDIVVLVVAADD--------GVMPQTLEAIKHAKSANVPIVVA-INKIDKPGANPEKVKRELLSQGIVVEDLGGDVQVIP 295 (683)
T ss_pred ccEEEEEEEccC--------CccHhHHHHHHHHHhcCCCEEEE-EeccCCCCCCHHHHHHHHHHcCccHHHcCCceeEEE
Confidence 999999999984 47789999999999999997665 677774224444555554432 222 2444566666
Q ss_pred eC
Q 004549 223 AD 224 (745)
Q Consensus 223 l~ 224 (745)
+|
T Consensus 296 iS 297 (683)
T KOG1145|consen 296 IS 297 (683)
T ss_pred ee
Confidence 66
No 90
>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA. EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.
Probab=94.11 E-value=0.31 Score=55.15 Aligned_cols=97 Identities=11% Similarity=0.150 Sum_probs=65.5
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCC---C--cc------eEEEecCceeeEEEEeCCCCC----------h-HHH
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTG---A--LS------STVSSSKYRLRTSVLQAPHGD----------L-VGC 138 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~---~--g~------~tv~~~r~k~R~tfie~~~~d----------l-~~m 138 (745)
.|+|||.++.+.. +| +..|++.... . |. ..+... .++++++.+| +- + ..+
T Consensus 1 ~i~ivG~~nvGKS-tL----~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~--~~~~~liDTp-G~~~~~~~~~~~~~~~~ 72 (429)
T TIGR03594 1 VVAIVGRPNVGKS-TL----FNRLTGKRDAIVSDTPGVTRDRKYGDAEWG--GREFILIDTG-GIEEDDDGLDKQIREQA 72 (429)
T ss_pred CEEEECCCCCCHH-HH----HHHHhCCCcceecCCCCcccCceEEEEEEC--CeEEEEEECC-CCCCcchhHHHHHHHHH
Confidence 3799999998775 56 4444332211 1 11 122222 3578999987 41 1 224
Q ss_pred HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 139 MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 139 LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+.+.+-||+||||+|++.| +.....++++.|+..|.| ++.|++..|.
T Consensus 73 ~~~~~~ad~vl~vvD~~~~--------~~~~d~~i~~~l~~~~~p-iilVvNK~D~ 119 (429)
T TIGR03594 73 EIAIEEADVILFVVDGREG--------LTPEDEEIAKWLRKSGKP-VILVANKIDG 119 (429)
T ss_pred HHHHhhCCEEEEEEeCCCC--------CCHHHHHHHHHHHHhCCC-EEEEEECccC
Confidence 5677889999999999954 667778899999999988 6668888875
No 91
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=94.03 E-value=0.73 Score=43.34 Aligned_cols=63 Identities=10% Similarity=0.088 Sum_probs=44.9
Q ss_pred eeEEEEeCCC-CChH---------HHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccC
Q 004549 123 LRTSVLQAPH-GDLV---------GCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDL 192 (745)
Q Consensus 123 ~R~tfie~~~-~dl~---------~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L 192 (745)
..+.|+.+|. .+.. ..+....-||++++++|++.+ +.....+++..++.++.| ++.|++..
T Consensus 45 ~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~--------~~~~~~~~~~~~~~~~~p-iiiv~nK~ 115 (157)
T cd01894 45 REFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREG--------LTPADEEIAKYLRKSKKP-VILVVNKV 115 (157)
T ss_pred eEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEecccc--------CCccHHHHHHHHHhcCCC-EEEEEECc
Confidence 5788898873 2211 234567789999999999843 445556788888888855 66788888
Q ss_pred Cc
Q 004549 193 PT 194 (745)
Q Consensus 193 ~~ 194 (745)
|.
T Consensus 116 D~ 117 (157)
T cd01894 116 DN 117 (157)
T ss_pred cc
Confidence 85
No 92
>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily. RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu
Probab=93.98 E-value=1 Score=43.43 Aligned_cols=137 Identities=15% Similarity=0.196 Sum_probs=72.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCC------CCC---cceEEEecCceeeEEEEeCCCCC---hHHHHhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEG------TGA---LSSTVSSSKYRLRTSVLQAPHGD---LVGCMEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~------~~~---g~~tv~~~r~k~R~tfie~~~~d---l~~mLD~aKvADlVl 149 (745)
|+|+|+++.+.. +| +..|.... .+. ....+.+....-++.++..+... .......++-||.+|
T Consensus 2 i~vvG~~~~GKt-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i 76 (165)
T cd04146 2 IAVLGASGVGKS-AL----VVRFLTKRFIGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFV 76 (165)
T ss_pred EEEECCCCCcHH-HH----HHHHHhCccccccCCChHHhceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEE
Confidence 789999987765 56 33332111 111 12223334445578889876322 233556778899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHh-----cCCCceEEEeccCCcchhh---hHHHHHHHHhhcccccCCCCeeE
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRS-----LGLPSTAVLIRDLPTDLKK---RKDLKKMCISSLTSEFPEDCKFY 221 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~-----qGlP~vigvl~~L~~~~Kk---~~~~kK~lk~~f~~e~~~~~Klf 221 (745)
+++|++.. ..|+.- ...+..++. .+.| ++.|.+..|....+ .....+.. ..+ +..+|
T Consensus 77 ~v~d~~~~------~s~~~~-~~~~~~~~~~~~~~~~~p-iilv~nK~Dl~~~~~v~~~~~~~~~-----~~~--~~~~~ 141 (165)
T cd04146 77 LVYSITDR------SSFDEI-SQLKQLIREIKKRDREIP-VILVGNKADLLHYRQVSTEEGEKLA-----SEL--GCLFF 141 (165)
T ss_pred EEEECCCH------HHHHHH-HHHHHHHHHHhcCCCCCC-EEEEEECCchHHhCccCHHHHHHHH-----HHc--CCEEE
Confidence 99999853 335422 122333332 3555 56677877751111 11112211 112 35677
Q ss_pred EeCCH---HHHHHHHHHHhh
Q 004549 222 AADTK---DELHKFLWLFKE 238 (745)
Q Consensus 222 ~l~~~---~e~~nL~R~I~~ 238 (745)
..|.. ..+..+...|+.
T Consensus 142 e~Sa~~~~~~v~~~f~~l~~ 161 (165)
T cd04146 142 EVSAAEDYDGVHSVFHELCR 161 (165)
T ss_pred EeCCCCCchhHHHHHHHHHH
Confidence 77753 346777776664
No 93
>cd01876 YihA_EngB The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.
Probab=93.85 E-value=1.6 Score=41.19 Aligned_cols=73 Identities=14% Similarity=0.083 Sum_probs=44.3
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhHHHHHHHHhhcccccCCCCee
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRKDLKKMCISSLTSEFPEDCKF 220 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~~~kK~lk~~f~~e~~~~~Kl 220 (745)
...++++++++|.... +.....++++.|...++| ++.|+++.|. ....+...+..+...+.. +.....+
T Consensus 79 ~~~~~~~~~v~d~~~~--------~~~~~~~~~~~l~~~~~~-vi~v~nK~D~~~~~~~~~~~~~~~~~l~~-~~~~~~~ 148 (170)
T cd01876 79 RENLKGVVLLIDSRHG--------PTEIDLEMLDWLEELGIP-FLVVLTKADKLKKSELAKALKEIKKELKL-FEIDPPI 148 (170)
T ss_pred ChhhhEEEEEEEcCcC--------CCHhHHHHHHHHHHcCCC-EEEEEEchhcCChHHHHHHHHHHHHHHHh-ccCCCce
Confidence 3456789999998742 445667788888888877 6667788774 112223333334433332 2235677
Q ss_pred EEeC
Q 004549 221 YAAD 224 (745)
Q Consensus 221 f~l~ 224 (745)
|..+
T Consensus 149 ~~~S 152 (170)
T cd01876 149 ILFS 152 (170)
T ss_pred EEEe
Confidence 7766
No 94
>PRK07560 elongation factor EF-2; Reviewed
Probab=93.83 E-value=2 Score=52.58 Aligned_cols=64 Identities=11% Similarity=0.054 Sum_probs=51.9
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+..+.||-||- .| ...+..+...||.+|+|+|+.. ++...+..+++.+...|+|. |.+++.+|.
T Consensus 86 ~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~--------g~~~~t~~~~~~~~~~~~~~-iv~iNK~D~ 151 (731)
T PRK07560 86 EYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVE--------GVMPQTETVLRQALRERVKP-VLFINKVDR 151 (731)
T ss_pred cEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCC--------CCCccHHHHHHHHHHcCCCe-EEEEECchh
Confidence 56789999872 34 4567778899999999999995 47788999999988999996 667887773
No 95
>cd04114 Rab30 Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=93.83 E-value=0.62 Score=44.88 Aligned_cols=102 Identities=9% Similarity=0.071 Sum_probs=58.8
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCCC--cc--------eEEEecCceeeEEEEeCCC-CChHHH-HhHHhhcce
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTGA--LS--------STVSSSKYRLRTSVLQAPH-GDLVGC-MEMAKVADL 147 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~--g~--------~tv~~~r~k~R~tfie~~~-~dl~~m-LD~aKvADl 147 (745)
+-|+|+|+++.+.. +| ++.++...... ++ .++.....+-++.|+.++. .....+ -...+.||.
T Consensus 8 ~~v~v~G~~~~GKS-sl----i~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ 82 (169)
T cd04114 8 FKIVLIGNAGVGKT-CL----VRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANA 82 (169)
T ss_pred eEEEEECCCCCCHH-HH----HHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCE
Confidence 56899999988775 56 44443222111 11 1234444456778888873 234443 567788999
Q ss_pred EEEEeeCCCccccccccccChHHHHHH---HHHHhcCCCceEEEeccCCc
Q 004549 148 VAFVASASSFSEESMSYYIDSFGNQCL---SVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 148 Vlllidas~g~~~~~~~~fd~eg~e~L---~~l~~qGlP~vigvl~~L~~ 194 (745)
+|+++|.+.+ ..|+.- ...+ +.+...++|. +.|.+..|.
T Consensus 83 ~i~v~d~~~~------~s~~~~-~~~~~~l~~~~~~~~~~-i~v~NK~D~ 124 (169)
T cd04114 83 LILTYDITCE------ESFRCL-PEWLREIEQYANNKVIT-ILVGNKIDL 124 (169)
T ss_pred EEEEEECcCH------HHHHHH-HHHHHHHHHhCCCCCeE-EEEEECccc
Confidence 9999998853 224321 1233 3333346665 455777774
No 96
>cd01866 Rab2 Rab2 subfamily. Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur
Probab=93.79 E-value=1 Score=43.75 Aligned_cols=102 Identities=7% Similarity=-0.001 Sum_probs=61.3
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC------CCc----ceEEEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT------GAL----SSTVSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~g----~~tv~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlV 148 (745)
=|+|+|.++.+.. +| +..|..... +.| ..++.......+++++..+-. .+.++. -.++-||.+
T Consensus 6 ki~vvG~~~vGKS-sL----l~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~i 80 (168)
T cd01866 6 KYIIIGDTGVGKS-CL----LLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGA 80 (168)
T ss_pred EEEEECCCCCCHH-HH----HHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEE
Confidence 4889999998775 56 444443321 112 233444444568888887632 234433 356889999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhcCCC--ceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLP--STAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP--~vigvl~~L~~ 194 (745)
|||+|++.. ..|+. -..++..++.+..| .++.|.++.|.
T Consensus 81 l~v~d~~~~------~s~~~-~~~~~~~~~~~~~~~~pvivv~nK~Dl 121 (168)
T cd01866 81 LLVYDITRR------ETFNH-LTSWLEDARQHSNSNMTIMLIGNKCDL 121 (168)
T ss_pred EEEEECCCH------HHHHH-HHHHHHHHHHhCCCCCcEEEEEECccc
Confidence 999999842 23432 33566666554333 45667788885
No 97
>TIGR00484 EF-G translation elongation factor EF-G. After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.
Probab=93.73 E-value=0.66 Score=56.19 Aligned_cols=80 Identities=14% Similarity=0.104 Sum_probs=58.0
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR 199 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~ 199 (745)
+..++|+-+|- .+ ...+..+...||.+|||+|++.| ....+.++++.++.+|+|.++ |++.+|......
T Consensus 74 ~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g--------~~~~~~~~~~~~~~~~~p~iv-viNK~D~~~~~~ 144 (689)
T TIGR00484 74 GHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGG--------VQPQSETVWRQANRYEVPRIA-FVNKMDKTGANF 144 (689)
T ss_pred CeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCC--------CChhHHHHHHHHHHcCCCEEE-EEECCCCCCCCH
Confidence 57899998872 22 34577788999999999999954 667788999999999999764 788888511222
Q ss_pred HHHHHHHHhhc
Q 004549 200 KDLKKMCISSL 210 (745)
Q Consensus 200 ~~~kK~lk~~f 210 (745)
.++...++..+
T Consensus 145 ~~~~~~i~~~l 155 (689)
T TIGR00484 145 LRVVNQIKQRL 155 (689)
T ss_pred HHHHHHHHHHh
Confidence 34445555443
No 98
>cd04159 Arl10_like Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.
Probab=93.66 E-value=1.2 Score=41.72 Aligned_cols=99 Identities=14% Similarity=0.167 Sum_probs=59.6
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c--ceEEEecCceeeEEEEeCCCC-ChHHH-HhHHhhcceEEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L--SSTVSSSKYRLRTSVLQAPHG-DLVGC-MEMAKVADLVAFV 151 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g--~~tv~~~r~k~R~tfie~~~~-dl~~m-LD~aKvADlVlll 151 (745)
|+++|+++.+.. +| ++.++...... + ...+..+. ..+.++..+-. .+..+ -..++-+|.+|+|
T Consensus 2 i~i~G~~~~GKs-sl----~~~l~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v 74 (159)
T cd04159 2 ITLVGLQNSGKT-TL----VNVIAGGQFSEDTIPTVGFNMRKVTKGN--VTLKVWDLGGQPRFRSMWERYCRGVNAIVYV 74 (159)
T ss_pred EEEEcCCCCCHH-HH----HHHHccCCCCcCccCCCCcceEEEEECC--EEEEEEECCCCHhHHHHHHHHHhcCCEEEEE
Confidence 789999998875 66 55555432211 2 13333343 56778877621 23333 3557889999999
Q ss_pred eeCCCccccccccccChHHHHHHHHHHhc---CCCceEEEeccCCc
Q 004549 152 ASASSFSEESMSYYIDSFGNQCLSVFRSL---GLPSTAVLIRDLPT 194 (745)
Q Consensus 152 idas~g~~~~~~~~fd~eg~e~L~~l~~q---GlP~vigvl~~L~~ 194 (745)
+|++.. ..|+.....+..+++.+ +.| ++.|++..|.
T Consensus 75 ~d~~~~------~~~~~~~~~~~~~~~~~~~~~~p-~iiv~nK~D~ 113 (159)
T cd04159 75 VDAADR------TALEAAKNELHDLLEKPSLEGIP-LLVLGNKNDL 113 (159)
T ss_pred EECCCH------HHHHHHHHHHHHHHcChhhcCCC-EEEEEeCccc
Confidence 999842 23444444555555543 444 5777888875
No 99
>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=93.61 E-value=0.47 Score=46.33 Aligned_cols=99 Identities=15% Similarity=0.180 Sum_probs=58.8
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCC-----CCCcceEEEecCceeeEEEEeCCCCC--hHHH-HhHHhhcceEEEEee
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEG-----TGALSSTVSSSKYRLRTSVLQAPHGD--LVGC-MEMAKVADLVAFVAS 153 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~-----~~~g~~tv~~~r~k~R~tfie~~~~d--l~~m-LD~aKvADlVlllid 153 (745)
|+++|+++++.. +| ++.++... .+.|..+....-.+.+++++.++ .. +..+ ...++-||.+|+|+|
T Consensus 2 i~~~G~~~~GKT-sl----~~~l~~~~~~~~~~t~g~~~~~~~~~~~~~~i~D~~-G~~~~~~~~~~~~~~a~~ii~V~D 75 (167)
T cd04161 2 LLTVGLDNAGKT-TL----VSALQGEIPKKVAPTVGFTPTKLRLDKYEVCIFDLG-GGANFRGIWVNYYAEAHGLVFVVD 75 (167)
T ss_pred EEEECCCCCCHH-HH----HHHHhCCCCccccCcccceEEEEEECCEEEEEEECC-CcHHHHHHHHHHHcCCCEEEEEEE
Confidence 689999998776 66 44443321 11143332222225688999997 43 4444 455788999999999
Q ss_pred CCCccccccccccChHHHHHHHHH-Hh---cCCCceEEEeccCCc
Q 004549 154 ASSFSEESMSYYIDSFGNQCLSVF-RS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 154 as~g~~~~~~~~fd~eg~e~L~~l-~~---qGlP~vigvl~~L~~ 194 (745)
++.. ..|+.- ...|..+ +. .+.| ++.|++..|.
T Consensus 76 ~s~~------~s~~~~-~~~l~~l~~~~~~~~~p-iliv~NK~Dl 112 (167)
T cd04161 76 SSDD------DRVQEV-KEILRELLQHPRVSGKP-ILVLANKQDK 112 (167)
T ss_pred CCch------hHHHHH-HHHHHHHHcCccccCCc-EEEEEeCCCC
Confidence 9842 224433 3333333 32 3555 6667888885
No 100
>PRK12296 obgE GTPase CgtA; Reviewed
Probab=93.61 E-value=1.3 Score=51.53 Aligned_cols=132 Identities=12% Similarity=0.197 Sum_probs=68.6
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC--CC------cceEEEecCceeeEEEEeCCCCCh----------HHHHhHHh
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT--GA------LSSTVSSSKYRLRTSVLQAPHGDL----------VGCMEMAK 143 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~--~~------g~~tv~~~r~k~R~tfie~~~~dl----------~~mLD~aK 143 (745)
|++||+|+.+.. +| +..|+.... .. .|+.-++.-...+|+|+-.| .-+ ...|-.+.
T Consensus 162 V~LVG~PNAGKS-TL----ln~Ls~akpkIadypfTTl~P~lGvv~~~~~~f~laDtP-Gliegas~g~gLg~~fLrhie 235 (500)
T PRK12296 162 VGLVGFPSAGKS-SL----ISALSAAKPKIADYPFTTLVPNLGVVQAGDTRFTVADVP-GLIPGASEGKGLGLDFLRHIE 235 (500)
T ss_pred EEEEEcCCCCHH-HH----HHHHhcCCccccccCcccccceEEEEEECCeEEEEEECC-CCccccchhhHHHHHHHHHHH
Confidence 899999987775 66 555543221 11 22221121123578888887 422 33566667
Q ss_pred hcceEEEEeeCCCcc-ccccccccChHHHHHHHHH----------HhcCCCceEEEeccCCcchhhhHHHHHHHHhhccc
Q 004549 144 VADLVAFVASASSFS-EESMSYYIDSFGNQCLSVF----------RSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTS 212 (745)
Q Consensus 144 vADlVlllidas~g~-~~~~~~~fd~eg~e~L~~l----------~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~ 212 (745)
-||+||+|+|++... ..+.-..++..-.++...+ ...+.| +|.|++..|. -........++..+..
T Consensus 236 radvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP-~IVVlNKiDL--~da~el~e~l~~~l~~ 312 (500)
T PRK12296 236 RCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERP-RLVVLNKIDV--PDARELAEFVRPELEA 312 (500)
T ss_pred hcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCC-EEEEEECccc--hhhHHHHHHHHHHHHH
Confidence 799999999997410 0000011333333444433 234566 4567888875 1112222223333322
Q ss_pred ccCCCCeeEEeCC
Q 004549 213 EFPEDCKFYAADT 225 (745)
Q Consensus 213 e~~~~~Klf~l~~ 225 (745)
. +.++|.+|.
T Consensus 313 ~---g~~Vf~ISA 322 (500)
T PRK12296 313 R---GWPVFEVSA 322 (500)
T ss_pred c---CCeEEEEEC
Confidence 1 467899883
No 101
>cd04151 Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.
Probab=93.57 E-value=1.1 Score=42.81 Aligned_cols=139 Identities=12% Similarity=0.113 Sum_probs=75.3
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC-----c--ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceEEEEe
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA-----L--SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLVAFVA 152 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g--~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlVllli 152 (745)
|+|+|.++.+.. +| +..++...... | ..++... +.++.|+.++-. ++..+-. ..+-||.+|+|+
T Consensus 2 v~lvG~~~~GKT-sl----~~~l~~~~~~~~~~t~~~~~~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~ 74 (158)
T cd04151 2 ILILGLDNAGKT-TI----LYRLQLGEVVTTIPTIGFNVETVTYK--NLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVV 74 (158)
T ss_pred EEEECCCCCCHH-HH----HHHHccCCCcCcCCccCcCeEEEEEC--CEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEE
Confidence 678899887765 56 44442221111 1 1122222 467889988732 3555533 467899999999
Q ss_pred eCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCcchhh--hHHHHHHHHhhcccccC-CCCeeEEeCC--
Q 004549 153 SASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPTDLKK--RKDLKKMCISSLTSEFP-EDCKFYAADT-- 225 (745)
Q Consensus 153 das~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~~~Kk--~~~~kK~lk~~f~~e~~-~~~Klf~l~~-- 225 (745)
|++.. ..+......+...++...+ ..++.|+++.|.. +. ...+.+.+.. .++. .+.++|.+|.
T Consensus 75 d~~~~------~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~-~~~~~~~i~~~~~~---~~~~~~~~~~~~~Sa~~ 144 (158)
T cd04151 75 DSTDR------DRLGTAKEELHAMLEEEELKGAVLLVFANKQDMP-GALSEAEISEKLGL---SELKDRTWSIFKTSAIK 144 (158)
T ss_pred ECCCH------HHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCC-CCCCHHHHHHHhCc---cccCCCcEEEEEeeccC
Confidence 99842 2244434555555554432 3567778888851 21 1223222211 1111 2346888884
Q ss_pred HHHHHHHHHHHh
Q 004549 226 KDELHKFLWLFK 237 (745)
Q Consensus 226 ~~e~~nL~R~I~ 237 (745)
...+..|...|+
T Consensus 145 ~~gi~~l~~~l~ 156 (158)
T cd04151 145 GEGLDEGMDWLV 156 (158)
T ss_pred CCCHHHHHHHHh
Confidence 444556665554
No 102
>cd04157 Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A
Probab=93.49 E-value=1.4 Score=41.80 Aligned_cols=100 Identities=17% Similarity=0.180 Sum_probs=56.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCC--CCC-----cceEEEecCceeeEEEEeCCCCC--hHHH-HhHHhhcceEEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEG--TGA-----LSSTVSSSKYRLRTSVLQAPHGD--LVGC-MEMAKVADLVAFV 151 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~--~~~-----g~~tv~~~r~k~R~tfie~~~~d--l~~m-LD~aKvADlVlll 151 (745)
|+|+|+++.+.. +| ++.|+... ... |.........+.+++++..| .. +..+ -..++-||.+|+|
T Consensus 2 i~~vG~~~~GKT-sl----~~~l~~~~~~~~~~~~t~g~~~~~~~~~~~~~~l~Dt~-G~~~~~~~~~~~~~~~d~ii~v 75 (162)
T cd04157 2 ILVVGLDNSGKT-TI----INQLKPENAQSQIIVPTVGFNVESFEKGNLSFTAFDMS-GQGKYRGLWEHYYKNIQGIIFV 75 (162)
T ss_pred EEEECCCCCCHH-HH----HHHHcccCCCcceecCccccceEEEEECCEEEEEEECC-CCHhhHHHHHHHHccCCEEEEE
Confidence 688999988765 66 55554432 111 21111111124678888887 43 3333 3346889999999
Q ss_pred eeCCCccccccccccChHHHHHHHHHH-----hcCCCceEEEeccCCc
Q 004549 152 ASASSFSEESMSYYIDSFGNQCLSVFR-----SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 152 idas~g~~~~~~~~fd~eg~e~L~~l~-----~qGlP~vigvl~~L~~ 194 (745)
+|++.. ..|+....++-.+++ ..++| ++.|++..|.
T Consensus 76 ~D~~~~------~~~~~~~~~~~~~~~~~~~~~~~~p-~iiv~NK~Dl 116 (162)
T cd04157 76 IDSSDR------LRLVVVKDELELLLNHPDIKHRRVP-ILFFANKMDL 116 (162)
T ss_pred EeCCcH------HHHHHHHHHHHHHHcCcccccCCCC-EEEEEeCccc
Confidence 999853 223322222222333 24666 5668888885
No 103
>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.
Probab=93.46 E-value=1.5 Score=43.06 Aligned_cols=144 Identities=10% Similarity=0.027 Sum_probs=76.9
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCC-CC----cc--eEEEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceEE
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGT-GA----LS--STVSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLVA 149 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~----g~--~tv~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlVl 149 (745)
.+-|+++|+++++.. +| +..++.... .. |. .++... +.++.|+..+-. .+..+. ...+-||.+|
T Consensus 15 ~~kv~~~G~~~~GKT-sl----~~~l~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi 87 (174)
T cd04153 15 EYKVIIVGLDNAGKT-TI----LYQFLLGEVVHTSPTIGSNVEEIVYK--NIRFLMWDIGGQESLRSSWNTYYTNTDAVI 87 (174)
T ss_pred ccEEEEECCCCCCHH-HH----HHHHccCCCCCcCCccccceEEEEEC--CeEEEEEECCCCHHHHHHHHHHhhcCCEEE
Confidence 456889999998775 56 444432111 11 21 122222 357788877622 233333 3468899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcCCC--ceEEEeccCCcchh-hhHHHHHHHHhhcccccCCCCeeEEeCCH
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLGLP--STAVLIRDLPTDLK-KRKDLKKMCISSLTSEFPEDCKFYAADTK 226 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP--~vigvl~~L~~~~K-k~~~~kK~lk~~f~~e~~~~~Klf~l~~~ 226 (745)
||+|++.. ..|...-.++.++++..+++ .++.|++..|.... ...+..+.+.-...... ...+|.+|..
T Consensus 88 ~V~D~s~~------~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~~~~i~~~l~~~~~~~~--~~~~~~~SA~ 159 (174)
T cd04153 88 LVIDSTDR------ERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESLGLTSIRDH--TWHIQGCCAL 159 (174)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCCCHHHHHHHhCcccccCC--ceEEEecccC
Confidence 99999853 33554455566666666553 45667888885111 11223333321111111 2356777742
Q ss_pred --HHHHHHHHHHh
Q 004549 227 --DELHKFLWLFK 237 (745)
Q Consensus 227 --~e~~nL~R~I~ 237 (745)
..+..+...|+
T Consensus 160 ~g~gi~e~~~~l~ 172 (174)
T cd04153 160 TGEGLPEGLDWIA 172 (174)
T ss_pred CCCCHHHHHHHHh
Confidence 23555665554
No 104
>cd01861 Rab6 Rab6 subfamily. Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate
Probab=93.38 E-value=1.1 Score=42.64 Aligned_cols=101 Identities=10% Similarity=0.075 Sum_probs=59.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEecCceeeEEEEeCCCCC-hHH-HHhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSSKYRLRTSVLQAPHGD-LVG-CMEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~r~k~R~tfie~~~~d-l~~-mLD~aKvADlVl 149 (745)
|+++|.++++.. +| +..+....... ....+..+....+++++.+|-.. ... +-..++-||+++
T Consensus 3 i~liG~~~~GKS-sl----i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii 77 (161)
T cd01861 3 LVFLGDQSVGKT-SI----ITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAV 77 (161)
T ss_pred EEEECCCCCCHH-HH----HHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEE
Confidence 789999987765 56 44443322211 12234445555688999987322 333 334578899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHH-HHhcCC-CceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSV-FRSLGL-PSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~-l~~qGl-P~vigvl~~L~~ 194 (745)
+++|.+.. ..|+... ..+.. ++..+- ..++.|+++.|.
T Consensus 78 ~v~d~~~~------~s~~~~~-~~~~~~~~~~~~~~~iilv~nK~D~ 117 (161)
T cd01861 78 VVYDITNR------QSFDNTD-KWIDDVRDERGNDVIIVLVGNKTDL 117 (161)
T ss_pred EEEECcCH------HHHHHHH-HHHHHHHHhCCCCCEEEEEEEChhc
Confidence 99999853 3354433 34444 334441 245666777775
No 105
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=93.35 E-value=1 Score=41.57 Aligned_cols=100 Identities=13% Similarity=0.169 Sum_probs=53.3
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEecCceeeEEEEeCCC-CChHHH--------Hh
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSSKYRLRTSVLQAPH-GDLVGC--------ME 140 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~r~k~R~tfie~~~-~dl~~m--------LD 140 (745)
+=|+++|.++++.. +| +..+....... ....+..+...-.++++.+|. .+..++ .-
T Consensus 2 ~ki~~~G~~~~GKs-tl----~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ 76 (161)
T TIGR00231 2 IKIVIVGDPNVGKS-TL----LNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVES 76 (161)
T ss_pred eEEEEECCCCCCHH-HH----HHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhE
Confidence 45889999998775 56 44333222111 111133343335688898872 223322 22
Q ss_pred HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 141 MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 141 ~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
++.++|++++++++.. ....+...+++.+.. +.| ++.|+++.|.
T Consensus 77 ~i~~~d~~~~v~~~~~--------~~~~~~~~~~~~~~~-~~p-~ivv~nK~D~ 120 (161)
T TIGR00231 77 SLRVFDIVILVLDVEE--------ILEKQTKEIIHHAES-NVP-IILVGNKIDL 120 (161)
T ss_pred EEEEEEEeeeehhhhh--------HhHHHHHHHHHhccc-CCc-EEEEEEcccC
Confidence 3344666666655552 233444555555543 777 5667888886
No 106
>cd04156 ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h
Probab=93.25 E-value=2.3 Score=40.51 Aligned_cols=100 Identities=14% Similarity=0.187 Sum_probs=58.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC-----c--ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceEEEEe
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA-----L--SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLVAFVA 152 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g--~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlVllli 152 (745)
|+|+|+++++.. +| +..|....... | ...+..+ .+.++.++..+-. .+..+.. ..+-||.+|+|+
T Consensus 2 i~i~G~~~~GKT-sl----~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~ 75 (160)
T cd04156 2 VLLLGLDSAGKS-TL----LYKLKHAELVTTIPTVGFNVEMLQLE-KHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVV 75 (160)
T ss_pred EEEEcCCCCCHH-HH----HHHHhcCCcccccCccCcceEEEEeC-CceEEEEEECCCCHhHHHHHHHHhccCCEEEEEE
Confidence 689999998876 56 55554332211 1 1223333 2467888888622 2444433 467799999999
Q ss_pred eCCCccccccccccChHHHHHHHHHHh---cCCCceEEEeccCCc
Q 004549 153 SASSFSEESMSYYIDSFGNQCLSVFRS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 153 das~g~~~~~~~~fd~eg~e~L~~l~~---qGlP~vigvl~~L~~ 194 (745)
|++.. ..|+..-..+..+++. .+.| ++.|++..|.
T Consensus 76 D~~~~------~~~~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl 113 (160)
T cd04156 76 DSSDE------ARLDESQKELKHILKNEHIKGVP-VVLLANKQDL 113 (160)
T ss_pred ECCcH------HHHHHHHHHHHHHHhchhhcCCC-EEEEEECccc
Confidence 99853 2244444444455443 4544 6677887774
No 107
>PRK12298 obgE GTPase CgtA; Reviewed
Probab=93.22 E-value=1.4 Score=49.93 Aligned_cols=144 Identities=8% Similarity=0.129 Sum_probs=76.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-------CC-cceEEEec-CceeeEEEEeCCCCCh----------HHHHhHH
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-------GA-LSSTVSSS-KYRLRTSVLQAPHGDL----------VGCMEMA 142 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-------~~-g~~tv~~~-r~k~R~tfie~~~~dl----------~~mLD~a 142 (745)
|++||+|..+.. +| ++.+++... +. .|+.-++. .-.++|+|+-.| .=+ ..+|...
T Consensus 162 ValVG~PNaGKS-TL----ln~Lt~~k~~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtP-Gi~~~a~~~~~Lg~~~l~~i 235 (390)
T PRK12298 162 VGLLGLPNAGKS-TF----IRAVSAAKPKVADYPFTTLVPNLGVVRVDDERSFVVADIP-GLIEGASEGAGLGIRFLKHL 235 (390)
T ss_pred EEEEcCCCCCHH-HH----HHHHhCCcccccCCCCCccCcEEEEEEeCCCcEEEEEeCC-CccccccchhhHHHHHHHHH
Confidence 899999987664 56 444443221 11 22222221 113679999887 432 3467778
Q ss_pred hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhc-----CCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCC
Q 004549 143 KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSL-----GLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPED 217 (745)
Q Consensus 143 KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~q-----GlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~ 217 (745)
.=||++|+|+|++..... ..++ .-..+++.|... +.|. +.|++.+|. -.+..+.+.++.+. ..+...
T Consensus 236 ~radvlL~VVD~s~~~~~---d~~e-~~~~l~~eL~~~~~~L~~kP~-IlVlNKiDl--~~~~el~~~l~~l~-~~~~~~ 307 (390)
T PRK12298 236 ERCRVLLHLIDIAPIDGS---DPVE-NARIIINELEKYSPKLAEKPR-WLVFNKIDL--LDEEEAEERAKAIV-EALGWE 307 (390)
T ss_pred HhCCEEEEEeccCccccc---ChHH-HHHHHHHHHHhhhhhhcCCCE-EEEEeCCcc--CChHHHHHHHHHHH-HHhCCC
Confidence 889999999998721000 1111 123444555443 4554 557898886 11222223333222 122222
Q ss_pred CeeEEeCC--HHHHHHHHHHHhhc
Q 004549 218 CKFYAADT--KDELHKFLWLFKEQ 239 (745)
Q Consensus 218 ~Klf~l~~--~~e~~nL~R~I~~~ 239 (745)
.++|.+|. ...+..|+..|...
T Consensus 308 ~~Vi~ISA~tg~GIdeLl~~I~~~ 331 (390)
T PRK12298 308 GPVYLISAASGLGVKELCWDLMTF 331 (390)
T ss_pred CCEEEEECCCCcCHHHHHHHHHHH
Confidence 36788874 45566777777543
No 108
>cd01898 Obg Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.
Probab=93.16 E-value=1.2 Score=42.79 Aligned_cols=142 Identities=15% Similarity=0.127 Sum_probs=69.3
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCC--C--cc------eEEEecCceeeEEEEeCCCCC----------hHHHHhH
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTG--A--LS------STVSSSKYRLRTSVLQAPHGD----------LVGCMEM 141 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~--~--g~------~tv~~~r~k~R~tfie~~~~d----------l~~mLD~ 141 (745)
|+|+|.++.+.. +| ++.|+..... . ++ -.+..+. ..+++|+..| .- ....+..
T Consensus 3 v~ivG~~~~GKS-tl----~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~-~~~~~l~Dtp-G~~~~~~~~~~~~~~~~~~ 75 (170)
T cd01898 3 VGLVGLPNAGKS-TL----LSAISNAKPKIADYPFTTLVPNLGVVRVDD-GRSFVVADIP-GLIEGASEGKGLGHRFLRH 75 (170)
T ss_pred eEEECCCCCCHH-HH----HHHHhcCCccccCCCccccCCcceEEEcCC-CCeEEEEecC-cccCcccccCCchHHHHHH
Confidence 789999997775 66 5555433211 1 11 1122222 1378888887 31 1233444
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHH-hcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCee
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFR-SLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKF 220 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~-~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Kl 220 (745)
.+-||.+|+|+|++.+. +....+..+-.++..... ..+.| ++.|++..|. ..+......++.... ... +..+
T Consensus 76 ~~~~d~vi~v~D~~~~~--~~~~~~~~~~~~l~~~~~~~~~~p-~ivv~NK~Dl--~~~~~~~~~~~~~~~-~~~-~~~~ 148 (170)
T cd01898 76 IERTRLLLHVIDLSGDD--DPVEDYKTIRNELELYNPELLEKP-RIVVLNKIDL--LDEEELFELLKELLK-ELW-GKPV 148 (170)
T ss_pred HHhCCEEEEEEecCCCC--CHHHHHHHHHHHHHHhCccccccc-cEEEEEchhc--CCchhhHHHHHHHHh-hCC-CCCE
Confidence 55699999999998520 000012222223333221 12344 4567888885 222222222222222 211 3456
Q ss_pred EEeCC--HHHHHHHHHHHh
Q 004549 221 YAADT--KDELHKFLWLFK 237 (745)
Q Consensus 221 f~l~~--~~e~~nL~R~I~ 237 (745)
|.+|. ...+..|...|+
T Consensus 149 ~~~Sa~~~~gi~~l~~~i~ 167 (170)
T cd01898 149 FPISALTGEGLDELLRKLA 167 (170)
T ss_pred EEEecCCCCCHHHHHHHHH
Confidence 66663 445556666554
No 109
>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]
Probab=92.92 E-value=0.44 Score=53.52 Aligned_cols=101 Identities=18% Similarity=0.243 Sum_probs=72.4
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCc-cccccccccChHHHHHHHHHHhcCCCceEEEeccCCc---c
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSF-SEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT---D 195 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g-~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~---~ 195 (745)
|.++|++.||- +| +-.||--|..||..+|+|||+.| +| -+.+.+-.|.|-+=.++.+|+...|.+++..|. +
T Consensus 84 k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE--~g~~~~gQtrEH~~La~tlGi~~lIVavNKMD~v~wd 161 (428)
T COG5256 84 KYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFE--AGFGVGGQTREHAFLARTLGIKQLIVAVNKMDLVSWD 161 (428)
T ss_pred CceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccc--cccccCCchhHHHHHHHhcCCceEEEEEEcccccccC
Confidence 57899999974 44 67899999999999999999975 11 011245678999999999999999999998884 2
Q ss_pred hhhhHHHHHHHHhhccc--ccCCCCeeEEeC
Q 004549 196 LKKRKDLKKMCISSLTS--EFPEDCKFYAAD 224 (745)
Q Consensus 196 ~Kk~~~~kK~lk~~f~~--e~~~~~Klf~l~ 224 (745)
-++=..++..+.+.+.. +.++..++..+|
T Consensus 162 e~rf~ei~~~v~~l~k~~G~~~~~v~FIPiS 192 (428)
T COG5256 162 EERFEEIVSEVSKLLKMVGYNPKDVPFIPIS 192 (428)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccCCeEEecc
Confidence 23334566666664433 223345566666
No 110
>cd01862 Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-
Probab=92.77 E-value=2.1 Score=41.09 Aligned_cols=102 Identities=13% Similarity=0.122 Sum_probs=58.0
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCC-----C-c----ceEEEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTG-----A-L----SSTVSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-----~-g----~~tv~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlV 148 (745)
-|+|+|+++++.. +| +..|...... . + +..+..+...-.++|+.+|.. ....+. ..++-||.+
T Consensus 2 ki~viG~~~~GKS-sl----~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~ 76 (172)
T cd01862 2 KVIILGDSGVGKT-SL----MNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCC 76 (172)
T ss_pred EEEEECCCCCCHH-HH----HHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEE
Confidence 3789999988775 56 4444322211 1 2 223444555567788898732 233333 356779999
Q ss_pred EEEeeCCCccccccccccCh---HHHHHHHHHHhc---CCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDS---FGNQCLSVFRSL---GLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~---eg~e~L~~l~~q---GlP~vigvl~~L~~ 194 (745)
|+|+|++.+ ..|+. +-.+++..+... +.|- +.|++..|.
T Consensus 77 i~v~d~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~nK~Dl 121 (172)
T cd01862 77 VLVYDVTNP------KSFESLDSWRDEFLIQASPSDPENFPF-VVLGNKIDL 121 (172)
T ss_pred EEEEECCCH------HHHHHHHHHHHHHHHhcCccCCCCceE-EEEEECccc
Confidence 999999853 22432 333444444322 5664 455677764
No 111
>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=92.67 E-value=0.73 Score=49.82 Aligned_cols=163 Identities=13% Similarity=0.090 Sum_probs=118.5
Q ss_pred eeEEEEeCCCCC--hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhh
Q 004549 123 LRTSVLQAPHGD--LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKR 199 (745)
Q Consensus 123 ~R~tfie~~~~d--l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~ 199 (745)
|-++|+.||--| |..||.-|-|-|-+||+|-|.. ..=...|-|-|-++...-+-.+|-+-+.+|. .-...
T Consensus 125 RHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NE-------sCPQPQTsEHLaaveiM~LkhiiilQNKiDli~e~~A 197 (466)
T KOG0466|consen 125 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNE-------SCPQPQTSEHLAAVEIMKLKHIIILQNKIDLIKESQA 197 (466)
T ss_pred EEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCC-------CCCCCchhhHHHHHHHhhhceEEEEechhhhhhHHHH
Confidence 678999999667 5679999999999999998874 3345688889999888888888887778885 11223
Q ss_pred HHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhhccccCCccccCCCeEEEEeeE-eccCC-C-CCCCceEEE
Q 004549 200 KDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVD-VVADD-C-NSGKCTLLL 274 (745)
Q Consensus 200 ~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e-~~~~~-~-~~~~~~l~v 274 (745)
.+.-..+++++..-..+++-+..++. +-.+--++-+|...-|-|++==.+.|-|++=|-= +..+. + .+..|-|.=
T Consensus 198 ~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvPvRdf~s~prlIVIRSFDVNkPG~ev~~lkGgvag 277 (466)
T KOG0466|consen 198 LEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVPVRDFTSPPRLIVIRSFDVNKPGSEVDDLKGGVAG 277 (466)
T ss_pred HHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCCccccCCCCcEEEEEeeccCCCCchhhcccCcccc
Confidence 45677889999998988999999884 4567788999999999998888899999887743 33221 1 111222221
Q ss_pred EEEEeCCCCCCCCeEEe-CC
Q 004549 275 HGYLRAHCLSVNQLVHI-SG 293 (745)
Q Consensus 275 ~GyvRG~~l~~n~lVHI-pG 293 (745)
---+.|. |++|+.|.| ||
T Consensus 278 gsil~Gv-lkvg~~IEiRPG 296 (466)
T KOG0466|consen 278 GSILKGV-LKVGQEIEIRPG 296 (466)
T ss_pred chhhhhh-hhcCcEEEecCc
Confidence 1122333 678888877 44
No 112
>COG1160 Predicted GTPases [General function prediction only]
Probab=92.58 E-value=1.7 Score=49.47 Aligned_cols=133 Identities=14% Similarity=0.100 Sum_probs=81.4
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhccCC------CC--C-cceEEEecCceeeEEEEeCC-------------CCCh
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSSEG------TG--A-LSSTVSSSKYRLRTSVLQAP-------------HGDL 135 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~------~~--~-g~~tv~~~r~k~R~tfie~~-------------~~dl 135 (745)
-|+=|||+|=|..+.. +| +..+.++. +. + -+|++...+.-|++.||.-- .-.+
T Consensus 177 ~~ikiaiiGrPNvGKS-sL----iN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv 251 (444)
T COG1160 177 DPIKIAIIGRPNVGKS-SL----INAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSV 251 (444)
T ss_pred CceEEEEEeCCCCCch-HH----HHHhccCceEEecCCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEEEee
Confidence 6889999998886654 66 44443332 11 0 23333222112333333210 1234
Q ss_pred HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEE--eccCCcchhhhHHHHHHHHhhcccc
Q 004549 136 VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVL--IRDLPTDLKKRKDLKKMCISSLTSE 213 (745)
Q Consensus 136 ~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigv--l~~L~~~~Kk~~~~kK~lk~~f~~e 213 (745)
...+-+..-||+||||+||+. +|.++-..++..+...|-|-||.| -.-++.+.......++.+.+.|.+-
T Consensus 252 ~rt~~aI~~a~vvllviDa~~--------~~~~qD~~ia~~i~~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l 323 (444)
T COG1160 252 ARTLKAIERADVVLLVIDATE--------GISEQDLRIAGLIEEAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFL 323 (444)
T ss_pred hhhHhHHhhcCEEEEEEECCC--------CchHHHHHHHHHHHHcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccc
Confidence 455666677999999999994 588999999999999999999887 1111211133445666676644332
Q ss_pred cCCCCeeEEeCC
Q 004549 214 FPEDCKFYAADT 225 (745)
Q Consensus 214 ~~~~~Klf~l~~ 225 (745)
+.+.++++|.
T Consensus 324 --~~a~i~~iSA 333 (444)
T COG1160 324 --DFAPIVFISA 333 (444)
T ss_pred --cCCeEEEEEe
Confidence 3689999883
No 113
>cd04113 Rab4 Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p
Probab=92.47 E-value=1.5 Score=41.84 Aligned_cols=136 Identities=8% Similarity=0.044 Sum_probs=73.8
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCCC-ChHHH-HhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPHG-DLVGC-MEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~~-dl~~m-LD~aKvADlVl 149 (745)
|+|+|+++.+.. +| +..|....... + ...+..+...-++.++.++.. .+..+ ...++-||.+|
T Consensus 3 i~v~G~~~vGKT-sl----i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i 77 (161)
T cd04113 3 FIIIGSSGTGKS-CL----LHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGAL 77 (161)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEE
Confidence 789999998775 66 44443222111 1 223444444568889988732 23333 34467899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHh---cCCCceEEEeccCCcchhh---hHHHHHHHHhhcccccCCCCeeEEe
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRS---LGLPSTAVLIRDLPTDLKK---RKDLKKMCISSLTSEFPEDCKFYAA 223 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~---qGlP~vigvl~~L~~~~Kk---~~~~kK~lk~~f~~e~~~~~Klf~l 223 (745)
+|+|++.+ ..|.. -.+++..++. .++| ++.|++..|....+ ........+. + +..+|.+
T Consensus 78 ~v~d~~~~------~s~~~-~~~~~~~~~~~~~~~~~-iivv~nK~D~~~~~~~~~~~~~~~~~~-----~--~~~~~~~ 142 (161)
T cd04113 78 LVYDITNR------TSFEA-LPTWLSDARALASPNIV-VILVGNKSDLADQREVTFLEASRFAQE-----N--GLLFLET 142 (161)
T ss_pred EEEECCCH------HHHHH-HHHHHHHHHHhCCCCCe-EEEEEEchhcchhccCCHHHHHHHHHH-----c--CCEEEEE
Confidence 99999853 22432 1234444443 3555 67778888751011 1122222222 1 2457777
Q ss_pred CC--HHHHHHHHHHHh
Q 004549 224 DT--KDELHKFLWLFK 237 (745)
Q Consensus 224 ~~--~~e~~nL~R~I~ 237 (745)
|. ...+..+...|+
T Consensus 143 Sa~~~~~i~~~~~~~~ 158 (161)
T cd04113 143 SALTGENVEEAFLKCA 158 (161)
T ss_pred ECCCCCCHHHHHHHHH
Confidence 63 344556655554
No 114
>PTZ00416 elongation factor 2; Provisional
Probab=92.44 E-value=0.57 Score=58.00 Aligned_cols=64 Identities=11% Similarity=0.064 Sum_probs=51.4
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
..++.|+-+|- .| +..++.++++||.+|+|+||.. ++...++.+|+.+...|+|.++ +++.+|.
T Consensus 91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~--------g~~~~t~~~~~~~~~~~~p~iv-~iNK~D~ 156 (836)
T PTZ00416 91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVE--------GVCVQTETVLRQALQERIRPVL-FINKVDR 156 (836)
T ss_pred ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCC--------CcCccHHHHHHHHHHcCCCEEE-EEEChhh
Confidence 35799999872 23 4678889999999999999995 4888899999999999998754 4565554
No 115
>cd01860 Rab5_related Rab5-related subfamily. This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo
Probab=92.27 E-value=2.3 Score=40.53 Aligned_cols=102 Identities=12% Similarity=0.058 Sum_probs=60.9
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCC------Cc----ceEEEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTG------AL----SSTVSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~------~g----~~tv~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlV 148 (745)
=|+|+|+++++.. +| ++.|...... .| ..++......-++.++.++-. ...++. ..++-||.+
T Consensus 3 ki~v~G~~~~GKS-sl----i~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~ 77 (163)
T cd01860 3 KLVLLGDSSVGKS-SL----VLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAA 77 (163)
T ss_pred EEEEECCCCCCHH-HH----HHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEE
Confidence 3789999988775 56 4444333211 13 334555555557777877621 132322 245669999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhcCCCc--eEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPS--TAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~--vigvl~~L~~ 194 (745)
|+++|++.. ..|+. ...+|+.++.++-+. ++.|++..|.
T Consensus 78 i~v~d~~~~------~s~~~-~~~~~~~~~~~~~~~~~iivv~nK~D~ 118 (163)
T cd01860 78 IVVYDITSE------ESFEK-AKSWVKELQRNASPNIIIALVGNKADL 118 (163)
T ss_pred EEEEECcCH------HHHHH-HHHHHHHHHHhCCCCCeEEEEEECccc
Confidence 999999853 33543 456777777776443 3445777774
No 116
>cd01863 Rab18 Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos
Probab=92.16 E-value=2.4 Score=40.38 Aligned_cols=100 Identities=11% Similarity=0.114 Sum_probs=56.7
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCC------Cc----ceEEEecCceeeEEEEeCCCCC-hHHHH-hHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTG------AL----SSTVSSSKYRLRTSVLQAPHGD-LVGCM-EMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~------~g----~~tv~~~r~k~R~tfie~~~~d-l~~mL-D~aKvADlVl 149 (745)
|+|+|+++++.. +| +..|+..... .+ +..+..+....++.|+.++... ...+. -.++-||.+|
T Consensus 3 i~v~G~~~~GKS-sl----i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i 77 (161)
T cd01863 3 ILLIGDSGVGKS-SL----LLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVI 77 (161)
T ss_pred EEEECCCCCCHH-HH----HHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEE
Confidence 789999988775 56 4444322111 12 2333344445678888887322 22222 3457799999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhc----CCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSL----GLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~q----GlP~vigvl~~L~~ 194 (745)
+++|++.. ..|+.... .++.+..+ +.| ++.|.+..|.
T Consensus 78 ~v~d~~~~------~s~~~~~~-~~~~i~~~~~~~~~~-~~iv~nK~D~ 118 (161)
T cd01863 78 LVYDVTRR------DTFTNLET-WLNELETYSTNNDIV-KMLVGNKIDK 118 (161)
T ss_pred EEEECCCH------HHHHhHHH-HHHHHHHhCCCCCCc-EEEEEECCcc
Confidence 99998853 23443222 45544443 444 4556677774
No 117
>cd04136 Rap_like Rap-like subfamily. The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.
Probab=92.05 E-value=1.9 Score=41.00 Aligned_cols=102 Identities=12% Similarity=0.072 Sum_probs=58.0
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC------CCc---ceEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT------GAL---SSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~g---~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADlVl 149 (745)
-|+|+|.++.+.. +| +..+..... +.+ ..++..+..+.+++++..+. ..+.++.. ..+-||.+|
T Consensus 3 ki~i~G~~~vGKT-sl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i 77 (163)
T cd04136 3 KVVVLGSGGVGKS-AL----TVQFVQGIFVEKYDPTIEDSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFV 77 (163)
T ss_pred EEEEECCCCCCHH-HH----HHHHHhCCCCcccCCchhhhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEE
Confidence 4789999998876 56 333322111 111 12344455566788888763 23444443 357799999
Q ss_pred EEeeCCCccccccccccCh---HHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDS---FGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~---eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
|++|.+.. ..|+. +-.++++.....++| ++.|++..|.
T Consensus 78 lv~d~~~~------~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl 118 (163)
T cd04136 78 LVYSITSQ------SSFNDLQDLREQILRVKDTENVP-MVLVGNKCDL 118 (163)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence 99998742 22432 223333332334666 5667787775
No 118
>cd04149 Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t
Probab=92.03 E-value=2.7 Score=41.15 Aligned_cols=101 Identities=15% Similarity=0.101 Sum_probs=59.4
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCCC-----cc--eEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEEE
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-----LS--STVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVAF 150 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g~--~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVll 150 (745)
.=|+++|+++.+.. +| ++.|+...... |. .++... +.++.++..+-.+ +..+.. ..+-||.+||
T Consensus 10 ~kv~i~G~~~~GKT-sl----i~~l~~~~~~~~~~t~g~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~ 82 (168)
T cd04149 10 MRILMLGLDAAGKT-TI----LYKLKLGQSVTTIPTVGFNVETVTYK--NVKFNVWDVGGQDKIRPLWRHYYTGTQGLIF 82 (168)
T ss_pred cEEEEECcCCCCHH-HH----HHHHccCCCccccCCcccceEEEEEC--CEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence 34789999998775 56 44443211111 21 122222 3567888776222 444433 3588999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHh---cCCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~---qGlP~vigvl~~L~~ 194 (745)
|+|++.. ..|+..-..+...+.. ++.| ++.|.++.|.
T Consensus 83 v~D~t~~------~s~~~~~~~~~~~~~~~~~~~~p-iilv~NK~Dl 122 (168)
T cd04149 83 VVDSADR------DRIDEARQELHRIINDREMRDAL-LLVFANKQDL 122 (168)
T ss_pred EEeCCch------hhHHHHHHHHHHHhcCHhhcCCc-EEEEEECcCC
Confidence 9999842 2365555555556554 4444 6777888885
No 119
>cd04106 Rab23_lke Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G
Probab=92.02 E-value=2.4 Score=40.30 Aligned_cols=137 Identities=7% Similarity=0.062 Sum_probs=71.5
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEec--CceeeEEEEeCCCC-ChHHH-HhHHhhcce
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSS--KYRLRTSVLQAPHG-DLVGC-MEMAKVADL 147 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~--r~k~R~tfie~~~~-dl~~m-LD~aKvADl 147 (745)
|+|+|.++++.. +| +..++...... + ..++... ....++.++.++.. ...++ -...+-||.
T Consensus 3 v~~vG~~~~GKT-sl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ 77 (162)
T cd04106 3 VIVVGNGNVGKS-SM----IQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQA 77 (162)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCE
Confidence 789999988775 66 55554322211 1 1222222 33457888888632 23343 345678999
Q ss_pred EEEEeeCCCccccccccccChHHHHHHHHHH--hcCCCceEEEeccCCcchhhh---HHHHHHHHhhcccccCCCCeeEE
Q 004549 148 VAFVASASSFSEESMSYYIDSFGNQCLSVFR--SLGLPSTAVLIRDLPTDLKKR---KDLKKMCISSLTSEFPEDCKFYA 222 (745)
Q Consensus 148 Vlllidas~g~~~~~~~~fd~eg~e~L~~l~--~qGlP~vigvl~~L~~~~Kk~---~~~kK~lk~~f~~e~~~~~Klf~ 222 (745)
+|+++|++.. ..|+.- ...+..+. ..++| ++.|++..|.. +.. .+..+.+.+. + +.++|.
T Consensus 78 ~v~v~d~~~~------~s~~~l-~~~~~~~~~~~~~~p-~iiv~nK~Dl~-~~~~v~~~~~~~~~~~----~--~~~~~~ 142 (162)
T cd04106 78 CILVFSTTDR------ESFEAI-ESWKEKVEAECGDIP-MVLVQTKIDLL-DQAVITNEEAEALAKR----L--QLPLFR 142 (162)
T ss_pred EEEEEECCCH------HHHHHH-HHHHHHHHHhCCCCC-EEEEEEChhcc-cccCCCHHHHHHHHHH----c--CCeEEE
Confidence 9999998742 223221 12222222 24777 56677887751 111 1111112211 1 346777
Q ss_pred eCCH--HHHHHHHHHHhh
Q 004549 223 ADTK--DELHKFLWLFKE 238 (745)
Q Consensus 223 l~~~--~e~~nL~R~I~~ 238 (745)
.|.. ..+..|...|+.
T Consensus 143 ~Sa~~~~~v~~l~~~l~~ 160 (162)
T cd04106 143 TSVKDDFNVTELFEYLAE 160 (162)
T ss_pred EECCCCCCHHHHHHHHHH
Confidence 7742 345666666654
No 120
>smart00173 RAS Ras subfamily of RAS small GTPases. Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades
Probab=91.76 E-value=2.5 Score=40.39 Aligned_cols=101 Identities=11% Similarity=0.081 Sum_probs=59.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC---------cceEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA---------LSSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---------g~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADlVll 150 (745)
|+|+|+++++.. +| ++.+....... -..++..+...-++.++..+. ..+..+.. ..+-||.+++
T Consensus 3 i~v~G~~~~GKT-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~ 77 (164)
T smart00173 3 LVVLGSGGVGKS-AL----TIQFVQGHFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLL 77 (164)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCcCCcccCCchhhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEE
Confidence 789999998765 56 33333222111 122333444456788888763 34556554 5788999999
Q ss_pred EeeCCCccccccccccCh---HHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDS---FGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~---eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
++|++.. ..|+. +-..+++.+..+..| ++.|.++.|.
T Consensus 78 v~d~~~~------~s~~~~~~~~~~i~~~~~~~~~p-ii~v~nK~Dl 117 (164)
T smart00173 78 VYSITDR------QSFEEIKKFREQILRVKDRDDVP-IVLVGNKCDL 117 (164)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence 9998852 22433 333444444444555 5566788775
No 121
>cd04158 ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra
Probab=91.73 E-value=3 Score=40.56 Aligned_cols=100 Identities=14% Similarity=0.107 Sum_probs=59.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-----CCcc--eEEEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceEEEEe
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-----GALS--STVSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLVAFVA 152 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-----~~g~--~tv~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlVllli 152 (745)
|+++|+++++.. +| +..+..... +.|. .++.. .+.++.++.++-. ....+. ...+-||.+++|+
T Consensus 2 vvlvG~~~~GKT-sl----~~~l~~~~~~~~~~T~~~~~~~~~~--~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~ 74 (169)
T cd04158 2 VVTLGLDGAGKT-TI----LFKLKQDEFMQPIPTIGFNVETVEY--KNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVV 74 (169)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCCcCCcCceeEEEEEE--CCEEEEEEECCCChhcchHHHHHhccCCEEEEEE
Confidence 679999988775 56 444432211 1122 22222 2467888888732 233333 4568899999999
Q ss_pred eCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 153 SASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 153 das~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
|++.. ..|+..-..+..+++..++ +.++.|.+..|.
T Consensus 75 D~s~~------~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl 112 (169)
T cd04158 75 DSSHR------DRVSEAHSELAKLLTEKELRDALLLIFANKQDV 112 (169)
T ss_pred eCCcH------HHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCc
Confidence 99842 3466655556666655454 346667888875
No 122
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=91.65 E-value=3.1 Score=39.60 Aligned_cols=106 Identities=8% Similarity=0.041 Sum_probs=58.2
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccC--CCCCc---ceEEEecCceeeEEEEeCCC-CChHHHH-hHHhhcceEEEEee
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSE--GTGAL---SSTVSSSKYRLRTSVLQAPH-GDLVGCM-EMAKVADLVAFVAS 153 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~--~~~~g---~~tv~~~r~k~R~tfie~~~-~dl~~mL-D~aKvADlVlllid 153 (745)
=|+|+|.++.+.. +|++.++...... ..+.+ ...+.+.....++.++..|. .++..+. ...+-||.+++|+|
T Consensus 4 ki~i~G~~~~GKt-sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d 82 (164)
T cd04145 4 KLVVVGGGGVGKS-ALTIQFIQSYFVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFS 82 (164)
T ss_pred EEEEECCCCCcHH-HHHHHHHhCCCCcccCCCccceEEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEE
Confidence 4789999987765 5522223321110 11111 11222333345788888863 3566666 44788999999999
Q ss_pred CCCccccccccccChHHH---HHHHHHHhcCCCceEEEeccCCc
Q 004549 154 ASSFSEESMSYYIDSFGN---QCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 154 as~g~~~~~~~~fd~eg~---e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
++.. ..|+..-. ++++.....++| ++.|++..|.
T Consensus 83 ~~~~------~s~~~~~~~~~~~~~~~~~~~~p-iiiv~NK~Dl 119 (164)
T cd04145 83 VTDR------GSFEEVDKFHTQILRVKDRDEFP-MILVGNKADL 119 (164)
T ss_pred CCCH------HHHHHHHHHHHHHHHHhCCCCCC-EEEEeeCccc
Confidence 9853 23443322 333332234566 4556788775
No 123
>PRK15467 ethanolamine utilization protein EutP; Provisional
Probab=91.61 E-value=2.3 Score=41.50 Aligned_cols=139 Identities=9% Similarity=0.074 Sum_probs=74.3
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC-CCcceEEEecCceeeEEEEeCCC------CChHHHHhHHhhcceEEEEee
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT-GALSSTVSSSKYRLRTSVLQAPH------GDLVGCMEMAKVADLVAFVAS 153 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~g~~tv~~~r~k~R~tfie~~~------~dl~~mLD~aKvADlVlllid 153 (745)
-|+++|.++.+.. +| +..+++... .....++..... .++-+|- .-...|+.+++-||++|+++|
T Consensus 3 ~i~~iG~~~~GKs-tl----~~~l~~~~~~~~~~~~v~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d 73 (158)
T PRK15467 3 RIAFVGAVGAGKT-TL----FNALQGNYTLARKTQAVEFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLIYVHG 73 (158)
T ss_pred EEEEECCCCCCHH-HH----HHHHcCCCccCccceEEEECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEEEEEe
Confidence 4899999988765 56 333433221 112222222211 1366652 235567888999999999999
Q ss_pred CCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCeeEEeCC--HHHHHH
Q 004549 154 ASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKFYAADT--KDELHK 231 (745)
Q Consensus 154 as~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~n 231 (745)
++.+ ..+. ...++.. ..+.| ++++++..|.........++.+++. .....+|.+|. ...+..
T Consensus 74 ~~~~------~s~~--~~~~~~~--~~~~~-ii~v~nK~Dl~~~~~~~~~~~~~~~-----~~~~p~~~~Sa~~g~gi~~ 137 (158)
T PRK15467 74 ANDP------ESRL--PAGLLDI--GVSKR-QIAVISKTDMPDADVAATRKLLLET-----GFEEPIFELNSHDPQSVQQ 137 (158)
T ss_pred CCCc------cccc--CHHHHhc--cCCCC-eEEEEEccccCcccHHHHHHHHHHc-----CCCCCEEEEECCCccCHHH
Confidence 9854 1121 1223322 13455 6788888885112222233333321 11257888874 444666
Q ss_pred HHHHHhhccccCC
Q 004549 232 FLWLFKEQRLTVP 244 (745)
Q Consensus 232 L~R~I~~~k~r~l 244 (745)
|...|+......+
T Consensus 138 l~~~l~~~~~~~~ 150 (158)
T PRK15467 138 LVDYLASLTKQEE 150 (158)
T ss_pred HHHHHHHhchhhh
Confidence 7666665554433
No 124
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=91.59 E-value=2.6 Score=46.97 Aligned_cols=103 Identities=15% Similarity=0.169 Sum_probs=59.3
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCCCC--C------cceE--EEecCceeeEEEEeCCCCC-----------h
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTG--A------LSST--VSSSKYRLRTSVLQAPHGD-----------L 135 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~--~------g~~t--v~~~r~k~R~tfie~~~~d-----------l 135 (745)
+.| .|+++|.++.+.. +| ++.|++.+.. . .+++ +..+. ...++|+..+ .- +
T Consensus 188 ~~~-~ValvG~~NvGKS-SL----ln~L~~~~~~v~~~~~tT~d~~~~~i~~~~-~~~i~l~DT~-G~~~~l~~~lie~f 259 (351)
T TIGR03156 188 DVP-TVALVGYTNAGKS-TL----FNALTGADVYAADQLFATLDPTTRRLDLPD-GGEVLLTDTV-GFIRDLPHELVAAF 259 (351)
T ss_pred CCc-EEEEECCCCCCHH-HH----HHHHhCCceeeccCCccccCCEEEEEEeCC-CceEEEEecC-cccccCCHHHHHHH
Confidence 444 5889999987775 67 5555544311 1 2222 22221 2367776554 22 3
Q ss_pred HHHHhHHhhcceEEEEeeCCCccccccccccCh--HHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 136 VGCMEMAKVADLVAFVASASSFSEESMSYYIDS--FGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 136 ~~mLD~aKvADlVlllidas~g~~~~~~~~fd~--eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+++..++-||+||+|+|++.. ..++. ...++|..+...+.| ++.|++..|.
T Consensus 260 ~~tle~~~~ADlil~VvD~s~~------~~~~~~~~~~~~L~~l~~~~~p-iIlV~NK~Dl 313 (351)
T TIGR03156 260 RATLEEVREADLLLHVVDASDP------DREEQIEAVEKVLEELGAEDIP-QLLVYNKIDL 313 (351)
T ss_pred HHHHHHHHhCCEEEEEEECCCC------chHHHHHHHHHHHHHhccCCCC-EEEEEEeecC
Confidence 4567778889999999999852 11111 112444444433444 6778898885
No 125
>PRK09866 hypothetical protein; Provisional
Probab=91.57 E-value=0.91 Score=54.02 Aligned_cols=93 Identities=11% Similarity=0.106 Sum_probs=63.7
Q ss_pred eeEEEEeCCC-----CC-hH-HHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCC-CceEEEeccCCc
Q 004549 123 LRTSVLQAPH-----GD-LV-GCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL-PSTAVLIRDLPT 194 (745)
Q Consensus 123 ~R~tfie~~~-----~d-l~-~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl-P~vigvl~~L~~ 194 (745)
..+.|+--|- +. ++ .|.++.+=||+||||+|+.. ++...-.++++.|+..|- ..++.|++.+|.
T Consensus 230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~--------~~s~~DeeIlk~Lkk~~K~~PVILVVNKIDl 301 (741)
T PRK09866 230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQ--------LKSISDEEVREAILAVGQSVPLYVLVNKFDQ 301 (741)
T ss_pred CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCC--------CCChhHHHHHHHHHhcCCCCCEEEEEEcccC
Confidence 4566665432 12 33 48899999999999999984 355556789999998884 248888999986
Q ss_pred chhh-----hHHHHHHHHhhcccccCCCCeeEEeCC
Q 004549 195 DLKK-----RKDLKKMCISSLTSEFPEDCKFYAADT 225 (745)
Q Consensus 195 ~~Kk-----~~~~kK~lk~~f~~e~~~~~Klf~l~~ 225 (745)
.+ ...+++.++..+..+...-+++|++|.
T Consensus 302 --~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSA 335 (741)
T PRK09866 302 --QDRNSDDADQVRALISGTLMKGCITPQQIFPVSS 335 (741)
T ss_pred --CCcccchHHHHHHHHHHHHHhcCCCCceEEEEeC
Confidence 32 233455554444444445789999995
No 126
>cd04125 RabA_like RabA-like subfamily. RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=91.41 E-value=4.1 Score=40.30 Aligned_cols=101 Identities=8% Similarity=0.031 Sum_probs=57.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCCCChHH--HHhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPHGDLVG--CMEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~~dl~~--mLD~aKvADlVl 149 (745)
|+|+|.++.+.. +| +..|....... | ..++..+...-++.|+.++...-.. ....++=||.+|
T Consensus 3 i~v~G~~~vGKS-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~ii 77 (188)
T cd04125 3 VVIIGDYGVGKS-SL----LKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYL 77 (188)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEE
Confidence 789999988775 56 44443322211 2 2233444434567888876322222 234566799999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcC--CCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLG--LPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qG--lP~vigvl~~L~~ 194 (745)
||+|.+.. ..|+.- ..+|..++... -+.++.|.++.|.
T Consensus 78 lv~d~~~~------~s~~~i-~~~~~~i~~~~~~~~~~ivv~nK~Dl 117 (188)
T cd04125 78 LVYDVTDQ------ESFENL-KFWINEINRYARENVIKVIVANKSDL 117 (188)
T ss_pred EEEECcCH------HHHHHH-HHHHHHHHHhCCCCCeEEEEEECCCC
Confidence 99999853 334432 22444444321 2346778888885
No 127
>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....
Probab=91.32 E-value=1.2 Score=40.58 Aligned_cols=90 Identities=16% Similarity=0.193 Sum_probs=55.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC---------cceE--EEecCceeeEEEEeCCCC-C----------hHHHH
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA---------LSST--VSSSKYRLRTSVLQAPHG-D----------LVGCM 139 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---------g~~t--v~~~r~k~R~tfie~~~~-d----------l~~mL 139 (745)
|+|+|.++++.. +| ++.+++.+... .+.. +... ...+.|+-.|.- + +...+
T Consensus 2 V~iiG~~~~GKS-Tl----in~l~~~~~~~~~~~~~~T~~~~~~~~~~~--~~~~~~vDtpG~~~~~~~~~~~~~~~~~~ 74 (116)
T PF01926_consen 2 VAIIGRPNVGKS-TL----INALTGKKLAKVSNIPGTTRDPVYGQFEYN--NKKFILVDTPGINDGESQDNDGKEIRKFL 74 (116)
T ss_dssp EEEEESTTSSHH-HH----HHHHHTSTSSEESSSTTSSSSEEEEEEEET--TEEEEEEESSSCSSSSHHHHHHHHHHHHH
T ss_pred EEEECCCCCCHH-HH----HHHHhccccccccccccceeeeeeeeeeec--eeeEEEEeCCCCcccchhhHHHHHHHHHH
Confidence 789999997765 66 44443322111 2211 1122 367788888731 1 23467
Q ss_pred hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEE
Q 004549 140 EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAV 187 (745)
Q Consensus 140 D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vig 187 (745)
....-||++++++|++. .....-.++++.|+ ++-|-++.
T Consensus 75 ~~~~~~d~ii~vv~~~~--------~~~~~~~~~~~~l~-~~~~~i~v 113 (116)
T PF01926_consen 75 EQISKSDLIIYVVDASN--------PITEDDKNILRELK-NKKPIILV 113 (116)
T ss_dssp HHHCTESEEEEEEETTS--------HSHHHHHHHHHHHH-TTSEEEEE
T ss_pred HHHHHCCEEEEEEECCC--------CCCHHHHHHHHHHh-cCCCEEEE
Confidence 77788999999999873 24455668888887 66665543
No 128
>cd04124 RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b
Probab=91.30 E-value=9.4 Score=36.71 Aligned_cols=100 Identities=10% Similarity=0.077 Sum_probs=58.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlVl 149 (745)
|+|+|.++.+.. +| +..|....... + ...+........+.++.++.. ...++.. .++-||.+|
T Consensus 3 i~vvG~~~vGKT-sl----i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i 77 (161)
T cd04124 3 IILLGDSAVGKS-KL----VERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACI 77 (161)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEE
Confidence 789999998775 66 44443222111 1 112233444567788887632 2445544 478899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
+|+|++.. ..|+. -.+.+..++.. ++ .++.|++..|.
T Consensus 78 ~v~d~~~~------~s~~~-~~~~~~~i~~~~~~~-p~ivv~nK~Dl 116 (161)
T cd04124 78 LVFDVTRK------ITYKN-LSKWYEELREYRPEI-PCIVVANKIDL 116 (161)
T ss_pred EEEECCCH------HHHHH-HHHHHHHHHHhCCCC-cEEEEEECccC
Confidence 99999853 23433 23556666544 44 45677888885
No 129
>cd01868 Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP
Probab=91.30 E-value=3.1 Score=39.83 Aligned_cols=102 Identities=10% Similarity=0.025 Sum_probs=58.9
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADlV 148 (745)
=|+|+|.++++.. +| +.+|....... | ..++..+...-++.++..+. ..+..+.. .++-||.+
T Consensus 5 ki~vvG~~~~GKS-sl----i~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~ 79 (165)
T cd01868 5 KIVLIGDSGVGKS-NL----LSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGA 79 (165)
T ss_pred EEEEECCCCCCHH-HH----HHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEE
Confidence 3789999998876 66 55554333211 2 23344454456788888763 12344443 34779999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
|+|+|++.. ..|+. -.+.|..++.+.. +.++.|.++.|.
T Consensus 80 i~v~d~~~~------~s~~~-~~~~~~~~~~~~~~~~pi~vv~nK~Dl 120 (165)
T cd01868 80 LLVYDITKK------QTFEN-VERWLKELRDHADSNIVIMLVGNKSDL 120 (165)
T ss_pred EEEEECcCH------HHHHH-HHHHHHHHHHhCCCCCeEEEEEECccc
Confidence 999999842 22332 2234444443321 236677888885
No 130
>cd04110 Rab35 Rab35 subfamily. Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is
Probab=91.28 E-value=4.3 Score=40.88 Aligned_cols=103 Identities=10% Similarity=-0.001 Sum_probs=58.6
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCC------CC----cceEEEecCceeeEEEEeCCCCC-hHHH-HhHHhhcce
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGT------GA----LSSTVSSSKYRLRTSVLQAPHGD-LVGC-MEMAKVADL 147 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~----g~~tv~~~r~k~R~tfie~~~~d-l~~m-LD~aKvADl 147 (745)
+=|+|+|+++.+.. +| +..|..... +. ...++..+..+.++.++.++... +..+ --.++-||.
T Consensus 7 ~kivvvG~~~vGKT-sl----i~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~ 81 (199)
T cd04110 7 FKLLIIGDSGVGKS-SL----LLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHG 81 (199)
T ss_pred eEEEEECCCCCCHH-HH----HHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcE
Confidence 44889999988775 56 444432211 11 23344445556788899887322 2222 224566999
Q ss_pred EEEEeeCCCccccccccccChHHHHHHHHHHhc-CCCceEEEeccCCc
Q 004549 148 VAFVASASSFSEESMSYYIDSFGNQCLSVFRSL-GLPSTAVLIRDLPT 194 (745)
Q Consensus 148 Vlllidas~g~~~~~~~~fd~eg~e~L~~l~~q-GlP~vigvl~~L~~ 194 (745)
+|+|+|++.. ..|+.- ...|+.++.+ +-..++.|.+..|.
T Consensus 82 iilv~D~~~~------~s~~~~-~~~~~~i~~~~~~~piivVgNK~Dl 122 (199)
T cd04110 82 VIVVYDVTNG------ESFVNV-KRWLQEIEQNCDDVCKVLVGNKNDD 122 (199)
T ss_pred EEEEEECCCH------HHHHHH-HHHHHHHHHhCCCCCEEEEEECccc
Confidence 9999999842 224322 2344444443 33445666787775
No 131
>cd00879 Sar1 Sar1 subfamily. Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.
Probab=91.03 E-value=4.7 Score=39.76 Aligned_cols=102 Identities=12% Similarity=0.122 Sum_probs=59.3
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCC-----CCcc--eEEEecCceeeEEEEeCCCCC--hHHH-HhHHhhcceE
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGT-----GALS--STVSSSKYRLRTSVLQAPHGD--LVGC-MEMAKVADLV 148 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-----~~g~--~tv~~~r~k~R~tfie~~~~d--l~~m-LD~aKvADlV 148 (745)
+.-|+|+|+++++.. +| ++.++.... +.++ ..+..+ ..++.++..+ .. ...+ ....+-||.+
T Consensus 19 ~~ki~ilG~~~~GKS-tL----i~~l~~~~~~~~~~T~~~~~~~i~~~--~~~~~l~D~~-G~~~~~~~~~~~~~~ad~i 90 (190)
T cd00879 19 EAKILFLGLDNAGKT-TL----LHMLKDDRLAQHVPTLHPTSEELTIG--NIKFKTFDLG-GHEQARRLWKDYFPEVDGI 90 (190)
T ss_pred CCEEEEECCCCCCHH-HH----HHHHhcCCCcccCCccCcceEEEEEC--CEEEEEEECC-CCHHHHHHHHHHhccCCEE
Confidence 455699999998775 56 444443211 1122 233333 2577788876 33 2232 4456889999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
++++|++.. ..|+..-..+..+++.... ..++.|++..|.
T Consensus 91 ilV~D~~~~------~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl 132 (190)
T cd00879 91 VFLVDAADP------ERFQESKEELDSLLSDEELANVPFLILGNKIDL 132 (190)
T ss_pred EEEEECCcH------HHHHHHHHHHHHHHcCccccCCCEEEEEeCCCC
Confidence 999999842 2354444455555553332 235667888875
No 132
>cd04123 Rab21 Rab21 subfamily. The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site
Probab=90.95 E-value=3.5 Score=38.85 Aligned_cols=104 Identities=11% Similarity=0.109 Sum_probs=54.4
Q ss_pred EEEecCCCccChhhHHHHHHHhh-ccCCCCC-----cceEEEecCceeeEEEEeCCCCC-hHHHHhH-HhhcceEEEEee
Q 004549 82 IVLFGLSASVNLNSVREDLLRQL-SSEGTGA-----LSSTVSSSKYRLRTSVLQAPHGD-LVGCMEM-AKVADLVAFVAS 153 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~-~~~~~~~-----g~~tv~~~r~k~R~tfie~~~~d-l~~mLD~-aKvADlVlllid 153 (745)
|+|+|+++++.. +|++.++... ....... ...++.....+.++.++.++... ...+... .+-||.+|+|+|
T Consensus 3 i~i~G~~~~GKS-tli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d 81 (162)
T cd04123 3 VVLLGEGRVGKT-SLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYD 81 (162)
T ss_pred EEEECCCCCCHH-HHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEE
Confidence 789999987765 5622223221 1111111 11223333445678899987322 3344333 466999999999
Q ss_pred CCCccccccccccChHHHHHHHHHHh-c--CCCceEEEeccCCc
Q 004549 154 ASSFSEESMSYYIDSFGNQCLSVFRS-L--GLPSTAVLIRDLPT 194 (745)
Q Consensus 154 as~g~~~~~~~~fd~eg~e~L~~l~~-q--GlP~vigvl~~L~~ 194 (745)
.+.+ ..|+... .++..++. . ++ .++.|+++.|.
T Consensus 82 ~~~~------~s~~~~~-~~~~~i~~~~~~~~-piiiv~nK~D~ 117 (162)
T cd04123 82 ITDA------DSFQKVK-KWIKELKQMRGNNI-SLVIVGNKIDL 117 (162)
T ss_pred CCCH------HHHHHHH-HHHHHHHHhCCCCC-eEEEEEECccc
Confidence 8853 2233222 22223222 2 33 36667888885
No 133
>PRK00093 GTP-binding protein Der; Reviewed
Probab=90.74 E-value=2.1 Score=48.63 Aligned_cols=98 Identities=9% Similarity=0.133 Sum_probs=62.4
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC---CC--cc------eEEEecCceeeEEEEeCCC-CC----h----H-HHH
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT---GA--LS------STVSSSKYRLRTSVLQAPH-GD----L----V-GCM 139 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~--g~------~tv~~~r~k~R~tfie~~~-~d----l----~-~mL 139 (745)
.|+|+|.++.+.. +| +..+.+... .. |. ..+.... ..+.++.+|- .+ + . ..+
T Consensus 3 ~I~ivG~~~vGKS-tL----~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~ 75 (435)
T PRK00093 3 VVAIVGRPNVGKS-TL----FNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAE 75 (435)
T ss_pred EEEEECCCCCCHH-HH----HHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHH
Confidence 5888999987664 56 444433221 11 11 1122222 5788888863 22 1 1 134
Q ss_pred hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 140 EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 140 D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+..-||+||+|+|++.+ +.....++...|+..|.| ++.|++..|.
T Consensus 76 ~~~~~ad~il~vvd~~~~--------~~~~~~~~~~~l~~~~~p-iilv~NK~D~ 121 (435)
T PRK00093 76 LAIEEADVILFVVDGRAG--------LTPADEEIAKILRKSNKP-VILVVNKVDG 121 (435)
T ss_pred HHHHhCCEEEEEEECCCC--------CCHHHHHHHHHHHHcCCc-EEEEEECccC
Confidence 567889999999999954 666667788888888887 5567888885
No 134
>cd04150 Arf1_5_like Arf1-Arf5-like subfamily. This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents
Probab=90.68 E-value=4.1 Score=39.33 Aligned_cols=100 Identities=15% Similarity=0.097 Sum_probs=59.8
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-----CCcc--eEEEecCceeeEEEEeCCCCC-hHHHHhH-HhhcceEEEEe
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-----GALS--STVSSSKYRLRTSVLQAPHGD-LVGCMEM-AKVADLVAFVA 152 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-----~~g~--~tv~~~r~k~R~tfie~~~~d-l~~mLD~-aKvADlVllli 152 (745)
|+++|.++++.. +| +..|..... +.|. .++... ...+.++.++-.+ +..+... .+-||.+|||+
T Consensus 3 v~~~G~~~~GKT-sl----i~~l~~~~~~~~~pt~g~~~~~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~ 75 (159)
T cd04150 3 ILMVGLDAAGKT-TI----LYKLKLGEIVTTIPTIGFNVETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVV 75 (159)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCcccCCCCCcceEEEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEE
Confidence 788999988775 56 443321111 1121 122322 3567788876322 4455444 68899999999
Q ss_pred eCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 153 SASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 153 das~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
|++.- ..|+..-.++.+.+....+ +.++.|.+..|.
T Consensus 76 D~~~~------~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl 113 (159)
T cd04150 76 DSNDR------ERIGEAREELQRMLNEDELRDAVLLVFANKQDL 113 (159)
T ss_pred eCCCH------HHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCC
Confidence 99842 3466665666666655443 456667888885
No 135
>PRK04213 GTP-binding protein; Provisional
Probab=90.66 E-value=6.6 Score=39.23 Aligned_cols=150 Identities=16% Similarity=0.139 Sum_probs=75.8
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCCC---cceEEEecCc-eeeEEEEeCCCC--C-----------hHH----
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA---LSSTVSSSKY-RLRTSVLQAPHG--D-----------LVG---- 137 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---g~~tv~~~r~-k~R~tfie~~~~--d-----------l~~---- 137 (745)
..-|+|+|.++.+.. +| ++.|+...... ..+|.....+ -..++++..| + . +..
T Consensus 9 ~~~i~i~G~~~~GKS-sL----in~l~~~~~~~~~~~~~t~~~~~~~~~~~~l~Dt~-G~~~~~~~~~~~~~~~~~~~~~ 82 (201)
T PRK04213 9 KPEIVFVGRSNVGKS-TL----VRELTGKKVRVGKRPGVTRKPNHYDWGDFILTDLP-GFGFMSGVPKEVQEKIKDEIVR 82 (201)
T ss_pred CCEEEEECCCCCCHH-HH----HHHHhCCCCccCCCCceeeCceEEeecceEEEeCC-ccccccccCHHHHHHHHHHHHH
Confidence 456899999988775 56 55554332211 1112211101 1257788776 3 1 111
Q ss_pred HH-hHHhhcceEEEEeeCCCcccccccccc-----ChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcc
Q 004549 138 CM-EMAKVADLVAFVASASSFSEESMSYYI-----DSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLT 211 (745)
Q Consensus 138 mL-D~aKvADlVlllidas~g~~~~~~~~f-----d~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~ 211 (745)
.+ ..+..+|+|++|+|++....- ...+ -....+++..++..|+|- +.|++..|.. .+..+....+...+.
T Consensus 83 ~~~~~~~~~~~vi~v~d~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~~~p~-iiv~NK~Dl~-~~~~~~~~~~~~~~~ 158 (201)
T PRK04213 83 YIEDNADRILAAVLVVDGKSFIEI--IERWEGRGEIPIDVEMFDFLRELGIPP-IVAVNKMDKI-KNRDEVLDEIAERLG 158 (201)
T ss_pred HHHhhhhhheEEEEEEeCcccccc--ccccccCCCcHHHHHHHHHHHHcCCCe-EEEEECcccc-CcHHHHHHHHHHHhc
Confidence 12 356778999999999742000 0001 012467788888889885 6688888851 111222333333332
Q ss_pred cc-cC--CCCeeEEeCCHH-HHHHHHHHHhh
Q 004549 212 SE-FP--EDCKFYAADTKD-ELHKFLWLFKE 238 (745)
Q Consensus 212 ~e-~~--~~~Klf~l~~~~-e~~nL~R~I~~ 238 (745)
.. .+ -+..+|.+|..+ -+..|...|..
T Consensus 159 ~~~~~~~~~~~~~~~SA~~ggi~~l~~~l~~ 189 (201)
T PRK04213 159 LYPPWRQWQDIIAPISAKKGGIEELKEAIRK 189 (201)
T ss_pred CCccccccCCcEEEEecccCCHHHHHHHHHH
Confidence 10 00 023577777332 44455555543
No 136
>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t
Probab=90.62 E-value=3.4 Score=39.69 Aligned_cols=101 Identities=9% Similarity=0.050 Sum_probs=57.1
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCCCC-hHHHH-hHHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPHGD-LVGCM-EMAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~~d-l~~mL-D~aKvADlV 148 (745)
=|+|+|+++.+.. +| +.++....... | ..++..++.+.++.++.++... +..+. ..++-||.+
T Consensus 4 ki~i~G~~~vGKS-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~i 78 (166)
T cd01869 4 KLLLIGDSGVGKS-CL----LLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGI 78 (166)
T ss_pred EEEEECCCCCCHH-HH----HHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEE
Confidence 3789999988775 56 44443222111 2 1223334445678889887322 33332 456779999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHh---cCCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~---qGlP~vigvl~~L~~ 194 (745)
|+++|++.. ..|+.- .+++..++. .++| ++.|.++.|.
T Consensus 79 i~v~d~~~~------~s~~~l-~~~~~~~~~~~~~~~~-~iiv~nK~Dl 119 (166)
T cd01869 79 IIVYDVTDQ------ESFNNV-KQWLQEIDRYASENVN-KLLVGNKCDL 119 (166)
T ss_pred EEEEECcCH------HHHHhH-HHHHHHHHHhCCCCCc-EEEEEEChhc
Confidence 999999842 223322 234444443 3555 4556777774
No 137
>cd01864 Rab19 Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=90.61 E-value=2.1 Score=41.18 Aligned_cols=102 Identities=11% Similarity=0.063 Sum_probs=60.3
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCC------CCCc----ceEEEecCceeeEEEEeCCCCC-hHH-HHhHHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEG------TGAL----SSTVSSSKYRLRTSVLQAPHGD-LVG-CMEMAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~------~~~g----~~tv~~~r~k~R~tfie~~~~d-l~~-mLD~aKvADlV 148 (745)
=|+|+|.++++.. +| +..|.... .+.| ..++..+..+-+++++.+|... +.. ....++-||.+
T Consensus 5 kv~vvG~~~~GKT-sl----i~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ 79 (165)
T cd01864 5 KIILIGDSNVGKT-CV----VQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGA 79 (165)
T ss_pred EEEEECCCCCCHH-HH----HHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEE
Confidence 4788999988775 56 33332211 1112 2334445444688899987322 333 23456779999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhcCCC--ceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLP--STAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP--~vigvl~~L~~ 194 (745)
|+++|++.. ..|+. -...|..++.++-+ .++.|.+..|.
T Consensus 80 llv~d~~~~------~s~~~-~~~~~~~i~~~~~~~~p~ivv~nK~Dl 120 (165)
T cd01864 80 IIAYDITRR------SSFES-VPHWIEEVEKYGASNVVLLLIGNKCDL 120 (165)
T ss_pred EEEEECcCH------HHHHh-HHHHHHHHHHhCCCCCcEEEEEECccc
Confidence 999999853 23432 34566666665432 25667888885
No 138
>TIGR00490 aEF-2 translation elongation factor aEF-2. This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.
Probab=90.56 E-value=1.7 Score=53.11 Aligned_cols=64 Identities=11% Similarity=0.087 Sum_probs=52.0
Q ss_pred eeeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 122 RLRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+.++.|+-||- .++ ..+..+...||.+|||+|+..| +..++.++++.+...|+|.+ .|++.+|.
T Consensus 85 ~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g--------~~~~t~~~~~~~~~~~~p~i-vviNKiD~ 150 (720)
T TIGR00490 85 EYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEG--------VMPQTETVLRQALKENVKPV-LFINKVDR 150 (720)
T ss_pred ceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCC--------CCccHHHHHHHHHHcCCCEE-EEEEChhc
Confidence 56889999872 333 4678889999999999999854 77789999999999999975 67787774
No 139
>cd04139 RalA_RalB RalA/RalB subfamily. The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo
Probab=90.53 E-value=4 Score=38.64 Aligned_cols=102 Identities=12% Similarity=0.095 Sum_probs=58.5
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCC-C-----cc---eEEEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTG-A-----LS---STVSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-~-----g~---~tv~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlVl 149 (745)
-|+++|+++.+.. +| ++.++..... . +. ..+.....+.++.++..+.. +...+. .+.+.+|.++
T Consensus 2 ki~~~G~~~~GKT-sl----~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i 76 (164)
T cd04139 2 KVIVVGAGGVGKS-AL----TLQFMYDEFVEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFL 76 (164)
T ss_pred EEEEECCCCCCHH-HH----HHHHHhCCCccccCCcchhhEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEE
Confidence 3789999987765 56 4444322111 1 11 12233434567888877632 333333 3668889999
Q ss_pred EEeeCCCccccccccccC---hHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYID---SFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd---~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+++|.+.. ..|+ .+...++.+...+++| ++.|++..|.
T Consensus 77 ~v~d~~~~------~s~~~~~~~~~~~~~~~~~~~~p-iiiv~NK~D~ 117 (164)
T cd04139 77 LVFSITDM------ESFTATAEFREQILRVKDDDNVP-LLLVGNKCDL 117 (164)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHhcCCCCCC-EEEEEEcccc
Confidence 99998742 2243 4444555444446777 5666787775
No 140
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=90.47 E-value=1.3 Score=40.08 Aligned_cols=74 Identities=18% Similarity=0.050 Sum_probs=39.6
Q ss_pred EEEecCCCccChhhHHHHHHHhhcc-CC--CCC-----cceEEEecCceeeEEEEeCCCCC-hHHH-HhHHhhcceEEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSS-EG--TGA-----LSSTVSSSKYRLRTSVLQAPHGD-LVGC-MEMAKVADLVAFV 151 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~-~~--~~~-----g~~tv~~~r~k~R~tfie~~~~d-l~~m-LD~aKvADlVlll 151 (745)
|+|+|.++++.. +|++.|+..... .. ... +..+.....-.+.+.|.+++..+ .... -.+.+-||.+|||
T Consensus 2 I~V~G~~g~GKT-sLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv 80 (119)
T PF08477_consen 2 IVVLGDSGVGKT-SLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV 80 (119)
T ss_dssp EEEECSTTSSHH-HHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred EEEECcCCCCHH-HHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence 789999987765 562222322211 00 011 11122333334568889987322 1111 1237889999999
Q ss_pred eeCCC
Q 004549 152 ASASS 156 (745)
Q Consensus 152 idas~ 156 (745)
+|.+.
T Consensus 81 ~D~s~ 85 (119)
T PF08477_consen 81 YDLSD 85 (119)
T ss_dssp EECCG
T ss_pred EcCCC
Confidence 99984
No 141
>cd04142 RRP22 RRP22 subfamily. RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.
Probab=90.43 E-value=4.6 Score=40.92 Aligned_cols=141 Identities=11% Similarity=0.082 Sum_probs=69.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCCC------ChHH----HHhH
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPHG------DLVG----CMEM 141 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~~------dl~~----mLD~ 141 (745)
|+|+|.++.+.. +| +..|....... + ..++.....+.+++++.++.- .... ...+
T Consensus 3 I~ivG~~~vGKT-sL----i~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~ 77 (198)
T cd04142 3 VAVLGAPGVGKT-AI----VRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRG 77 (198)
T ss_pred EEEECCCCCcHH-HH----HHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhh
Confidence 789999988775 56 44443222111 1 113334444567888887520 1111 1223
Q ss_pred HhhcceEEEEeeCCCccccccccccCh---HHHHHHHHHH--hcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCC
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDS---FGNQCLSVFR--SLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPE 216 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~---eg~e~L~~l~--~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~ 216 (745)
.+-||.+|||+|++.. ..|+. +-.++++... ..++| ++.|.+..|.. ..+...+..++.......
T Consensus 78 ~~~ad~iilv~D~~~~------~S~~~~~~~~~~i~~~~~~~~~~~p-iiivgNK~Dl~-~~~~~~~~~~~~~~~~~~-- 147 (198)
T cd04142 78 LRNSRAFILVYDICSP------DSFHYVKLLRQQILETRPAGNKEPP-IVVVGNKRDQQ-RHRFAPRHVLSVLVRKSW-- 147 (198)
T ss_pred hccCCEEEEEEECCCH------HHHHHHHHHHHHHHHhcccCCCCCC-EEEEEECcccc-ccccccHHHHHHHHHHhc--
Confidence 5789999999999853 22432 2223333321 24444 45567777751 111111222222211111
Q ss_pred CCeeEEeCC--HHHHHHHHHHHh
Q 004549 217 DCKFYAADT--KDELHKFLWLFK 237 (745)
Q Consensus 217 ~~Klf~l~~--~~e~~nL~R~I~ 237 (745)
+..+|..|. ...+.+|...|.
T Consensus 148 ~~~~~e~Sak~g~~v~~lf~~i~ 170 (198)
T cd04142 148 KCGYLECSAKYNWHILLLFKELL 170 (198)
T ss_pred CCcEEEecCCCCCCHHHHHHHHH
Confidence 456777773 334555555544
No 142
>cd04135 Tc10 TC10 subfamily. TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti
Probab=90.13 E-value=4.1 Score=39.37 Aligned_cols=101 Identities=8% Similarity=0.071 Sum_probs=58.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCC-----C----cceEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTG-----A----LSSTVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-----~----g~~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVll 150 (745)
|+|+|+++.+.. +| +..|...... . ...++..+..+-+++++.++..+ ...+-+ ..+-||.+|+
T Consensus 3 i~i~G~~~~GKT-sl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~il 77 (174)
T cd04135 3 CVVVGDGAVGKT-CL----LMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLI 77 (174)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEE
Confidence 789999998775 56 4444332211 1 12344555555668889887332 222222 2456899999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
++|.+.. ..|+.-...++..+... +.| ++.|.++.|.
T Consensus 78 v~~~~~~------~s~~~~~~~~~~~l~~~~~~~p-iivv~nK~Dl 116 (174)
T cd04135 78 CFSVVNP------ASFQNVKEEWVPELKEYAPNVP-YLLVGTQIDL 116 (174)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhhCCCCC-EEEEeEchhh
Confidence 9998742 34554444455555543 443 3556788774
No 143
>cd00157 Rho Rho (Ras homology) family. Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein
Probab=90.06 E-value=4.3 Score=38.88 Aligned_cols=103 Identities=12% Similarity=0.052 Sum_probs=60.7
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC-----CC----cceEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT-----GA----LSSTVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-----~~----g~~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVl 149 (745)
-|+|+|.++++.. +| ++.|+.... .. -..++..+.....++|+.+|... ...+.. ..+-||.++
T Consensus 2 ki~i~G~~~~GKS-sl----i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i 76 (171)
T cd00157 2 KIVVVGDGAVGKT-CL----LISYTTGKFPTEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFL 76 (171)
T ss_pred EEEEECCCCCCHH-HH----HHHHHhCCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEE
Confidence 3789999988775 66 454543332 11 12233334445678899887322 112211 236699999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcCC-CceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLGL-PSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qGl-P~vigvl~~L~~ 194 (745)
+++|++.. ..|+....+++..+..... ..++.|+++.|.
T Consensus 77 ~v~d~~~~------~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl 116 (171)
T cd00157 77 ICFSVDSP------SSFENVKTKWIPEIRHYCPNVPIILVGTKIDL 116 (171)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHhhCCCCCEEEEEccHHh
Confidence 99998842 3355555566776665542 345666787774
No 144
>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases. Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.
Probab=89.90 E-value=2.4 Score=42.16 Aligned_cols=100 Identities=9% Similarity=0.136 Sum_probs=58.7
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCC-----Ccce--EEEecCceeeEEEEeCCCCC--hHHH-HhHHhhcceEE
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTG-----ALSS--TVSSSKYRLRTSVLQAPHGD--LVGC-MEMAKVADLVA 149 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-----~g~~--tv~~~r~k~R~tfie~~~~d--l~~m-LD~aKvADlVl 149 (745)
.-|+++|+++.+.. +| ++.+...... .++. ++... +.++.++.++ .. ...+ -...+-||.+|
T Consensus 18 ~~i~ivG~~~~GKT-sl----i~~l~~~~~~~~~~t~~~~~~~~~~~--~~~~~~~D~~-G~~~~~~~~~~~~~~ad~ii 89 (184)
T smart00178 18 AKILFLGLDNAGKT-TL----LHMLKNDRLAQHQPTQHPTSEELAIG--NIKFTTFDLG-GHQQARRLWKDYFPEVNGIV 89 (184)
T ss_pred CEEEEECCCCCCHH-HH----HHHHhcCCCcccCCccccceEEEEEC--CEEEEEEECC-CCHHHHHHHHHHhCCCCEEE
Confidence 55789999998775 56 5555432211 1322 23333 3577888887 32 2232 23467899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHH---hcCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFR---SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~---~qGlP~vigvl~~L~~ 194 (745)
+|+|++.. ..|.....++..+++ ..|.| ++.|+++.|.
T Consensus 90 ~vvD~~~~------~~~~~~~~~l~~l~~~~~~~~~p-iliv~NK~Dl 130 (184)
T smart00178 90 YLVDAYDK------ERFAESKRELDALLSDEELATVP-FLILGNKIDA 130 (184)
T ss_pred EEEECCcH------HHHHHHHHHHHHHHcChhhcCCC-EEEEEeCccc
Confidence 99999842 224433334444443 35665 6777888774
No 145
>PLN00116 translation elongation factor EF-2 subunit; Provisional
Probab=89.89 E-value=1.5 Score=54.47 Aligned_cols=63 Identities=8% Similarity=0.041 Sum_probs=51.1
Q ss_pred eeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCC
Q 004549 122 RLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLP 193 (745)
Q Consensus 122 k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~ 193 (745)
..+++||-||- .| +..++-++.+||.+|+|+||.. ++...|..+|+.+..+|+|.++.| +.+|
T Consensus 97 ~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~--------Gv~~~t~~~~~~~~~~~~p~i~~i-NK~D 161 (843)
T PLN00116 97 EYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIE--------GVCVQTETVLRQALGERIRPVLTV-NKMD 161 (843)
T ss_pred ceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCC--------CCcccHHHHHHHHHHCCCCEEEEE-ECCc
Confidence 46789999982 24 4567888899999999999995 478889999999999999997655 4444
No 146
>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1). This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).
Probab=89.75 E-value=6 Score=39.74 Aligned_cols=150 Identities=17% Similarity=0.175 Sum_probs=76.8
Q ss_pred EEEEecCCCccChhhHHHHHHHhhc-cCCCCCcceEEEecC-----ceeeEEEEeCCC-CCh-------H-HHHhHHhh-
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLS-SEGTGALSSTVSSSK-----YRLRTSVLQAPH-GDL-------V-GCMEMAKV- 144 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~-~~~~~~g~~tv~~~r-----~k~R~tfie~~~-~dl-------~-~mLD~aKv- 144 (745)
-|+++|.++++.. ++.+.|+..-. .......+.|..+.. ..+++++|..|- .+. . .|..++.-
T Consensus 2 ~i~lvG~~g~GKS-sl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~ 80 (196)
T cd01852 2 RLVLVGKTGAGKS-ATGNTILGREVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLS 80 (196)
T ss_pred EEEEECCCCCCHH-HHHHHhhCCCccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccCChHHHHHHHHHHHHhc
Confidence 3789999887764 55333332110 000000112211110 136899998873 122 1 23333332
Q ss_pred ---cceEEEEeeCCCccccccccccChHHHHHHHHHHhc-C---CCceEEEeccCCc-chhh--------hHHHHHHHHh
Q 004549 145 ---ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSL-G---LPSTAVLIRDLPT-DLKK--------RKDLKKMCIS 208 (745)
Q Consensus 145 ---ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~q-G---lP~vigvl~~L~~-~~Kk--------~~~~kK~lk~ 208 (745)
+|+||||+++.. |..+-.++|..|+.. | +..+|.|+|+-|. .... ....++.+++
T Consensus 81 ~~g~~~illVi~~~~---------~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~ 151 (196)
T cd01852 81 APGPHAFLLVVPLGR---------FTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEK 151 (196)
T ss_pred CCCCEEEEEEEECCC---------cCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHH
Confidence 699999999872 555566677777654 3 5678888998773 1011 1123333332
Q ss_pred h--cccccCCCCeeEEeCCHHHHHHHHHHHhhcccc
Q 004549 209 S--LTSEFPEDCKFYAADTKDELHKFLWLFKEQRLT 242 (745)
Q Consensus 209 ~--f~~e~~~~~Klf~l~~~~e~~nL~R~I~~~k~r 242 (745)
. -.+.|...++ .-+....+..|+..|-.+-..
T Consensus 152 c~~r~~~f~~~~~--~~~~~~q~~~Ll~~i~~~~~~ 185 (196)
T cd01852 152 CGGRYVAFNNKAK--GEEQEQQVKELLAKVESMVKE 185 (196)
T ss_pred hCCeEEEEeCCCC--cchhHHHHHHHHHHHHHHHHh
Confidence 1 0112222222 223456788888888877654
No 147
>PRK11058 GTPase HflX; Provisional
Probab=89.54 E-value=5.1 Score=45.89 Aligned_cols=105 Identities=12% Similarity=0.190 Sum_probs=60.5
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhccCCCC--C------cce--EEEecCceeeEEEEeCCC--CC--------h
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTG--A------LSS--TVSSSKYRLRTSVLQAPH--GD--------L 135 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~--~------g~~--tv~~~r~k~R~tfie~~~--~d--------l 135 (745)
.+.|. |+|+|.++.+.. +| ++.|+..+.. . .+. .+..+. ...+.|+-.+- .+ +
T Consensus 195 ~~~p~-ValVG~~NaGKS-SL----lN~Lt~~~~~v~~~~~tTld~~~~~i~l~~-~~~~~l~DTaG~~r~lp~~lve~f 267 (426)
T PRK11058 195 ADVPT-VSLVGYTNAGKS-TL----FNRITEARVYAADQLFATLDPTLRRIDVAD-VGETVLADTVGFIRHLPHDLVAAF 267 (426)
T ss_pred cCCCE-EEEECCCCCCHH-HH----HHHHhCCceeeccCCCCCcCCceEEEEeCC-CCeEEEEecCcccccCCHHHHHHH
Confidence 35565 789999998875 67 5555443311 1 122 122222 12455555431 11 4
Q ss_pred HHHHhHHhhcceEEEEeeCCCccccccccccCh--HHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 136 VGCMEMAKVADLVAFVASASSFSEESMSYYIDS--FGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 136 ~~mLD~aKvADlVlllidas~g~~~~~~~~fd~--eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+++..++-||++|+|+|++.. ..++. ....+|..+...+.| ++.|++..|.
T Consensus 268 ~~tl~~~~~ADlIL~VvDaS~~------~~~e~l~~v~~iL~el~~~~~p-vIiV~NKiDL 321 (426)
T PRK11058 268 KATLQETRQATLLLHVVDAADV------RVQENIEAVNTVLEEIDAHEIP-TLLVMNKIDM 321 (426)
T ss_pred HHHHHHhhcCCEEEEEEeCCCc------cHHHHHHHHHHHHHHhccCCCC-EEEEEEcccC
Confidence 5567778889999999999852 11121 123556666555655 5678898885
No 148
>cd04119 RJL RJL (RabJ-Like) subfamily. RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.
Probab=89.53 E-value=4.4 Score=38.44 Aligned_cols=101 Identities=12% Similarity=0.081 Sum_probs=58.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCC-----C-----cceEEEecCceeeEEEEeCCCCC-hHHHH-hHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTG-----A-----LSSTVSSSKYRLRTSVLQAPHGD-LVGCM-EMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-----~-----g~~tv~~~r~k~R~tfie~~~~d-l~~mL-D~aKvADlVl 149 (745)
|+|+|.++.+.. +| +..|+..... . +...+.......++.|+.++-.+ ...+. ...+-||.+|
T Consensus 3 i~~vG~~~vGKT-sl----i~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i 77 (168)
T cd04119 3 VISMGNSGVGKS-CI----IKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVL 77 (168)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEE
Confidence 789999998776 66 4444332211 1 23344444556788899887322 33333 2457799999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcC-------CCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLG-------LPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qG-------lP~vigvl~~L~~ 194 (745)
+|+|.+.. ..|+. -.+.+..++... -+.++.|.+..|.
T Consensus 78 lv~D~~~~------~s~~~-~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl 122 (168)
T cd04119 78 LVYDVTDR------QSFEA-LDSWLKEMKQEGGPHGNMENIVVVVCANKIDL 122 (168)
T ss_pred EEEECCCH------HHHHh-HHHHHHHHHHhccccccCCCceEEEEEEchhc
Confidence 99999842 22432 223444443332 1456777887774
No 149
>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu
Probab=89.49 E-value=6.5 Score=37.31 Aligned_cols=99 Identities=14% Similarity=0.165 Sum_probs=58.1
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC-----c--ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceEEEEe
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA-----L--SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLVAFVA 152 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g--~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlVllli 152 (745)
|+|+|.++++.. +| +..++...... | ..++... ...+.++.+|-. ...++.. +.+-||.+|+|+
T Consensus 2 i~iiG~~~~GKs-sl----i~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~ 74 (158)
T cd00878 2 ILILGLDGAGKT-TI----LYKLKLGEVVTTIPTIGFNVETVEYK--NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVV 74 (158)
T ss_pred EEEEcCCCCCHH-HH----HHHHhcCCCCCCCCCcCcceEEEEEC--CEEEEEEECCCChhhHHHHHHHhccCCEEEEEE
Confidence 689999988775 56 44443322211 2 2222222 357888887731 2334444 447899999999
Q ss_pred eCCCccccccccccChHHHHHHHHHHh---cCCCceEEEeccCCc
Q 004549 153 SASSFSEESMSYYIDSFGNQCLSVFRS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 153 das~g~~~~~~~~fd~eg~e~L~~l~~---qGlP~vigvl~~L~~ 194 (745)
|++.+ ..|+..-..+..+++. .+.| ++.|+++.|.
T Consensus 75 D~~~~------~~~~~~~~~~~~~~~~~~~~~~p-iiiv~nK~D~ 112 (158)
T cd00878 75 DSSDR------ERIEEAKEELHKLLNEEELKGVP-LLIFANKQDL 112 (158)
T ss_pred ECCCH------HHHHHHHHHHHHHHhCcccCCCc-EEEEeeccCC
Confidence 99853 2355544555555553 3443 4556888885
No 150
>cd00882 Ras_like_GTPase Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb
Probab=89.40 E-value=5.5 Score=35.95 Aligned_cols=67 Identities=7% Similarity=0.001 Sum_probs=39.8
Q ss_pred ceeeEEEEeCCCCC--hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHH---HHHHHHhcCCCceEEEeccCCc
Q 004549 121 YRLRTSVLQAPHGD--LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQ---CLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 121 ~k~R~tfie~~~~d--l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e---~L~~l~~qGlP~vigvl~~L~~ 194 (745)
....++++.++..+ ........+-+|.+++++|++.+ ..++..... .+......+.| ++.|+++.|.
T Consensus 43 ~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~------~~~~~~~~~~~~~~~~~~~~~~~-~ivv~nk~D~ 114 (157)
T cd00882 43 KKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDR------ESFENVKEWLLLILINKEGENIP-IILVGNKIDL 114 (157)
T ss_pred EEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCH------HHHHHHHHHHHHHHHhhccCCCc-EEEEEecccc
Confidence 35778899987211 11223467889999999999953 222222222 33444445544 5667788775
No 151
>cd01892 Miro2 Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=89.29 E-value=2.6 Score=41.27 Aligned_cols=102 Identities=10% Similarity=0.038 Sum_probs=56.0
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCC-C------cc----eEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcc
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTG-A------LS----STVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVAD 146 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-~------g~----~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvAD 146 (745)
+=|+|+|.++.+.. +| +.+|...... . +. .++........+.+..+.... ...+-. ..+-||
T Consensus 5 ~kv~~vG~~~vGKT-sl----i~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d 79 (169)
T cd01892 5 FLCFVLGAKGSGKS-AL----LRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACD 79 (169)
T ss_pred EEEEEECCCCCcHH-HH----HHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCC
Confidence 34889999988775 56 5555433222 1 21 234444444566666665221 222222 247799
Q ss_pred eEEEEeeCCCccccccccccChHHHHHHHHHHh-cCCCceEEEeccCCc
Q 004549 147 LVAFVASASSFSEESMSYYIDSFGNQCLSVFRS-LGLPSTAVLIRDLPT 194 (745)
Q Consensus 147 lVlllidas~g~~~~~~~~fd~eg~e~L~~l~~-qGlP~vigvl~~L~~ 194 (745)
++|||+|++.. ..|+. -.+++..++. .++| ++.|++..|.
T Consensus 80 ~~llv~d~~~~------~s~~~-~~~~~~~~~~~~~~p-~iiv~NK~Dl 120 (169)
T cd01892 80 VACLVYDSSDP------KSFSY-CAEVYKKYFMLGEIP-CLFVAAKADL 120 (169)
T ss_pred EEEEEEeCCCH------HHHHH-HHHHHHHhccCCCCe-EEEEEEcccc
Confidence 99999999742 22322 1244443322 2444 6778888885
No 152
>PTZ00133 ADP-ribosylation factor; Provisional
Probab=89.16 E-value=6.3 Score=39.16 Aligned_cols=102 Identities=15% Similarity=0.082 Sum_probs=62.3
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCC-----CCCcc--eEEEecCceeeEEEEeCCCC-ChHHHHhH-HhhcceEEE
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEG-----TGALS--STVSSSKYRLRTSVLQAPHG-DLVGCMEM-AKVADLVAF 150 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~-----~~~g~--~tv~~~r~k~R~tfie~~~~-dl~~mLD~-aKvADlVll 150 (745)
+=|+++|+++.+.. +| +..+.... .+.|. .++... +-.++++.++-. .+..+.+. .+-||.+|+
T Consensus 18 ~kv~lvG~~~vGKT-sl----i~~~~~~~~~~~~~T~~~~~~~~~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~ 90 (182)
T PTZ00133 18 VRILMVGLDAAGKT-TI----LYKLKLGEVVTTIPTIGFNVETVEYK--NLKFTMWDVGGQDKLRPLWRHYYQNTNGLIF 90 (182)
T ss_pred cEEEEEcCCCCCHH-HH----HHHHhcCCccccCCccccceEEEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence 44889999998775 56 44332111 11121 112222 356788888732 25555443 688999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
|+|++.- ..|+..-.++.+.+..+-+ +.++.|.++.|.
T Consensus 91 v~D~t~~------~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl 130 (182)
T PTZ00133 91 VVDSNDR------ERIGDAREELERMLSEDELRDAVLLVFANKQDL 130 (182)
T ss_pred EEeCCCH------HHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCC
Confidence 9999742 3466666677777766433 456777888885
No 153
>cd04155 Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.
Probab=88.76 E-value=8 Score=37.29 Aligned_cols=102 Identities=19% Similarity=0.283 Sum_probs=60.0
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhccCCCC-----Ccce--EEEecCceeeEEEEeCCCCC--hHHH-HhHHhhcce
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSSEGTG-----ALSS--TVSSSKYRLRTSVLQAPHGD--LVGC-MEMAKVADL 147 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-----~g~~--tv~~~r~k~R~tfie~~~~d--l~~m-LD~aKvADl 147 (745)
.++-|+|+|+++++.. +| ++.+++.... .|.. .+... ...+.++.++ .. +..+ ....+-||.
T Consensus 13 ~~~~v~i~G~~g~GKS-tL----l~~l~~~~~~~~~~t~g~~~~~i~~~--~~~~~~~D~~-G~~~~~~~~~~~~~~~~~ 84 (173)
T cd04155 13 EEPRILILGLDNAGKT-TI----LKQLASEDISHITPTQGFNIKTVQSD--GFKLNVWDIG-GQRAIRPYWRNYFENTDC 84 (173)
T ss_pred CccEEEEEccCCCCHH-HH----HHHHhcCCCcccCCCCCcceEEEEEC--CEEEEEEECC-CCHHHHHHHHHHhcCCCE
Confidence 3667999999998875 66 5555443221 1311 22222 2567888876 33 3333 344577999
Q ss_pred EEEEeeCCCccccccccccChHHHHHHHHHH---hcCCCceEEEeccCCc
Q 004549 148 VAFVASASSFSEESMSYYIDSFGNQCLSVFR---SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 148 Vlllidas~g~~~~~~~~fd~eg~e~L~~l~---~qGlP~vigvl~~L~~ 194 (745)
+++++|++.. ..|+.....+...++ ..++| ++.|++..|.
T Consensus 85 ii~v~D~~~~------~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~ 127 (173)
T cd04155 85 LIYVIDSADK------KRLEEAGAELVELLEEEKLAGVP-VLVFANKQDL 127 (173)
T ss_pred EEEEEeCCCH------HHHHHHHHHHHHHHhChhhcCCC-EEEEEECCCC
Confidence 9999999842 234443444444433 34555 6667787775
No 154
>cd04111 Rab39 Rab39 subfamily. Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=88.74 E-value=5.9 Score=40.50 Aligned_cols=103 Identities=8% Similarity=0.030 Sum_probs=56.1
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC------cc----eEEEe-cCceeeEEEEeCCCCC-hHHHH-hHHhhcce
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA------LS----STVSS-SKYRLRTSVLQAPHGD-LVGCM-EMAKVADL 147 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g~----~tv~~-~r~k~R~tfie~~~~d-l~~mL-D~aKvADl 147 (745)
=|+|+|.++.+.. +| +..|....... |. .++.+ +....++.++.++... ...+. ...+-||.
T Consensus 4 KIvvvG~~~vGKT-sL----i~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ 78 (211)
T cd04111 4 RLIVIGDSTVGKS-SL----LKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVG 78 (211)
T ss_pred EEEEECCCCCCHH-HH----HHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcE
Confidence 3789999988765 56 44444332211 21 12222 2334578888876322 33332 45678999
Q ss_pred EEEEeeCCCccccccccccChHHHHHHHHHHhcC--CCceEEEeccCCc
Q 004549 148 VAFVASASSFSEESMSYYIDSFGNQCLSVFRSLG--LPSTAVLIRDLPT 194 (745)
Q Consensus 148 Vlllidas~g~~~~~~~~fd~eg~e~L~~l~~qG--lP~vigvl~~L~~ 194 (745)
+|+|+|.+.. ..|+.-...+-.+++..+ -+.++.|.++.|.
T Consensus 79 iilv~D~~~~------~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl 121 (211)
T cd04111 79 VLLVFDITNR------ESFEHVHDWLEEARSHIQPHRPVFILVGHKCDL 121 (211)
T ss_pred EEEEEECCCH------HHHHHHHHHHHHHHHhcCCCCCeEEEEEEcccc
Confidence 9999998842 335543332223333322 2334556777775
No 155
>cd01893 Miro1 Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.
Probab=88.59 E-value=11 Score=36.43 Aligned_cols=102 Identities=18% Similarity=0.179 Sum_probs=56.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-CC-----cceEE--EecCceeeEEEEeCCCCC-h-HHHHhHHhhcceEEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-GA-----LSSTV--SSSKYRLRTSVLQAPHGD-L-VGCMEMAKVADLVAFV 151 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~-----g~~tv--~~~r~k~R~tfie~~~~d-l-~~mLD~aKvADlVlll 151 (745)
|+|+|.++.+.. +| +..|..... .. ..+++ .....+.++.++-++-.. . ..+....+-||++||+
T Consensus 3 v~ivG~~~vGKT-sl----~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv 77 (166)
T cd01893 3 IVLIGDEGVGKS-SL----IMSLVSEEFPENVPRVLPEITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLV 77 (166)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCcCCccCCCcccceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEE
Confidence 678899887765 56 443322221 11 22232 222245677788775221 2 2345556889999999
Q ss_pred eeCCCccccccccccChHHHHHHHHHHhcC-CCceEEEeccCCc
Q 004549 152 ASASSFSEESMSYYIDSFGNQCLSVFRSLG-LPSTAVLIRDLPT 194 (745)
Q Consensus 152 idas~g~~~~~~~~fd~eg~e~L~~l~~qG-lP~vigvl~~L~~ 194 (745)
+|++.. ..|+.--...+..++.++ -..++.|+++.|.
T Consensus 78 ~d~~~~------~s~~~~~~~~~~~i~~~~~~~pviiv~nK~Dl 115 (166)
T cd01893 78 YSVDRP------STLERIRTKWLPLIRRLGVKVPIILVGNKSDL 115 (166)
T ss_pred EECCCH------HHHHHHHHHHHHHHHHhCCCCCEEEEEEchhc
Confidence 998843 335542223344444332 1346667888774
No 156
>cd04120 Rab12 Rab12 subfamily. Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic
Probab=88.52 E-value=5.6 Score=40.67 Aligned_cols=101 Identities=11% Similarity=0.147 Sum_probs=58.2
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC------CCc----ceEEEecCceeeEEEEeCCC-CChHHHH-hHHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT------GAL----SSTVSSSKYRLRTSVLQAPH-GDLVGCM-EMAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~g----~~tv~~~r~k~R~tfie~~~-~dl~~mL-D~aKvADlV 148 (745)
-|+|+|.++.+.. +| +.+|..... +.| ..++..+..+-+++++..+- ..+.++. ...+-||.+
T Consensus 2 ~vvvlG~~gVGKT-Sl----i~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~i 76 (202)
T cd04120 2 QVIIIGSRGVGKT-SL----MRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGI 76 (202)
T ss_pred EEEEECcCCCCHH-HH----HHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEE
Confidence 3789999988876 56 444432221 111 22344454456777887752 2244443 346789999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhc---CCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSL---GLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~q---GlP~vigvl~~L~~ 194 (745)
|||+|.+.. ..|+.- ...+..++.. ++| ++.|.++.|.
T Consensus 77 IlVfDvtd~------~Sf~~l-~~w~~~i~~~~~~~~p-iilVgNK~DL 117 (202)
T cd04120 77 ILVYDITKK------ETFDDL-PKWMKMIDKYASEDAE-LLLVGNKLDC 117 (202)
T ss_pred EEEEECcCH------HHHHHH-HHHHHHHHHhCCCCCc-EEEEEECccc
Confidence 999999852 335432 2344555543 444 4556787775
No 157
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=88.33 E-value=6.8 Score=39.52 Aligned_cols=132 Identities=15% Similarity=0.179 Sum_probs=72.8
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCC---CC---cc--eEEEecCc----eeeEEEEeCCC-CC----hHHHHhH
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGT---GA---LS--STVSSSKY----RLRTSVLQAPH-GD----LVGCMEM 141 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~---g~--~tv~~~r~----k~R~tfie~~~-~d----l~~mLD~ 141 (745)
|.-|+|+|.++.+.. +| ++.+++... .. |. +|.....+ ...++++..|- ++ ....+..
T Consensus 1 ~~kI~i~G~~g~GKS-SL----in~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~~~~~~l~~ 75 (197)
T cd04104 1 PLNIAVTGESGAGKS-SF----INALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAFPPDDYLEE 75 (197)
T ss_pred CeEEEEECCCCCCHH-HH----HHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccCCHHHHHHH
Confidence 556899999998775 67 444443221 11 21 12111111 13678888752 22 2333333
Q ss_pred H--hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcc--hh--------hhHHHHHHHHhh
Q 004549 142 A--KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTD--LK--------KRKDLKKMCISS 209 (745)
Q Consensus 142 a--KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~--~K--------k~~~~kK~lk~~ 209 (745)
. .-+|++|++.+.. |...-..++..|+..|.| ++.|++..|.. .. ++.++...++.+
T Consensus 76 ~~~~~~d~~l~v~~~~----------~~~~d~~~~~~l~~~~~~-~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~ 144 (197)
T cd04104 76 MKFSEYDFFIIISSTR----------FSSNDVKLAKAIQCMGKK-FYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDN 144 (197)
T ss_pred hCccCcCEEEEEeCCC----------CCHHHHHHHHHHHHhCCC-EEEEEecccchhhhhhccccccccHHHHHHHHHHH
Confidence 2 2368888886655 666667788888888754 57778877741 01 133444444544
Q ss_pred ccccc----CCCCeeEEeCCH
Q 004549 210 LTSEF----PEDCKFYAADTK 226 (745)
Q Consensus 210 f~~e~----~~~~Klf~l~~~ 226 (745)
+...+ .....+|-+|..
T Consensus 145 ~~~~~~~~~~~~p~v~~vS~~ 165 (197)
T cd04104 145 CLENLQEAGVSEPPVFLVSNF 165 (197)
T ss_pred HHHHHHHcCCCCCCEEEEeCC
Confidence 44433 234577877764
No 158
>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re
Probab=88.30 E-value=7.1 Score=38.23 Aligned_cols=101 Identities=6% Similarity=-0.034 Sum_probs=58.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlVl 149 (745)
|+|+|.++.+.. +| +.+|....... | ..++.......++.|+.++.. ....+. ..++=||++|
T Consensus 3 i~ivG~~~vGKT-sl----i~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i 77 (170)
T cd04108 3 VIVVGDLSVGKT-CL----INRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAII 77 (170)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEE
Confidence 679999888775 66 44443322211 1 122333444567888888621 233332 3367799999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcCCC---ceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLGLP---STAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP---~vigvl~~L~~ 194 (745)
||+|++.. ..|+.. .+.+..++.+-.| .++.|.++.|.
T Consensus 78 lv~d~~~~------~s~~~~-~~~~~~~~~~~~~~~~~iilVgnK~Dl 118 (170)
T cd04108 78 IVFDLTDV------ASLEHT-RQWLEDALKENDPSSVLLFLVGTKKDL 118 (170)
T ss_pred EEEECcCH------HHHHHH-HHHHHHHHHhcCCCCCeEEEEEEChhc
Confidence 99999742 234433 3455555444444 36788888885
No 159
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=88.25 E-value=6.1 Score=40.21 Aligned_cols=103 Identities=16% Similarity=0.203 Sum_probs=55.5
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC-------cceEEEec--CceeeEEEEeCCC-CChHHH-HhHHhhc-ceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA-------LSSTVSSS--KYRLRTSVLQAPH-GDLVGC-MEMAKVA-DLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-------g~~tv~~~--r~k~R~tfie~~~-~dl~~m-LD~aKvA-DlV 148 (745)
-|+++|+++++.. +| +.+|....... ...++... ....++.++.+|- ..+..+ ....+-+ +.|
T Consensus 2 ~vll~G~~~sGKT-sL----~~~l~~~~~~~t~~s~~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~v 76 (203)
T cd04105 2 TVLLLGPSDSGKT-AL----FTKLTTGKYRSTVTSIEPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGI 76 (203)
T ss_pred eEEEEcCCCCCHH-HH----HHHHhcCCCCCccCcEeecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEE
Confidence 3789999998876 56 44443322111 11122211 2245788898873 234443 4556677 999
Q ss_pred EEEeeCCCccccccccccCh---HHHHHHHHHHh--cCCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDS---FGNQCLSVFRS--LGLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~---eg~e~L~~l~~--qGlP~vigvl~~L~~ 194 (745)
|+|+|++... ..+.. +=+.+|+.++. .|.| ++.|.++.|.
T Consensus 77 V~VvD~~~~~-----~~~~~~~~~l~~il~~~~~~~~~~p-vliv~NK~Dl 121 (203)
T cd04105 77 VFVVDSATFQ-----KNLKDVAEFLYDILTDLEKVKNKIP-VLIACNKQDL 121 (203)
T ss_pred EEEEECccch-----hHHHHHHHHHHHHHHHHhhccCCCC-EEEEecchhh
Confidence 9999998520 11222 22233443333 3554 5566777664
No 160
>cd04154 Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=88.20 E-value=16 Score=35.56 Aligned_cols=102 Identities=14% Similarity=0.184 Sum_probs=59.4
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCCC-----c--ceEEEecCceeeEEEEeCCCCC-hHHH-HhHHhhcceEE
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-----L--SSTVSSSKYRLRTSVLQAPHGD-LVGC-MEMAKVADLVA 149 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g--~~tv~~~r~k~R~tfie~~~~d-l~~m-LD~aKvADlVl 149 (745)
+.-|+++|+++++.. +| +..+....... | ..++... ..++.++..+-.. +.++ -...+-||.++
T Consensus 14 ~~kv~ivG~~~~GKT-sL----~~~l~~~~~~~~~~t~g~~~~~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i 86 (173)
T cd04154 14 EMRILILGLDNAGKT-TI----LKKLLGEDIDTISPTLGFQIKTLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDALI 86 (173)
T ss_pred ccEEEEECCCCCCHH-HH----HHHHccCCCCCcCCccccceEEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence 345779999998876 67 44443332221 2 1223333 3578888887322 3333 33456799999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHH---hcCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFR---SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~---~qGlP~vigvl~~L~~ 194 (745)
+|+|++.. ..|+.....+..+++ ..+ +.++.|+++.|.
T Consensus 87 ~v~d~~~~------~s~~~~~~~~~~~~~~~~~~~-~p~iiv~nK~Dl 127 (173)
T cd04154 87 WVVDSSDR------LRLDDCKRELKELLQEERLAG-ATLLILANKQDL 127 (173)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHhChhhcC-CCEEEEEECccc
Confidence 99999853 235444434444443 245 446677888885
No 161
>PRK12299 obgE GTPase CgtA; Reviewed
Probab=88.15 E-value=4.9 Score=44.54 Aligned_cols=98 Identities=9% Similarity=0.143 Sum_probs=54.6
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCC--C------cceE--EEecCceeeEEEEeCCCCC---------h-HHHHhH
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTG--A------LSST--VSSSKYRLRTSVLQAPHGD---------L-VGCMEM 141 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~--~------g~~t--v~~~r~k~R~tfie~~~~d---------l-~~mLD~ 141 (745)
|++||+|..+.. +| +..++..... . .|+. +... ..++|+++..| .- | ...|..
T Consensus 161 VglVG~PNaGKS-TL----ln~ls~a~~~va~ypfTT~~p~~G~v~~~-~~~~~~i~D~P-Gli~ga~~~~gLg~~flrh 233 (335)
T PRK12299 161 VGLVGLPNAGKS-TL----ISAVSAAKPKIADYPFTTLHPNLGVVRVD-DYKSFVIADIP-GLIEGASEGAGLGHRFLKH 233 (335)
T ss_pred EEEEcCCCCCHH-HH----HHHHHcCCCccCCCCCceeCceEEEEEeC-CCcEEEEEeCC-CccCCCCccccHHHHHHHH
Confidence 899999987764 56 5555432211 1 2211 1221 13578888887 32 2 244556
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhc-----CCCceEEEeccCCc
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSL-----GLPSTAVLIRDLPT 194 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~q-----GlP~vigvl~~L~~ 194 (745)
+.-||++|+|+|++.. ..++.. ..+++.|+.. .. .++.|++..|.
T Consensus 234 ie~a~vlI~ViD~s~~------~s~e~~-~~~~~EL~~~~~~L~~k-p~IIV~NKiDL 283 (335)
T PRK12299 234 IERTRLLLHLVDIEAV------DPVEDY-KTIRNELEKYSPELADK-PRILVLNKIDL 283 (335)
T ss_pred hhhcCEEEEEEcCCCC------CCHHHH-HHHHHHHHHhhhhcccC-CeEEEEECccc
Confidence 6679999999999841 112211 2333444432 33 45667888885
No 162
>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine
Probab=87.93 E-value=6.3 Score=38.22 Aligned_cols=101 Identities=11% Similarity=0.115 Sum_probs=57.7
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCCCC-hH-HHHhH-Hhhcce
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPHGD-LV-GCMEM-AKVADL 147 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~~d-l~-~mLD~-aKvADl 147 (745)
-|+|+|+++.+.. +| +..+....... + ..++..+....++.++.++..+ +. .++.. .+-||.
T Consensus 4 ki~vvG~~~vGKT-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~ 78 (170)
T cd04115 4 KIIVIGDSNVGKT-CL----TYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHA 78 (170)
T ss_pred EEEEECCCCCCHH-HH----HHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCE
Confidence 4889999998775 56 44332222111 1 2234445555788888876322 32 34443 567999
Q ss_pred EEEEeeCCCccccccccccChHHHHHHHHHHhc----CCCceEEEeccCCc
Q 004549 148 VAFVASASSFSEESMSYYIDSFGNQCLSVFRSL----GLPSTAVLIRDLPT 194 (745)
Q Consensus 148 Vlllidas~g~~~~~~~~fd~eg~e~L~~l~~q----GlP~vigvl~~L~~ 194 (745)
+++++|++.. ..|+.. ..++..+..+ ++| ++.|.+..|.
T Consensus 79 ~i~v~d~~~~------~s~~~~-~~~~~~~~~~~~~~~~p-~iiv~nK~Dl 121 (170)
T cd04115 79 VVFVYDVTNM------ASFHSL-PSWIEECEQHSLPNEVP-RILVGNKCDL 121 (170)
T ss_pred EEEEEECCCH------HHHHhH-HHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence 9999999853 224332 2344444443 344 4666787775
No 163
>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.
Probab=87.74 E-value=12 Score=35.18 Aligned_cols=101 Identities=12% Similarity=0.045 Sum_probs=56.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCC------Cc---ceEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTG------AL---SSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~------~g---~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADlVll 150 (745)
|+|+|.++.+.. +| ++.|...... .+ ..++..+.....+.++..+. .....+.. .++-||.+++
T Consensus 4 i~iiG~~~vGKT-sl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~ 78 (162)
T cd04138 4 LVVVGAGGVGKS-AL----TIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC 78 (162)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCcCCcCCcchheEEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEE
Confidence 789999998775 56 4444322211 11 11223333345677777753 23444433 4667999999
Q ss_pred EeeCCCccccccccccCh---HHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDS---FGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~---eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
|+|.+.. ..|+. +-.++++.....++| ++.|++..|.
T Consensus 79 v~~~~~~------~s~~~~~~~~~~i~~~~~~~~~p-iivv~nK~Dl 118 (162)
T cd04138 79 VFAINSR------KSFEDIHTYREQIKRVKDSDDVP-MVLVGNKCDL 118 (162)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence 9998742 23443 333444433334555 4567888885
No 164
>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi
Probab=87.67 E-value=3.9 Score=39.54 Aligned_cols=102 Identities=8% Similarity=0.020 Sum_probs=58.3
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCC-CChHHHH-hHHhhcce
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPH-GDLVGCM-EMAKVADL 147 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~-~dl~~mL-D~aKvADl 147 (745)
.=|+|+|.++.+.. +| +.+|+...... | ..++..+...-+++++.++. ..+..+. ..++-||.
T Consensus 4 ~ki~vvG~~~~GKS-sl----~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~ 78 (167)
T cd01867 4 FKLLLIGDSGVGKS-CL----LLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMG 78 (167)
T ss_pred eEEEEECCCCCCHH-HH----HHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCE
Confidence 44889999988775 66 55554332111 2 22344444456888999873 2234444 34678999
Q ss_pred EEEEeeCCCccccccccccChHHHHHHHHHHhc---CCCceEEEeccCCc
Q 004549 148 VAFVASASSFSEESMSYYIDSFGNQCLSVFRSL---GLPSTAVLIRDLPT 194 (745)
Q Consensus 148 Vlllidas~g~~~~~~~~fd~eg~e~L~~l~~q---GlP~vigvl~~L~~ 194 (745)
+|+++|++.+ ..|+. -...+..++.+ ++|- +.|.+..|.
T Consensus 79 ~i~v~d~~~~------~s~~~-~~~~~~~i~~~~~~~~p~-iiv~nK~Dl 120 (167)
T cd01867 79 IILVYDITDE------KSFEN-IRNWMRNIEEHASEDVER-MLVGNKCDM 120 (167)
T ss_pred EEEEEECcCH------HHHHh-HHHHHHHHHHhCCCCCcE-EEEEECccc
Confidence 9999998753 23442 22344444433 4444 444566664
No 165
>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.
Probab=87.58 E-value=4.7 Score=39.19 Aligned_cols=101 Identities=18% Similarity=0.166 Sum_probs=57.8
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC------CCcceEEEecCceeeEEEEeCCC-CChHHHH-hHHhhcceEEEEee
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT------GALSSTVSSSKYRLRTSVLQAPH-GDLVGCM-EMAKVADLVAFVAS 153 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~g~~tv~~~r~k~R~tfie~~~-~dl~~mL-D~aKvADlVlllid 153 (745)
|+|+|+++.+.. +| +..|..... +.|...+.+...+.++.|+.++- ..+..+. ...+-||.+|+|+|
T Consensus 2 i~ivG~~~vGKT-sl----i~~~~~~~~~~~~~pt~g~~~~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D 76 (164)
T cd04162 2 ILVLGLDGAGKT-SL----LHSLSSERSLESVVPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVD 76 (164)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCcccccccCCcceEEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEE
Confidence 689999988875 56 444432211 11433333333457888888762 2344443 35788999999999
Q ss_pred CCCccccccccccChHHHHHHHHHHh-cCCCceEEEeccCCc
Q 004549 154 ASSFSEESMSYYIDSFGNQCLSVFRS-LGLPSTAVLIRDLPT 194 (745)
Q Consensus 154 as~g~~~~~~~~fd~eg~e~L~~l~~-qGlP~vigvl~~L~~ 194 (745)
++.. ..|+..-..+..+++. .+.| ++.|.+..|.
T Consensus 77 ~t~~------~s~~~~~~~l~~~~~~~~~~p-iilv~NK~Dl 111 (164)
T cd04162 77 SADS------ERLPLARQELHQLLQHPPDLP-LVVLANKQDL 111 (164)
T ss_pred CCCH------HHHHHHHHHHHHHHhCCCCCc-EEEEEeCcCC
Confidence 8842 2243332233333332 4544 5667887774
No 166
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=87.37 E-value=8.5 Score=36.70 Aligned_cols=102 Identities=11% Similarity=0.049 Sum_probs=54.8
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC-CC--------cceEEEecCceeeEEEEeCCC-CChHHHHhH-HhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT-GA--------LSSTVSSSKYRLRTSVLQAPH-GDLVGCMEM-AKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~--------g~~tv~~~r~k~R~tfie~~~-~dl~~mLD~-aKvADlVl 149 (745)
-|+|+|.++.+.. +| +..|..... .. ...++..+.....++++..+. ..+..+.+. ++-||.+|
T Consensus 3 ki~i~G~~~vGKT-sl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i 77 (163)
T cd04176 3 KVVVLGSGGVGKS-AL----TVQFVSGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFI 77 (163)
T ss_pred EEEEECCCCCCHH-HH----HHHHHcCCCCCCCCCchhheEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEE
Confidence 4789999988775 55 333322211 11 112344444445677787652 234444443 57799999
Q ss_pred EEeeCCCccccccccccChHHH---HHHHHHHhcCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGN---QCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~---e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+++|.+.. ..|+.-.. ++.+.....++| ++.|++..|.
T Consensus 78 ~v~d~~~~------~s~~~~~~~~~~~~~~~~~~~~p-iviv~nK~Dl 118 (163)
T cd04176 78 VVYSLVNQ------QTFQDIKPMRDQIVRVKGYEKVP-IILVGNKVDL 118 (163)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence 99998842 22443222 222221123555 4556777774
No 167
>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.
Probab=87.28 E-value=4.3 Score=37.98 Aligned_cols=96 Identities=17% Similarity=0.186 Sum_probs=56.8
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCC---C--c------ceEEEecCceeeEEEEeCCC-CCh---------HHHH
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTG---A--L------SSTVSSSKYRLRTSVLQAPH-GDL---------VGCM 139 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~---~--g------~~tv~~~r~k~R~tfie~~~-~dl---------~~mL 139 (745)
.|+++|+++++.. ++ +..++..... . + ...+... ..+++++..|- .+. ..+.
T Consensus 3 ~i~l~G~~~~GKs-tl----i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~DtpG~~~~~~~~~~~~~~~~~ 75 (157)
T cd04164 3 KVVIVGKPNVGKS-SL----LNALAGRDRAIVSDIAGTTRDVIEESIDIG--GIPVRLIDTAGIRETEDEIEKIGIERAR 75 (157)
T ss_pred EEEEECCCCCCHH-HH----HHHHHCCceEeccCCCCCccceEEEEEEeC--CEEEEEEECCCcCCCcchHHHHHHHHHH
Confidence 5789999998776 56 4444433211 1 1 1122222 35788888762 122 2345
Q ss_pred hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 140 EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 140 D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
...+-||++++++|++.. ++...+..++...-..++.|+++.|.
T Consensus 76 ~~~~~~~~~v~v~d~~~~-----------~~~~~~~~~~~~~~~~vi~v~nK~D~ 119 (157)
T cd04164 76 EAIEEADLVLFVIDASRG-----------LDEEDLEILELPADKPIIVVLNKSDL 119 (157)
T ss_pred HHHhhCCEEEEEEECCCC-----------CCHHHHHHHHhhcCCCEEEEEEchhc
Confidence 567789999999999942 12222333433444667888998885
No 168
>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed
Probab=86.98 E-value=3.8 Score=49.97 Aligned_cols=101 Identities=11% Similarity=0.143 Sum_probs=63.0
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCC--CC---cceE----EEecCceeeEEEEeCCCCC-----h-----HHHHh
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGT--GA---LSST----VSSSKYRLRTSVLQAPHGD-----L-----VGCME 140 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~--~~---g~~t----v~~~r~k~R~tfie~~~~d-----l-----~~mLD 140 (745)
..|+|+|.++.+.. +| ++.|+.... .. |... ....--...+.|+.++--+ + ..+..
T Consensus 276 ~~V~IvG~~nvGKS-SL----~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~ 350 (712)
T PRK09518 276 GVVAIVGRPNVGKS-TL----VNRILGRREAVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQI 350 (712)
T ss_pred cEEEEECCCCCCHH-HH----HHHHhCCCceeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHH
Confidence 45999999987765 67 555543321 11 2211 1111012467788776211 1 22345
Q ss_pred HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 141 MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 141 ~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+++-||++|||+|++.| +...-.++++.|+.+|.|-+ .|++..|.
T Consensus 351 ~~~~aD~iL~VvDa~~~--------~~~~d~~i~~~Lr~~~~pvI-lV~NK~D~ 395 (712)
T PRK09518 351 AVSLADAVVFVVDGQVG--------LTSTDERIVRMLRRAGKPVV-LAVNKIDD 395 (712)
T ss_pred HHHhCCEEEEEEECCCC--------CCHHHHHHHHHHHhcCCCEE-EEEECccc
Confidence 67889999999999854 66666788888889998654 47788775
No 169
>cd04147 Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=86.93 E-value=11 Score=37.94 Aligned_cols=101 Identities=11% Similarity=0.117 Sum_probs=54.2
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC---------cceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA---------LSSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---------g~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlVll 150 (745)
|+|+|.++.+.. +| +..+....... ....+..+....+++|+..+-. ....|.. .++-||.|||
T Consensus 2 v~vvG~~~vGKT-sl----l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vil 76 (198)
T cd04147 2 LVFMGAAGVGKT-AL----IQRFLYDTFEPKYRRTVEEMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFAL 76 (198)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCccCCCchhhheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEE
Confidence 689999988765 55 33332111111 1123333444467888888721 2333332 3577999999
Q ss_pred EeeCCCccccccccccChH---HHHHHHHHHhcCCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSF---GNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~e---g~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
|+|++.. ..|+.- -..++......++|- +.|++..|.
T Consensus 77 v~d~~~~------~s~~~~~~~~~~i~~~~~~~~~pi-ilv~NK~Dl 116 (198)
T cd04147 77 VYAVDDP------ESFEEVERLREEILEVKEDKFVPI-VVVGNKADS 116 (198)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhcCCCCCcE-EEEEEcccc
Confidence 9999853 223322 223333333346665 446677764
No 170
>cd04112 Rab26 Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=86.49 E-value=8.4 Score=38.36 Aligned_cols=100 Identities=10% Similarity=0.125 Sum_probs=56.3
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC--CC-----c----ceEEEecCceeeEEEEeCCCC-ChHHH-HhHHhhcceE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT--GA-----L----SSTVSSSKYRLRTSVLQAPHG-DLVGC-MEMAKVADLV 148 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~--~~-----g----~~tv~~~r~k~R~tfie~~~~-dl~~m-LD~aKvADlV 148 (745)
|+|+|.++++.. +| +..+..... .. + ...+..+..+-+++++..+.. .+..+ ...++-||.+
T Consensus 3 i~vvG~~~vGKT-Sl----i~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ 77 (191)
T cd04112 3 VMLLGDSGVGKT-CL----LVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHAL 77 (191)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEE
Confidence 789999988775 66 444432221 11 1 112333444567777777622 24333 3456779999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhc---CCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSL---GLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~q---GlP~vigvl~~L~~ 194 (745)
|+|+|++.. ..|+.- ...+..+... ++| ++.|++..|.
T Consensus 78 i~v~D~~~~------~s~~~~-~~~~~~i~~~~~~~~p-iiiv~NK~Dl 118 (191)
T cd04112 78 LLLYDITNK------ASFDNI-RAWLTEIKEYAQEDVV-IMLLGNKADM 118 (191)
T ss_pred EEEEECCCH------HHHHHH-HHHHHHHHHhCCCCCc-EEEEEEcccc
Confidence 999999842 224322 2244444443 343 6667787775
No 171
>PLN03118 Rab family protein; Provisional
Probab=86.48 E-value=9.5 Score=38.66 Aligned_cols=105 Identities=10% Similarity=0.014 Sum_probs=58.1
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhccCCCCC-----c----ceEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcc
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-----L----SSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVAD 146 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g----~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvAD 146 (745)
.++=|+|+|.++.+.. +| +..|....... | ..++..+....++.|+.++- ..+..+.+ ..+-||
T Consensus 13 ~~~kv~ivG~~~vGKT-sl----i~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d 87 (211)
T PLN03118 13 LSFKILLIGDSGVGKS-SL----LVSFISSSVEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQ 87 (211)
T ss_pred cceEEEEECcCCCCHH-HH----HHHHHhCCCCCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCC
Confidence 3455889999987775 56 44443222111 2 12233333346788888873 23444443 356799
Q ss_pred eEEEEeeCCCccccccccccChHHHHHHHHHHh----cCCCceEEEeccCCc
Q 004549 147 LVAFVASASSFSEESMSYYIDSFGNQCLSVFRS----LGLPSTAVLIRDLPT 194 (745)
Q Consensus 147 lVlllidas~g~~~~~~~~fd~eg~e~L~~l~~----qGlP~vigvl~~L~~ 194 (745)
.+||++|++.. ..|+.-...++..+.. .++| ++.|.+..|.
T Consensus 88 ~~vlv~D~~~~------~sf~~~~~~~~~~~~~~~~~~~~~-~ilv~NK~Dl 132 (211)
T PLN03118 88 GIILVYDVTRR------ETFTNLSDVWGKEVELYSTNQDCV-KMLVGNKVDR 132 (211)
T ss_pred EEEEEEECCCH------HHHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence 99999999852 2244332223333332 3444 4556777774
No 172
>cd04177 RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu
Probab=86.46 E-value=8.7 Score=37.10 Aligned_cols=106 Identities=14% Similarity=0.131 Sum_probs=58.8
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccC--CCCCc---ceEEEecCceeeEEEEeCCC-CChHHHHhH-HhhcceEEEEee
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSE--GTGAL---SSTVSSSKYRLRTSVLQAPH-GDLVGCMEM-AKVADLVAFVAS 153 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~--~~~~g---~~tv~~~r~k~R~tfie~~~-~dl~~mLD~-aKvADlVlllid 153 (745)
=|+++|.++++.. +|++.+++.-... ..+.+ ..++..+....++.++..+- ..+.++.+. .+.||.+||++|
T Consensus 3 ki~liG~~~~GKT-sli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~ 81 (168)
T cd04177 3 KIVVLGAGGVGKS-ALTVQFVQNVFIESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYS 81 (168)
T ss_pred EEEEECCCCCCHH-HHHHHHHhCCCCcccCCcchheEEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEE
Confidence 3789999998775 5633223221100 11111 12333444456778888763 345555555 478999999999
Q ss_pred CCCccccccccccC---hHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 154 ASSFSEESMSYYID---SFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 154 as~g~~~~~~~~fd---~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+.. ..|+ .+-.++++....-+.|-+ .|.+..|.
T Consensus 82 ~~~~------~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~D~ 118 (168)
T cd04177 82 VTSE------ASLNELGELREQVLRIKDSDNVPMV-LVGNKADL 118 (168)
T ss_pred CCCH------HHHHHHHHHHHHHHHhhCCCCCCEE-EEEEChhc
Confidence 8853 2243 333444443334567754 46777774
No 173
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=86.36 E-value=2.1 Score=42.26 Aligned_cols=98 Identities=14% Similarity=0.215 Sum_probs=58.7
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC----c-ceEEEecCce---eeEEEEeCCC-CChHHH-------HhHH--
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA----L-SSTVSSSKYR---LRTSVLQAPH-GDLVGC-------MEMA-- 142 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----g-~~tv~~~r~k---~R~tfie~~~-~dl~~m-------LD~a-- 142 (745)
-||++|.|..+.. +| +..+++..... | .+....+.++ ..+.|+-.|- -++.+. .+..
T Consensus 2 ~ialvG~PNvGKS-tL----fN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~ 76 (156)
T PF02421_consen 2 RIALVGNPNVGKS-TL----FNALTGAKQKVGNWPGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLS 76 (156)
T ss_dssp EEEEEESTTSSHH-HH----HHHHHTTSEEEEESTTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHH
T ss_pred EEEEECCCCCCHH-HH----HHHHHCCCceecCCCCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhh
Confidence 5899999998775 67 66666554221 1 1111222222 6888888772 133221 2221
Q ss_pred hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 143 KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 143 KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.-.|+|++++||+. ++ ...+++.-|...|+|-| .||+..|.
T Consensus 77 ~~~D~ii~VvDa~~---------l~-r~l~l~~ql~e~g~P~v-vvlN~~D~ 117 (156)
T PF02421_consen 77 EKPDLIIVVVDATN---------LE-RNLYLTLQLLELGIPVV-VVLNKMDE 117 (156)
T ss_dssp TSSSEEEEEEEGGG---------HH-HHHHHHHHHHHTTSSEE-EEEETHHH
T ss_pred cCCCEEEEECCCCC---------HH-HHHHHHHHHHHcCCCEE-EEEeCHHH
Confidence 24899999999984 43 45678888889999954 45666664
No 174
>cd01870 RhoA_like RhoA-like subfamily. The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl
Probab=86.29 E-value=14 Score=35.73 Aligned_cols=101 Identities=9% Similarity=0.084 Sum_probs=53.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------cc---eEEEecCceeeEEEEeCCCCC-hHHHH-hHHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------LS---STVSSSKYRLRTSVLQAPHGD-LVGCM-EMAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g~---~tv~~~r~k~R~tfie~~~~d-l~~mL-D~aKvADlVll 150 (745)
|+|+|+++++.. +| +..|....... +. ..+.....+-.+.++..+... ...+. -..+-||.+++
T Consensus 4 i~iiG~~~~GKT-sl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~ 78 (175)
T cd01870 4 LVIVGDGACGKT-CL----LIVFSKDQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILM 78 (175)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCCCCCCccccceEEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEE
Confidence 789999998775 56 44443322111 11 123334334467777765222 22221 23466999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
++|.+.- ..|+.....++..++.. ++| ++.|.+..|.
T Consensus 79 v~~~~~~------~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl 117 (175)
T cd01870 79 CFSIDSP------DSLENIPEKWTPEVKHFCPNVP-IILVGNKKDL 117 (175)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhhCCCCC-EEEEeeChhc
Confidence 9998742 22443333445544432 444 5566777664
No 175
>cd04143 Rhes_like Rhes_like subfamily. This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l
Probab=86.23 E-value=16 Score=38.65 Aligned_cols=155 Identities=10% Similarity=0.118 Sum_probs=79.8
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCC-C-----c---ceEEEecCceeeEEEEeCCC-CChHHHHhH-HhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTG-A-----L---SSTVSSSKYRLRTSVLQAPH-GDLVGCMEM-AKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-~-----g---~~tv~~~r~k~R~tfie~~~-~dl~~mLD~-aKvADlVll 150 (745)
|+|+|.++.+.. +| +..|...... . + ..++.+....-.++++..+. .++.+|-.. .+-||.+||
T Consensus 3 VvvlG~~gvGKT-SL----i~r~~~~~f~~~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIl 77 (247)
T cd04143 3 MVVLGASKVGKT-AI----VSRFLGGRFEEQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFIL 77 (247)
T ss_pred EEEECcCCCCHH-HH----HHHHHcCCCCCCCCCChhHhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEE
Confidence 789999888765 66 4444221111 1 1 11223333345677777753 334445443 467999999
Q ss_pred EeeCCCccccccccccCh---HHHHHHHHH--------HhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCe
Q 004549 151 VASASSFSEESMSYYIDS---FGNQCLSVF--------RSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCK 219 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~---eg~e~L~~l--------~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~K 219 (745)
|+|.+.. ..|+. +-.+++..- ...++| +|.|.+..|.. ..+.-....++..+... .+..
T Consensus 78 Vfdv~~~------~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~p-iIivgNK~Dl~-~~~~v~~~ei~~~~~~~--~~~~ 147 (247)
T cd04143 78 VFSLDNR------ESFEEVCRLREQILETKSCLKNKTKENVKIP-MVICGNKADRD-FPREVQRDEVEQLVGGD--ENCA 147 (247)
T ss_pred EEeCCCH------HHHHHHHHHHHHHHHhhcccccccccCCCCc-EEEEEECccch-hccccCHHHHHHHHHhc--CCCE
Confidence 9998842 23443 223333321 012344 55677877751 11111112222222111 1356
Q ss_pred eEEeCC--HHHHHHHHHHHhhccccCCccccCCC
Q 004549 220 FYAADT--KDELHKFLWLFKEQRLTVPHWRNQRP 251 (745)
Q Consensus 220 lf~l~~--~~e~~nL~R~I~~~k~r~l~WR~~rp 251 (745)
+|.+|. ...+..|...|..+...|..|..++.
T Consensus 148 ~~evSAktg~gI~elf~~L~~~~~~p~e~~~~~~ 181 (247)
T cd04143 148 YFEVSAKKNSNLDEMFRALFSLAKLPNEMSPSLH 181 (247)
T ss_pred EEEEeCCCCCCHHHHHHHHHHHhccccccCcccc
Confidence 777773 34566777777776666666554444
No 176
>PRK09435 membrane ATPase/protein kinase; Provisional
Probab=86.06 E-value=9.6 Score=42.28 Aligned_cols=34 Identities=9% Similarity=0.050 Sum_probs=26.1
Q ss_pred eeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCc
Q 004549 123 LRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSF 157 (745)
Q Consensus 123 ~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g 157 (745)
-.+.||+-. ..-.+-.+++..||+||++++...|
T Consensus 149 ~d~viieT~-Gv~qs~~~i~~~aD~vlvv~~p~~g 182 (332)
T PRK09435 149 YDVILVETV-GVGQSETAVAGMVDFFLLLQLPGAG 182 (332)
T ss_pred CCEEEEECC-CCccchhHHHHhCCEEEEEecCCch
Confidence 367788876 5557778899999999999975543
No 177
>cd01865 Rab3 Rab3 subfamily. The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot
Probab=85.96 E-value=9.4 Score=36.75 Aligned_cols=101 Identities=8% Similarity=0.025 Sum_probs=59.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------cc----eEEEecCceeeEEEEeCCCCC-hHHH-HhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------LS----STVSSSKYRLRTSVLQAPHGD-LVGC-MEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g~----~tv~~~r~k~R~tfie~~~~d-l~~m-LD~aKvADlVl 149 (745)
|+|+|+++.+.. +| +..+....... |. .++.....+-.+.++.++... ...+ .-..+-||.+|
T Consensus 4 i~i~G~~~~GKS-sl----i~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l 78 (165)
T cd01865 4 LLIIGNSSVGKT-SF----LFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFI 78 (165)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEE
Confidence 789999998775 56 55554332111 21 133333334578888886311 2222 33468899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcC--CCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLG--LPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qG--lP~vigvl~~L~~ 194 (745)
+|+|.+.. ..|+. -.+.++.++.+. -+.++.|.+..|.
T Consensus 79 ~v~d~~~~------~s~~~-~~~~~~~i~~~~~~~~piivv~nK~Dl 118 (165)
T cd01865 79 LMYDITNE------ESFNA-VQDWSTQIKTYSWDNAQVILVGNKCDM 118 (165)
T ss_pred EEEECCCH------HHHHH-HHHHHHHHHHhCCCCCCEEEEEECccc
Confidence 99998853 33543 244555665543 2447778888875
No 178
>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]
Probab=85.76 E-value=45 Score=36.57 Aligned_cols=204 Identities=15% Similarity=0.182 Sum_probs=130.6
Q ss_pred CCEEEEEecC---CCccChhhHHHHHHHhhcc----CC-CC---C---cceEEEec-----CceeeEEEEeCCC-CC-hH
Q 004549 78 PPRVIVLFGL---SASVNLNSVREDLLRQLSS----EG-TG---A---LSSTVSSS-----KYRLRTSVLQAPH-GD-LV 136 (745)
Q Consensus 78 pP~iV~Vv~l---~~~~~~~sl~~~~vk~~~~----~~-~~---~---g~~tv~~~-----r~k~R~tfie~~~-~d-l~ 136 (745)
|=.-|+.+|- .++++...+...+.+.... ++ +. + --||++.. --+|-..++-||- .| +-
T Consensus 11 phVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaDYvK 90 (394)
T COG0050 11 PHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYVK 90 (394)
T ss_pred CeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHHHHH
Confidence 3344666664 3477777775554543211 11 11 1 33555432 2368899999973 33 78
Q ss_pred HHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhH-----HHHHHHHhhc
Q 004549 137 GCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRK-----DLKKMCISSL 210 (745)
Q Consensus 137 ~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~-----~~kK~lk~~f 210 (745)
+||--|--+|-.||+++|..|.. ..|.|=+=..+.-|+|.++.+|+..|+ +-.... .++-.|..|
T Consensus 91 NMItgAaqmDgAILVVsA~dGpm--------PqTrEHiLlarqvGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y- 161 (394)
T COG0050 91 NMITGAAQMDGAILVVAATDGPM--------PQTREHILLARQVGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEY- 161 (394)
T ss_pred HHhhhHHhcCccEEEEEcCCCCC--------CcchhhhhhhhhcCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHc-
Confidence 89999999999999999997732 467777777788899999999999986 212222 255555543
Q ss_pred ccccC-------CCCeeEEeCC----HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEEe
Q 004549 211 TSEFP-------EDCKFYAADT----KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLR 279 (745)
Q Consensus 211 ~~e~~-------~~~Klf~l~~----~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvR 279 (745)
.|+ .|++|-.|.+ ..-|..|+-.+.+--|.|-. -...|++++=.=-+.-+ .+..+++|-|-
T Consensus 162 --~f~gd~~Pii~gSal~ale~~~~~~~~i~eLm~avd~yip~Per-~~dkPflmpvEdvfsIs-----grgtvvtGrVe 233 (394)
T COG0050 162 --GFPGDDTPIIRGSALKALEGDAKWEAKIEELMDAVDSYIPTPER-DIDKPFLMPVEDVFSIS-----GRGTVVTGRVE 233 (394)
T ss_pred --CCCCCCcceeechhhhhhcCCcchHHHHHHHHHHHHhcCCCCCC-cccccccccceeeEEEc-----CceeEEEEEEe
Confidence 344 3566666664 44456777777666665543 34577777532112111 36788999886
Q ss_pred CCCCCCCCeEEeCCCCcee
Q 004549 280 AHCLSVNQLVHISGAGDFQ 298 (745)
Q Consensus 280 G~~l~~n~lVHIpG~GDFq 298 (745)
-.-|++|.-|-|+|+.+-+
T Consensus 234 RG~lkvg~eveivG~~~~~ 252 (394)
T COG0050 234 RGILKVGEEVEIVGIKETQ 252 (394)
T ss_pred eeeeccCCEEEEecccccc
Confidence 5569999999999988543
No 179
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=85.64 E-value=8.8 Score=44.24 Aligned_cols=98 Identities=17% Similarity=0.131 Sum_probs=56.6
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCC---CC--c----ce--EEEecCceeeEEEEeCCC-CCh---------HH
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGT---GA--L----SS--TVSSSKYRLRTSVLQAPH-GDL---------VG 137 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~--g----~~--tv~~~r~k~R~tfie~~~-~dl---------~~ 137 (745)
+.-|+|+|.++.+.. +| +..+++.+. +. | .+ .+..+. ..++++-.+- .+. ..
T Consensus 215 ~~kV~ivG~~nvGKS-SL----ln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~i~l~DT~G~~~~~~~ie~~gi~~ 287 (449)
T PRK05291 215 GLKVVIAGRPNVGKS-SL----LNALLGEERAIVTDIAGTTRDVIEEHINLDG--IPLRLIDTAGIRETDDEVEKIGIER 287 (449)
T ss_pred CCEEEEECCCCCCHH-HH----HHHHhCCCCcccCCCCCcccccEEEEEEECC--eEEEEEeCCCCCCCccHHHHHHHHH
Confidence 356899999988765 67 555544331 11 1 11 122332 4677786652 222 23
Q ss_pred HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 138 CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 138 mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+..++-||++|+|+|++.+ ...+-.+++.. .++.| ++.|++..|.
T Consensus 288 ~~~~~~~aD~il~VvD~s~~--------~s~~~~~~l~~--~~~~p-iiiV~NK~DL 333 (449)
T PRK05291 288 SREAIEEADLVLLVLDASEP--------LTEEDDEILEE--LKDKP-VIVVLNKADL 333 (449)
T ss_pred HHHHHHhCCEEEEEecCCCC--------CChhHHHHHHh--cCCCC-cEEEEEhhhc
Confidence 45668889999999999853 22222333333 45554 5677888775
No 180
>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor. Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).
Probab=85.54 E-value=5.4 Score=39.22 Aligned_cols=103 Identities=16% Similarity=0.112 Sum_probs=59.8
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhc-cCCCCC----cc--eEEEecCceeeEEEEeCCC-CChHHHHhH-HhhcceEE
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLS-SEGTGA----LS--STVSSSKYRLRTSVLQAPH-GDLVGCMEM-AKVADLVA 149 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~-~~~~~~----g~--~tv~~~r~k~R~tfie~~~-~dl~~mLD~-aKvADlVl 149 (745)
..-|+++|+++++.. +| +..+. +.-... |. .++.. ...++.|+.++- .....+... .+-||.+|
T Consensus 13 ~~ki~l~G~~~~GKT-sL----~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii 85 (175)
T smart00177 13 EMRILMVGLDAAGKT-TI----LYKLKLGESVTTIPTIGFNVETVTY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLI 85 (175)
T ss_pred ccEEEEEcCCCCCHH-HH----HHHHhcCCCCCcCCccccceEEEEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEE
Confidence 355889999998875 56 34332 211111 21 12222 235677888763 234455444 58899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
+|+|++.- ..|+..-..+...++.+.+ +.++.|++..|.
T Consensus 86 ~v~D~t~~------~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl 126 (175)
T smart00177 86 FVVDSNDR------DRIDEAREELHRMLNEDELRDAVILVFANKQDL 126 (175)
T ss_pred EEEECCCH------HHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCc
Confidence 99999842 2355544455555544433 245667888885
No 181
>COG1084 Predicted GTPase [General function prediction only]
Probab=85.38 E-value=6 Score=43.53 Aligned_cols=104 Identities=16% Similarity=0.250 Sum_probs=67.4
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC--cceE---EEec---CceeeEEEEeCCC---------CC--hHHHHhH
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA--LSST---VSSS---KYRLRTSVLQAPH---------GD--LVGCMEM 141 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~--g~~t---v~~~---r~k~R~tfie~~~---------~d--l~~mLD~ 141 (745)
-|+|-|.|+.+.. || ++.+|.-..+. -|.| |.+| +.--|+|+|--|- |+ .++++-+
T Consensus 170 TivVaG~PNVGKS-Sl----v~~lT~AkpEvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL 244 (346)
T COG1084 170 TIVVAGYPNVGKS-SL----VRKLTTAKPEVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILAL 244 (346)
T ss_pred eEEEecCCCCcHH-HH----HHHHhcCCCccCCCCccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHH
Confidence 4557788887765 78 88888766544 2332 2223 2224999998762 33 4678889
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.=++|+|||++|+|..- ++..|++-..+-++=-.-. +.++.|++.+|.
T Consensus 245 ~hl~~~IlF~~D~Se~c----gy~lE~Q~~L~~eIk~~f~-~p~v~V~nK~D~ 292 (346)
T COG1084 245 RHLAGVILFLFDPSETC----GYSLEEQISLLEEIKELFK-APIVVVINKIDI 292 (346)
T ss_pred HHhcCeEEEEEcCcccc----CCCHHHHHHHHHHHHHhcC-CCeEEEEecccc
Confidence 99999999999998521 1334554444433333333 778899999995
No 182
>cd04118 Rab24 Rab24 subfamily. Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita
Probab=85.33 E-value=6.7 Score=38.84 Aligned_cols=100 Identities=5% Similarity=-0.033 Sum_probs=56.5
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-C------Cc----ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-G------AL----SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLV 148 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~------~g----~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlV 148 (745)
|+|+|.++.+.. +| +..|..... . .| ...+..+...-++.|+.++.. ....+.. ..+-||.+
T Consensus 3 i~vvG~~~vGKS-sL----i~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~i 77 (193)
T cd04118 3 VVMLGKESVGKT-SL----VERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAA 77 (193)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEE
Confidence 789999987765 56 443322111 1 12 123444555566778877522 2333332 23469999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
|||+|.+.. ..|+.- ..+|..++.. +.| ++.|.+..|.
T Consensus 78 ilv~d~~~~------~s~~~~-~~~~~~i~~~~~~~p-iilv~nK~Dl 117 (193)
T cd04118 78 IVCYDLTDS------SSFERA-KFWVKELQNLEEHCK-IYLCGTKSDL 117 (193)
T ss_pred EEEEECCCH------HHHHHH-HHHHHHHHhcCCCCC-EEEEEEcccc
Confidence 999998742 224332 3455555544 554 6777887774
No 183
>PTZ00369 Ras-like protein; Provisional
Probab=85.29 E-value=12 Score=37.05 Aligned_cols=103 Identities=12% Similarity=0.023 Sum_probs=56.5
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCC------Ccc---eEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcceE
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTG------ALS---STVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADLV 148 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~------~g~---~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADlV 148 (745)
+=|+|+|.++.+.. +| +..|...... .+. .++.++.....+.++..+- .+...+.. ..+-||.+
T Consensus 6 ~Ki~iiG~~~~GKT-sL----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~i 80 (189)
T PTZ00369 6 YKLVVVGGGGVGKS-AL----TIQFIQNHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGF 80 (189)
T ss_pred eEEEEECCCCCCHH-HH----HHHHhcCCCCcCcCCchhhEEEEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEE
Confidence 44778999987765 56 4444322211 121 2223343345677787752 34444443 56789999
Q ss_pred EEEeeCCCccccccccccCh---HHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDS---FGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~---eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
|+++|.+.. ..|+. |-.++++.+...++| ++.|.+..|.
T Consensus 81 ilv~D~s~~------~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl 122 (189)
T PTZ00369 81 LCVYSITSR------SSFEEIASFREQILRVKDKDRVP-MILVGNKCDL 122 (189)
T ss_pred EEEEECCCH------HHHHHHHHHHHHHHHhcCCCCCC-EEEEEECccc
Confidence 999999853 22433 223333333233444 4556777764
No 184
>PRK12297 obgE GTPase CgtA; Reviewed
Probab=84.97 E-value=20 Score=41.04 Aligned_cols=102 Identities=13% Similarity=0.135 Sum_probs=54.1
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCC--C------cceE--EEecCceeeEEEEeCCCCCh----------HHHHh
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTG--A------LSST--VSSSKYRLRTSVLQAPHGDL----------VGCME 140 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~--~------g~~t--v~~~r~k~R~tfie~~~~dl----------~~mLD 140 (745)
-|++||+|+.+.. +| +..+++.... . .|.. +.... ..+|+|+-.| .=+ ...|-
T Consensus 160 dVglVG~pNaGKS-TL----Ln~Lt~ak~kIa~ypfTTl~PnlG~v~~~~-~~~~~laD~P-Gliega~~~~gLg~~fLr 232 (424)
T PRK12297 160 DVGLVGFPNVGKS-TL----LSVVSNAKPKIANYHFTTLVPNLGVVETDD-GRSFVMADIP-GLIEGASEGVGLGHQFLR 232 (424)
T ss_pred cEEEEcCCCCCHH-HH----HHHHHcCCCccccCCcceeceEEEEEEEeC-CceEEEEECC-CCcccccccchHHHHHHH
Confidence 4899999987764 66 5555543321 1 1111 11110 3578888776 321 23444
Q ss_pred HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHh-----cCCCceEEEeccCCc
Q 004549 141 MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRS-----LGLPSTAVLIRDLPT 194 (745)
Q Consensus 141 ~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~-----qGlP~vigvl~~L~~ 194 (745)
.+.-||++|+|+|++.... ...++. -..+++.|.. .+.|.+ .|++..|.
T Consensus 233 hier~~llI~VID~s~~~~---~dp~e~-~~~i~~EL~~y~~~L~~kP~I-VV~NK~DL 286 (424)
T PRK12297 233 HIERTRVIVHVIDMSGSEG---RDPIED-YEKINKELKLYNPRLLERPQI-VVANKMDL 286 (424)
T ss_pred HHhhCCEEEEEEeCCcccc---CChHHH-HHHHHHHHhhhchhccCCcEE-EEEeCCCC
Confidence 4556999999999973100 011211 1233444443 355554 56887775
No 185
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=84.83 E-value=3.2 Score=41.05 Aligned_cols=103 Identities=14% Similarity=0.142 Sum_probs=63.2
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC-----cc--eEEEecCceeeEEEEeCCCCC--hHHHH-hHHhhcc
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-----LS--STVSSSKYRLRTSVLQAPHGD--LVGCM-EMAKVAD 146 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g~--~tv~~~r~k~R~tfie~~~~d--l~~mL-D~aKvAD 146 (745)
....=|+|+||.+++.. ++ ++++....... |. .++.. .+.+++|.+++ .+ +.++- ...+-+|
T Consensus 12 ~~~~~ililGl~~sGKT-tl----l~~l~~~~~~~~~pT~g~~~~~i~~--~~~~~~~~d~g-G~~~~~~~w~~y~~~~~ 83 (175)
T PF00025_consen 12 KKEIKILILGLDGSGKT-TL----LNRLKNGEISETIPTIGFNIEEIKY--KGYSLTIWDLG-GQESFRPLWKSYFQNAD 83 (175)
T ss_dssp TSEEEEEEEESTTSSHH-HH----HHHHHSSSEEEEEEESSEEEEEEEE--TTEEEEEEEES-SSGGGGGGGGGGHTTES
T ss_pred CcEEEEEEECCCccchH-HH----HHHhhhccccccCcccccccceeee--CcEEEEEEecc-ccccccccceeeccccc
Confidence 44566899999998886 56 55554322211 32 23333 35789999997 44 32322 3456799
Q ss_pred eEEEEeeCCCccccccccccChHHHHHHHHHH---hcCCCceEEEeccCCc
Q 004549 147 LVAFVASASSFSEESMSYYIDSFGNQCLSVFR---SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 147 lVlllidas~g~~~~~~~~fd~eg~e~L~~l~---~qGlP~vigvl~~L~~ 194 (745)
.|+||+|++.. ..+++--.++-++|. .++.| ++.+++.-|.
T Consensus 84 ~iIfVvDssd~------~~l~e~~~~L~~ll~~~~~~~~p-iLIl~NK~D~ 127 (175)
T PF00025_consen 84 GIIFVVDSSDP------ERLQEAKEELKELLNDPELKDIP-ILILANKQDL 127 (175)
T ss_dssp EEEEEEETTGG------GGHHHHHHHHHHHHTSGGGTTSE-EEEEEESTTS
T ss_pred eeEEEEecccc------eeecccccchhhhcchhhcccce-EEEEeccccc
Confidence 99999999942 346666666666655 44555 3344666553
No 186
>cd04122 Rab14 Rab14 subfamily. Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT
Probab=84.61 E-value=16 Score=35.16 Aligned_cols=101 Identities=10% Similarity=0.069 Sum_probs=57.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC----------cceEEEecCceeeEEEEeCCCCC-hHHH-HhHHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA----------LSSTVSSSKYRLRTSVLQAPHGD-LVGC-MEMAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~----------g~~tv~~~r~k~R~tfie~~~~d-l~~m-LD~aKvADlVl 149 (745)
|+|+|.++.+.. +| +.+|....... ...++.....+-++.++.++-.. +.++ ....+=||.+|
T Consensus 5 i~iiG~~~vGKT-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i 79 (166)
T cd04122 5 YIIIGDMGVGKS-CL----LHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL 79 (166)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence 789999988775 66 55554332111 12233444445678888876222 2232 34578899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcCCC--ceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLGLP--STAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP--~vigvl~~L~~ 194 (745)
||+|.+.. ..|+.- .+.++.++...-| .++.|.++.|.
T Consensus 80 lv~d~~~~------~s~~~~-~~~~~~~~~~~~~~~~iiiv~nK~Dl 119 (166)
T cd04122 80 MVYDITRR------STYNHL-SSWLTDARNLTNPNTVIFLIGNKADL 119 (166)
T ss_pred EEEECCCH------HHHHHH-HHHHHHHHHhCCCCCeEEEEEECccc
Confidence 99999842 224322 2444444333333 35556787774
No 187
>TIGR02729 Obg_CgtA Obg family GTPase CgtA. This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.
Probab=84.25 E-value=16 Score=40.34 Aligned_cols=143 Identities=10% Similarity=0.152 Sum_probs=67.8
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-------CC-cce--EEEecCceeeEEEEeCCCCCh----------HHHHhH
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-------GA-LSS--TVSSSKYRLRTSVLQAPHGDL----------VGCMEM 141 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-------~~-g~~--tv~~~r~k~R~tfie~~~~dl----------~~mLD~ 141 (745)
|++||++..+.. +| +..++.... +. .|. .+.... ..+++|+-.| .-+ ...|..
T Consensus 160 V~lvG~pnaGKS-TL----l~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~P-Gli~~a~~~~gLg~~flrh 232 (329)
T TIGR02729 160 VGLVGLPNAGKS-TL----ISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIP-GLIEGASEGAGLGHRFLKH 232 (329)
T ss_pred EEEEcCCCCCHH-HH----HHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCC-CcccCCcccccHHHHHHHH
Confidence 899999987765 56 555543221 11 111 112221 2678888776 321 233444
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHH-hcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCee
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFR-SLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKF 220 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~-~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Kl 220 (745)
..-||++|+|+|++.....+....++.+-.++..... ....| ++.|++.+|.... ... +.+...|...+ +..+
T Consensus 233 ierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp-~IIV~NK~DL~~~--~~~-~~~~~~l~~~~--~~~v 306 (329)
T TIGR02729 233 IERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKP-RIVVLNKIDLLDE--EEL-AELLKELKKAL--GKPV 306 (329)
T ss_pred HHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCC-EEEEEeCccCCCh--HHH-HHHHHHHHHHc--CCcE
Confidence 5569999999998841000000112222222222211 12344 4557888885111 111 12222232223 2467
Q ss_pred EEeCC--HHHHHHHHHHHh
Q 004549 221 YAADT--KDELHKFLWLFK 237 (745)
Q Consensus 221 f~l~~--~~e~~nL~R~I~ 237 (745)
|.+|. ..-+..|+..|.
T Consensus 307 i~iSAktg~GI~eL~~~I~ 325 (329)
T TIGR02729 307 FPISALTGEGLDELLYALA 325 (329)
T ss_pred EEEEccCCcCHHHHHHHHH
Confidence 88774 233555655554
No 188
>cd04140 ARHI_like ARHI subfamily. ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to
Probab=83.80 E-value=16 Score=35.13 Aligned_cols=102 Identities=11% Similarity=0.078 Sum_probs=55.1
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC-----CC-cceE---EEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT-----GA-LSST---VSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-----~~-g~~t---v~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlVl 149 (745)
-|+|+|.++.+.. +| ++.|..... .. +..+ +.......++.|+..+.. ....+. ...+-||.+|
T Consensus 3 kv~~vG~~~vGKT-sl----i~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i 77 (165)
T cd04140 3 RVVVFGAGGVGKS-SL----VLRFVKGTFRESYIPTIEDTYRQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFI 77 (165)
T ss_pred EEEEECCCCCCHH-HH----HHHHHhCCCCCCcCCcchheEEEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEE
Confidence 3789999988775 56 444433221 11 2111 222333456778877532 233332 2456799999
Q ss_pred EEeeCCCccccccccccChH--HHHHHHHHHh---cCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSF--GNQCLSVFRS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~e--g~e~L~~l~~---qGlP~vigvl~~L~~ 194 (745)
+|+|.+.. ..|+.. -.+.|..++. .++| +|.|.+..|.
T Consensus 78 lv~d~~~~------~s~~~~~~~~~~i~~~~~~~~~~~p-iilv~nK~Dl 120 (165)
T cd04140 78 LVYSVTSK------QSLEELKPIYELICEIKGNNIEKIP-IMLVGNKCDE 120 (165)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHHhcCCCCCCC-EEEEEECccc
Confidence 99998853 234322 1233333332 4566 5567888775
No 189
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=83.76 E-value=19 Score=34.64 Aligned_cols=101 Identities=10% Similarity=0.050 Sum_probs=58.2
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC---------cceEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA---------LSSTVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---------g~~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVll 150 (745)
|+|+|.++.+.. +| +..|....... -..++..+...-.++++..+..+ ...+.. ..+-||.+||
T Consensus 1 i~i~G~~~vGKT-sl----i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~il 75 (174)
T smart00174 1 LVVVGDGAVGKT-CL----LISYTTNAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLI 75 (174)
T ss_pred CEEECCCCCCHH-HH----HHHHHhCCCCCCCCCcEEeeeeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEE
Confidence 579999988775 66 44443332211 11223334434467888775322 223333 3467999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
++|.+.. ..|+.-...++..++.+ +. .+|.|.++.|.
T Consensus 76 v~d~~~~------~s~~~~~~~~~~~i~~~~~~~-piilv~nK~Dl 114 (174)
T smart00174 76 CFSVDSP------ASFENVKEKWYPEVKHFCPNT-PIILVGTKLDL 114 (174)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhhCCCC-CEEEEecChhh
Confidence 9998842 34655444456666554 33 45667787775
No 190
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=83.75 E-value=8.4 Score=44.35 Aligned_cols=100 Identities=14% Similarity=0.130 Sum_probs=59.0
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhccCCC---CC--cc------eEEEecCceeeEEEEeCCC-CChHH--------
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSSEGT---GA--LS------STVSSSKYRLRTSVLQAPH-GDLVG-------- 137 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~---~~--g~------~tv~~~r~k~R~tfie~~~-~dl~~-------- 137 (745)
.+.-|+|+|.++.+.. +| ++.|++.+. +. |. .++..+. ..++++-.+- .+..+
T Consensus 202 ~g~kVvIvG~~nvGKS-SL----iN~L~~~~~aivs~~pgtTrd~~~~~i~~~g--~~v~l~DTaG~~~~~~~ie~~gi~ 274 (442)
T TIGR00450 202 DGFKLAIVGSPNVGKS-SL----LNALLKQDRAIVSDIKGTTRDVVEGDFELNG--ILIKLLDTAGIREHADFVERLGIE 274 (442)
T ss_pred cCCEEEEECCCCCcHH-HH----HHHHhCCCCcccCCCCCcEEEEEEEEEEECC--EEEEEeeCCCcccchhHHHHHHHH
Confidence 3456889999998875 67 555544321 11 21 1222332 3567776652 22222
Q ss_pred -HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 138 -CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 138 -mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+...+-||++|+|+|++.+ ...+.. ++..++..|.| ++.|++..|.
T Consensus 275 ~~~~~~~~aD~il~V~D~s~~--------~s~~~~-~l~~~~~~~~p-iIlV~NK~Dl 322 (442)
T TIGR00450 275 KSFKAIKQADLVIYVLDASQP--------LTKDDF-LIIDLNKSKKP-FILVLNKIDL 322 (442)
T ss_pred HHHHHHhhCCEEEEEEECCCC--------CChhHH-HHHHHhhCCCC-EEEEEECccC
Confidence 24566789999999999853 222222 56666666765 5678898885
No 191
>cd04117 Rab15 Rab15 subfamily. Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to
Probab=83.63 E-value=16 Score=35.09 Aligned_cols=102 Identities=11% Similarity=0.049 Sum_probs=57.9
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC-CC-----c----ceEEEecCceeeEEEEeCCCC-ChHHH-HhHHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT-GA-----L----SSTVSSSKYRLRTSVLQAPHG-DLVGC-MEMAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~-----g----~~tv~~~r~k~R~tfie~~~~-dl~~m-LD~aKvADlV 148 (745)
-|+|+|+++.+.. +| +.+|..... .. | ..++..+....++.++.++.. ...++ -...+.||.+
T Consensus 2 ki~vvG~~~~GKT-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ 76 (161)
T cd04117 2 RLLLIGDSGVGKT-CL----LCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGI 76 (161)
T ss_pred EEEEECcCCCCHH-HH----HHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEE
Confidence 4789999998876 56 444432221 11 2 224444544567788887632 22222 3456889999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
++++|.+.. ..|+.. ...+..+..+.. ..++.|.+..|.
T Consensus 77 i~v~d~~~~------~sf~~~-~~~~~~~~~~~~~~~~iilvgnK~Dl 117 (161)
T cd04117 77 FLVYDISSE------RSYQHI-MKWVSDVDEYAPEGVQKILIGNKADE 117 (161)
T ss_pred EEEEECCCH------HHHHHH-HHHHHHHHHhCCCCCeEEEEEECccc
Confidence 999998742 335443 344555554432 234556677664
No 192
>cd04116 Rab9 Rab9 subfamily. Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX
Probab=83.60 E-value=19 Score=34.58 Aligned_cols=107 Identities=6% Similarity=0.019 Sum_probs=58.7
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEecCceeeEEEEeCCCCC-hHHHH-hHHhhcc
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSSKYRLRTSVLQAPHGD-LVGCM-EMAKVAD 146 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~r~k~R~tfie~~~~d-l~~mL-D~aKvAD 146 (745)
..=|+|+|.++++.. +| ++.|....... | ..++.....+-++.++.++... ...+. ...+-||
T Consensus 5 ~~ki~vvG~~~~GKT-sl----i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d 79 (170)
T cd04116 5 LLKVILLGDGGVGKS-SL----MNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSD 79 (170)
T ss_pred EEEEEEECCCCCCHH-HH----HHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCC
Confidence 355889999988765 66 44443222111 2 1233344445677788776322 22222 3567899
Q ss_pred eEEEEeeCCCccccccccccChHHHHHHHHHHh---cCCCceEEEeccCCc
Q 004549 147 LVAFVASASSFSEESMSYYIDSFGNQCLSVFRS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 147 lVlllidas~g~~~~~~~~fd~eg~e~L~~l~~---qGlP~vigvl~~L~~ 194 (745)
.+|+++|.+.... ...+..|-.++++.+.. .++|-++ |++..|.
T Consensus 80 ~~i~v~d~~~~~s---~~~~~~~~~~~~~~~~~~~~~~~piil-v~nK~Dl 126 (170)
T cd04116 80 CCLLTFAVDDSQS---FQNLSNWKKEFIYYADVKEPESFPFVV-LGNKNDI 126 (170)
T ss_pred EEEEEEECCCHHH---HHhHHHHHHHHHHhcccccCCCCcEEE-EEECccc
Confidence 9999999874300 01233455555555432 3455444 6777775
No 193
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=83.51 E-value=5.7 Score=41.49 Aligned_cols=84 Identities=17% Similarity=0.278 Sum_probs=54.7
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC--------cc--eEEEecCceeeEEEEeCCCCC----------hHHHHhH
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA--------LS--STVSSSKYRLRTSVLQAPHGD----------LVGCMEM 141 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~--------g~--~tv~~~r~k~R~tfie~~~~d----------l~~mLD~ 141 (745)
|+++|+++++.. +| ++.+++..... .+ -.+... ..+++++..| .- ...++.+
T Consensus 3 v~lvG~~~~GKS-tL----l~~Ltg~~~~v~~~~~tT~~~~~g~~~~~--~~~i~l~Dtp-G~~~~~~~~~~~~~~~l~~ 74 (233)
T cd01896 3 VALVGFPSVGKS-TL----LSKLTNTKSEVAAYEFTTLTCVPGVLEYK--GAKIQLLDLP-GIIEGAADGKGRGRQVIAV 74 (233)
T ss_pred EEEECCCCCCHH-HH----HHHHHCCCccccCCCCccccceEEEEEEC--CeEEEEEECC-CcccccccchhHHHHHHHh
Confidence 789999988775 67 66665543211 11 112222 3678888776 31 1356889
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCC
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL 182 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl 182 (745)
++-||++|+|+|++.. +..-..++..|...|+
T Consensus 75 ~~~ad~il~V~D~t~~---------~~~~~~~~~~l~~~gi 106 (233)
T cd01896 75 ARTADLILMVLDATKP---------EGHREILERELEGVGI 106 (233)
T ss_pred hccCCEEEEEecCCcc---------hhHHHHHHHHHHHcCc
Confidence 9999999999999742 2345567777877777
No 194
>COG1160 Predicted GTPases [General function prediction only]
Probab=83.12 E-value=7.2 Score=44.63 Aligned_cols=134 Identities=13% Similarity=0.103 Sum_probs=80.8
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCCC-----c--------ceEEEecCceeeEEEEeCCC---CC---h-----
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-----L--------SSTVSSSKYRLRTSVLQAPH---GD---L----- 135 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g--------~~tv~~~r~k~R~tfie~~~---~d---l----- 135 (745)
.+|||||=|.-+.. +| ...|++..... | ...+. + +.|++|--+- ++ |
T Consensus 4 ~~VAIVGRPNVGKS-TL----FNRL~g~r~AIV~D~pGvTRDr~y~~~~~~-~---~~f~lIDTgGl~~~~~~~l~~~i~ 74 (444)
T COG1160 4 PVVAIVGRPNVGKS-TL----FNRLTGRRIAIVSDTPGVTRDRIYGDAEWL-G---REFILIDTGGLDDGDEDELQELIR 74 (444)
T ss_pred CEEEEECCCCCcHH-HH----HHHHhCCeeeEeecCCCCccCCccceeEEc-C---ceEEEEECCCCCcCCchHHHHHHH
Confidence 57999998886664 66 66665544221 2 22222 2 3477775532 12 2
Q ss_pred HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccC
Q 004549 136 VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFP 215 (745)
Q Consensus 136 ~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~ 215 (745)
...+-|+.-||+||||+|+..| ...+-+++-+.|+-.+-| |+.|++.+|. ++.. ....-||+.-
T Consensus 75 ~Qa~~Ai~eADvilfvVD~~~G--------it~~D~~ia~~Lr~~~kp-viLvvNK~D~--~~~e----~~~~efyslG- 138 (444)
T COG1160 75 EQALIAIEEADVILFVVDGREG--------ITPADEEIAKILRRSKKP-VILVVNKIDN--LKAE----ELAYEFYSLG- 138 (444)
T ss_pred HHHHHHHHhCCEEEEEEeCCCC--------CCHHHHHHHHHHHhcCCC-EEEEEEcccC--chhh----hhHHHHHhcC-
Confidence 2356788889999999999965 667888899999955555 6667788876 3211 1222344332
Q ss_pred CCCeeEEeCC--HHHHHHHHHHHhhc
Q 004549 216 EDCKFYAADT--KDELHKFLWLFKEQ 239 (745)
Q Consensus 216 ~~~Klf~l~~--~~e~~nL~R~I~~~ 239 (745)
-.+.+.+|. -.-+..|+-.|...
T Consensus 139 -~g~~~~ISA~Hg~Gi~dLld~v~~~ 163 (444)
T COG1160 139 -FGEPVPISAEHGRGIGDLLDAVLEL 163 (444)
T ss_pred -CCCceEeehhhccCHHHHHHHHHhh
Confidence 356777774 33344555555443
No 195
>cd04148 RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra
Probab=83.03 E-value=15 Score=37.92 Aligned_cols=99 Identities=15% Similarity=0.092 Sum_probs=56.6
Q ss_pred EEEecCCCccChhhHHHHHHHhhc-cCCC-CC---------cceEEEecCceeeEEEEeCCCCChHHHHhHH-h-hcceE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLS-SEGT-GA---------LSSTVSSSKYRLRTSVLQAPHGDLVGCMEMA-K-VADLV 148 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~-~~~~-~~---------g~~tv~~~r~k~R~tfie~~~~dl~~mLD~a-K-vADlV 148 (745)
|+|+|.++.+.. +| +..|. +... .. ...++.+......++|+.++..+ ..+-+.+ + -||.+
T Consensus 3 I~lvG~~gvGKT-sL----i~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~-~~~~~~~~~~~ad~i 76 (221)
T cd04148 3 VVMLGSPGVGKS-SL----ASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE-MWTEDSCMQYQGDAF 76 (221)
T ss_pred EEEECCCCCcHH-HH----HHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc-hHHHhHHhhcCCCEE
Confidence 789999988775 66 44442 2111 11 22344444445678888887333 2233333 4 79999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhc----CCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSL----GLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~q----GlP~vigvl~~L~~ 194 (745)
|||+|++.. ..|+. ..+++..|... +.| +|.|.+..|.
T Consensus 77 ilV~d~td~------~S~~~-~~~~~~~l~~~~~~~~~p-iilV~NK~Dl 118 (221)
T cd04148 77 VVVYSVTDR------SSFER-ASELRIQLRRNRQLEDRP-IILVGNKSDL 118 (221)
T ss_pred EEEEECCCH------HHHHH-HHHHHHHHHHhcCCCCCC-EEEEEEChhc
Confidence 999999853 23442 23344444443 344 5677787774
No 196
>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le
Probab=83.01 E-value=36 Score=33.02 Aligned_cols=102 Identities=11% Similarity=0.043 Sum_probs=55.8
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC------c---ceEEEecCceeeEEEEeCCCCChHHHH--hHHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA------L---SSTVSSSKYRLRTSVLQAPHGDLVGCM--EMAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g---~~tv~~~r~k~R~tfie~~~~dl~~mL--D~aKvADlVl 149 (745)
=|+|+|+++.+.. +| ++.+....... + ...+......-++.++..+...-..++ .....+|.+|
T Consensus 3 kv~l~G~~g~GKT-tl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i 77 (180)
T cd04137 3 KIAVLGSRSVGKS-SL----TVQFVEGHFVESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYI 77 (180)
T ss_pred EEEEECCCCCCHH-HH----HHHHHhCCCccccCcchhhhEEEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEE
Confidence 3789999987775 55 44443222111 1 122333333456777877632222222 3567799999
Q ss_pred EEeeCCCccccccccccChHH---HHHHHHHHhcCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFG---NQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg---~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+++|.+.. ..|+.-- ..+++....+++| ++.|.+..|.
T Consensus 78 ~v~d~~~~------~~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl 118 (180)
T cd04137 78 LVYSVTSR------KSFEVVKVIYDKILDMLGKESVP-IVLVGNKSDL 118 (180)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHhcCCCCCC-EEEEEEchhh
Confidence 99998853 2233222 3333333345667 5667776664
No 197
>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
Probab=82.95 E-value=18 Score=34.55 Aligned_cols=33 Identities=27% Similarity=0.255 Sum_probs=24.4
Q ss_pred eeEEEEeCCCCC----------hHHHHhHHhhcceEEEEeeCCC
Q 004549 123 LRTSVLQAPHGD----------LVGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 123 ~R~tfie~~~~d----------l~~mLD~aKvADlVlllidas~ 156 (745)
.+++|+..| .- ...++..++-||.|++++|++.
T Consensus 44 ~~~~i~Dtp-G~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~ 86 (176)
T cd01881 44 ARIQVADIP-GLIEGASEGRGLGNQFLAHIRRADAILHVVDASE 86 (176)
T ss_pred CeEEEEecc-ccchhhhcCCCccHHHHHHHhccCEEEEEEeccC
Confidence 578888776 31 2245667788999999999984
No 198
>cd04132 Rho4_like Rho4-like subfamily. Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=82.49 E-value=11 Score=37.06 Aligned_cols=101 Identities=9% Similarity=0.057 Sum_probs=56.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c---ceEEEec-CceeeEEEEeCCC-CChHHHHh-HHhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L---SSTVSSS-KYRLRTSVLQAPH-GDLVGCME-MAKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g---~~tv~~~-r~k~R~tfie~~~-~dl~~mLD-~aKvADlVl 149 (745)
|+|+|.++.+.. +| +..|....... + ..++..+ +..-.+.++..+. .....+.. ..+-||.+|
T Consensus 3 i~vvG~~~vGKT-sl----i~~l~~~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii 77 (187)
T cd04132 3 IVVVGDGGCGKT-CL----LIVYSQGKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLL 77 (187)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEE
Confidence 789999987775 56 44443222111 1 1122222 3345677887752 22334433 457899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHh--cCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRS--LGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~--qGlP~vigvl~~L~~ 194 (745)
+++|.+.. ..|+.--...+..++. .+.| ++.|.++.|.
T Consensus 78 ~v~d~~~~------~s~~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl 117 (187)
T cd04132 78 ICYAVDNP------TSLDNVEDKWFPEVNHFCPGTP-IMLVGLKTDL 117 (187)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHHhCCCCC-EEEEEeChhh
Confidence 99999842 3354333334444432 3444 5667787774
No 199
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=82.42 E-value=4.5 Score=38.47 Aligned_cols=50 Identities=8% Similarity=0.009 Sum_probs=34.0
Q ss_pred HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 136 VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 136 ~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
...+.+++-||+||+|+|+... +..+-.++...|... |.| ++.|++..|.
T Consensus 3 ~~~~~~i~~aD~vl~ViD~~~p--------~~~~~~~l~~~l~~~~~~k~-~iivlNK~DL 54 (141)
T cd01857 3 RQLWRVVERSDIVVQIVDARNP--------LLFRPPDLERYVKEVDPRKK-NILLLNKADL 54 (141)
T ss_pred HHHHHHHhhCCEEEEEEEccCC--------cccCCHHHHHHHHhccCCCc-EEEEEechhc
Confidence 4677889999999999999853 222233555555544 654 5667888875
No 200
>cd01858 NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.
Probab=82.32 E-value=6.9 Score=37.84 Aligned_cols=48 Identities=8% Similarity=0.030 Sum_probs=31.8
Q ss_pred HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHh--cCCCceEEEeccCCc
Q 004549 138 CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRS--LGLPSTAVLIRDLPT 194 (745)
Q Consensus 138 mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~--qGlP~vigvl~~L~~ 194 (745)
+..+++=||+||+|+|++.. +...-..+++.|.. .|.| ++.|++..|.
T Consensus 2 ~~~~l~~aD~il~VvD~~~p--------~~~~~~~i~~~l~~~~~~~p-~ilVlNKiDl 51 (157)
T cd01858 2 LYKVIDSSDVVIQVLDARDP--------MGTRCKHVEEYLKKEKPHKH-LIFVLNKCDL 51 (157)
T ss_pred hhHhhhhCCEEEEEEECCCC--------ccccCHHHHHHHHhccCCCC-EEEEEEchhc
Confidence 34667889999999999852 22223445555543 3455 6788998885
No 201
>COG1163 DRG Predicted GTPase [General function prediction only]
Probab=81.46 E-value=31 Score=38.15 Aligned_cols=87 Identities=16% Similarity=0.229 Sum_probs=56.3
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC--cce-E--EEec---CceeeEEEEeCCCCCh----------HHHHhHH
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA--LSS-T--VSSS---KYRLRTSVLQAPHGDL----------VGCMEMA 142 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~--g~~-t--v~~~---r~k~R~tfie~~~~dl----------~~mLD~a 142 (745)
-|++||+|+.+.. +| +..+|+...+. -++ | .+-+ =.--.|+++..| .=+ ..+|-++
T Consensus 65 ~v~lVGfPsvGKS-tL----L~~LTnt~seva~y~FTTl~~VPG~l~Y~ga~IQild~P-gii~gas~g~grG~~vlsv~ 138 (365)
T COG1163 65 TVALVGFPSVGKS-TL----LNKLTNTKSEVADYPFTTLEPVPGMLEYKGAQIQLLDLP-GIIEGASSGRGRGRQVLSVA 138 (365)
T ss_pred EEEEEcCCCccHH-HH----HHHHhCCCccccccCceecccccceEeecCceEEEEcCc-ccccCcccCCCCcceeeeee
Confidence 4789999887764 66 77777655443 111 1 1111 112678899887 222 3488899
Q ss_pred hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCC
Q 004549 143 KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL 182 (745)
Q Consensus 143 KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl 182 (745)
.-||+|++++|+... .-.-.-+++-|..-|+
T Consensus 139 R~ADlIiiVld~~~~---------~~~~~~i~~ELe~~GI 169 (365)
T COG1163 139 RNADLIIIVLDVFED---------PHHRDIIERELEDVGI 169 (365)
T ss_pred ccCCEEEEEEecCCC---------hhHHHHHHHHHHhcCe
Confidence 999999999999842 1124567777777775
No 202
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=81.39 E-value=13 Score=34.83 Aligned_cols=61 Identities=18% Similarity=0.259 Sum_probs=37.9
Q ss_pred eeEEEEeCCC-CChHH-------HHhHH--hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccC
Q 004549 123 LRTSVLQAPH-GDLVG-------CMEMA--KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDL 192 (745)
Q Consensus 123 ~R~tfie~~~-~dl~~-------mLD~a--KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L 192 (745)
..+.|+..|- .++.. +.... +-+|+||+++|++. .+. ...++..+...|.| ++.|++++
T Consensus 43 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~---------~~~-~~~~~~~~~~~~~~-~iiv~NK~ 111 (158)
T cd01879 43 KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATN---------LER-NLYLTLQLLELGLP-VVVALNMI 111 (158)
T ss_pred eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCc---------chh-HHHHHHHHHHcCCC-EEEEEehh
Confidence 5788888873 12221 12222 48999999999984 222 22344555667876 56778887
Q ss_pred Cc
Q 004549 193 PT 194 (745)
Q Consensus 193 ~~ 194 (745)
|.
T Consensus 112 Dl 113 (158)
T cd01879 112 DE 113 (158)
T ss_pred hh
Confidence 74
No 203
>cd04121 Rab40 Rab40 subfamily. This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d
Probab=81.31 E-value=40 Score=33.96 Aligned_cols=144 Identities=11% Similarity=0.163 Sum_probs=77.1
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCC-CCC-----c----ceEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcce
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEG-TGA-----L----SSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADL 147 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~-~~~-----g----~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADl 147 (745)
.=|+|+|..+.+.. +| +..|.... ... | ..++..+..+-+|.|+..+. .....+.. .++-||.
T Consensus 7 ~KivviG~~~vGKT-sl----l~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~ 81 (189)
T cd04121 7 LKFLLVGDSDVGKG-EI----LASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQG 81 (189)
T ss_pred eEEEEECCCCCCHH-HH----HHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCE
Confidence 44789999887765 55 44443211 111 1 23444455567788887642 34555554 3589999
Q ss_pred EEEEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCcchhh---hHHHHHHHHhhcccccCCCCeeEE
Q 004549 148 VAFVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPTDLKK---RKDLKKMCISSLTSEFPEDCKFYA 222 (745)
Q Consensus 148 Vlllidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~~~Kk---~~~~kK~lk~~f~~e~~~~~Klf~ 222 (745)
+|||+|.+.. ..|+.- ...+..++.+ ++ .+|.|.++.|...++ ..+.+...++ . +..+|-
T Consensus 82 illVfD~t~~------~Sf~~~-~~w~~~i~~~~~~~-piilVGNK~DL~~~~~v~~~~~~~~a~~----~---~~~~~e 146 (189)
T cd04121 82 IILVYDITNR------WSFDGI-DRWIKEIDEHAPGV-PKILVGNRLHLAFKRQVATEQAQAYAER----N---GMTFFE 146 (189)
T ss_pred EEEEEECcCH------HHHHHH-HHHHHHHHHhCCCC-CEEEEEECccchhccCCCHHHHHHHHHH----c---CCEEEE
Confidence 9999999853 335433 2344444443 33 345567888851111 1222332222 1 345666
Q ss_pred eC-----CHHH-HHHHHHHHhhccccC
Q 004549 223 AD-----TKDE-LHKFLWLFKEQRLTV 243 (745)
Q Consensus 223 l~-----~~~e-~~nL~R~I~~~k~r~ 243 (745)
.| +-.| ...|++.|...+.+|
T Consensus 147 ~SAk~g~~V~~~F~~l~~~i~~~~~~~ 173 (189)
T cd04121 147 VSPLCNFNITESFTELARIVLMRHGRP 173 (189)
T ss_pred ecCCCCCCHHHHHHHHHHHHHHhcCCC
Confidence 66 2344 346666666555544
No 204
>PRK09554 feoB ferrous iron transport protein B; Reviewed
Probab=80.93 E-value=15 Score=45.22 Aligned_cols=137 Identities=18% Similarity=0.177 Sum_probs=74.4
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCC--C-cceEEE-----ecCceeeEEEEeCCC-CChHH-----HH------
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTG--A-LSSTVS-----SSKYRLRTSVLQAPH-GDLVG-----CM------ 139 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~--~-g~~tv~-----~~r~k~R~tfie~~~-~dl~~-----mL------ 139 (745)
..|+++|.++++.. +| ++.+++.... . .-+|+. ......+++++-.|- .++.+ -+
T Consensus 4 ~~IaLvG~pNvGKS-TL----fN~Ltg~~~~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~ 78 (772)
T PRK09554 4 LTIGLIGNPNSGKT-TL----FNQLTGARQRVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIAC 78 (772)
T ss_pred eEEEEECCCCCCHH-HH----HHHHhCCCCccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHH
Confidence 46899999998775 67 5555543321 1 112221 111135778887762 22221 11
Q ss_pred hH--HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhh-HHHHHHHHhhcccccCC
Q 004549 140 EM--AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKR-KDLKKMCISSLTSEFPE 216 (745)
Q Consensus 140 D~--aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~-~~~kK~lk~~f~~e~~~ 216 (745)
+. ...+|+||+|+|++. .+. ...++..++..|+| ++.|++.+|...++. ....+.+++.+
T Consensus 79 ~~l~~~~aD~vI~VvDat~---------ler-~l~l~~ql~e~giP-vIvVlNK~Dl~~~~~i~id~~~L~~~L------ 141 (772)
T PRK09554 79 HYILSGDADLLINVVDASN---------LER-NLYLTLQLLELGIP-CIVALNMLDIAEKQNIRIDIDALSARL------ 141 (772)
T ss_pred HHHhccCCCEEEEEecCCc---------chh-hHHHHHHHHHcCCC-EEEEEEchhhhhccCcHHHHHHHHHHh------
Confidence 11 235899999999984 332 23455667778998 666788887511211 12233444433
Q ss_pred CCeeEEeCC--HHHHHHHHHHHhh
Q 004549 217 DCKFYAADT--KDELHKFLWLFKE 238 (745)
Q Consensus 217 ~~Klf~l~~--~~e~~nL~R~I~~ 238 (745)
|..++.++. ...+..|...|..
T Consensus 142 G~pVvpiSA~~g~GIdeL~~~I~~ 165 (772)
T PRK09554 142 GCPVIPLVSTRGRGIEALKLAIDR 165 (772)
T ss_pred CCCEEEEEeecCCCHHHHHHHHHH
Confidence 456777773 2334455555544
No 205
>PLN00223 ADP-ribosylation factor; Provisional
Probab=80.76 E-value=12 Score=37.19 Aligned_cols=102 Identities=13% Similarity=0.056 Sum_probs=58.1
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCC-----CCcc--eEEEecCceeeEEEEeCCCC-ChHHHHhH-HhhcceEEE
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGT-----GALS--STVSSSKYRLRTSVLQAPHG-DLVGCMEM-AKVADLVAF 150 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-----~~g~--~tv~~~r~k~R~tfie~~~~-dl~~mLD~-aKvADlVll 150 (745)
.=|+++|+++++.. +| ++.|+.... +.|. .++... ..++.++.++-. .+..+... .+-||.+||
T Consensus 18 ~ki~ivG~~~~GKT-sl----~~~l~~~~~~~~~pt~g~~~~~~~~~--~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~ 90 (181)
T PLN00223 18 MRILMVGLDAAGKT-TI----LYKLKLGEIVTTIPTIGFNVETVEYK--NISFTVWDVGGQDKIRPLWRHYFQNTQGLIF 90 (181)
T ss_pred cEEEEECCCCCCHH-HH----HHHHccCCCccccCCcceeEEEEEEC--CEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence 34889999998775 56 444432111 1132 122222 356777877622 24444333 577999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhcCCC--ceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSLGLP--STAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP--~vigvl~~L~~ 194 (745)
|+|++.. ..|++.-.++-..++...++ .++.|.+..|.
T Consensus 91 V~D~s~~------~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl 130 (181)
T PLN00223 91 VVDSNDR------DRVVEARDELHRMLNEDELRDAVLLVFANKQDL 130 (181)
T ss_pred EEeCCcH------HHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCC
Confidence 9999852 33555444555555444333 34556788875
No 206
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=80.11 E-value=9.1 Score=37.17 Aligned_cols=63 Identities=14% Similarity=0.205 Sum_probs=47.6
Q ss_pred eEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 124 RTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 124 R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+.+|.||+..-...+.+...||.||++++++.. --.....++..++..+.+....|++..+.
T Consensus 64 d~viiD~p~~~~~~~~~~l~~ad~viiv~~~~~~--------s~~~~~~~~~~~~~~~~~~~~iv~N~~~~ 126 (179)
T cd02036 64 DYILIDSPAGIERGFITAIAPADEALLVTTPEIS--------SLRDADRVKGLLEALGIKVVGVIVNRVRP 126 (179)
T ss_pred CEEEEECCCCCcHHHHHHHHhCCcEEEEeCCCcc--------hHHHHHHHHHHHHHcCCceEEEEEeCCcc
Confidence 7888999855444567778999999999998842 12356678888888888877777888875
No 207
>cd04109 Rab28 Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs
Probab=79.61 E-value=23 Score=36.07 Aligned_cols=101 Identities=18% Similarity=0.153 Sum_probs=55.6
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEec-CceeeEEEEeCCCCC-hHHHHh-HHhhcceE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSS-KYRLRTSVLQAPHGD-LVGCME-MAKVADLV 148 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~-r~k~R~tfie~~~~d-l~~mLD-~aKvADlV 148 (745)
|+|+|.++.+.. +| +..|....... | ...+..+ ....++.++.++... ...+++ .++-||.+
T Consensus 3 i~ivG~~~vGKS-sL----i~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~i 77 (215)
T cd04109 3 IVVLGDGAVGKT-SL----CRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAV 77 (215)
T ss_pred EEEECcCCCCHH-HH----HHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEE
Confidence 789999988775 56 44443322211 2 1223332 235677788876322 233333 35679999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhcC-----CCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSLG-----LPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~qG-----lP~vigvl~~L~~ 194 (745)
|||+|.+.. ..|+.- .+.+..|+... -|.++.|.+..|.
T Consensus 78 ilV~D~t~~------~s~~~~-~~w~~~l~~~~~~~~~~~piilVgNK~DL 121 (215)
T cd04109 78 FLVYDVTNS------QSFENL-EDWYSMVRKVLKSSETQPLVVLVGNKTDL 121 (215)
T ss_pred EEEEECCCH------HHHHHH-HHHHHHHHHhccccCCCceEEEEEECccc
Confidence 999998842 224321 22334343321 1346778888885
No 208
>cd04101 RabL4 RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.
Probab=78.36 E-value=31 Score=32.75 Aligned_cols=100 Identities=7% Similarity=0.057 Sum_probs=54.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccC--C------CCCcc----eEEEe-cCceeeEEEEeCCCCC-hHHHH-hHHhhcc
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSE--G------TGALS----STVSS-SKYRLRTSVLQAPHGD-LVGCM-EMAKVAD 146 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~--~------~~~g~----~tv~~-~r~k~R~tfie~~~~d-l~~mL-D~aKvAD 146 (745)
|+|+|.++++.. +| +..+... . .+.|+ .++.. +..+..+.++.++-.. ...|+ -..+-||
T Consensus 3 i~vvG~~~~GKt-sl----~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d 77 (164)
T cd04101 3 CAVVGDPAVGKT-AF----VQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPS 77 (164)
T ss_pred EEEECCCCCCHH-HH----HHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCC
Confidence 789999998875 56 4434211 1 11122 12222 2345677778776222 23333 3345599
Q ss_pred eEEEEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 147 LVAFVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 147 lVlllidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
.+|+|+|.+.. ..|+ .-...+..++.+ +. .++.|+++.|.
T Consensus 78 ~ii~v~d~~~~------~s~~-~~~~~~~~~~~~~~~~-p~ilv~nK~Dl 119 (164)
T cd04101 78 VFILVYDVSNK------ASFE-NCSRWVNKVRTASKHM-PGVLVGNKMDL 119 (164)
T ss_pred EEEEEEECcCH------HHHH-HHHHHHHHHHHhCCCC-CEEEEEECccc
Confidence 99999999842 2232 123444544443 43 44556787774
No 209
>PLN03110 Rab GTPase; Provisional
Probab=78.26 E-value=26 Score=35.83 Aligned_cols=101 Identities=12% Similarity=0.054 Sum_probs=57.9
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCC------C----cceEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTG------A----LSSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~------~----g~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADlV 148 (745)
=|+|+|.++.+.. +| +..|...... . ...++..+.....+.++..+. ..+.++.. ..+-||.+
T Consensus 14 Ki~ivG~~~vGKS-tL----i~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ 88 (216)
T PLN03110 14 KIVLIGDSGVGKS-NI----LSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGA 88 (216)
T ss_pred EEEEECCCCCCHH-HH----HHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEE
Confidence 3899999988775 56 4444322211 1 223444555455777777652 22445544 35889999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhc---CCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSL---GLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~q---GlP~vigvl~~L~~ 194 (745)
||++|.+.. ..|+. -...|+.++.+ ++| ++.|.+..|.
T Consensus 89 ilv~d~~~~------~s~~~-~~~~~~~~~~~~~~~~p-iiiv~nK~Dl 129 (216)
T PLN03110 89 LLVYDITKR------QTFDN-VQRWLRELRDHADSNIV-IMMAGNKSDL 129 (216)
T ss_pred EEEEECCCh------HHHHH-HHHHHHHHHHhCCCCCe-EEEEEEChhc
Confidence 999998742 22432 23455555544 343 4555677764
No 210
>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....
Probab=78.12 E-value=32 Score=32.61 Aligned_cols=101 Identities=13% Similarity=0.085 Sum_probs=60.9
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC------CC----cceEEEecCceeeEEEEeCCC-CChHHHHhH-HhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT------GA----LSSTVSSSKYRLRTSVLQAPH-GDLVGCMEM-AKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~----g~~tv~~~r~k~R~tfie~~~-~dl~~mLD~-aKvADlVl 149 (745)
|+|+|.++++.. +| ++.|..... +. ...++......-++.++..+. +....+.+. .+=+|.+|
T Consensus 2 i~vvG~~~vGKt-sl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i 76 (162)
T PF00071_consen 2 IVVVGDSGVGKT-SL----INRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAII 76 (162)
T ss_dssp EEEEESTTSSHH-HH----HHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEE
T ss_pred EEEECCCCCCHH-HH----HHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 689999988765 56 333332221 11 345566656677899998753 234444433 56699999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~~ 194 (745)
+++|.+.. ..|+.-. .++..++...- +.++.|.++.|.
T Consensus 77 i~fd~~~~------~S~~~~~-~~~~~i~~~~~~~~~iivvg~K~D~ 116 (162)
T PF00071_consen 77 IVFDVTDE------ESFENLK-KWLEEIQKYKPEDIPIIVVGNKSDL 116 (162)
T ss_dssp EEEETTBH------HHHHTHH-HHHHHHHHHSTTTSEEEEEEETTTG
T ss_pred cccccccc------ccccccc-cccccccccccccccceeeeccccc
Confidence 99998742 3455444 55555554443 445666778875
No 211
>COG2262 HflX GTPases [General function prediction only]
Probab=77.52 E-value=20 Score=40.62 Aligned_cols=53 Identities=21% Similarity=0.193 Sum_probs=37.8
Q ss_pred ChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCC--CceEEEeccCC
Q 004549 134 DLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL--PSTAVLIRDLP 193 (745)
Q Consensus 134 dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl--P~vigvl~~L~ 193 (745)
-+.+.|.-++-||++|.|+|||. ..+...-.-.+++|+.-|+ +.+|-|++.+|
T Consensus 261 AFksTLEE~~~aDlllhVVDaSd-------p~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD 315 (411)
T COG2262 261 AFKSTLEEVKEADLLLHVVDASD-------PEILEKLEAVEDVLAEIGADEIPIILVLNKID 315 (411)
T ss_pred HHHHHHHHhhcCCEEEEEeecCC-------hhHHHHHHHHHHHHHHcCCCCCCEEEEEeccc
Confidence 45778999999999999999995 3355444455555555443 45677788877
No 212
>cd04130 Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,
Probab=77.24 E-value=15 Score=35.76 Aligned_cols=101 Identities=13% Similarity=0.084 Sum_probs=58.3
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCC-CCC----c----ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEG-TGA----L----SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~-~~~----g----~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlVll 150 (745)
|+++|.++.+.. +| ++.+.... ... + ..++.++....+++++.++.. .+..+.. .++-||.+|+
T Consensus 3 ~~i~G~~~~GKt-sl----~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~ 77 (173)
T cd04130 3 CVLVGDGAVGKT-SL----IVSYTTNGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLL 77 (173)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCCCCCCceeeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEE
Confidence 688999887765 56 44442211 111 1 123444555678888988732 2333333 3467999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHh--cCCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRS--LGLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~--qGlP~vigvl~~L~~ 194 (745)
|+|.+.- ..|+.-...++..++. .++| ++.|.++.|.
T Consensus 78 v~d~~~~------~sf~~~~~~~~~~~~~~~~~~p-iilv~nK~Dl 116 (173)
T cd04130 78 CFSVVNP------SSFQNISEKWIPEIRKHNPKAP-IILVGTQADL 116 (173)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhhCCCCC-EEEEeeChhh
Confidence 9998842 3355433455666654 2444 4667887774
No 213
>cd01871 Rac1_like Rac1-like subfamily. The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti
Probab=76.71 E-value=19 Score=35.36 Aligned_cols=102 Identities=12% Similarity=0.047 Sum_probs=55.7
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC-CC-----c---ceEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT-GA-----L---SSTVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~-----g---~~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVl 149 (745)
=|+|+|.++.+.. +| +.+|..... .. + ..++.......+++++.++..+ ...+.. ..+-||.+|
T Consensus 3 ki~iiG~~~vGKS-sl----i~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i 77 (174)
T cd01871 3 KCVVVGDGAVGKT-CL----LISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFL 77 (174)
T ss_pred EEEEECCCCCCHH-HH----HHHHhcCCCCCcCCCcceeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEE
Confidence 3789999987775 56 444432111 11 1 1233444455678888876333 222222 235699999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
||+|.+.- ..|+.-....+..++.+ .+ .++.|.++.|.
T Consensus 78 lv~d~~~~------~sf~~~~~~~~~~~~~~~~~~-piilvgnK~Dl 117 (174)
T cd01871 78 ICFSLVSP------ASFENVRAKWYPEVRHHCPNT-PIILVGTKLDL 117 (174)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHHhCCCC-CEEEEeeChhh
Confidence 99999842 23544333344444333 33 34456777774
No 214
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=76.70 E-value=82 Score=33.85 Aligned_cols=69 Identities=9% Similarity=0.158 Sum_probs=45.1
Q ss_pred cceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhHHHHHHHHhhcccccCCCCeeEEe
Q 004549 145 ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRKDLKKMCISSLTSEFPEDCKFYAA 223 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l 223 (745)
+|++|++++++. .++..+-.++|+.|.. ++| ++.|++..|. ....+...++.++..+... +.++|.+
T Consensus 115 vh~~ly~i~~~~-------~~l~~~D~~~lk~l~~-~v~-vi~VinK~D~l~~~e~~~~k~~i~~~l~~~---~i~~~~~ 182 (276)
T cd01850 115 VHACLYFIEPTG-------HGLKPLDIEFMKRLSK-RVN-IIPVIAKADTLTPEELKEFKQRIMEDIEEH---NIKIYKF 182 (276)
T ss_pred eEEEEEEEeCCC-------CCCCHHHHHHHHHHhc-cCC-EEEEEECCCcCCHHHHHHHHHHHHHHHHHc---CCceECC
Confidence 689999999873 2355666888888874 665 7789999885 1112333455555444432 6778876
Q ss_pred CC
Q 004549 224 DT 225 (745)
Q Consensus 224 ~~ 225 (745)
..
T Consensus 183 ~~ 184 (276)
T cd01850 183 PE 184 (276)
T ss_pred CC
Confidence 64
No 215
>cd04175 Rap1 Rap1 subgroup. The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n
Probab=76.61 E-value=35 Score=32.47 Aligned_cols=103 Identities=12% Similarity=0.075 Sum_probs=57.2
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCC-C-----CCc---ceEEEecCceeeEEEEeCCC-CChHHHHhH-HhhcceE
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEG-T-----GAL---SSTVSSSKYRLRTSVLQAPH-GDLVGCMEM-AKVADLV 148 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~-~-----~~g---~~tv~~~r~k~R~tfie~~~-~dl~~mLD~-aKvADlV 148 (745)
.-|+|+|.++.+.. +| +..|.... . +.+ ..++.....+.++.++..+. ..+.++.+. ++-||.+
T Consensus 2 ~ki~~~G~~~~GKT-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ 76 (164)
T cd04175 2 YKLVVLGSGGVGKS-AL----TVQFVQGIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGF 76 (164)
T ss_pred cEEEEECCCCCCHH-HH----HHHHHhCCCCcccCCcchheEEEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEE
Confidence 35789999988775 56 33332111 1 111 12333444456677787652 235555554 6789999
Q ss_pred EEEeeCCCccccccccccChH---HHHHHHHHHhcCCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSF---GNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~e---g~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
||++|.+.. ..|+.- -.++++.....++| ++.|.+..|.
T Consensus 77 ilv~d~~~~------~s~~~~~~~~~~i~~~~~~~~~p-iilv~nK~Dl 118 (164)
T cd04175 77 VLVYSITAQ------STFNDLQDLREQILRVKDTEDVP-MILVGNKCDL 118 (164)
T ss_pred EEEEECCCH------HHHHHHHHHHHHHHHhcCCCCCC-EEEEEECCcc
Confidence 999998743 234432 23333332334555 6667787774
No 216
>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is
Probab=76.48 E-value=20 Score=34.83 Aligned_cols=101 Identities=8% Similarity=0.049 Sum_probs=54.6
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCC-----C-c----ceEEEecCceeeEEEEeCCCCC-hHHHH-hHHhhcceE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTG-----A-L----SSTVSSSKYRLRTSVLQAPHGD-LVGCM-EMAKVADLV 148 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-----~-g----~~tv~~~r~k~R~tfie~~~~d-l~~mL-D~aKvADlV 148 (745)
-|+|+|.++.+.. +| +..+...... . | .+++...+....+.++.++..+ ...+. -...-||.+
T Consensus 2 ki~vvG~~~vGKT-sl----i~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ 76 (166)
T cd00877 2 KLVLVGDGGTGKT-TF----VKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCA 76 (166)
T ss_pred EEEEECCCCCCHH-HH----HHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEE
Confidence 3789999988776 66 4443221111 1 2 2223333334567777765222 22222 234569999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
|+|+|.+.+ ..|+.- ..+++.++.+ +.| ++.|.+..|.
T Consensus 77 i~v~d~~~~------~s~~~~-~~~~~~i~~~~~~~p-iiiv~nK~Dl 116 (166)
T cd00877 77 IIMFDVTSR------VTYKNV-PNWHRDLVRVCGNIP-IVLCGNKVDI 116 (166)
T ss_pred EEEEECCCH------HHHHHH-HHHHHHHHHhCCCCc-EEEEEEchhc
Confidence 999999854 334332 2344444433 355 5667777775
No 217
>cd04144 Ras2 Ras2 subfamily. The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.
Probab=76.43 E-value=38 Score=33.56 Aligned_cols=100 Identities=11% Similarity=0.054 Sum_probs=54.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c---ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L---SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g---~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlVll 150 (745)
|+|+|.++.+.. +| +..|....... + ..++.....+..++|+..+-. ....+.. ..+-||.+||
T Consensus 2 i~ivG~~~vGKT-sl----i~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~il 76 (190)
T cd04144 2 LVVLGDGGVGKT-AL----TIQLCLNHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFIL 76 (190)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCccCCCchHhhEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEE
Confidence 688999887765 56 44443222111 1 112333333456788877622 2333332 4678999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHh------cCCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRS------LGLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~------qGlP~vigvl~~L~~ 194 (745)
++|.+.. ..|+.- .+++..+.. .+.| ++.|.+..|.
T Consensus 77 v~d~~~~------~s~~~~-~~~~~~i~~~~~~~~~~~p-iilvgNK~Dl 118 (190)
T cd04144 77 VYSITSR------STFERV-ERFREQIQRVKDESAADVP-IMIVGNKCDK 118 (190)
T ss_pred EEECCCH------HHHHHH-HHHHHHHHHHhcccCCCCC-EEEEEEChhc
Confidence 9998753 334432 233333322 2444 5567787775
No 218
>cd01856 YlqF YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.
Probab=75.41 E-value=11 Score=36.98 Aligned_cols=89 Identities=19% Similarity=0.122 Sum_probs=51.1
Q ss_pred ChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccc
Q 004549 134 DLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSE 213 (745)
Q Consensus 134 dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e 213 (745)
-++.+..+++-||+||+|+|++.+ +.....+++..+ .+- .++.|++..|.. .+ ....+ ...++...
T Consensus 9 ~~~~~~~~i~~aD~il~v~D~~~~--------~~~~~~~i~~~~--~~k-~~ilVlNK~Dl~-~~-~~~~~-~~~~~~~~ 74 (171)
T cd01856 9 ALRQIKEKLKLVDLVIEVRDARIP--------LSSRNPLLEKIL--GNK-PRIIVLNKADLA-DP-KKTKK-WLKYFESK 74 (171)
T ss_pred HHHHHHHHHhhCCEEEEEeeccCc--------cCcCChhhHhHh--cCC-CEEEEEehhhcC-Ch-HHHHH-HHHHHHhc
Confidence 356788999999999999999853 222223355544 244 467888988851 11 11211 11222222
Q ss_pred cCCCCeeEEeCC--HHHHHHHHHHHhhc
Q 004549 214 FPEDCKFYAADT--KDELHKFLWLFKEQ 239 (745)
Q Consensus 214 ~~~~~Klf~l~~--~~e~~nL~R~I~~~ 239 (745)
+.+++.+|. ...+..|.+.|...
T Consensus 75 ---~~~vi~iSa~~~~gi~~L~~~l~~~ 99 (171)
T cd01856 75 ---GEKVLFVNAKSGKGVKKLLKAAKKL 99 (171)
T ss_pred ---CCeEEEEECCCcccHHHHHHHHHHH
Confidence 356777774 33455666666654
No 219
>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts). This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.
Probab=75.18 E-value=41 Score=35.66 Aligned_cols=110 Identities=16% Similarity=0.234 Sum_probs=59.2
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC-cceEEE-----ecCceeeEEEEeCCC-CChH-------HHHhH
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-LSSTVS-----SSKYRLRTSVLQAPH-GDLV-------GCMEM 141 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-g~~tv~-----~~r~k~R~tfie~~~-~dl~-------~mLD~ 141 (745)
..+|.-|+|+|.++.+.. +|++.|+..-.. .... .+.|.. ......+++||-.|- .+-. .++..
T Consensus 28 ~~~~~~IllvG~tGvGKS-SliNaLlg~~~~-~v~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~ 105 (249)
T cd01853 28 LDFSLTILVLGKTGVGKS-STINSIFGERKA-ATSAFQSETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSS 105 (249)
T ss_pred ccCCeEEEEECCCCCcHH-HHHHHHhCCCCc-ccCCCCCceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHH
Confidence 577889999999987764 563333432100 0011 111211 111125788998873 1110 12222
Q ss_pred Hh------hcceEEEEeeCCCccccccccccChHHHHHHHHHHh-cC---CCceEEEeccCCc
Q 004549 142 AK------VADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRS-LG---LPSTAVLIRDLPT 194 (745)
Q Consensus 142 aK------vADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~-qG---lP~vigvl~~L~~ 194 (745)
.+ -.|+||++...+. ..++..-..++..|+. -| ...+|.|+||.+.
T Consensus 106 I~~~l~~~~idvIL~V~rlD~-------~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~ 161 (249)
T cd01853 106 IKRYLKKKTPDVVLYVDRLDM-------YRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAAS 161 (249)
T ss_pred HHHHHhccCCCEEEEEEcCCC-------CCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCcc
Confidence 22 4688888876553 2355555566666654 35 2478889998874
No 220
>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]
Probab=74.78 E-value=5.6 Score=42.30 Aligned_cols=83 Identities=18% Similarity=0.275 Sum_probs=50.7
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC------------cceEEEecCceeeEEEEeCCCCChH----------HH
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA------------LSSTVSSSKYRLRTSVLQAPHGDLV----------GC 138 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------------g~~tv~~~r~k~R~tfie~~~~dl~----------~m 138 (745)
=||.+|+|+-+.. .| +..+|+...++ |.+... -..|+++..| .=+. .+
T Consensus 64 RValIGfPSVGKS-tl----Ls~iT~T~SeaA~yeFTTLtcIpGvi~y~----ga~IQllDLP-GIieGAsqgkGRGRQv 133 (364)
T KOG1486|consen 64 RVALIGFPSVGKS-TL----LSKITSTHSEAASYEFTTLTCIPGVIHYN----GANIQLLDLP-GIIEGASQGKGRGRQV 133 (364)
T ss_pred EEEEecCCCccHH-HH----HHHhhcchhhhhceeeeEEEeecceEEec----CceEEEecCc-ccccccccCCCCCceE
Confidence 4788999876553 34 44454432222 333322 1577777766 4433 37
Q ss_pred HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCC
Q 004549 139 MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGL 182 (745)
Q Consensus 139 LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGl 182 (745)
+-+|+-||+||+|+||+-+ +..-+.+=.-|.+-|+
T Consensus 134 iavArtaDlilMvLDatk~---------e~qr~~le~ELe~vGi 168 (364)
T KOG1486|consen 134 IAVARTADLILMVLDATKS---------EDQREILEKELEAVGI 168 (364)
T ss_pred EEEeecccEEEEEecCCcc---------hhHHHHHHHHHHHhce
Confidence 8899999999999999953 2233344456777775
No 221
>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign
Probab=74.18 E-value=60 Score=31.67 Aligned_cols=101 Identities=9% Similarity=0.075 Sum_probs=56.5
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC------CCc---ceEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT------GAL---SSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~g---~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADlVl 149 (745)
=|+|+|.++.+.. +| +..|..... +.+ ..++.++..+-.++++.++. ..+.+|.+ ..+-||.+|
T Consensus 4 ki~vvG~~~vGKT-sL----~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~i 78 (172)
T cd04141 4 KIVMLGAGGVGKS-AV----TMQFISHSFPDYHDPTIEDAYKQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFI 78 (172)
T ss_pred EEEEECCCCCcHH-HH----HHHHHhCCCCCCcCCcccceEEEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEE
Confidence 4789999887765 55 333322111 111 12344455556788887762 23445543 467899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHH----hcCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFR----SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~----~qGlP~vigvl~~L~~ 194 (745)
+|+|.+.. ..|+.-- +++..+. ..++| +|.|.+..|.
T Consensus 79 lv~d~~~~------~Sf~~~~-~~~~~i~~~~~~~~~p-iilvgNK~Dl 119 (172)
T cd04141 79 ICYSVTDR------HSFQEAS-EFKKLITRVRLTEDIP-LVLVGNKVDL 119 (172)
T ss_pred EEEECCch------hHHHHHH-HHHHHHHHhcCCCCCC-EEEEEEChhh
Confidence 99998843 3344321 2222332 23555 5667787775
No 222
>cd04134 Rho3 Rho3 subfamily. Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.
Probab=74.09 E-value=21 Score=35.49 Aligned_cols=102 Identities=12% Similarity=0.106 Sum_probs=55.8
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC------cc---eEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA------LS---STVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g~---~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVl 149 (745)
=|+|+|.++.+.. +| ++.|....... +. ..+..+.....++++..+... ...+-. ..+-||.++
T Consensus 2 kivivG~~~vGKT-sl----i~~~~~~~~~~~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~i 76 (189)
T cd04134 2 KVVVLGDGACGKT-SL----LNVFTRGYFPQVYEPTVFENYVHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIM 76 (189)
T ss_pred EEEEECCCCCCHH-HH----HHHHhcCCCCCccCCcceeeeEEEEEECCEEEEEEEEECCCChhccccccccccCCCEEE
Confidence 3789999998876 56 44443222111 11 122334444677888775221 222211 246699999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
|++|.+.- ..|+......|..+..+ ++| ++.|.+..|.
T Consensus 77 lv~dv~~~------~sf~~~~~~~~~~i~~~~~~~p-iilvgNK~Dl 116 (189)
T cd04134 77 LCFSVDSP------DSLENVESKWLGEIREHCPGVK-LVLVALKCDL 116 (189)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHHhCCCCC-EEEEEEChhh
Confidence 99998742 33543333344455443 555 6777787774
No 223
>cd01874 Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi
Probab=73.57 E-value=68 Score=31.48 Aligned_cols=101 Identities=10% Similarity=0.026 Sum_probs=56.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-CC-----cc---eEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-GA-----LS---STVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~-----g~---~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVll 150 (745)
|+|+|.++.+.. +| +.+|..... .. |. .++..+...-+++++..+..+ ...+-. ..+-||.+||
T Consensus 4 i~vvG~~~vGKT-sl----~~~~~~~~f~~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~il 78 (175)
T cd01874 4 CVVVGDGAVGKT-CL----LISYTTNKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLV 78 (175)
T ss_pred EEEECCCCCCHH-HH----HHHHHcCCCCCCCCCceeeeeEEEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEE
Confidence 789999887775 56 444432211 11 11 234445545678888876322 323322 4567999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
++|.+.. ..|+.-....+..++.+ ++| ++.|.+..|.
T Consensus 79 v~d~~~~------~s~~~~~~~w~~~i~~~~~~~p-iilvgnK~Dl 117 (175)
T cd01874 79 CFSVVSP------SSFENVKEKWVPEITHHCPKTP-FLLVGTQIDL 117 (175)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHHhCCCCC-EEEEEECHhh
Confidence 9998842 33543333344444433 333 4556777664
No 224
>cd01849 YlqF_related_GTPase YlqF-related GTPases. These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.
Probab=73.05 E-value=12 Score=36.16 Aligned_cols=80 Identities=14% Similarity=0.117 Sum_probs=44.8
Q ss_pred ceEEEEeeCCCccccccccccChHHHHHH-HHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCeeEEeC
Q 004549 146 DLVAFVASASSFSEESMSYYIDSFGNQCL-SVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKFYAAD 224 (745)
Q Consensus 146 DlVlllidas~g~~~~~~~~fd~eg~e~L-~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~ 224 (745)
|+||+|+|++.. ...+-..+. ..+...+.| ++.|++..|.- .+ ..+...+.. +...+ +.+++.+|
T Consensus 1 Dvvl~VvD~~~p--------~~~~~~~i~~~~~~~~~~p-~IiVlNK~Dl~-~~-~~~~~~~~~-~~~~~--~~~ii~vS 66 (155)
T cd01849 1 DVILEVLDARDP--------LGTRSPDIERVLIKEKGKK-LILVLNKADLV-PK-EVLRKWLAY-LRHSY--PTIPFKIS 66 (155)
T ss_pred CEEEEEEeccCC--------ccccCHHHHHHHHhcCCCC-EEEEEechhcC-CH-HHHHHHHHH-HHhhC--CceEEEEe
Confidence 899999999842 112222333 466677776 67778888851 11 223332222 22222 46778877
Q ss_pred C--HHHHHHHHHHHhhc
Q 004549 225 T--KDELHKFLWLFKEQ 239 (745)
Q Consensus 225 ~--~~e~~nL~R~I~~~ 239 (745)
. ...+..|.+.|..+
T Consensus 67 a~~~~gi~~L~~~i~~~ 83 (155)
T cd01849 67 ATNGQGIEKKESAFTKQ 83 (155)
T ss_pred ccCCcChhhHHHHHHHH
Confidence 4 33466677776543
No 225
>PLN03108 Rab family protein; Provisional
Probab=72.35 E-value=38 Score=34.43 Aligned_cols=72 Identities=7% Similarity=0.044 Sum_probs=42.6
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCC------Cc----ceEEEecCceeeEEEEeCCCCC-hHH-HHhHHhhcce
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTG------AL----SSTVSSSKYRLRTSVLQAPHGD-LVG-CMEMAKVADL 147 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~------~g----~~tv~~~r~k~R~tfie~~~~d-l~~-mLD~aKvADl 147 (745)
+=|+|+|+++.+.. +| ++.|+..... .| ...+.......+++++..+... +.. .....+-||.
T Consensus 7 ~kivivG~~gvGKS-tL----i~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~ 81 (210)
T PLN03108 7 FKYIIIGDTGVGKS-CL----LLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAG 81 (210)
T ss_pred eEEEEECCCCCCHH-HH----HHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCE
Confidence 44889999997775 66 4444332211 11 2233444444567777765222 222 2355678999
Q ss_pred EEEEeeCCC
Q 004549 148 VAFVASASS 156 (745)
Q Consensus 148 Vlllidas~ 156 (745)
+|||+|.+.
T Consensus 82 ~vlv~D~~~ 90 (210)
T PLN03108 82 ALLVYDITR 90 (210)
T ss_pred EEEEEECCc
Confidence 999999984
No 226
>cd01859 MJ1464 MJ1464. This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.
Probab=71.85 E-value=19 Score=34.59 Aligned_cols=42 Identities=14% Similarity=0.023 Sum_probs=28.9
Q ss_pred hcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 144 VADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 144 vADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
=||+||+|+|++.+ ......+++..+...|.| ++.|++..|.
T Consensus 12 ~aD~vl~V~D~~~~--------~~~~~~~l~~~~~~~~~p-~iiv~NK~Dl 53 (156)
T cd01859 12 ESDVVLEVLDARDP--------ELTRSRKLERYVLELGKK-LLIVLNKADL 53 (156)
T ss_pred hCCEEEEEeeCCCC--------cccCCHHHHHHHHhCCCc-EEEEEEhHHh
Confidence 38999999999842 222224566666667865 5668888874
No 227
>KOG0410 consensus Predicted GTP binding protein [General function prediction only]
Probab=71.65 E-value=26 Score=38.79 Aligned_cols=98 Identities=18% Similarity=0.291 Sum_probs=61.4
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC------------cceEEEecCc---eeeEEEEeC-CC---CChH
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA------------LSSTVSSSKY---RLRTSVLQA-PH---GDLV 136 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------------g~~tv~~~r~---k~R~tfie~-~~---~dl~ 136 (745)
..+--+|+|||-...+.. +| ||.+|+..+.. -..++-++++ --.+-||.- |. .-+.
T Consensus 175 ~~s~pviavVGYTNaGKs-TL----ikaLT~Aal~p~drLFATLDpT~h~a~Lpsg~~vlltDTvGFisdLP~~LvaAF~ 249 (410)
T KOG0410|consen 175 GESSPVIAVVGYTNAGKS-TL----IKALTKAALYPNDRLFATLDPTLHSAHLPSGNFVLLTDTVGFISDLPIQLVAAFQ 249 (410)
T ss_pred cCCCceEEEEeecCccHH-HH----HHHHHhhhcCccchhheeccchhhhccCCCCcEEEEeechhhhhhCcHHHHHHHH
Confidence 344458899998876654 56 66666444322 1112222211 011122210 11 2356
Q ss_pred HHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCce
Q 004549 137 GCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPST 185 (745)
Q Consensus 137 ~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~v 185 (745)
+.|.-.+=||++|=|+|.|. ...+..-+..|..|..-|+|+.
T Consensus 250 ATLeeVaeadlllHvvDiSh-------P~ae~q~e~Vl~vL~~igv~~~ 291 (410)
T KOG0410|consen 250 ATLEEVAEADLLLHVVDISH-------PNAEEQRETVLHVLNQIGVPSE 291 (410)
T ss_pred HHHHHHhhcceEEEEeecCC-------ccHHHHHHHHHHHHHhcCCCcH
Confidence 77888888999999999995 4588899999999999999863
No 228
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=71.51 E-value=24 Score=34.66 Aligned_cols=64 Identities=16% Similarity=0.217 Sum_probs=47.0
Q ss_pred eeeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 122 RLRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+-.+.++-||+..-..++.+...||.+|+++.++.. .+ .....++..++..|.| +..|++..+.
T Consensus 92 ~~d~viiDtpp~~~~~~~~~l~~aD~vliv~~~~~~-------~~-~~~~~~~~~l~~~~~~-~~vV~N~~~~ 155 (179)
T cd03110 92 GAELIIIDGPPGIGCPVIASLTGADAALLVTEPTPS-------GL-HDLERAVELVRHFGIP-VGVVINKYDL 155 (179)
T ss_pred CCCEEEEECcCCCcHHHHHHHHcCCEEEEEecCCcc-------cH-HHHHHHHHHHHHcCCC-EEEEEeCCCC
Confidence 346778888755444567788999999999998841 11 2467888888888987 4566888775
No 229
>COG1763 MobB Molybdopterin-guanine dinucleotide biosynthesis protein [Coenzyme metabolism]
Probab=71.14 E-value=16 Score=36.32 Aligned_cols=68 Identities=22% Similarity=0.314 Sum_probs=42.1
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhccCCCCC-------------------------c-ceEEEecCceeeEEEEeCC
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-------------------------L-SSTVSSSKYRLRTSVLQAP 131 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-------------------------g-~~tv~~~r~k~R~tfie~~ 131 (745)
.+.|++|+|.++|+.. .|+..++..++..+... | -.++.++. +|..++.+.
T Consensus 1 m~~Il~ivG~k~SGKT-TLie~lv~~L~~~G~rVa~iKH~hh~~~~D~~GkDs~r~~~aGa~~~v~~s~--~~~~~~~~~ 77 (161)
T COG1763 1 MMKILGIVGYKNSGKT-TLIEKLVRKLKARGYRVATVKHAHHDFDLDKPGKDTYRHRKAGADQVVVASD--HRTALMTRT 77 (161)
T ss_pred CCcEEEEEecCCCChh-hHHHHHHHHHHhCCcEEEEEEecCCCCCCCCCCCccchhhccccceEEEecC--CEEEEEEec
Confidence 3689999999986654 34444477776554210 3 23555553 688888887
Q ss_pred C-CC---hHHHHhHHhhcceEEE
Q 004549 132 H-GD---LVGCMEMAKVADLVAF 150 (745)
Q Consensus 132 ~-~d---l~~mLD~aKvADlVll 150 (745)
. ++ +.++|+.+ =|+||.
T Consensus 78 ~~~~L~~vl~~l~~~--~D~vLV 98 (161)
T COG1763 78 PDRDLDAVLSRLDPL--LDLVLV 98 (161)
T ss_pred CCcCHHHHHHhcCcc--cCEEEE
Confidence 5 33 55555554 488875
No 230
>cd04128 Spg1 Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are
Probab=71.12 E-value=33 Score=34.11 Aligned_cols=99 Identities=12% Similarity=0.112 Sum_probs=55.7
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCC-C-----CCcc----eEEEecCceeeEEEEeCCC-CChHHHHhH-HhhcceEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEG-T-----GALS----STVSSSKYRLRTSVLQAPH-GDLVGCMEM-AKVADLVA 149 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~-~-----~~g~----~tv~~~r~k~R~tfie~~~-~dl~~mLD~-aKvADlVl 149 (745)
|+|+|.++.+.. +| +.+|.... . +.|. .++..+....++.++.+.- ..+.++... ++-||.+|
T Consensus 3 i~vlG~~~vGKT-sL----i~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~ii 77 (182)
T cd04128 3 IGLLGDAQIGKT-SL----MVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAIL 77 (182)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEE
Confidence 688899887765 56 44442211 1 1121 2455555456777777652 235555544 57899999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHh---cCCCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~---qGlP~vigvl~~L~~ 194 (745)
+|+|.+.- ..|+.- .+.+..+.. ...| +.|.++.|.
T Consensus 78 lv~D~t~~------~s~~~i-~~~~~~~~~~~~~~~p--ilVgnK~Dl 116 (182)
T cd04128 78 FMFDLTRK------STLNSI-KEWYRQARGFNKTAIP--ILVGTKYDL 116 (182)
T ss_pred EEEECcCH------HHHHHH-HHHHHHHHHhCCCCCE--EEEEEchhc
Confidence 99998742 234432 123333332 3445 457888775
No 231
>PLN03071 GTP-binding nuclear protein Ran; Provisional
Probab=70.52 E-value=41 Score=34.59 Aligned_cols=106 Identities=6% Similarity=-0.015 Sum_probs=60.4
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhccCCC------CCc----ceEEEecCceeeEEEEeCCC-CChHHHHhH-Hh
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLSSEGT------GAL----SSTVSSSKYRLRTSVLQAPH-GDLVGCMEM-AK 143 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~g----~~tv~~~r~k~R~tfie~~~-~dl~~mLD~-aK 143 (745)
+.+++=|+|+|.++.+.. +| +..|..... +.| .+++......-++.++.++- .....+... .+
T Consensus 10 ~~~~~Ki~vvG~~gvGKT-sl----i~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~ 84 (219)
T PLN03071 10 DYPSFKLVIVGDGGTGKT-TF----VKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYI 84 (219)
T ss_pred CCCceEEEEECcCCCCHH-HH----HHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcc
Confidence 367778999999998775 56 444422111 112 23343444456778887752 234455443 57
Q ss_pred hcceEEEEeeCCCccccccccccChHHHHHHHHHH--hcCCCceEEEeccCCc
Q 004549 144 VADLVAFVASASSFSEESMSYYIDSFGNQCLSVFR--SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 144 vADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~--~qGlP~vigvl~~L~~ 194 (745)
-||.+|+|+|.+.. ..|+.- ...+..++ ..++| ++.|.+..|.
T Consensus 85 ~~~~~ilvfD~~~~------~s~~~i-~~w~~~i~~~~~~~p-iilvgNK~Dl 129 (219)
T PLN03071 85 HGQCAIIMFDVTAR------LTYKNV-PTWHRDLCRVCENIP-IVLCGNKVDV 129 (219)
T ss_pred cccEEEEEEeCCCH------HHHHHH-HHHHHHHHHhCCCCc-EEEEEEchhh
Confidence 89999999999853 234321 12233332 24544 5556777775
No 232
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=70.08 E-value=54 Score=31.73 Aligned_cols=66 Identities=6% Similarity=0.010 Sum_probs=37.5
Q ss_pred eeeEEEEeCCCCC-hHHH-HhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcC---CCceEEEeccCCc
Q 004549 122 RLRTSVLQAPHGD-LVGC-MEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLG---LPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~~d-l~~m-LD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qG---lP~vigvl~~L~~ 194 (745)
.-++.++.++-.. +..+ -...+-||.+|+|+|++.. ..|+.- ...+..++.+. -|.++.|.+..|.
T Consensus 62 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~------~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl 132 (180)
T cd04127 62 RIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTNE------QSFLNV-RNWMSQLQTHAYCENPDIVLCGNKADL 132 (180)
T ss_pred EEEEEEEeCCChHHHHHHHHHHhCCCCEEEEEEECCCH------HHHHHH-HHHHHHHHHhcCCCCCcEEEEEeCccc
Confidence 4567788776222 2222 2235679999999998842 223322 23444444432 2346667888775
No 233
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=69.38 E-value=31 Score=39.73 Aligned_cols=99 Identities=19% Similarity=0.198 Sum_probs=57.6
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCCC-----cce------EEEecCceeeEEEEeC-CC---CChHH------
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-----LSS------TVSSSKYRLRTSVLQA-PH---GDLVG------ 137 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g~~------tv~~~r~k~R~tfie~-~~---~dl~~------ 137 (745)
..=|+|+|.|..+.. || +..+.+.+... |.+ .++++.+.-|+ +-- .- .|+-.
T Consensus 217 G~kvvIiG~PNvGKS-SL----LNaL~~~d~AIVTdI~GTTRDviee~i~i~G~pv~l--~DTAGiRet~d~VE~iGIeR 289 (454)
T COG0486 217 GLKVVIIGRPNVGKS-SL----LNALLGRDRAIVTDIAGTTRDVIEEDINLNGIPVRL--VDTAGIRETDDVVERIGIER 289 (454)
T ss_pred CceEEEECCCCCcHH-HH----HHHHhcCCceEecCCCCCccceEEEEEEECCEEEEE--EecCCcccCccHHHHHHHHH
Confidence 566899999988775 77 66665555321 321 23333332222 211 11 33322
Q ss_pred HHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 138 CMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 138 mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
-.-+++=||+||+|+|++. ..+.+-..++. +.-.+.| ++.|+++.|.
T Consensus 290 s~~~i~~ADlvL~v~D~~~--------~~~~~d~~~~~-~~~~~~~-~i~v~NK~DL 336 (454)
T COG0486 290 AKKAIEEADLVLFVLDASQ--------PLDKEDLALIE-LLPKKKP-IIVVLNKADL 336 (454)
T ss_pred HHHHHHhCCEEEEEEeCCC--------CCchhhHHHHH-hcccCCC-EEEEEechhc
Confidence 3456778999999999994 25566666666 4444444 5667776664
No 234
>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF. Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.
Probab=68.43 E-value=24 Score=37.78 Aligned_cols=87 Identities=14% Similarity=0.036 Sum_probs=49.1
Q ss_pred hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhccccc
Q 004549 135 LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEF 214 (745)
Q Consensus 135 l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~ 214 (745)
+..+-.+++-||+||+|+||... +..+-..++..+. +- .++.|++..|...+ ....+ ...++..
T Consensus 12 ~~~~~~~l~~aDvVl~V~Dar~p--------~~~~~~~i~~~l~--~k-p~IiVlNK~DL~~~--~~~~~-~~~~~~~-- 75 (276)
T TIGR03596 12 RREIKEKLKLVDVVIEVLDARIP--------LSSRNPMIDEIRG--NK-PRLIVLNKADLADP--AVTKQ-WLKYFEE-- 75 (276)
T ss_pred HHHHHHHHhhCCEEEEEEeCCCC--------CCCCChhHHHHHC--CC-CEEEEEEccccCCH--HHHHH-HHHHHHH--
Confidence 45577888999999999999843 3333344555552 44 46788998885111 11222 2223322
Q ss_pred CCCCeeEEeCC--HHHHHHHHHHHhh
Q 004549 215 PEDCKFYAADT--KDELHKFLWLFKE 238 (745)
Q Consensus 215 ~~~~Klf~l~~--~~e~~nL~R~I~~ 238 (745)
.+..++.+|. ...+..|...|..
T Consensus 76 -~~~~vi~iSa~~~~gi~~L~~~i~~ 100 (276)
T TIGR03596 76 -KGIKALAINAKKGKGVKKIIKAAKK 100 (276)
T ss_pred -cCCeEEEEECCCcccHHHHHHHHHH
Confidence 1356777774 3335555555543
No 235
>TIGR02836 spore_IV_A stage IV sporulation protein A. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.
Probab=68.03 E-value=1e+02 Score=35.70 Aligned_cols=85 Identities=11% Similarity=0.051 Sum_probs=54.4
Q ss_pred hcceEEEEe-eCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCeeEE
Q 004549 144 VADLVAFVA-SASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKFYA 222 (745)
Q Consensus 144 vADlVllli-das~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Klf~ 222 (745)
-||+.|++. |+|.+.-+ -+.+.+.-+.+++-|+..|.|-++ ||+..++........++.++.. | +..+..
T Consensus 144 hstIgivVtTDgsi~dI~--Re~y~~aEe~~i~eLk~~~kPfii-vlN~~dp~~~et~~l~~~l~ek-----y-~vpvl~ 214 (492)
T TIGR02836 144 HSTIGVVVTTDGTITDIP--REDYVEAEERVIEELKELNKPFII-LLNSTHPYHPETEALRQELEEK-----Y-DVPVLA 214 (492)
T ss_pred cCcEEEEEEcCCCccccc--cccchHHHHHHHHHHHhcCCCEEE-EEECcCCCCchhHHHHHHHHHH-----h-CCceEE
Confidence 689999999 99864111 123566778999999999999765 5666653101112223333222 2 345566
Q ss_pred eC----CHHHHHHHHHHHh
Q 004549 223 AD----TKDELHKFLWLFK 237 (745)
Q Consensus 223 l~----~~~e~~nL~R~I~ 237 (745)
++ ...|+.++++.+-
T Consensus 215 v~c~~l~~~DI~~il~~vL 233 (492)
T TIGR02836 215 MDVESMRESDILSVLEEVL 233 (492)
T ss_pred EEHHHcCHHHHHHHHHHHH
Confidence 66 5889999998864
No 236
>PF13460 NAD_binding_10: NADH(P)-binding ; PDB: 3OH8_A 3E8X_A 3GPI_A 3QVO_A 2Q46_B 1YBM_B 1XQ6_B 2Q4B_B 3EW7_A 3IUS_B ....
Probab=67.20 E-value=30 Score=33.73 Aligned_cols=91 Identities=19% Similarity=0.158 Sum_probs=62.6
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCCcceEEEecCc-----eeeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCC
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGALSSTVSSSKY-----RLRTSVLQAPHGDLVGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~g~~tv~~~r~-----k~R~tfie~~~~dl~~mLD~aKvADlVlllidas~ 156 (745)
|+|+|-++.+- +.+ ++.+.+.+ ..+++.+-+. ..+++++.++..|..++..+.+=+|.|++++....
T Consensus 1 I~V~GatG~vG-~~l----~~~L~~~~---~~V~~~~R~~~~~~~~~~~~~~~~d~~d~~~~~~al~~~d~vi~~~~~~~ 72 (183)
T PF13460_consen 1 ILVFGATGFVG-RAL----AKQLLRRG---HEVTALVRSPSKAEDSPGVEIIQGDLFDPDSVKAALKGADAVIHAAGPPP 72 (183)
T ss_dssp EEEETTTSHHH-HHH----HHHHHHTT---SEEEEEESSGGGHHHCTTEEEEESCTTCHHHHHHHHTTSSEEEECCHSTT
T ss_pred eEEECCCChHH-HHH----HHHHHHCC---CEEEEEecCchhcccccccccceeeehhhhhhhhhhhhcchhhhhhhhhc
Confidence 56777766432 234 44443333 2233322211 25899999998999999999999999999997663
Q ss_pred ccccccccccChHHHHHHHHHHhcCCCceEEE
Q 004549 157 FSEESMSYYIDSFGNQCLSVFRSLGLPSTAVL 188 (745)
Q Consensus 157 g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigv 188 (745)
. . -.....++.+++.+|.++++.+
T Consensus 73 ~------~--~~~~~~~~~a~~~~~~~~~v~~ 96 (183)
T PF13460_consen 73 K------D--VDAAKNIIEAAKKAGVKRVVYL 96 (183)
T ss_dssp T------H--HHHHHHHHHHHHHTTSSEEEEE
T ss_pred c------c--ccccccccccccccccccceee
Confidence 2 1 3456789999999999988765
No 237
>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.
Probab=66.12 E-value=57 Score=32.61 Aligned_cols=101 Identities=9% Similarity=0.003 Sum_probs=56.0
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------c----ceEEEec-CceeeEEEEeCCC-CChHHHH-hHHhhcceE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------L----SSTVSSS-KYRLRTSVLQAPH-GDLVGCM-EMAKVADLV 148 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g----~~tv~~~-r~k~R~tfie~~~-~dl~~mL-D~aKvADlV 148 (745)
|+|+|+++.+.. +| ++.|....... | ..++..+ .....+.++..+. ..+.++. ...+-||.+
T Consensus 3 ivivG~~~vGKT-sl----i~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ 77 (201)
T cd04107 3 VLVIGDLGVGKT-SI----IKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGA 77 (201)
T ss_pred EEEECCCCCCHH-HH----HHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEE
Confidence 789999998875 66 55443322111 2 2233333 4456778887762 2233332 345789999
Q ss_pred EEEeeCCCccccccccccCh---HHHHHHHHHHh---cCCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDS---FGNQCLSVFRS---LGLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~---eg~e~L~~l~~---qGlP~vigvl~~L~~ 194 (745)
||++|.+.. ..|+. |-.++.+.+.. .++| +|.|.+..|.
T Consensus 78 ilv~D~t~~------~s~~~~~~~~~~i~~~~~~~~~~~~p-iilv~NK~Dl 122 (201)
T cd04107 78 IIVFDVTRP------STFEAVLKWKADLDSKVTLPNGEPIP-CLLLANKCDL 122 (201)
T ss_pred EEEEECCCH------HHHHHHHHHHHHHHHhhcccCCCCCc-EEEEEECCCc
Confidence 999998842 22432 22233333222 3444 4667787775
No 238
>PHA02518 ParA-like protein; Provisional
Probab=65.36 E-value=36 Score=34.07 Aligned_cols=75 Identities=17% Similarity=0.245 Sum_probs=45.8
Q ss_pred eEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccChHH-HHHHHHHHhc-----CCCceEEEeccCCcchh
Q 004549 124 RTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFG-NQCLSVFRSL-----GLPSTAVLIRDLPTDLK 197 (745)
Q Consensus 124 R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg-~e~L~~l~~q-----GlP~vigvl~~L~~~~K 197 (745)
.+.+|-||++.=..+..+...||+||+++.++. ++..+ ..++..+... |+|....|++..+...+
T Consensus 78 d~viiD~p~~~~~~~~~~l~~aD~viip~~ps~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~n~~~~~~~ 148 (211)
T PHA02518 78 DYVVVDGAPQDSELARAALRIADMVLIPVQPSP---------FDIWAAPDLVELIKARQEVTDGLPKFAFIISRAIKNTQ 148 (211)
T ss_pred CEEEEeCCCCccHHHHHHHHHCCEEEEEeCCCh---------hhHHHHHHHHHHHHHHHhhCCCCceEEEEEeccCCcch
Confidence 677888886655667888999999999999884 44432 2344444432 66655555555443112
Q ss_pred hhHHHHHHHH
Q 004549 198 KRKDLKKMCI 207 (745)
Q Consensus 198 k~~~~kK~lk 207 (745)
...++++.++
T Consensus 149 ~~~~~~~~l~ 158 (211)
T PHA02518 149 LYREARKALA 158 (211)
T ss_pred HHHHHHHHHH
Confidence 2234555554
No 239
>COG0218 Predicted GTPase [General function prediction only]
Probab=65.28 E-value=39 Score=34.81 Aligned_cols=83 Identities=14% Similarity=0.227 Sum_probs=51.6
Q ss_pred cceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchh--hhHHHHHHHHhhcccccCCC--Cee
Q 004549 145 ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLK--KRKDLKKMCISSLTSEFPED--CKF 220 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~K--k~~~~kK~lk~~f~~e~~~~--~Kl 220 (745)
=..|++|+|+..+ ....-.+++..|...|+|-.+ |+|..|. .+ .+.+..+.++..+...++.. .-+
T Consensus 107 L~~vvlliD~r~~--------~~~~D~em~~~l~~~~i~~~v-v~tK~DK-i~~~~~~k~l~~v~~~l~~~~~~~~~~~~ 176 (200)
T COG0218 107 LKGVVLLIDARHP--------PKDLDREMIEFLLELGIPVIV-VLTKADK-LKKSERNKQLNKVAEELKKPPPDDQWVVL 176 (200)
T ss_pred heEEEEEEECCCC--------CcHHHHHHHHHHHHcCCCeEE-EEEcccc-CChhHHHHHHHHHHHHhcCCCCccceEEE
Confidence 3467899999965 555566999999999999654 5777774 22 24445556666666555533 334
Q ss_pred EEeCCHHHHHHHHHHHh
Q 004549 221 YAADTKDELHKFLWLFK 237 (745)
Q Consensus 221 f~l~~~~e~~nL~R~I~ 237 (745)
|+.....-+..|-..|.
T Consensus 177 ~ss~~k~Gi~~l~~~i~ 193 (200)
T COG0218 177 FSSLKKKGIDELKAKIL 193 (200)
T ss_pred EecccccCHHHHHHHHH
Confidence 55444444444444443
No 240
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=62.24 E-value=26 Score=35.35 Aligned_cols=63 Identities=13% Similarity=0.193 Sum_probs=43.8
Q ss_pred eEEEEeCCC-CChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 124 RTSVLQAPH-GDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 124 R~tfie~~~-~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+.||.||+ .......-+++.||.||+++++... --....+.+..|+..|.+-...||+..+.
T Consensus 129 D~ViiD~pp~~~~~~~~~~~~~~D~vilV~~~~~~--------~~~~~~~~~~~l~~~~~~~~gvVlN~~~~ 192 (204)
T TIGR01007 129 DYIIIDTPPIGTVTDAAIIARACDASILVTDAGEI--------KKRDVQKAKEQLEQTGSNFLGVVLNKVDI 192 (204)
T ss_pred CEEEEeCCCccccchHHHHHHhCCeEEEEEECCCC--------CHHHHHHHHHHHHhCCCCEEEEEEeCccc
Confidence 456777774 2222333467889999999998742 23567888999999999755555887775
No 241
>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]
Probab=62.24 E-value=49 Score=39.86 Aligned_cols=68 Identities=16% Similarity=0.131 Sum_probs=51.9
Q ss_pred cceEEEec---CceeeEEEEeCCCCC---hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCce
Q 004549 112 LSSTVSSS---KYRLRTSVLQAPHGD---LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPST 185 (745)
Q Consensus 112 g~~tv~~~---r~k~R~tfie~~~~d---l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~v 185 (745)
.|+|++.+ .+.+=++|+-.| +- +..|.-+...||.|+|++|+.. ++-..++.+|...-.+-+|=|
T Consensus 183 ~p~Tl~l~D~~~KS~l~nilDTP-GHVnF~DE~ta~l~~sDgvVlvvDv~E--------GVmlntEr~ikhaiq~~~~i~ 253 (971)
T KOG0468|consen 183 TPVTLVLSDSKGKSYLMNILDTP-GHVNFSDETTASLRLSDGVVLVVDVAE--------GVMLNTERIIKHAIQNRLPIV 253 (971)
T ss_pred cceEEEEecCcCceeeeeeecCC-CcccchHHHHHHhhhcceEEEEEEccc--------CceeeHHHHHHHHHhccCcEE
Confidence 68888865 223445666555 33 4457777889999999999994 477889999999999999988
Q ss_pred EEE
Q 004549 186 AVL 188 (745)
Q Consensus 186 igv 188 (745)
+++
T Consensus 254 vvi 256 (971)
T KOG0468|consen 254 VVI 256 (971)
T ss_pred EEE
Confidence 776
No 242
>cd03706 mtEFTU_III Domain III of mitochondrial EF-TU (mtEF-TU). mtEF-TU is highly conserved and is 55-60% identical to bacterial EF-TU. The overall structure is similar to that observed in the Escherichia coli and Thermus aquaticus EF-TU. However, compared with that observed in prokaryotic EF-TU the nucleotide-binding domain (domain I) of EF-TUmt is in a different orientation relative to the rest of the structure. Furthermore, domain III is followed by a short 11-amino acid extension that forms one helical turn. This extension seems to be specific to the mitochondrial factors and has not been observed in any of the prokaryotic factors.
Probab=62.09 E-value=43 Score=29.56 Aligned_cols=71 Identities=10% Similarity=0.083 Sum_probs=49.3
Q ss_pred CCCCCCCceEEEEeeeeeeeeeccccccCCCCCcceeecccCCCceEEEEEE--eecCCCCccEEEEEecCCCCCCeEeE
Q 004549 611 DAPIKAKEELIFHVGFRQFVARPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICFPPLPLIVLKSADGGVAPAVAA 688 (745)
Q Consensus 611 ~~~lKSkdpLif~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~p~~pvl~f~~~~~~~~~~l~a 688 (745)
+.||++...++|++|-.+-...=. .. ++ .+++.++..++|.+. .|+..-+.+-++++.. + +.+|
T Consensus 21 ~~~i~~g~~~~~~~~t~~~~~~i~-~~---~~-----~~~l~~g~~~~v~i~l~~p~~~~~g~rf~lR~~----~-~tvg 86 (93)
T cd03706 21 HKPFVSNFQPQMFSLTWDCAARID-LP---PG-----KEMVMPGEDTKVTLILRRPMVLEKGQRFTLRDG----N-RTIG 86 (93)
T ss_pred CccccCCCeeEEEeccceEEEEEE-CC---CC-----CcEeCCCCEEEEEEEECCcEEEeeCCEEEEEEC----C-EEEE
Confidence 389999999999998866433211 11 11 356788999999998 8886444455555544 2 7999
Q ss_pred eeeeecc
Q 004549 689 VGSLRSI 695 (745)
Q Consensus 689 tG~vl~~ 695 (745)
.|.|+++
T Consensus 87 ~G~V~~~ 93 (93)
T cd03706 87 TGLVTDT 93 (93)
T ss_pred EEEEEeC
Confidence 9999763
No 243
>PRK09563 rbgA GTPase YlqF; Reviewed
Probab=61.87 E-value=38 Score=36.50 Aligned_cols=49 Identities=16% Similarity=0.064 Sum_probs=33.8
Q ss_pred hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 135 LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 135 l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+..+..+++-||+||+|+||... +..+-.++...+. +.| ++.|++..|.
T Consensus 15 ~~~l~~~l~~aDvIL~VvDar~p--------~~~~~~~l~~~~~--~kp-~iiVlNK~DL 63 (287)
T PRK09563 15 RREIKENLKLVDVVIEVLDARIP--------LSSENPMIDKIIG--NKP-RLLILNKSDL 63 (287)
T ss_pred HHHHHHHhhhCCEEEEEEECCCC--------CCCCChhHHHHhC--CCC-EEEEEEchhc
Confidence 45678889999999999999843 3333344555443 554 5678888775
No 244
>TIGR00157 ribosome small subunit-dependent GTPase A. The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).
Probab=61.64 E-value=1.1e+02 Score=32.32 Aligned_cols=84 Identities=12% Similarity=0.156 Sum_probs=46.7
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCeeE
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKFY 221 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Klf 221 (745)
++=+|.+++|+|+.... .-|+ .-..+|..+...|+|-++ |++..|.. .. ..+.......+.. .+..+|
T Consensus 34 ~~n~D~viiV~d~~~p~-----~s~~-~l~r~l~~~~~~~i~~vI-V~NK~DL~-~~-~~~~~~~~~~~~~---~g~~v~ 101 (245)
T TIGR00157 34 VANIDQIVIVSSAVLPE-----LSLN-QLDRFLVVAEAQNIEPII-VLNKIDLL-DD-EDMEKEQLDIYRN---IGYQVL 101 (245)
T ss_pred cccCCEEEEEEECCCCC-----CCHH-HHHHHHHHHHHCCCCEEE-EEECcccC-CC-HHHHHHHHHHHHH---CCCeEE
Confidence 67799999999988420 1132 345667777778877655 67877741 11 1222122223332 256788
Q ss_pred EeCCHH--HHHHHHHHHh
Q 004549 222 AADTKD--ELHKFLWLFK 237 (745)
Q Consensus 222 ~l~~~~--e~~nL~R~I~ 237 (745)
.+|..+ .+..|...|.
T Consensus 102 ~~SAktg~gi~eLf~~l~ 119 (245)
T TIGR00157 102 MTSSKNQDGLKELIEALQ 119 (245)
T ss_pred EEecCCchhHHHHHhhhc
Confidence 888432 2444444443
No 245
>PRK01889 GTPase RsgA; Reviewed
Probab=61.43 E-value=33 Score=38.36 Aligned_cols=80 Identities=11% Similarity=0.020 Sum_probs=52.4
Q ss_pred HhhcceEEEEeeCCCccccccccccCh-HHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCee
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDS-FGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKF 220 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~-eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Kl 220 (745)
|.=+|.|++|+++. ..|+. .-+.+|.++...|+|.++ ||+..|.. .......+.+++. ..+..+
T Consensus 110 aANvD~vliV~s~~--------p~~~~~~ldr~L~~a~~~~i~piI-VLNK~DL~-~~~~~~~~~~~~~-----~~g~~V 174 (356)
T PRK01889 110 AANVDTVFIVCSLN--------HDFNLRRIERYLALAWESGAEPVI-VLTKADLC-EDAEEKIAEVEAL-----APGVPV 174 (356)
T ss_pred EEeCCEEEEEEecC--------CCCChhHHHHHHHHHHHcCCCEEE-EEEChhcC-CCHHHHHHHHHHh-----CCCCcE
Confidence 44589999999997 34665 678999999999998866 89988751 1111222333333 336788
Q ss_pred EEeCCH--HHHHHHHHHH
Q 004549 221 YAADTK--DELHKFLWLF 236 (745)
Q Consensus 221 f~l~~~--~e~~nL~R~I 236 (745)
|++|.. ..+..|...|
T Consensus 175 i~vSa~~g~gl~~L~~~L 192 (356)
T PRK01889 175 LAVSALDGEGLDVLAAWL 192 (356)
T ss_pred EEEECCCCccHHHHHHHh
Confidence 988853 2344555555
No 246
>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A.
Probab=61.19 E-value=27 Score=33.59 Aligned_cols=27 Identities=22% Similarity=0.383 Sum_probs=17.1
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCC
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEG 108 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~ 108 (745)
+|+|+|+.+++.. .|+..|++.+.+++
T Consensus 2 vv~VvG~~~sGKT-Tl~~~Li~~l~~~g 28 (140)
T PF03205_consen 2 VVQVVGPKNSGKT-TLIRKLINELKRRG 28 (140)
T ss_dssp EEEEEESTTSSHH-HHHHHHHHHHHHTT
T ss_pred EEEEECCCCCCHH-HHHHHHHHHHhHcC
Confidence 6899999886543 34444466665443
No 247
>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase).
Probab=60.94 E-value=1.1e+02 Score=33.91 Aligned_cols=159 Identities=10% Similarity=0.127 Sum_probs=78.3
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhc-cC-CC-CC--cceEEEecCceeeEEEEeCCC-CCh----HHHHhHHhh-
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLS-SE-GT-GA--LSSTVSSSKYRLRTSVLQAPH-GDL----VGCMEMAKV- 144 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~-~~-~~-~~--g~~tv~~~r~k~R~tfie~~~-~dl----~~mLD~aKv- 144 (745)
+....-|+|+|-++.+.. ++++.|+.... .. .. .. .+.++.......++++|-.|- .+. ...+..+|.
T Consensus 35 ~~~~~rIllvGktGVGKS-SliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~ 113 (313)
T TIGR00991 35 DVSSLTILVMGKGGVGKS-STVNSIIGERIATVSAFQSEGLRPMMVSRTRAGFTLNIIDTPGLIEGGYINDQAVNIIKRF 113 (313)
T ss_pred cccceEEEEECCCCCCHH-HHHHHHhCCCcccccCCCCcceeEEEEEEEECCeEEEEEECCCCCchHHHHHHHHHHHHHH
Confidence 345677889999887664 55333243210 00 00 11 122222111246899998873 111 124555553
Q ss_pred -----cceEEEEeeCCCccccccccccChHHHHHHHHHHhc-C---CCceEEEeccCCcchhhhHHHHHHHHhhcccccC
Q 004549 145 -----ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSL-G---LPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFP 215 (745)
Q Consensus 145 -----ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~q-G---lP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~ 215 (745)
.|+||+|.+... .-++..-..+|..|+.. | .-.+|.|+||-+...-.- ..+..|+.
T Consensus 114 l~~~g~DvVLyV~rLD~-------~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~----~~~e~fv~---- 178 (313)
T TIGR00991 114 LLGKTIDVLLYVDRLDA-------YRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDG----LEYNDFFS---- 178 (313)
T ss_pred hhcCCCCEEEEEeccCc-------ccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCC----CCHHHHHH----
Confidence 889999954331 11443333444444432 3 246788899877300000 01111111
Q ss_pred CCCeeEEeCCHHHHHHHHHHHhhccccCCccccCCCeEEEEeeE
Q 004549 216 EDCKFYAADTKDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVD 259 (745)
Q Consensus 216 ~~~Klf~l~~~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e 259 (745)
.....+++++|..+..+.. ..-.-..|.+|+|+..
T Consensus 179 --------~~~~~lq~~i~~~~~~~~~-~~~~~~~pv~lven~~ 213 (313)
T TIGR00991 179 --------KRSEALLRVIHSGAGLKKR-DYQDFPIPVALVENSG 213 (313)
T ss_pred --------hcHHHHHHHHHHHhccccc-ccccccCCEEEEecCC
Confidence 1355667888887664432 1112346888888765
No 248
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=60.73 E-value=52 Score=36.32 Aligned_cols=50 Identities=16% Similarity=0.196 Sum_probs=32.1
Q ss_pred HHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 137 GCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 137 ~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+-=+++.-||+|+.|+|++.. =-.-.-.+|.+|..--.=.-|.|++.+|.
T Consensus 148 ~~~~a~q~AD~vvVv~Das~t--------r~~l~p~vl~~l~~ys~ips~lvmnkid~ 197 (379)
T KOG1423|consen 148 NPRDAAQNADCVVVVVDASAT--------RTPLHPRVLHMLEEYSKIPSILVMNKIDK 197 (379)
T ss_pred CHHHHHhhCCEEEEEEeccCC--------cCccChHHHHHHHHHhcCCceeeccchhc
Confidence 455788899999999999831 11123456777766543333456777775
No 249
>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.
Probab=59.28 E-value=60 Score=30.82 Aligned_cols=75 Identities=12% Similarity=0.070 Sum_probs=48.7
Q ss_pred eeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccCh-HHHHHHHHHHhc-CCCceEEEeccCCcchhhhH
Q 004549 123 LRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDS-FGNQCLSVFRSL-GLPSTAVLIRDLPTDLKKRK 200 (745)
Q Consensus 123 ~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~-eg~e~L~~l~~q-GlP~vigvl~~L~~~~Kk~~ 200 (745)
-.+.++-||+..=...+.+++.||.||++++++. ... .+..+|+.+... +.+++..|+++.... +...
T Consensus 45 yd~VIiD~p~~~~~~~~~~l~~aD~vviv~~~~~---------~s~~~~~~~l~~l~~~~~~~~~~lVvN~~~~~-~~~~ 114 (139)
T cd02038 45 YDYIIIDTGAGISDNVLDFFLAADEVIVVTTPEP---------TSITDAYALIKKLAKQLRVLNFRVVVNRAESP-KEGK 114 (139)
T ss_pred CCEEEEECCCCCCHHHHHHHHhCCeEEEEcCCCh---------hHHHHHHHHHHHHHHhcCCCCEEEEEeCCCCH-HHHH
Confidence 3567788875433445789999999999999884 232 346778777554 455666678887651 2233
Q ss_pred HHHHHHH
Q 004549 201 DLKKMCI 207 (745)
Q Consensus 201 ~~kK~lk 207 (745)
++.+.+.
T Consensus 115 ~~~~~~~ 121 (139)
T cd02038 115 KVFKRLS 121 (139)
T ss_pred HHHHHHH
Confidence 4555444
No 250
>cd04126 Rab20 Rab20 subfamily. Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo
Probab=59.00 E-value=72 Score=33.08 Aligned_cols=101 Identities=14% Similarity=0.062 Sum_probs=53.6
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC-----cceEEEecCceeeEEEEeCCCC-ChHHHH-hHHhhcceEEEEeeC
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA-----LSSTVSSSKYRLRTSVLQAPHG-DLVGCM-EMAKVADLVAFVASA 154 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-----g~~tv~~~r~k~R~tfie~~~~-dl~~mL-D~aKvADlVlllida 154 (745)
|+|+|.++.+.. +| +..|....... |..........-.+.++.++-. ....+. ...+-||.+|+|+|.
T Consensus 3 IvivG~~~vGKT-SL----i~r~~~~~f~~~~~Tig~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dv 77 (220)
T cd04126 3 VVLLGDMNVGKT-SL----LHRYMERRFKDTVSTVGGAFYLKQWGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDV 77 (220)
T ss_pred EEEECCCCCcHH-HH----HHHHhcCCCCCCCCccceEEEEEEeeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEEC
Confidence 678999887665 56 44443222111 2211111111235677776521 122222 246779999999999
Q ss_pred CCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 155 SSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 155 s~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
+.. ..|+.--..++.+++.. ++| ++.|.++.|.
T Consensus 78 t~~------~Sf~~l~~~~~~l~~~~~~~~p-iIlVgNK~DL 112 (220)
T cd04126 78 SNV------QSLEELEDRFLGLTDTANEDCL-FAVVGNKLDL 112 (220)
T ss_pred CCH------HHHHHHHHHHHHHHHhcCCCCc-EEEEEECccc
Confidence 852 34655444555555432 333 5566777664
No 251
>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another. Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....
Probab=59.00 E-value=20 Score=34.41 Aligned_cols=63 Identities=16% Similarity=0.132 Sum_probs=46.7
Q ss_pred ceeeEEEEeCCC------CChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEecc
Q 004549 121 YRLRTSVLQAPH------GDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRD 191 (745)
Q Consensus 121 ~k~R~tfie~~~------~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~ 191 (745)
....++|+-.|- .+-..+...+.-||+||+|++++. .+...-.++|..+..+..+++|+|++.
T Consensus 99 ~~~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~--------~~~~~~~~~l~~~~~~~~~~~i~V~nk 167 (168)
T PF00350_consen 99 LLRNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQ--------DLTESDMEFLKQMLDPDKSRTIFVLNK 167 (168)
T ss_dssp TSCSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTS--------TGGGHHHHHHHHHHTTTCSSEEEEEE-
T ss_pred cccceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCc--------ccchHHHHHHHHHhcCCCCeEEEEEcC
Confidence 356788887652 122446777899999999999994 366566788888888888889999875
No 252
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=56.84 E-value=1.1e+02 Score=33.07 Aligned_cols=45 Identities=13% Similarity=0.236 Sum_probs=32.4
Q ss_pred HhhcceEEEEeeCCCccccccccccC-hHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 142 AKVADLVAFVASASSFSEESMSYYID-SFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd-~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+.=+|+||+|+|+... . |. ..-+.+|..+...|+| ++.|++..|.
T Consensus 76 ~anvD~vllV~d~~~p------~-~s~~~ldr~L~~~~~~~ip-~iIVlNK~DL 121 (287)
T cd01854 76 AANVDQLVIVVSLNEP------F-FNPRLLDRYLVAAEAAGIE-PVIVLTKADL 121 (287)
T ss_pred EEeCCEEEEEEEcCCC------C-CCHHHHHHHHHHHHHcCCC-EEEEEEHHHC
Confidence 4558999999999842 1 22 2345678888889988 6667887774
No 253
>PTZ00388 40S ribosomal protein S8-like; Provisional
Probab=55.72 E-value=18 Score=37.07 Aligned_cols=76 Identities=18% Similarity=0.318 Sum_probs=54.2
Q ss_pred EeeeeeeeeeccccccCCCCCcceeecccCCC--ceEEEEEEeecCCC--CccEEEEEecCCC---CCCeEeEeeeeecc
Q 004549 623 HVGFRQFVARPIFSSDNMNSDKHKMERFLHAG--CFSVASIYAPICFP--PLPLIVLKSADGG---VAPAVAAVGSLRSI 695 (745)
Q Consensus 623 ~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~--~~~vAt~ygPi~~p--~~pvl~f~~~~~~---~~~~l~atG~vl~~ 695 (745)
.-+|.|..+.|.|--++-..-=-|||||.+|- .+-.|.++-|-.=- .+++|.+.....+ ...-++--|+|+++
T Consensus 106 ~k~WkRmvtk~tfvg~~ftrkppk~erfiRp~glr~~~AnVt~p~~~~t~~~kIi~V~kNPan~~Ytr~nvITKGTIIEt 185 (223)
T PTZ00388 106 KKSWKRLVNKVTFVGEDFTRKPPKYERFIRPTGLRFKKAHVTHPELKTTFYLDIIGVKKNPQSNLYTSLGVITKGTIIEV 185 (223)
T ss_pred ccchhheeccceecCCCcccCCcccccccccchhhcceeEEeccccCcEEEEEEEEEeeCCCChhhhhcCceeeeeEEEe
Confidence 34799999999999854333347999999875 45677777775433 5677777666543 34567888999988
Q ss_pred Ccc
Q 004549 696 DPD 698 (745)
Q Consensus 696 d~~ 698 (745)
|-+
T Consensus 186 nvs 188 (223)
T PTZ00388 186 NVS 188 (223)
T ss_pred ehh
Confidence 644
No 254
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=54.78 E-value=1.2e+02 Score=27.41 Aligned_cols=51 Identities=16% Similarity=0.070 Sum_probs=38.5
Q ss_pred eEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccC-hHHHHHHHHHHhcCCC
Q 004549 124 RTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYID-SFGNQCLSVFRSLGLP 183 (745)
Q Consensus 124 R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd-~eg~e~L~~l~~qGlP 183 (745)
.+.++-||+.--.....+...||.||++++++. +. .-...++..|+..|.|
T Consensus 44 D~IIiDtpp~~~~~~~~~l~~aD~vlvvv~~~~---------~s~~~~~~~~~~l~~~~~~ 95 (106)
T cd03111 44 DYVVVDLGRSLDEVSLAALDQADRVFLVTQQDL---------PSIRNAKRLLELLRVLDYS 95 (106)
T ss_pred CEEEEeCCCCcCHHHHHHHHHcCeEEEEecCCh---------HHHHHHHHHHHHHHHcCCC
Confidence 677888875443445677889999999999884 33 4567888888888886
No 255
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=53.49 E-value=93 Score=31.58 Aligned_cols=107 Identities=13% Similarity=0.096 Sum_probs=53.1
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCC--cceEEEe-cCceeeEEEEeCCC-CChH-HHHhH---HhhcceEEEEe
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGA--LSSTVSS-SKYRLRTSVLQAPH-GDLV-GCMEM---AKVADLVAFVA 152 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~--g~~tv~~-~r~k~R~tfie~~~-~dl~-~mLD~---aKvADlVllli 152 (745)
.|.++||++++.. +|...|+..-...+.+. ..++..+ ...+..+.+|..|- .-|. .+++. ..-|--|+|||
T Consensus 5 ~vlL~Gps~SGKT-aLf~~L~~~~~~~T~tS~e~n~~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvv 83 (181)
T PF09439_consen 5 TVLLVGPSGSGKT-ALFSQLVNGKTVPTVTSMENNIAYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVV 83 (181)
T ss_dssp EEEEE-STTSSHH-HHHHHHHHSS---B---SSEEEECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEE
T ss_pred eEEEEcCCCCCHH-HHHHHHhcCCcCCeeccccCCceEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEE
Confidence 5789999999887 45222232211111111 1222222 22356788888763 1232 36665 67788899999
Q ss_pred eCCCccccccccccC---hHHHHHHHHHHh-cCCCceEEEeccCC
Q 004549 153 SASSFSEESMSYYID---SFGNQCLSVFRS-LGLPSTAVLIRDLP 193 (745)
Q Consensus 153 das~g~~~~~~~~fd---~eg~e~L~~l~~-qGlP~vigvl~~L~ 193 (745)
|++.. . ..+- +.=|.+|+.+.. +.-|.++-+.+.-|
T Consensus 84 DSs~~-~----~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~D 123 (181)
T PF09439_consen 84 DSSTD-Q----KELRDVAEYLYDILSDTEVQKNKPPILIACNKQD 123 (181)
T ss_dssp ETTTH-H----HHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TT
T ss_pred eCccc-h----hhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcc
Confidence 99841 0 1121 334566666663 33344444455444
No 256
>PTZ00258 GTP-binding protein; Provisional
Probab=51.80 E-value=43 Score=38.04 Aligned_cols=71 Identities=15% Similarity=0.110 Sum_probs=44.6
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCCC--------cceE--EEecCce---------------eeEEEEeCCCC
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA--------LSST--VSSSKYR---------------LRTSVLQAPHG 133 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~--------g~~t--v~~~r~k---------------~R~tfie~~~~ 133 (745)
..-|+|||+|+.+.. +| ++.+++..... .|++ +.++..+ ..+.|+-.| .
T Consensus 21 ~~kvgIVG~PNvGKS-TL----fnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtp-G 94 (390)
T PTZ00258 21 NLKMGIVGLPNVGKS-TT----FNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIA-G 94 (390)
T ss_pred CcEEEEECCCCCChH-HH----HHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECC-C
Confidence 346999999998775 56 56665544321 1111 2222110 137888776 3
Q ss_pred C----------hHHHHhHHhhcceEEEEeeCC
Q 004549 134 D----------LVGCMEMAKVADLVAFVASAS 155 (745)
Q Consensus 134 d----------l~~mLD~aKvADlVlllidas 155 (745)
= -+..|+..+=||++|+|+|+.
T Consensus 95 Lv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f 126 (390)
T PTZ00258 95 LVKGASEGEGLGNAFLSHIRAVDGIYHVVRAF 126 (390)
T ss_pred cCcCCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence 1 136788899999999999986
No 257
>TIGR01969 minD_arch cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.
Probab=50.92 E-value=80 Score=32.45 Aligned_cols=64 Identities=17% Similarity=0.133 Sum_probs=43.0
Q ss_pred eeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 123 LRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 123 ~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
-.+.+|.||+.--..++.+...||.||++++++. ..+. .+..++..++..|.+.+..|++..+.
T Consensus 109 yD~VIiD~p~~~~~~~~~~l~~ad~vliv~~~~~-------~s~~-~~~~~~~~~~~~~~~~~~vv~N~~~~ 172 (251)
T TIGR01969 109 TDFLLIDAPAGLERDAVTALAAADELLLVVNPEI-------SSIT-DALKTKIVAEKLGTAILGVVLNRVTR 172 (251)
T ss_pred CCEEEEeCCCccCHHHHHHHHhCCeEEEEECCCC-------chHH-HHHHHHHHHHhcCCceEEEEEECCCc
Confidence 4677788875444456677789999999999874 2232 23455666677788755555777664
No 258
>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=50.82 E-value=1.6e+02 Score=30.86 Aligned_cols=103 Identities=12% Similarity=0.034 Sum_probs=57.1
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCC------Cc---ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceE
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTG------AL---SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLV 148 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~------~g---~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlV 148 (745)
.=|+|||.++.+.. +| +..|...... .| ...+.+...+.++.++..+-. .+.++.. ..+=||.+
T Consensus 14 ~KIvvvGd~~VGKT-sL----i~r~~~~~F~~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~v 88 (232)
T cd04174 14 CKLVLVGDVQCGKT-AM----LQVLAKDCYPETYVPTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAV 88 (232)
T ss_pred EEEEEECCCCCcHH-HH----HHHHhcCCCCCCcCCceeeeeEEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEE
Confidence 34789999887765 56 4444322111 11 122344555677888877522 2344443 45789999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHhc--CCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRSL--GLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~q--GlP~vigvl~~L~~ 194 (745)
|||+|.+.. ..|+.--...+..++.+ +. .++.|.+..|.
T Consensus 89 IlVyDit~~------~Sf~~~~~~w~~~i~~~~~~~-piilVgNK~DL 129 (232)
T cd04174 89 LLCFDISRP------ETVDSALKKWKAEIMDYCPST-RILLIGCKTDL 129 (232)
T ss_pred EEEEECCCh------HHHHHHHHHHHHHHHHhCCCC-CEEEEEECccc
Confidence 999999842 23443111223333322 34 35667777774
No 259
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=50.16 E-value=59 Score=27.00 Aligned_cols=22 Identities=23% Similarity=0.425 Sum_probs=16.6
Q ss_pred hHHHHhHHhhcceEEEEeeCCC
Q 004549 135 LVGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 135 l~~mLD~aKvADlVlllidas~ 156 (745)
+.++.-++-+++.|||++|.|.
T Consensus 4 ~qai~AL~hL~~~ilfi~D~Se 25 (58)
T PF06858_consen 4 MQAITALAHLADAILFIIDPSE 25 (58)
T ss_dssp HHHHHGGGGT-SEEEEEE-TT-
T ss_pred HHHHHHHHhhcceEEEEEcCCC
Confidence 4677888899999999999985
No 260
>cd04178 Nucleostemin_like Nucleostemin-like. Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the
Probab=48.86 E-value=28 Score=34.73 Aligned_cols=40 Identities=10% Similarity=0.007 Sum_probs=27.2
Q ss_pred ceEEEEeeCCCccccccccccChHHHHHHHH--HHhcCCCceEEEeccCCc
Q 004549 146 DLVAFVASASSFSEESMSYYIDSFGNQCLSV--FRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 146 DlVlllidas~g~~~~~~~~fd~eg~e~L~~--l~~qGlP~vigvl~~L~~ 194 (745)
|+||+|+||... +.....++++. ++..+-| +|.||+..|.
T Consensus 1 DvVl~VvDar~p--------~~~~~~~i~~~~~l~~~~kp-~IlVlNK~DL 42 (172)
T cd04178 1 DVILEVLDARDP--------LGCRCPQVEEAVLQAGGNKK-LVLVLNKIDL 42 (172)
T ss_pred CEEEEEEECCCC--------CCCCCHHHHHHHHhccCCCC-EEEEEehhhc
Confidence 899999999842 33334566666 5555555 5668888885
No 261
>PTZ00132 GTP-binding nuclear protein Ran; Provisional
Probab=48.84 E-value=2.8e+02 Score=27.90 Aligned_cols=107 Identities=9% Similarity=0.032 Sum_probs=56.6
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhccCCC----CC-----cceEEEecCceeeEEEEeCCC-CChHHHHh-HHhh
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLSSEGT----GA-----LSSTVSSSKYRLRTSVLQAPH-GDLVGCME-MAKV 144 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~----~~-----g~~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKv 144 (745)
..+.+-|+++|+++++.. +|++ +.+++.-. .. ..+++......-.+.++.++. .....+.. ..+-
T Consensus 6 ~~~~~kv~liG~~g~GKT-tLi~---~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~ 81 (215)
T PTZ00132 6 EVPEFKLILVGDGGVGKT-TFVK---RHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIK 81 (215)
T ss_pred CCCCceEEEECCCCCCHH-HHHH---HHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhcc
Confidence 456677999999998876 5621 23332211 11 222332333456777777652 12333322 3456
Q ss_pred cceEEEEeeCCCccccccccccChHHHHHHHHHH--hcCCCceEEEeccCCc
Q 004549 145 ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFR--SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~--~qGlP~vigvl~~L~~ 194 (745)
||.+++++|.+.. ..|+... ..+..++ ...+| ++.|.+..|.
T Consensus 82 ~~~~i~v~d~~~~------~s~~~~~-~~~~~i~~~~~~~~-i~lv~nK~Dl 125 (215)
T PTZ00132 82 GQCAIIMFDVTSR------ITYKNVP-NWHRDIVRVCENIP-IVLVGNKVDV 125 (215)
T ss_pred CCEEEEEEECcCH------HHHHHHH-HHHHHHHHhCCCCC-EEEEEECccC
Confidence 8999999999853 2243221 2233322 13444 5556787775
No 262
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=48.04 E-value=17 Score=44.52 Aligned_cols=16 Identities=19% Similarity=0.189 Sum_probs=7.8
Q ss_pred CCCCCCCccccCCccc
Q 004549 306 KDPFPLNARKESDAME 321 (745)
Q Consensus 306 ~DP~pl~~~~~~d~m~ 321 (745)
-|-|.+.-...++.||
T Consensus 1302 Ldqc~VtFNstG~VmY 1317 (1516)
T KOG1832|consen 1302 LDQCAVTFNSTGDVMY 1317 (1516)
T ss_pred ccceEEEeccCccchh
Confidence 3555554444445554
No 263
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=47.83 E-value=29 Score=42.18 Aligned_cols=156 Identities=19% Similarity=0.276 Sum_probs=95.5
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEE--eccCCc-------c----hhhhH-HHHHHHH
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVL--IRDLPT-------D----LKKRK-DLKKMCI 207 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigv--l~~L~~-------~----~Kk~~-~~kK~lk 207 (745)
+-.|||.||++|-..| ++..|-|.||.|+..--|=||.+ +..|.. + .|+|+ .+..-++
T Consensus 561 sslC~~aIlvvdImhG--------lepqtiESi~lLR~rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~v~~EF~ 632 (1064)
T KOG1144|consen 561 SSLCDLAILVVDIMHG--------LEPQTIESINLLRMRKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKDVQNEFK 632 (1064)
T ss_pred ccccceEEEEeehhcc--------CCcchhHHHHHHHhcCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHHHHHHHH
Confidence 5679999999999855 88999999999999999988876 333321 1 23332 3555555
Q ss_pred hhccc---ccC---CCCeeEEeC----------C-----HHHHHHHHHHHhhccccCCccccCCCeEEEEeeEec--cCC
Q 004549 208 SSLTS---EFP---EDCKFYAAD----------T-----KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVV--ADD 264 (745)
Q Consensus 208 ~~f~~---e~~---~~~Klf~l~----------~-----~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~--~~~ 264 (745)
.|+.. +|. -.+.|||=. + -.-+-+|+-+|-....+.+.=|-. | ++.++.+ .--
T Consensus 633 ~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~kl~--y--~~ev~cTVlEVK 708 (1064)
T KOG1144|consen 633 ERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVEKLA--Y--VDEVQCTVLEVK 708 (1064)
T ss_pred HHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHHHHh--h--hhheeeEEEEEE
Confidence 55543 221 246666632 1 223456666666655554433222 1 2222211 000
Q ss_pred CCCCCc----eEEEEEEEeCCCCCCCCeEEeCCCCceeeceeeccCCCCCCCcc
Q 004549 265 CNSGKC----TLLLHGYLRAHCLSVNQLVHISGAGDFQLGKIEILKDPFPLNAR 314 (745)
Q Consensus 265 ~~~~~~----~l~v~GyvRG~~l~~n~lVHIpG~GDFqi~~I~~~~DP~pl~~~ 314 (745)
.-...| .+-+.|++| .|..|-++|++-=.+..|.+|--|.|+..-
T Consensus 709 vieG~GtTIDViLvNG~L~-----eGD~IvvcG~~GpIvTtIRaLLtP~PlkEl 757 (1064)
T KOG1144|consen 709 VIEGHGTTIDVILVNGELH-----EGDQIVVCGLQGPIVTTIRALLTPQPLKEL 757 (1064)
T ss_pred eecCCCceEEEEEEcceec-----cCCEEEEcCCCCchhHHHHHhcCCcchHhh
Confidence 000112 244666655 678899999999999999999999998753
No 264
>cd01900 YchF YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.
Probab=47.28 E-value=46 Score=35.92 Aligned_cols=69 Identities=16% Similarity=0.185 Sum_probs=43.1
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------------cceEEEecCc-------e------eeEEEEeCCCCC--
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------------LSSTVSSSKY-------R------LRTSVLQAPHGD-- 134 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------------g~~tv~~~r~-------k------~R~tfie~~~~d-- 134 (745)
|+|||+|..+.. +| ++.+|+.+... |.+.+.-.|+ + ..++|+-.| +=
T Consensus 1 igivG~PN~GKS-TL----fn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~p-Gl~~ 74 (274)
T cd01900 1 IGIVGLPNVGKS-TL----FNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIA-GLVK 74 (274)
T ss_pred CeEeCCCCCcHH-HH----HHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECC-CcCC
Confidence 589999998775 56 66666654321 3333321110 0 137777665 21
Q ss_pred --------hHHHHhHHhhcceEEEEeeCCC
Q 004549 135 --------LVGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 135 --------l~~mLD~aKvADlVlllidas~ 156 (745)
-+..|+.++-||++|+|+|+..
T Consensus 75 ~a~~~~glg~~fL~~i~~~D~li~VV~~f~ 104 (274)
T cd01900 75 GASKGEGLGNKFLSHIREVDAIAHVVRCFE 104 (274)
T ss_pred CCchhhHHHHHHHHHHHhCCEEEEEEeCcC
Confidence 1357888899999999999863
No 265
>cd04129 Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=47.11 E-value=1.3e+02 Score=29.53 Aligned_cols=103 Identities=7% Similarity=-0.007 Sum_probs=52.9
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCC-CC-----c---ceEEEecCceeeEEEEeCCCCC-hHHHH-hHHhhcceEE
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGT-GA-----L---SSTVSSSKYRLRTSVLQAPHGD-LVGCM-EMAKVADLVA 149 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~-----g---~~tv~~~r~k~R~tfie~~~~d-l~~mL-D~aKvADlVl 149 (745)
-|+|+|+++.+.. +| ++.+..... .. + ...+........++++..+... ...+- ...+-||.+|
T Consensus 3 Ki~ivG~~g~GKS-tL----l~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~l 77 (187)
T cd04129 3 KLVIVGDGACGKT-SL----LSVFTLGEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVIL 77 (187)
T ss_pred EEEEECCCCCCHH-HH----HHHHHhCCCCcccCCcccceEEEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEE
Confidence 4789999997775 55 343321111 11 1 1122233334456666655111 11111 1346789999
Q ss_pred EEeeCCCccccccccccChHHHHHHHHHHhcC-CCceEEEeccCCc
Q 004549 150 FVASASSFSEESMSYYIDSFGNQCLSVFRSLG-LPSTAVLIRDLPT 194 (745)
Q Consensus 150 llidas~g~~~~~~~~fd~eg~e~L~~l~~qG-lP~vigvl~~L~~ 194 (745)
+++|.+.. ..|+.-....+..++.+. =..++.|.+++|.
T Consensus 78 lv~~i~~~------~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl 117 (187)
T cd04129 78 IGFAVDTP------DSLENVRTKWIEEVRRYCPNVPVILVGLKKDL 117 (187)
T ss_pred EEEECCCH------HHHHHHHHHHHHHHHHhCCCCCEEEEeeChhh
Confidence 99998742 335544444566665432 1345556777774
No 266
>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma
Probab=47.00 E-value=1.8e+02 Score=30.22 Aligned_cols=101 Identities=12% Similarity=0.079 Sum_probs=55.3
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCC-C-----c-c--eEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTG-A-----L-S--STVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~-~-----g-~--~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVll 150 (745)
|+|||.++.+.. +| +..|...... . + . ..+.+....-+|.|+.++-.. +..+-. ..+-||.+||
T Consensus 4 IvvvGd~~vGKT-sL----i~~~~~~~f~~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~ill 78 (222)
T cd04173 4 IVVVGDAECGKT-AL----LQVFAKDAYPGSYVPTVFENYTASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLI 78 (222)
T ss_pred EEEECCCCCCHH-HH----HHHHHcCCCCCccCCccccceEEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEE
Confidence 689999887775 56 4444332211 1 1 1 234445556778888875222 333322 3478999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHh--cCCCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRS--LGLPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~--qGlP~vigvl~~L~~ 194 (745)
++|.+.. ..|+.--..++..++. .++| ++.|.+..|.
T Consensus 79 vfdis~~------~Sf~~i~~~w~~~~~~~~~~~p-iiLVgnK~DL 117 (222)
T cd04173 79 CFDISRP------ETLDSVLKKWQGETQEFCPNAK-VVLVGCKLDM 117 (222)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHhhCCCCC-EEEEEECccc
Confidence 9998852 2344332222222322 3444 4556777775
No 267
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.87 E-value=26 Score=39.57 Aligned_cols=58 Identities=16% Similarity=0.142 Sum_probs=39.6
Q ss_pred eeeEEEEeCCC--------CChHHHHhHHhh--cceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEE---
Q 004549 122 RLRTSVLQAPH--------GDLVGCMEMAKV--ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVL--- 188 (745)
Q Consensus 122 k~R~tfie~~~--------~dl~~mLD~aKv--ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigv--- 188 (745)
|-++-+|.|+. .=+..|+++++. -|.||||+||+.|.. -+ -|+.+|-.+++|
T Consensus 181 ke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQa------ae---------~Qa~aFk~~vdvg~v 245 (483)
T KOG0780|consen 181 KENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQA------AE---------AQARAFKETVDVGAV 245 (483)
T ss_pred hcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHh------HH---------HHHHHHHHhhccceE
Confidence 46777787754 125568888876 699999999998732 11 245555555544
Q ss_pred -eccCCc
Q 004549 189 -IRDLPT 194 (745)
Q Consensus 189 -l~~L~~ 194 (745)
||.||.
T Consensus 246 IlTKlDG 252 (483)
T KOG0780|consen 246 ILTKLDG 252 (483)
T ss_pred EEEeccc
Confidence 899997
No 268
>PRK00098 GTPase RsgA; Reviewed
Probab=46.67 E-value=63 Score=35.07 Aligned_cols=47 Identities=13% Similarity=0.209 Sum_probs=33.6
Q ss_pred HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 141 MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 141 ~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
+|.=+|+||+|+|++.. ..++..-..+|..+...|+|-+ .|++..|.
T Consensus 77 iaaniD~vllV~d~~~p------~~~~~~idr~L~~~~~~~ip~i-IVlNK~DL 123 (298)
T PRK00098 77 IAANVDQAVLVFAAKEP------DFSTDLLDRFLVLAEANGIKPI-IVLNKIDL 123 (298)
T ss_pred eeecCCEEEEEEECCCC------CCCHHHHHHHHHHHHHCCCCEE-EEEEhHHc
Confidence 46779999999999631 1133445678888888898854 57887775
No 269
>PRK12289 GTPase RsgA; Reviewed
Probab=46.36 E-value=69 Score=35.84 Aligned_cols=82 Identities=13% Similarity=0.040 Sum_probs=48.9
Q ss_pred HhhcceEEEEeeCCCccccccccccCh-HHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCee
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDS-FGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKF 220 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~-eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Kl 220 (745)
+.=+|.||+|+|+.. ..++. .-..+|..+...|+|- +.||+..|. -...+.. .+..++..+ |..+
T Consensus 87 ~aNvD~vLlV~d~~~-------p~~~~~~LdR~L~~a~~~~ip~-ILVlNK~DL--v~~~~~~-~~~~~~~~~---g~~v 152 (352)
T PRK12289 87 VANADQILLVFALAE-------PPLDPWQLSRFLVKAESTGLEI-VLCLNKADL--VSPTEQQ-QWQDRLQQW---GYQP 152 (352)
T ss_pred hhcCCEEEEEEECCC-------CCCCHHHHHHHHHHHHHCCCCE-EEEEEchhc--CChHHHH-HHHHHHHhc---CCeE
Confidence 455999999999873 22554 3367888888889874 566887775 1112222 223333322 4568
Q ss_pred EEeCC--HHHHHHHHHHHh
Q 004549 221 YAADT--KDELHKFLWLFK 237 (745)
Q Consensus 221 f~l~~--~~e~~nL~R~I~ 237 (745)
|.+|. ...+..|...|.
T Consensus 153 ~~iSA~tg~GI~eL~~~L~ 171 (352)
T PRK12289 153 LFISVETGIGLEALLEQLR 171 (352)
T ss_pred EEEEcCCCCCHHHHhhhhc
Confidence 88774 234555666554
No 270
>PRK04000 translation initiation factor IF-2 subunit gamma; Validated
Probab=45.35 E-value=2.9e+02 Score=31.44 Aligned_cols=114 Identities=14% Similarity=0.112 Sum_probs=66.0
Q ss_pred CCCCCCcEEEEEEe---cCchhHHHhhccccCCCcEEEEec--ccccceeeEEEEEEEec------CCCCCCCCCCceEE
Q 004549 553 DSVPASLYVRLHIK---EVPAGIAHRLCEMAERSPLIASGL--LQHESKMSVLHFSVKKH------DTYDAPIKAKEELI 621 (745)
Q Consensus 553 ~g~~~G~YVri~i~---~VP~~~~~~~~~~~~~~Plil~gL--l~hE~k~svv~~~ikrh------~~~~~~lKSkdpLi 621 (745)
+.+.+|..|.|.|+ ++...-+. +=.||+.- .+--..-=.+++.+-.| ..++.||+..-.++
T Consensus 285 ~~a~~G~~v~i~l~~~~~i~~~~i~--------~G~vl~~~~~~~~~~~~f~a~v~~l~~~~~~~~~~~~~~i~~g~~~~ 356 (411)
T PRK04000 285 EEARPGGLVGVGTKLDPSLTKADAL--------AGSVAGKPGTLPPVWESLTIEVHLLERVVGTKEELKVEPIKTGEPLM 356 (411)
T ss_pred CEEcCCCEEEEEeccCCCCCHHHcc--------CccEEEcCCCCCCceEEEEEEEEEEEhhcCccccccCCCCCCCCEEE
Confidence 55789999999985 44332221 11122211 11111111233333333 22367999999999
Q ss_pred EEeeeeeeeeeccccccCCCCCcceeecccCCCceEEEEEEeecCC-CCccEEEEEecCCCCCCeEeEeeee
Q 004549 622 FHVGFRQFVARPIFSSDNMNSDKHKMERFLHAGCFSVASIYAPICF-PPLPLIVLKSADGGVAPAVAAVGSL 692 (745)
Q Consensus 622 f~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~ygPi~~-p~~pvl~f~~~~~~~~~~l~atG~v 692 (745)
+++|-.+-.+.=.. . + + ..|--.+|-|++. ++.+++.-+..+ +.+|++|+|.+
T Consensus 357 l~~~t~~~~~~i~~-i-~--~------------~~~~~~l~~p~~~~~g~r~~~~~~~~--~~~~~~~~~~~ 410 (411)
T PRK04000 357 LNVGTATTVGVVTS-A-R--K------------DEAEVKLKRPVCAEEGDRVAISRRVG--GRWRLIGYGII 410 (411)
T ss_pred EEEeccEEEEEEEE-c-C--C------------cEEEEEECCcEecCCCCEEEEEEecC--CcEEEEEEEEe
Confidence 99998876554332 1 1 1 2445557889664 456777655443 57999999986
No 271
>smart00053 DYNc Dynamin, GTPase. Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.
Probab=44.66 E-value=62 Score=34.25 Aligned_cols=42 Identities=17% Similarity=0.025 Sum_probs=31.8
Q ss_pred hcceEEEEeeCCCccccccccccCh-HHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 144 VADLVAFVASASSFSEESMSYYIDS-FGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 144 vADlVlllidas~g~~~~~~~~fd~-eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
-++++|+|+||..+ +.. ...++.+.+...|. +++||+|.+|.
T Consensus 162 ~~~IIL~Vvda~~d--------~~~~d~l~ia~~ld~~~~-rti~ViTK~D~ 204 (240)
T smart00053 162 EECLILAVTPANVD--------LANSDALKLAKEVDPQGE-RTIGVITKLDL 204 (240)
T ss_pred ccCeEEEEEECCCC--------CCchhHHHHHHHHHHcCC-cEEEEEECCCC
Confidence 56799999999854 433 34678888877774 56889999996
No 272
>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha. This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.
Probab=44.53 E-value=2.8e+02 Score=31.53 Aligned_cols=129 Identities=14% Similarity=0.230 Sum_probs=71.4
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEecc--cccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGLL--QHESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQFV 630 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gLl--~hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRFq 630 (745)
+.+.+|..|.|.|++++..-+. +=.||+.-- +.-.+-=..++.+-.| +.||+..-..+|+||..|-.
T Consensus 282 ~~a~aG~~v~i~l~~i~~~~i~--------rG~vl~~~~~~~~~~~~f~a~v~~l~~---~~~i~~g~~~~~~~~t~~~~ 350 (426)
T TIGR00483 282 EQAEPGDNIGFNVRGVSKKDIR--------RGDVCGHPDNPPKVAKEFTAQIVVLQH---PGAITVGYTPVFHCHTAQIA 350 (426)
T ss_pred CEEcCCCEEEEEECCCChhhcc--------cceEEecCCCCCceeeEEEEEEEEECC---CCccCCCCeEEEEecCcEEE
Confidence 4578999999999998754332 222333221 1111111222333222 46888877777999998864
Q ss_pred --eeccccccCCCCCc--ceeecccCCCceEEEEEE--eecCCC------CccEEEEEecCCCCCCeEeEeeeeeccCc
Q 004549 631 --ARPIFSSDNMNSDK--HKMERFLHAGCFSVASIY--APICFP------PLPLIVLKSADGGVAPAVAAVGSLRSIDP 697 (745)
Q Consensus 631 --~~PifS~~~~~~~k--~K~~ry~p~~~~~vAt~y--gPi~~p------~~pvl~f~~~~~~~~~~l~atG~vl~~d~ 697 (745)
+..|.+.-+.+... -+--+++.++..+++.+- -|++.- ..+=++++.. -+.+|-|.|+.+.+
T Consensus 351 ~~i~~i~~~~~~~t~~~~~~~p~~l~~g~~a~v~l~~~~pi~~e~~~~~~~~grf~lr~~-----g~tv~~G~v~~~~~ 424 (426)
T TIGR00483 351 CRFDELLKKNDPRTGQVLEENPQFLKTGDAAIVKFKPTKPMVIEAVKEIPPLGRFAIRDM-----GQTVAAGMIIDVDP 424 (426)
T ss_pred EEEEEEEEEecCccccccCCCCceeCCCCEEEEEEEECCeeEEeecccCCCCccEEEEEC-----CCEEEEEEEEEeee
Confidence 44555543332211 123468899999888875 344322 1222333332 15789998887653
No 273
>CHL00071 tufA elongation factor Tu
Probab=43.52 E-value=3.7e+02 Score=30.53 Aligned_cols=125 Identities=10% Similarity=0.069 Sum_probs=72.0
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEec--ccccceeeEEEEEEEecCC--CCCCCCCCceEEEEeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGL--LQHESKMSVLHFSVKKHDT--YDAPIKAKEELIFHVGFRQ 628 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gL--l~hE~k~svv~~~ikrh~~--~~~~lKSkdpLif~~G~RR 628 (745)
+.+.+|..|.|.|+++...-+. +=.||+.- ++.=.++ .+++.+-.|.. ...||+.....+++||-.+
T Consensus 277 ~~a~aGd~v~i~l~~i~~~~i~--------~G~vl~~~~~~~~~~~f-~a~i~~l~~~~~~~~~~i~~g~~~~~~~gt~~ 347 (409)
T CHL00071 277 DEGLAGDNVGILLRGIQKEDIE--------RGMVLAKPGTITPHTKF-EAQVYILTKEEGGRHTPFFPGYRPQFYVRTTD 347 (409)
T ss_pred CEECCCceeEEEEcCCCHHHcC--------CeEEEecCCCCCcceEE-EEEEEEEecccCCccccccCCceEEEEEcccE
Confidence 5578999999999987653321 22344432 1111111 23333333321 2578999999999999888
Q ss_pred eeeeccccccCCCCCcceeecccCCCceEEEEEE--eecCCCCccEEEEEecCCCCCCeEeEeeeeecc
Q 004549 629 FVARPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICFPPLPLIVLKSADGGVAPAVAAVGSLRSI 695 (745)
Q Consensus 629 Fq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~p~~pvl~f~~~~~~~~~~l~atG~vl~~ 695 (745)
....=..=. ...+ .--+++.++..|++.|- .|+++-+.+-++++.. -+.+|.|.|+++
T Consensus 348 ~~~~i~~i~-~~~~---~~~~~l~~g~~a~v~l~~~~pi~~e~~~rfilR~~-----~~tig~G~V~~~ 407 (409)
T CHL00071 348 VTGKIESFT-ADDG---SKTEMVMPGDRIKMTVELIYPIAIEKGMRFAIREG-----GRTVGAGVVSKI 407 (409)
T ss_pred EEEEEEEEc-ccCC---CCCcEecCCCEEEEEEEECCeEEEeeCCEEEEecC-----CeEEEEEEEEEe
Confidence 553332111 1111 23356888888887664 5665444444555432 378999988753
No 274
>PRK15367 type III secretion system protein SsaD; Provisional
Probab=43.19 E-value=76 Score=36.04 Aligned_cols=118 Identities=14% Similarity=0.133 Sum_probs=69.7
Q ss_pred cChHHHHHHHHHHhcCCCceEEE--------ec-cCCcchhhhHHHHHHHHhhcccccCCCCeeEEeC--CHHHHHHHHH
Q 004549 166 IDSFGNQCLSVFRSLGLPSTAVL--------IR-DLPTDLKKRKDLKKMCISSLTSEFPEDCKFYAAD--TKDELHKFLW 234 (745)
Q Consensus 166 fd~eg~e~L~~l~~qGlP~vigv--------l~-~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~--~~~e~~nL~R 234 (745)
.+.....++++|+.+|+..-+.| ++ +|+. -++ ..-..+...|..+|| +-+|-|-. ...+..+++|
T Consensus 262 ~~g~~~~li~~L~~~gLl~~Lsv~~~~~~i~iSG~L~~--~q~-~~~~~l~~~~~~~~p-~L~l~~qni~~~~~~~~~lp 337 (395)
T PRK15367 262 HQSQGDDIISAIIENGLVGLVNVTPMRRSFVISGVLDE--SHQ-RILQETLAALKKKDP-ALSLIYQDIAPSHDESKYLP 337 (395)
T ss_pred cchhHHHHHHHHHHCCCcccceEEEcCCeEEEEEecCH--HHH-HHHHHHHHHHHhhCC-CceEEEcCCCCCcchhhcCc
Confidence 45677899999999999988877 33 5665 222 334445566677888 47777755 4556666666
Q ss_pred HHhhccccCCccccCCCeEEEE-eeEeccCCCCCCCceEEEEEEEeCCCCC-CCCeEEeC
Q 004549 235 LFKEQRLTVPHWRNQRPFLMAQ-KVDVVADDCNSGKCTLLLHGYLRAHCLS-VNQLVHIS 292 (745)
Q Consensus 235 ~I~~~k~r~l~WR~~rpYmLad-r~e~~~~~~~~~~~~l~v~GyvRG~~l~-~n~lVHIp 292 (745)
..+.-.-- -...||++=+ ...+-... .-++|.-++.=--.|..|+ .|++||||
T Consensus 338 a~i~g~gG----n~~~pyV~L~Ng~RL~~Gs-~L~nGyrV~~I~~~gI~L~~~~~LI~iP 392 (395)
T PRK15367 338 APVAGFVQ----SRHGNYLLLTNKERLRVGA-LLPNGGEIVHLSADVVTIKHYDTLINYP 392 (395)
T ss_pred cceEEeec----CCCCCeEEeeCCcCccCCC-CCCCceEEEEEcCCceEEecCCcEEEec
Confidence 54443322 2456887544 33343221 1223332222113555554 79999999
No 275
>COG1866 PckA Phosphoenolpyruvate carboxykinase (ATP) [Energy production and conversion]
Probab=43.17 E-value=22 Score=40.76 Aligned_cols=98 Identities=14% Similarity=0.195 Sum_probs=56.8
Q ss_pred cccccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeeeeeeccccccCCCCCcceeecccCC-----CceEEEEEEee
Q 004549 590 LLQHESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQFVARPIFSSDNMNSDKHKMERFLHA-----GCFSVASIYAP 664 (745)
Q Consensus 590 Ll~hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~-----~~~~vAt~ygP 664 (745)
|-.++..|.|+++---+--|-..=+.|..-+||.+-=|---+.-.+.....+-.+..++-|+-| -|||.|.+ ||
T Consensus 147 l~~~~~dftvin~p~f~~~~~~~g~~Se~~i~~n~~~~~~lIggT~YaGEMKK~~fs~mnylLP~~~i~~MHcsANv-G~ 225 (529)
T COG1866 147 LSTFKPDFTVINAPSFKADPKRDGLRSETFVAFNFTERIVLIGGTWYAGEMKKGIFSVMNYLLPLKGILSMHCSANV-GE 225 (529)
T ss_pred hccCCCCeEEEeCCcCCCChhhcccccccEEEEecccceeeeeccchhhhhhhhHHHHhhccccccccccceecccc-Cc
Confidence 4445667777775555555666666676666665322221122221111222346777888866 27888876 55
Q ss_pred cCCCCccEEEEEecCCCCCCeEeEeee-eeccCccce
Q 004549 665 ICFPPLPLIVLKSADGGVAPAVAAVGS-LRSIDPDRI 700 (745)
Q Consensus 665 i~~p~~pvl~f~~~~~~~~~~l~atG~-vl~~d~~ri 700 (745)
. .-.+|+| =|+|||. -|++||.|.
T Consensus 226 ~---gdvalFF---------GLSGTGKTTLSaDp~R~ 250 (529)
T COG1866 226 K---GDVALFF---------GLSGTGKTTLSADPHRR 250 (529)
T ss_pred C---CCeEEEE---------eccCCCcceeccCCccc
Confidence 3 4455555 4778884 589999983
No 276
>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]
Probab=42.84 E-value=75 Score=38.87 Aligned_cols=62 Identities=15% Similarity=0.234 Sum_probs=49.7
Q ss_pred eeEEEEeCCC-CCh-HHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCC
Q 004549 123 LRTSVLQAPH-GDL-VGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLP 193 (745)
Q Consensus 123 ~R~tfie~~~-~dl-~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~ 193 (745)
.+|.||-+|- -|+ ..+--+.+|+|-+++|+||.. +++..|+.+++.+.-.++|.++.| +.+|
T Consensus 76 ~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdave--------GV~~QTEtv~rqa~~~~vp~i~fi-NKmD 139 (697)
T COG0480 76 YRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVE--------GVEPQTETVWRQADKYGVPRILFV-NKMD 139 (697)
T ss_pred eEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCC--------CeeecHHHHHHHHhhcCCCeEEEE-ECcc
Confidence 7999999872 333 234556789999999999995 488999999999999999998765 4444
No 277
>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma. eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.
Probab=42.26 E-value=3.1e+02 Score=31.17 Aligned_cols=64 Identities=17% Similarity=0.167 Sum_probs=45.8
Q ss_pred CCCCCCCceEEEEeeeeeeeeeccccccCCCCCcceeecccCCCceEEEEEEeecCC-CCccEEEEEecCCCCCCeEeEe
Q 004549 611 DAPIKAKEELIFHVGFRQFVARPIFSSDNMNSDKHKMERFLHAGCFSVASIYAPICF-PPLPLIVLKSADGGVAPAVAAV 689 (745)
Q Consensus 611 ~~~lKSkdpLif~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~ygPi~~-p~~pvl~f~~~~~~~~~~l~at 689 (745)
..||+....+++++|-.+-.+.=.. . + + ..+--.++-|++. ++..++.++..+ ..+|++|+
T Consensus 341 ~~~i~~g~~~~l~~gt~~~~~~v~~-~-~--~------------~~~~l~l~~p~~~~~g~r~~~~~~~~--~~~~~~g~ 402 (406)
T TIGR03680 341 VEPIKTGEVLMLNVGTATTVGVVTS-A-R--K------------DEIEVKLKRPVCAEEGDRVAISRRVG--GRWRLIGY 402 (406)
T ss_pred cccCCCCCEEEEEEccceEEEEEEE-c-C--C------------cEEEEEECCcEEcCCCCEEEEEEecC--CceEEEEE
Confidence 5799999999999998776555432 2 1 1 1244457888664 457888877664 58999999
Q ss_pred eee
Q 004549 690 GSL 692 (745)
Q Consensus 690 G~v 692 (745)
|.+
T Consensus 403 g~~ 405 (406)
T TIGR03680 403 GII 405 (406)
T ss_pred EEe
Confidence 986
No 278
>cd04131 Rnd Rnd subfamily. The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.
Probab=41.93 E-value=2.2e+02 Score=28.07 Aligned_cols=102 Identities=11% Similarity=0.043 Sum_probs=55.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-CC-----cc---eEEEecCceeeEEEEeCCCCC-hHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-GA-----LS---STVSSSKYRLRTSVLQAPHGD-LVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~-----g~---~tv~~~r~k~R~tfie~~~~d-l~~mLD-~aKvADlVll 150 (745)
|+|+|.++.+.. +| +..|..... .. +. .++.++..+-++.++.++-.. ...+.. ..+-||.+||
T Consensus 4 iv~vG~~~vGKT-sl----i~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~il 78 (178)
T cd04131 4 IVVVGDVQCGKT-AL----LQVFAKDCYPETYVPTVFENYTASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLI 78 (178)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCcCCCCcCCceEEEEEEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEE
Confidence 788999887765 56 444432211 11 11 123445556677888775222 233323 3567999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhcC-CCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSLG-LPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~qG-lP~vigvl~~L~~ 194 (745)
++|.+.. ..|+.--...+..++.+. =..++.|.++.|.
T Consensus 79 vfdit~~------~Sf~~~~~~w~~~i~~~~~~~~iilVgnK~DL 117 (178)
T cd04131 79 CFDISRP------ETLDSVLKKWRGEIQEFCPNTKVLLVGCKTDL 117 (178)
T ss_pred EEECCCh------hhHHHHHHHHHHHHHHHCCCCCEEEEEEChhh
Confidence 9998742 335432223444444432 1234556777764
No 279
>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence. IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.
Probab=41.85 E-value=2.2e+02 Score=32.29 Aligned_cols=102 Identities=17% Similarity=0.165 Sum_probs=58.0
Q ss_pred CCCCEEEEEecCCCccChhhHHHHHHHhhccCC---CCC---c-------ceEEEecCceeeEEEEeCCC-----CChHH
Q 004549 76 ASPPRVIVLFGLSASVNLNSVREDLLRQLSSEG---TGA---L-------SSTVSSSKYRLRTSVLQAPH-----GDLVG 137 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~---~~~---g-------~~tv~~~r~k~R~tfie~~~-----~dl~~ 137 (745)
+..|.-|||+|-++++.. |+ |+.+.+.+ ..+ | +.....+++ ..++|...|. -....
T Consensus 32 ~~~~l~IaV~G~sGsGKS-Sf----INalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~-pnv~lWDlPG~gt~~f~~~~ 105 (376)
T PF05049_consen 32 DNAPLNIAVTGESGSGKS-SF----INALRGLGHEDEGAAPTGVVETTMEPTPYPHPKF-PNVTLWDLPGIGTPNFPPEE 105 (376)
T ss_dssp HH--EEEEEEESTTSSHH-HH----HHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS--TTEEEEEE--GGGSS--HHH
T ss_pred hcCceEEEEECCCCCCHH-HH----HHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCC-CCCeEEeCCCCCCCCCCHHH
Confidence 456999999999998775 77 44443322 111 2 233344543 5788887762 23444
Q ss_pred HHhHHh--hcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 138 CMEMAK--VADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 138 mLD~aK--vADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.|+-.+ --|++|++.+.. |-+.--.+...++..|-| ...|-+++|.
T Consensus 106 Yl~~~~~~~yD~fiii~s~r----------f~~ndv~La~~i~~~gK~-fyfVRTKvD~ 153 (376)
T PF05049_consen 106 YLKEVKFYRYDFFIIISSER----------FTENDVQLAKEIQRMGKK-FYFVRTKVDS 153 (376)
T ss_dssp HHHHTTGGG-SEEEEEESSS------------HHHHHHHHHHHHTT-E-EEEEE--HHH
T ss_pred HHHHccccccCEEEEEeCCC----------CchhhHHHHHHHHHcCCc-EEEEEecccc
Confidence 555433 368887777665 677888999999999999 6667776663
No 280
>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]
Probab=41.82 E-value=3.5e+02 Score=32.29 Aligned_cols=201 Identities=8% Similarity=0.080 Sum_probs=124.1
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCC-------------CC-cceEEEecCceeeEEEEeCCCCChHHHHhH----
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGT-------------GA-LSSTVSSSKYRLRTSVLQAPHGDLVGCMEM---- 141 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~-------------~~-g~~tv~~~r~k~R~tfie~~~~dl~~mLD~---- 141 (745)
-|||=|--.++|+...| +++---.+. +- --|||-+. ...+ |..+..+.+..+||.
T Consensus 64 sIIAHVDHGKSTLaDrL----Le~tg~i~~~~~q~q~LDkl~vERERGITIkaQ--tasi-fy~~~~~ylLNLIDTPGHv 136 (650)
T KOG0462|consen 64 SIIAHVDHGKSTLADRL----LELTGTIDNNIGQEQVLDKLQVERERGITIKAQ--TASI-FYKDGQSYLLNLIDTPGHV 136 (650)
T ss_pred EEEEEecCCcchHHHHH----HHHhCCCCCCCchhhhhhhhhhhhhcCcEEEee--eeEE-EEEcCCceEEEeecCCCcc
Confidence 36777777788888777 654321111 10 45777642 2333 344433456666664
Q ss_pred ---------HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhccc
Q 004549 142 ---------AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTS 212 (745)
Q Consensus 142 ---------aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~ 212 (745)
.-.||=+|||+||+.| ....|---+-.....|+ .+|.||+.+|...-.-..+...++.-|.
T Consensus 137 DFs~EVsRslaac~G~lLvVDA~qG--------vqAQT~anf~lAfe~~L-~iIpVlNKIDlp~adpe~V~~q~~~lF~- 206 (650)
T KOG0462|consen 137 DFSGEVSRSLAACDGALLVVDASQG--------VQAQTVANFYLAFEAGL-AIIPVLNKIDLPSADPERVENQLFELFD- 206 (650)
T ss_pred cccceehehhhhcCceEEEEEcCcC--------chHHHHHHHHHHHHcCC-eEEEeeeccCCCCCCHHHHHHHHHHHhc-
Confidence 4457779999999955 77777766666667777 5788999888511222346666555553
Q ss_pred ccCCCCeeEEeCCHH--HHHHHHHHHhhccccCCccccCCCeEEEEeeEeccCCCCCCCceEEEEEEEeCCCCCCCCeEE
Q 004549 213 EFPEDCKFYAADTKD--ELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVDVVADDCNSGKCTLLLHGYLRAHCLSVNQLVH 290 (745)
Q Consensus 213 e~~~~~Klf~l~~~~--e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVH 290 (745)
++ .++..++|.+. -+..|+=.|-..=|-|-.-++.-=-||+=..+|.. .+-+..+|+|--.-++.|..|-
T Consensus 207 -~~-~~~~i~vSAK~G~~v~~lL~AII~rVPpP~~~~d~plr~Lifds~yD~------y~G~I~~vrv~~G~vrkGdkV~ 278 (650)
T KOG0462|consen 207 -IP-PAEVIYVSAKTGLNVEELLEAIIRRVPPPKGIRDAPLRMLIFDSEYDE------YRGVIALVRVVDGVVRKGDKVQ 278 (650)
T ss_pred -CC-ccceEEEEeccCccHHHHHHHHHhhCCCCCCCCCcchHHHhhhhhhhh------hcceEEEEEEeeeeeecCCEEE
Confidence 34 67899988422 12236666665556665555554445554444432 3557778888777788888887
Q ss_pred eCCCC-ceeeceeecc
Q 004549 291 ISGAG-DFQLGKIEIL 305 (745)
Q Consensus 291 IpG~G-DFqi~~I~~~ 305 (745)
-.--| .|.++.|..+
T Consensus 279 ~~~t~~~yev~~vgvm 294 (650)
T KOG0462|consen 279 SAATGKSYEVKVVGVM 294 (650)
T ss_pred EeecCcceEeEEeEEe
Confidence 66655 4677777665
No 281
>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]
Probab=40.85 E-value=4e+02 Score=29.83 Aligned_cols=86 Identities=15% Similarity=0.130 Sum_probs=47.6
Q ss_pred HHhHHhhcceEEEEeeCCCccccccccccChHH-HHHHHH---HHhcCCC--ceEEEeccCCcchhhhHHHHHHHHhhcc
Q 004549 138 CMEMAKVADLVAFVASASSFSEESMSYYIDSFG-NQCLSV---FRSLGLP--STAVLIRDLPTDLKKRKDLKKMCISSLT 211 (745)
Q Consensus 138 mLD~aKvADlVlllidas~g~~~~~~~~fd~eg-~e~L~~---l~~qGlP--~vigvl~~L~~~~Kk~~~~kK~lk~~f~ 211 (745)
.|-=+--|++++||+|.|.+. -...|+ ++.|.. +-.+|+. ..+.|.+.+|.. -.++...++|++++.
T Consensus 268 FLrHiER~~~l~fVvD~s~~~------~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~-eae~~~l~~L~~~lq 340 (366)
T KOG1489|consen 268 FLRHIERCKGLLFVVDLSGKQ------LRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLP-EAEKNLLSSLAKRLQ 340 (366)
T ss_pred HHHHHHhhceEEEEEECCCcc------cCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCch-hHHHHHHHHHHHHcC
Confidence 455556689999999999531 013222 233321 2245665 256678888851 112233466666665
Q ss_pred cccCCCCeeEEeCC-----HHHHHHHHHH
Q 004549 212 SEFPEDCKFYAADT-----KDELHKFLWL 235 (745)
Q Consensus 212 ~e~~~~~Klf~l~~-----~~e~~nL~R~ 235 (745)
.. ++|.++. -.+.++.+|.
T Consensus 341 ~~-----~V~pvsA~~~egl~~ll~~lr~ 364 (366)
T KOG1489|consen 341 NP-----HVVPVSAKSGEGLEELLNGLRE 364 (366)
T ss_pred CC-----cEEEeeeccccchHHHHHHHhh
Confidence 44 7777773 4445555553
No 282
>PRK12317 elongation factor 1-alpha; Reviewed
Probab=40.84 E-value=2.9e+02 Score=31.41 Aligned_cols=131 Identities=11% Similarity=0.156 Sum_probs=74.1
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEec--ccccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGL--LQHESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQFV 630 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gL--l~hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRFq 630 (745)
+-+.+|..|.|.|.++...-+ ... . |++.- .+...+-=..++.+-.| +.||+.....+++||-.+-.
T Consensus 280 ~~a~aG~~v~i~l~~~~~~~i---~rG---~--vl~~~~~~~~~~~~f~a~v~~l~~---~~~i~~G~~~~~~~~t~~~~ 348 (425)
T PRK12317 280 PQAEPGDNIGFNVRGVGKKDI---KRG---D--VCGHPDNPPTVAEEFTAQIVVLQH---PSAITVGYTPVFHAHTAQVA 348 (425)
T ss_pred CEECCCCeEEEEECCCCHHHc---cCc---c--EecCCCCCCCcccEEEEEEEEECC---CCcCCCCCeEEEEEcCcEEE
Confidence 457899999999998865432 111 2 22221 11111222233444433 47899999999999976644
Q ss_pred --eeccccccCCCC-Cc-ceeecccCCCceEEEEEE--eecCCC------CccEEEEEecCCCCCCeEeEeeeeeccCcc
Q 004549 631 --ARPIFSSDNMNS-DK-HKMERFLHAGCFSVASIY--APICFP------PLPLIVLKSADGGVAPAVAAVGSLRSIDPD 698 (745)
Q Consensus 631 --~~PifS~~~~~~-~k-~K~~ry~p~~~~~vAt~y--gPi~~p------~~pvl~f~~~~~~~~~~l~atG~vl~~d~~ 698 (745)
...|.+.-+.+. .. -+--+++.++..+++.|- -|++.- ..+=++++.. + +.+|.|.|+++.+.
T Consensus 349 ~~i~~i~~~~d~~t~~~~~~~p~~l~~g~~a~v~l~~~~p~~~~~~~~~~~lgrfilr~~---g--~tv~~G~i~~v~~~ 423 (425)
T PRK12317 349 CTFEELVKKLDPRTGQVAEENPQFIKTGDAAIVKIKPTKPLVIEKVKEIPQLGRFAIRDM---G--QTIAAGMVIDVKPA 423 (425)
T ss_pred EEEEEEEEEeccccccccCCCCcEECCCCEEEEEEEECCeeEEEeCCcCCCCccEEEEEC---C--CeEEEEEEEEeccC
Confidence 233444322221 11 123468888988888764 454321 2233444443 1 57999999988765
Q ss_pred c
Q 004549 699 R 699 (745)
Q Consensus 699 r 699 (745)
.
T Consensus 424 ~ 424 (425)
T PRK12317 424 K 424 (425)
T ss_pred C
Confidence 3
No 283
>PRK09602 translation-associated GTPase; Reviewed
Probab=40.69 E-value=85 Score=35.72 Aligned_cols=72 Identities=15% Similarity=0.113 Sum_probs=44.8
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCCC------------cceEEEe-------------------c-CceeeEE
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA------------LSSTVSS-------------------S-KYRLRTS 126 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------------g~~tv~~-------------------~-r~k~R~t 126 (745)
|.-|++||+|+.+.. +| +..||+..... |.+.+.. . .--..++
T Consensus 1 ~~kigivG~pnvGKS-Tl----fn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~ 75 (396)
T PRK09602 1 MITIGLVGKPNVGKS-TF----FNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVE 75 (396)
T ss_pred CcEEEEECCCCCCHH-HH----HHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEE
Confidence 456899999998775 56 56666543321 2222210 0 0013466
Q ss_pred EEeCCCC---------Ch-HHHHhHHhhcceEEEEeeCCC
Q 004549 127 VLQAPHG---------DL-VGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 127 fie~~~~---------dl-~~mLD~aKvADlVlllidas~ 156 (745)
|+-.+ . .| +..|..++-||.+|+|+|++.
T Consensus 76 i~D~a-Gl~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~~ 114 (396)
T PRK09602 76 LIDVA-GLVPGAHEGRGLGNQFLDDLRQADALIHVVDASG 114 (396)
T ss_pred EEEcC-CcCCCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence 77665 3 12 368888999999999999973
No 284
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=40.60 E-value=31 Score=42.46 Aligned_cols=8 Identities=25% Similarity=0.567 Sum_probs=3.3
Q ss_pred CCeeEEeC
Q 004549 217 DCKFYAAD 224 (745)
Q Consensus 217 ~~Klf~l~ 224 (745)
.+.||.+.
T Consensus 1207 ~a~~YDvq 1214 (1516)
T KOG1832|consen 1207 DALLYDVQ 1214 (1516)
T ss_pred ceEEEecc
Confidence 34444433
No 285
>cd01855 YqeH YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.
Probab=39.62 E-value=73 Score=31.63 Aligned_cols=48 Identities=10% Similarity=0.034 Sum_probs=28.5
Q ss_pred HHHHhHH-hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 136 VGCMEMA-KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 136 ~~mLD~a-KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+++... +=||+||+|+|++.. ...+-.++ . ....+ ..++.|++..|.
T Consensus 25 ~~~l~~~~~~ad~il~VvD~~~~--------~~~~~~~l-~-~~~~~-~~~ilV~NK~Dl 73 (190)
T cd01855 25 LNLLSSISPKKALVVHVVDIFDF--------PGSLIPRL-R-LFGGN-NPVILVGNKIDL 73 (190)
T ss_pred HHHHHhcccCCcEEEEEEECccC--------CCccchhH-H-HhcCC-CcEEEEEEchhc
Confidence 5555544 669999999999842 11222233 1 12234 356778888874
No 286
>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight
Probab=39.40 E-value=2.3e+02 Score=28.11 Aligned_cols=102 Identities=12% Similarity=0.042 Sum_probs=54.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCC-CCC-----c---ceEEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEG-TGA-----L---SSTVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~-~~~-----g---~~tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlVll 150 (745)
|+|+|-++.+.. +| +.+|.... ... + ..++.+...+-++.++.+.-. ...++.. ..+=||.+||
T Consensus 8 ivvvGd~~vGKT-sl----i~~~~~~~f~~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~il 82 (182)
T cd04172 8 IVVVGDSQCGKT-AL----LHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLI 82 (182)
T ss_pred EEEECCCCCCHH-HH----HHHHHhCCCCCccCCceeeeeEEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEE
Confidence 888998887765 56 44443221 111 1 123444555567788876522 2333333 2456999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhcC-CCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSLG-LPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~qG-lP~vigvl~~L~~ 194 (745)
++|.+.. ..|+.--...+..++.+. -+.++.|.+..|.
T Consensus 83 vyDit~~------~Sf~~~~~~w~~~i~~~~~~~piilVgNK~DL 121 (182)
T cd04172 83 CFDISRP------ETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDL 121 (182)
T ss_pred EEECCCH------HHHHHHHHHHHHHHHHHCCCCCEEEEeEChhh
Confidence 9998842 234432223334444331 1235556677664
No 287
>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=38.84 E-value=55 Score=31.41 Aligned_cols=75 Identities=23% Similarity=0.392 Sum_probs=56.2
Q ss_pred ChHHHHHHHHHHhcCCCceEEE-eccCCcchhhhHHHHHHHHhhcccccCCCCeeEEeCCHHHHHHHHHHHhhccccCCc
Q 004549 167 DSFGNQCLSVFRSLGLPSTAVL-IRDLPTDLKKRKDLKKMCISSLTSEFPEDCKFYAADTKDELHKFLWLFKEQRLTVPH 245 (745)
Q Consensus 167 d~eg~e~L~~l~~qGlP~vigv-l~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~~~~e~~nL~R~I~~~k~r~l~ 245 (745)
.-.|..++++|+++|+-.-|.= |.|| +||...++|.|.++=..- ++|+--+--++-++.|+|+--....-|..
T Consensus 65 ~v~G~kI~Rilk~~Gl~PeiPeDLy~l---ikkAv~iRkHLer~RKD~---d~K~RLILveSRihRlARYYk~~~~lPp~ 138 (151)
T KOG0400|consen 65 FVTGNKILRILKSNGLAPEIPEDLYHL---IKKAVAIRKHLERNRKDK---DAKFRLILVESRIHRLARYYKTKMVLPPN 138 (151)
T ss_pred eechhHHHHHHHHcCCCCCCcHHHHHH---HHHHHHHHHHHHHhcccc---ccceEEEeehHHHHHHHHHHHhcccCCCC
Confidence 4568999999999998544321 3332 477777888887654443 66766666788999999999999999999
Q ss_pred cc
Q 004549 246 WR 247 (745)
Q Consensus 246 WR 247 (745)
|.
T Consensus 139 WK 140 (151)
T KOG0400|consen 139 WK 140 (151)
T ss_pred CC
Confidence 95
No 288
>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]
Probab=38.27 E-value=72 Score=37.22 Aligned_cols=89 Identities=19% Similarity=0.191 Sum_probs=49.2
Q ss_pred CEEEEEecCCCccChhhHHHHHHHhhccCCCCC-------------cceEEEecCceeeEE----EEeCCCCChHHHH--
Q 004549 79 PRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-------------LSSTVSSSKYRLRTS----VLQAPHGDLVGCM-- 139 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-------------g~~tv~~~r~k~R~t----fie~~~~dl~~mL-- 139 (745)
+.-|||+|+|+.+.. || ++.+++.+... -.+++ ..++-+|+ +-+ ..+|.-.+|
T Consensus 268 gl~iaIvGrPNvGKS-SL----lNaL~~~drsIVSpv~GTTRDaiea~v~~--~G~~v~L~DTAGiRe-~~~~~iE~~gI 339 (531)
T KOG1191|consen 268 GLQIAIVGRPNVGKS-SL----LNALSREDRSIVSPVPGTTRDAIEAQVTV--NGVPVRLSDTAGIRE-ESNDGIEALGI 339 (531)
T ss_pred CCeEEEEcCCCCCHH-HH----HHHHhcCCceEeCCCCCcchhhheeEeec--CCeEEEEEecccccc-ccCChhHHHhH
Confidence 467899999988765 77 67676655332 22332 22332221 011 124444433
Q ss_pred ----hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCC
Q 004549 140 ----EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLP 183 (745)
Q Consensus 140 ----D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP 183 (745)
-.++.||+++||+||..+ .-++--.+.+.|+.-|.-
T Consensus 340 ~rA~k~~~~advi~~vvda~~~--------~t~sd~~i~~~l~~~~~g 379 (531)
T KOG1191|consen 340 ERARKRIERADVILLVVDAEES--------DTESDLKIARILETEGVG 379 (531)
T ss_pred HHHHHHHhhcCEEEEEeccccc--------ccccchHHHHHHHHhccc
Confidence 357789999999999632 112333455555555543
No 289
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=38.15 E-value=3.4e+02 Score=31.38 Aligned_cols=18 Identities=28% Similarity=0.377 Sum_probs=14.8
Q ss_pred CCCCEEEEEecCCCccCh
Q 004549 76 ASPPRVIVLFGLSASVNL 93 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~ 93 (745)
.++|.+|+++||++++.+
T Consensus 97 ~~~~~vi~lvG~~GvGKT 114 (429)
T TIGR01425 97 KGKQNVIMFVGLQGSGKT 114 (429)
T ss_pred CCCCeEEEEECCCCCCHH
Confidence 467999999999986654
No 290
>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]
Probab=38.15 E-value=55 Score=36.76 Aligned_cols=64 Identities=16% Similarity=0.171 Sum_probs=53.4
Q ss_pred eeeEEEEeCCCCC---hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 122 RLRTSVLQAPHGD---LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 122 k~R~tfie~~~~d---l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
||+|.+.-+| .- ..+|.--|.-||++++|+||..| +-+.|..=.-++...|+..++..++.+|.
T Consensus 85 KRkFIiADTP-GHeQYTRNMaTGASTadlAIlLVDAR~G--------vl~QTrRHs~I~sLLGIrhvvvAVNKmDL 151 (431)
T COG2895 85 KRKFIIADTP-GHEQYTRNMATGASTADLAILLVDARKG--------VLEQTRRHSFIASLLGIRHVVVAVNKMDL 151 (431)
T ss_pred cceEEEecCC-cHHHHhhhhhcccccccEEEEEEecchh--------hHHHhHHHHHHHHHhCCcEEEEEEeeecc
Confidence 6777777666 43 55688889999999999999954 77888888888888999999999998885
No 291
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=38.03 E-value=3e+02 Score=33.25 Aligned_cols=115 Identities=11% Similarity=0.118 Sum_probs=67.0
Q ss_pred CCCCCCcEEEEEEec-CchhHHHhhccccCCCcEEEEecccccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeeeee
Q 004549 553 DSVPASLYVRLHIKE-VPAGIAHRLCEMAERSPLIASGLLQHESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQFVA 631 (745)
Q Consensus 553 ~g~~~G~YVri~i~~-VP~~~~~~~~~~~~~~Plil~gLl~hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRFq~ 631 (745)
+-+.+|..|-|.+.+ +..+-+. .. . ||+.--+. .....+-+.++ ...||+...++.|++|=.+-.+
T Consensus 229 ~~a~aG~rval~l~g~~~~~~i~---rG---d--vl~~~~~~-~~~~~~~~~l~----~~~~l~~~~~~~~~~gt~~~~~ 295 (614)
T PRK10512 229 EQAQAGQRIALNIAGDAEKEQIN---RG---D--WLLADAPP-EPFTRVIVELQ----THTPLTQWQPLHIHHAASHVTG 295 (614)
T ss_pred CEEeCCCeEEEEecCCCChhhCC---Cc---C--EEeCCCCC-ccceeEEEEEc----CCccCCCCCEEEEEEcccEEEE
Confidence 557899999999986 6654332 11 2 22221111 01111222232 2489999999999999655433
Q ss_pred eccccccCCCCCcceeecccCCCceEEEEEEeecCCCC-ccEEEEEecCCCCCCeEeEeeeeeccCccce
Q 004549 632 RPIFSSDNMNSDKHKMERFLHAGCFSVASIYAPICFPP-LPLIVLKSADGGVAPAVAAVGSLRSIDPDRI 700 (745)
Q Consensus 632 ~PifS~~~~~~~k~K~~ry~p~~~~~vAt~ygPi~~p~-~pvl~f~~~~~~~~~~l~atG~vl~~d~~ri 700 (745)
.=.+ + +...+--.+.-|++... .+++. +.. +..+.+|.|.|++++|.+.
T Consensus 296 ~i~~------------l----~~~~~~l~l~~p~~~~~gdr~il-r~~---s~~~tigGg~Vld~~~~~~ 345 (614)
T PRK10512 296 RVSL------------L----EDNLAELVLDTPLWLADNDRLVL-RDI---SARNTLAGARVVMLNPPRR 345 (614)
T ss_pred EEEE------------c----CCeEEEEEECCcccccCCCEEEE-EeC---CCCEEEEEEEEcccCCccc
Confidence 2221 1 22233345568876554 45544 665 3578999999999988643
No 292
>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]
Probab=37.37 E-value=2.7e+02 Score=31.64 Aligned_cols=141 Identities=17% Similarity=0.218 Sum_probs=80.3
Q ss_pred hcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chhhhHHHHHHHHhhccc----------
Q 004549 144 VADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLKKRKDLKKMCISSLTS---------- 212 (745)
Q Consensus 144 vADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~Kk~~~~kK~lk~~f~~---------- 212 (745)
.-|+-+|||-|..| +=--|.|-|....+.-+| |+.|+|.+|+ ...-..++-|.|.+.+.+
T Consensus 244 ~PDf~MLMiGaNaG--------IiGmTKEHLgLALaL~VP-VfvVVTKIDMCPANiLqEtmKll~rllkS~gcrK~PvlV 314 (641)
T KOG0463|consen 244 MPDFTMLMIGANAG--------IIGMTKEHLGLALALHVP-VFVVVTKIDMCPANILQETMKLLTRLLKSPGCRKLPVLV 314 (641)
T ss_pred CCCceEEEeccccc--------ceeccHHhhhhhhhhcCc-EEEEEEeeccCcHHHHHHHHHHHHHHhcCCCcccCcEEE
Confidence 46889999998865 322367778877787787 5667888885 112234566777766655
Q ss_pred -----------ccCC--CCeeEEeCC-HHHHHHHHHHHhhccccCCccccCCC-eEEEEeeEeccCCCCCCCceEEEEEE
Q 004549 213 -----------EFPE--DCKFYAADT-KDELHKFLWLFKEQRLTVPHWRNQRP-FLMAQKVDVVADDCNSGKCTLLLHGY 277 (745)
Q Consensus 213 -----------e~~~--~~Klf~l~~-~~e~~nL~R~I~~~k~r~l~WR~~rp-YmLadr~e~~~~~~~~~~~~l~v~Gy 277 (745)
-|+. -.-+|.+|+ .-+-+-|++..-+.-.-....+++-| ..-.|.+.|++. .||++---.
T Consensus 315 rs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkmFLNlls~R~~~~E~~PAeFQIDD~Y~VpG-----VGTvvSGT~ 389 (641)
T KOG0463|consen 315 RSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKMFLNLLSLRRQLNENDPAEFQIDDIYWVPG-----VGTVVSGTL 389 (641)
T ss_pred ecccceEEeeccCccccccceEEeccccCCChHHHHHHHhhcCcccccccCCCcceeecceEecCC-----cceEeecce
Confidence 2221 133466665 44566777765555444444555544 445666666653 466543223
Q ss_pred EeCC-CCCCCCeEEeCCCCcee
Q 004549 278 LRAH-CLSVNQLVHISGAGDFQ 298 (745)
Q Consensus 278 vRG~-~l~~n~lVHIpG~GDFq 298 (745)
++|+ .|+---+.-=.-.|||-
T Consensus 390 L~GtIrLND~LlLGPd~~G~F~ 411 (641)
T KOG0463|consen 390 LSGTIRLNDILLLGPDSNGDFM 411 (641)
T ss_pred eeeeEEeccEEEecCCCCCCee
Confidence 3443 13322223334568885
No 293
>PRK13768 GTPase; Provisional
Probab=37.26 E-value=1.2e+02 Score=32.08 Aligned_cols=64 Identities=19% Similarity=0.214 Sum_probs=36.3
Q ss_pred eEEEEeCCCCCh---------HHHHhHHhh--cceEEEEeeCCCccccccccccChHHHHHHHHH--HhcCCCceEEEec
Q 004549 124 RTSVLQAPHGDL---------VGCMEMAKV--ADLVAFVASASSFSEESMSYYIDSFGNQCLSVF--RSLGLPSTAVLIR 190 (745)
Q Consensus 124 R~tfie~~~~dl---------~~mLD~aKv--ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l--~~qGlP~vigvl~ 190 (745)
.+.++.+| .-+ ..+++.++- +|+|++|+|++.+. ...|.+...+|... ...|.|-++ |++
T Consensus 98 ~~~~~d~~-g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~-----~~~d~~~~~~l~~~~~~~~~~~~i~-v~n 170 (253)
T PRK13768 98 DYVLVDTP-GQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAK-----TPSDFVSLLLLALSVQLRLGLPQIP-VLN 170 (253)
T ss_pred CEEEEeCC-cHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhC-----CHHHHHHHHHHHHHHHHHcCCCEEE-EEE
Confidence 56777776 432 224455444 89999999997541 11233333333322 246776555 777
Q ss_pred cCCc
Q 004549 191 DLPT 194 (745)
Q Consensus 191 ~L~~ 194 (745)
..|.
T Consensus 171 K~D~ 174 (253)
T PRK13768 171 KADL 174 (253)
T ss_pred hHhh
Confidence 7774
No 294
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=37.25 E-value=93 Score=32.13 Aligned_cols=64 Identities=13% Similarity=0.238 Sum_probs=45.6
Q ss_pred eeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 123 LRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 123 ~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
-.+.+|.||++--.....+...||.||+++.++.. .+ .....++..++..|...+..|++..+.
T Consensus 112 ~D~viiD~p~~~~~~~~~~l~~aD~viiv~~~~~~-------s~-~~~~~~~~~l~~~~~~~~~iviN~~~~ 175 (261)
T TIGR01968 112 FDYVIIDCPAGIESGFRNAVAPADEAIVVTTPEVS-------AV-RDADRVIGLLEAKGIEKIHLIVNRLRP 175 (261)
T ss_pred CCEEEEeCCCCcCHHHHHHHHhCCeEEEEcCCCcH-------HH-HHHHHHHHHHHHcCCCceEEEEeCcCc
Confidence 36678888854445567788899999999998742 11 346778888888887666556776654
No 295
>PF14731 Staphopain_pro: Staphopain proregion; PDB: 1X9Y_D.
Probab=37.23 E-value=14 Score=36.14 Aligned_cols=23 Identities=22% Similarity=0.362 Sum_probs=13.9
Q ss_pred EeeeEEEeeeeEEEeccCCChhhhcCcceee
Q 004549 708 TGYPQRVSKLKAIVRYMFHNPEDVRWFKVKR 738 (745)
Q Consensus 708 tG~P~KI~K~tA~Ir~MFfn~~DV~wFkpv~ 738 (745)
-|.||||+| |++.+|=.+|=||=
T Consensus 44 LGepFKIyk--------fn~~~DgnyYfPVl 66 (169)
T PF14731_consen 44 LGEPFKIYK--------FNGESDGNYYFPVL 66 (169)
T ss_dssp E---B--EE--------TTS-B-SSEEEEEE
T ss_pred cCCcEEEee--------ccCccCCcEEEEEE
Confidence 499999988 99999999999984
No 296
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=36.52 E-value=1.2e+02 Score=30.60 Aligned_cols=28 Identities=11% Similarity=0.159 Sum_probs=18.3
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhhcc
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQLSS 106 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~ 106 (745)
.|.+++|+|+++++.. .|+..|++.+..
T Consensus 5 ~~~ii~ivG~sgsGKT-TLi~~li~~l~~ 32 (173)
T PRK10751 5 MIPLLAIAAWSGTGKT-TLLKKLIPALCA 32 (173)
T ss_pred CceEEEEECCCCChHH-HHHHHHHHHHhh
Confidence 4559999999987654 343444666643
No 297
>CHL00175 minD septum-site determining protein; Validated
Probab=35.51 E-value=1.1e+02 Score=32.33 Aligned_cols=62 Identities=13% Similarity=0.203 Sum_probs=45.2
Q ss_pred eEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccC-hHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 124 RTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYID-SFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 124 R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd-~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.+.+|.||+.--...+.+...||.||+++..+. +. .....++..|+..|.+..-.|++..+.
T Consensus 128 D~VIiDtpp~~~~~~~~~l~~aD~viiV~~p~~---------~si~~~~~~~~~l~~~~~~~~~lvvN~~~~ 190 (281)
T CHL00175 128 DYILIDCPAGIDVGFINAIAPAQEAIVVTTPEI---------TAIRDADRVAGLLEANGIYNVKLLVNRVRP 190 (281)
T ss_pred CEEEEeCCCCCCHHHHHHHHhcCeeEEEcCCCh---------HHHHHHHHHHHHHHHcCCCceEEEEeccCh
Confidence 567788874433446677788999999998874 22 346678888999998776666887765
No 298
>PTZ00141 elongation factor 1- alpha; Provisional
Probab=35.19 E-value=5.4e+02 Score=29.70 Aligned_cols=129 Identities=16% Similarity=0.194 Sum_probs=71.7
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEec--cc-ccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGL--LQ-HESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQF 629 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gL--l~-hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRF 629 (745)
+-+.+|..|.|.|+++...-+. +=.||+.- .| ...+.=-.++.+-.| +.||+..-..+++||..|-
T Consensus 288 ~~a~aG~~v~i~L~~i~~~~v~--------rG~vl~~~~~~p~~~~~~f~a~i~~l~~---~~~i~~G~~~vl~~~t~~~ 356 (446)
T PTZ00141 288 AEAVPGDNVGFNVKNVSVKDIK--------RGYVASDSKNDPAKECADFTAQVIVLNH---PGQIKNGYTPVLDCHTAHI 356 (446)
T ss_pred CEECCCCEEEEEECCCCHHHcC--------CceEEecCCCCCCccceEEEEEEEEECC---CCccCCCCeEEEEEeceEE
Confidence 4578999999999987654321 22233331 11 111111112222222 4688888777799998875
Q ss_pred e--eeccccccCCC-CCcc-eeecccCCCceEEEEEE--eecCCC------CccEEEEEecCCCCCCeEeEeeeeeccCc
Q 004549 630 V--ARPIFSSDNMN-SDKH-KMERFLHAGCFSVASIY--APICFP------PLPLIVLKSADGGVAPAVAAVGSLRSIDP 697 (745)
Q Consensus 630 q--~~PifS~~~~~-~~k~-K~~ry~p~~~~~vAt~y--gPi~~p------~~pvl~f~~~~~~~~~~l~atG~vl~~d~ 697 (745)
. ...|.+.-+.+ +.+. +.-++++++..+++.+- -||+.- ..+=++++.. -..+|.|.|+.+.+
T Consensus 357 ~~~i~~i~~~ld~~t~~~~~~~p~~l~~g~~a~v~l~~~~pi~~e~~~~~~~lgrfilrd~-----g~tva~G~I~~v~~ 431 (446)
T PTZ00141 357 ACKFAEIESKIDRRSGKVLEENPKAIKSGDAAIVKMVPTKPMCVEVFNEYPPLGRFAVRDM-----KQTVAVGVIKSVEK 431 (446)
T ss_pred EEEEEEEEEEeccccccccCCCCcEECCCCEEEEEEEECCceEEeecccCCCCccEEEEEC-----CCEEEEEEEEEEec
Confidence 4 44555543322 2221 23468889988888775 444322 2333344433 15799999887663
No 299
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=34.35 E-value=56 Score=37.65 Aligned_cols=44 Identities=20% Similarity=0.215 Sum_probs=36.7
Q ss_pred HhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc
Q 004549 142 AKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT 194 (745)
Q Consensus 142 aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~ 194 (745)
.-.+|-.|+||||.-| +|..|.+++..|+..|+| ++-.++.||.
T Consensus 102 LtAvDsAvMVIDaAKG--------iE~qT~KLfeVcrlR~iP-I~TFiNKlDR 145 (528)
T COG4108 102 LTAVDSAVMVIDAAKG--------IEPQTLKLFEVCRLRDIP-IFTFINKLDR 145 (528)
T ss_pred HHhhheeeEEEecccC--------ccHHHHHHHHHHhhcCCc-eEEEeecccc
Confidence 3448889999999954 889999999999999999 4555777774
No 300
>PRK00049 elongation factor Tu; Reviewed
Probab=34.30 E-value=6.4e+02 Score=28.52 Aligned_cols=120 Identities=12% Similarity=0.066 Sum_probs=71.3
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEec--ccccceeeEEEEEEEecCCC--CCCCCCCceEEEEeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGL--LQHESKMSVLHFSVKKHDTY--DAPIKAKEELIFHVGFRQ 628 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gL--l~hE~k~svv~~~ikrh~~~--~~~lKSkdpLif~~G~RR 628 (745)
+-+.+|..|.|.|+++...-+ . +=.|++.- ++.=.++ ..++.+-.|... ..||+..-+.+++||--|
T Consensus 269 ~~a~~Gd~v~l~l~~i~~~~i---~-----~G~vl~~~~~~~~~~~f-~a~i~vl~~~~~g~~~~i~~g~~~~~~~~t~~ 339 (396)
T PRK00049 269 DEGQAGDNVGALLRGIKREDV---E-----RGQVLAKPGSITPHTKF-EAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTD 339 (396)
T ss_pred CEEcCCCEEEEEeCCCCHHHC---C-----cceEEecCCCCCcceEE-EEEEEEEecCcCCCCCcccCCCEEEEEEecCc
Confidence 446789999999998765322 1 22233332 1111121 233333334321 468999989999999987
Q ss_pred eeeeccccccCCCCCcceeecccCCCceEEEEEE--eecCCCCccEEEEEecCCCCCCeEeEeeeeecc
Q 004549 629 FVARPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICFPPLPLIVLKSADGGVAPAVAAVGSLRSI 695 (745)
Q Consensus 629 Fq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~p~~pvl~f~~~~~~~~~~l~atG~vl~~ 695 (745)
.... | ...+ + -+|+.++..+++.+- .|++.-+.+=+++|.. -+.+|-|.|+++
T Consensus 340 ~~~~-i-~l~~--~-----~~~l~~g~~a~v~i~~~~p~~~e~~~RfilR~~-----g~t~~~G~V~~v 394 (396)
T PRK00049 340 VTGV-I-ELPE--G-----VEMVMPGDNVEMTVELIAPIAMEEGLRFAIREG-----GRTVGAGVVTKI 394 (396)
T ss_pred EEEE-E-EecC--C-----CcccCCCCEEEEEEEECceEEEeeCCEEEEecC-----CcEEEEEEEEEe
Confidence 5443 2 1101 1 257888988888776 6776444455556643 268889988754
No 301
>PRK13796 GTPase YqeH; Provisional
Probab=34.05 E-value=1.5e+02 Score=33.14 Aligned_cols=94 Identities=12% Similarity=0.028 Sum_probs=53.8
Q ss_pred CChHHHHhHHhhcc-eEEEEeeCCCccccccccccC-hHHHHHHHHHHhcCCCceEEEeccCCcchh--hhHHHHHHHHh
Q 004549 133 GDLVGCMEMAKVAD-LVAFVASASSFSEESMSYYID-SFGNQCLSVFRSLGLPSTAVLIRDLPTDLK--KRKDLKKMCIS 208 (745)
Q Consensus 133 ~dl~~mLD~aKvAD-lVlllidas~g~~~~~~~~fd-~eg~e~L~~l~~qGlP~vigvl~~L~~~~K--k~~~~kK~lk~ 208 (745)
.|+..+|..++-+| +|++|+|+.. |. .+-.++.+.+ .+.| ++.|++..|...+ .+.++++.++.
T Consensus 57 ~~~~~~l~~i~~~~~lIv~VVD~~D---------~~~s~~~~L~~~~--~~kp-viLViNK~DLl~~~~~~~~i~~~l~~ 124 (365)
T PRK13796 57 DDFLKLLNGIGDSDALVVNVVDIFD---------FNGSWIPGLHRFV--GNNP-VLLVGNKADLLPKSVKKNKVKNWLRQ 124 (365)
T ss_pred HHHHHHHHhhcccCcEEEEEEECcc---------CCCchhHHHHHHh--CCCC-EEEEEEchhhCCCccCHHHHHHHHHH
Confidence 67888999888777 9999999873 33 2333333322 2444 6678887774112 23345555555
Q ss_pred hcccccCCCCeeEEeCC--HHHHHHHHHHHhh
Q 004549 209 SLTSEFPEDCKFYAADT--KDELHKFLWLFKE 238 (745)
Q Consensus 209 ~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~ 238 (745)
+....=.....+|.+|. ...+..|...|..
T Consensus 125 ~~k~~g~~~~~v~~vSAk~g~gI~eL~~~I~~ 156 (365)
T PRK13796 125 EAKELGLRPVDVVLISAQKGHGIDELLEAIEK 156 (365)
T ss_pred HHHhcCCCcCcEEEEECCCCCCHHHHHHHHHH
Confidence 44432111235777774 3346666666654
No 302
>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.
Probab=33.83 E-value=3.3e+02 Score=23.88 Aligned_cols=73 Identities=18% Similarity=0.158 Sum_probs=41.7
Q ss_pred EEEEecCCCccChhhHHHHHHHhhccCCCCCcceEEEecCceeeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCC
Q 004549 81 VIVLFGLSASVNLNSVREDLLRQLSSEGTGALSSTVSSSKYRLRTSVLQAPHGDLVGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 81 iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~g~~tv~~~r~k~R~tfie~~~~dl~~mLD~aKvADlVlllidas~ 156 (745)
+|+|.+..+.+--..++..+...+...+.....+. ... .-.+.++-||+..-.....+...||.++++++++.
T Consensus 1 ~i~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d--~d~-~~d~viiD~p~~~~~~~~~~l~~ad~viv~~~~~~ 73 (104)
T cd02042 1 VIAVANQKGGVGKTTTAVNLAAALARRGKRVLLID--LDP-QYDYIIIDTPPSLGLLTRNALAAADLVLIPVQPSP 73 (104)
T ss_pred CEEEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEe--CCC-CCCEEEEeCcCCCCHHHHHHHHHCCEEEEeccCCH
Confidence 46777776543333333333445543322111111 111 14677888875544446678889999999999874
No 303
>TIGR00750 lao LAO/AO transport system ATPase. Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.
Probab=33.78 E-value=2e+02 Score=31.18 Aligned_cols=33 Identities=15% Similarity=0.210 Sum_probs=21.3
Q ss_pred eeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCC
Q 004549 123 LRTSVLQAPHGDLVGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 123 ~R~tfie~~~~dl~~mLD~aKvADlVlllidas~ 156 (745)
-.+.||+++ .--.+-+|++..||.++++.....
T Consensus 127 ~D~viidT~-G~~~~e~~i~~~aD~i~vv~~~~~ 159 (300)
T TIGR00750 127 YDVIIVETV-GVGQSEVDIANMADTFVVVTIPGT 159 (300)
T ss_pred CCEEEEeCC-CCchhhhHHHHhhceEEEEecCCc
Confidence 345677765 444666677777888877765543
No 304
>cd01899 Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.
Probab=33.62 E-value=1.2e+02 Score=33.38 Aligned_cols=32 Identities=22% Similarity=0.258 Sum_probs=25.0
Q ss_pred eEEEEeCCCCC---------h-HHHHhHHhhcceEEEEeeCCC
Q 004549 124 RTSVLQAPHGD---------L-VGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 124 R~tfie~~~~d---------l-~~mLD~aKvADlVlllidas~ 156 (745)
.++++-.+ .- + +..|+.++-||.+|+|+|++.
T Consensus 70 ~i~l~D~a-Glv~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~ 111 (318)
T cd01899 70 PVELIDVA-GLVPGAHEGKGLGNKFLDDLRDADALIHVVDASG 111 (318)
T ss_pred eEEEEECC-CCCCCccchhhHHHHHHHHHHHCCEEEEEEeCCC
Confidence 57888775 32 2 467889999999999999974
No 305
>PLN03126 Elongation factor Tu; Provisional
Probab=33.20 E-value=6e+02 Score=29.73 Aligned_cols=126 Identities=13% Similarity=0.087 Sum_probs=74.7
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEec-ccccceeeEEEEEEEecCC--CCCCCCCCceEEEEeeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGL-LQHESKMSVLHFSVKKHDT--YDAPIKAKEELIFHVGFRQF 629 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gL-l~hE~k~svv~~~ikrh~~--~~~~lKSkdpLif~~G~RRF 629 (745)
+.+.+|..|.|.|+++...-+. +=.||+.- .+...+.=.+++.+-.|.. -..||+..-..+++||--|-
T Consensus 346 ~~A~aG~~v~l~L~~i~~~di~--------rG~VL~~~~~~~~~~~F~A~i~vL~~~~gg~~~~I~~G~~~~lhigt~~~ 417 (478)
T PLN03126 346 DEALAGDNVGLLLRGIQKADIQ--------RGMVLAKPGSITPHTKFEAIVYVLKKEEGGRHSPFFAGYRPQFYMRTTDV 417 (478)
T ss_pred CEEeCCceeeeeccCCcHHHcC--------CccEEecCCCCCceEEEEEEEEEecccccCCcccccCCcEEEEEEEecEE
Confidence 4577999999999987654321 22233332 1111121222333333321 12589999999999998775
Q ss_pred eeeccccccCCCCCcceeecccCCCceEEEEEE--eecCCCCccEEEEEecCCCCCCeEeEeeeeecc
Q 004549 630 VARPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICFPPLPLIVLKSADGGVAPAVAAVGSLRSI 695 (745)
Q Consensus 630 q~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~p~~pvl~f~~~~~~~~~~l~atG~vl~~ 695 (745)
.+.=. .. ....+ .--+++.++..+++.|- .|++.-+..-++++.. -+.+|-|.|+++
T Consensus 418 ~~~I~-~i-~~~~~--~~~~~l~~gd~a~v~l~~~~Pi~~~~~~RfilR~~-----~~Tva~G~V~~v 476 (478)
T PLN03126 418 TGKVT-SI-MNDKD--EESKMVMPGDRVKMVVELIVPVACEQGMRFAIREG-----GKTVGAGVIQSI 476 (478)
T ss_pred EEEEE-EE-ecccC--CCccEeCCCCEEEEEEEECCeEEEccCCEEEEecC-----CceEEEEEEEEe
Confidence 54322 22 11111 11367888988887664 7887777777777765 258899998754
No 306
>PRK13849 putative crown gall tumor protein VirC1; Provisional
Probab=32.28 E-value=1.5e+02 Score=30.94 Aligned_cols=62 Identities=11% Similarity=0.169 Sum_probs=39.5
Q ss_pred eeEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccCh-HHHHHHHHHH------hcCCCceEEEeccCCc
Q 004549 123 LRTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDS-FGNQCLSVFR------SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 123 ~R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~-eg~e~L~~l~------~qGlP~vigvl~~L~~ 194 (745)
-.+.||-||+..=..+..+..+||+||..+.++. +|. .+.+++..+. ..|+|-. .|++..+.
T Consensus 84 yD~iiID~pp~~~~~~~~al~~aD~vliP~~ps~---------~d~~~~~~~~~~v~~~~~~~~~~l~~~-iv~~~~~~ 152 (231)
T PRK13849 84 FDYALADTHGGSSELNNTIIASSNLLLIPTMLTP---------LDIDEALSTYRYVIELLLSENLAIPTA-ILRQRVPV 152 (231)
T ss_pred CCEEEEeCCCCccHHHHHHHHHCCEEEEeccCcH---------HHHHHHHHHHHHHHHHHHHhCCCCCeE-EEEEeccc
Confidence 4778899985444445567799999999998874 554 3334443332 2467654 45676653
No 307
>PRK09601 GTP-binding protein YchF; Reviewed
Probab=31.96 E-value=1.2e+02 Score=34.34 Aligned_cols=72 Identities=11% Similarity=0.106 Sum_probs=43.8
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCCCC------------cceEEEecC-------ce------eeEEEEeCCC--
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGTGA------------LSSTVSSSK-------YR------LRTSVLQAPH-- 132 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------------g~~tv~~~r-------~k------~R~tfie~~~-- 132 (745)
.-|++||+|..+.. +| ++.+++..... |.+.+...| ++ ..+.|+-.|-
T Consensus 3 ~~vgIVG~PNvGKS-TL----fnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~ 77 (364)
T PRK09601 3 LKCGIVGLPNVGKS-TL----FNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLV 77 (364)
T ss_pred cEEEEECCCCCCHH-HH----HHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCC
Confidence 45899999998765 56 55555543211 333332221 11 2477776652
Q ss_pred --CC-----hHHHHhHHhhcceEEEEeeCCC
Q 004549 133 --GD-----LVGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 133 --~d-----l~~mLD~aKvADlVlllidas~ 156 (745)
.. -+..|+..+=||++|+|+|++.
T Consensus 78 ~~a~~g~glg~~fL~~i~~aD~li~VVd~f~ 108 (364)
T PRK09601 78 KGASKGEGLGNQFLANIREVDAIVHVVRCFE 108 (364)
T ss_pred CCCChHHHHHHHHHHHHHhCCEEEEEEeCCc
Confidence 01 1357888899999999999973
No 308
>PRK12735 elongation factor Tu; Reviewed
Probab=31.71 E-value=6.5e+02 Score=28.39 Aligned_cols=120 Identities=11% Similarity=0.051 Sum_probs=70.3
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEec--ccccceeeEEEEEEEecCCC--CCCCCCCceEEEEeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGL--LQHESKMSVLHFSVKKHDTY--DAPIKAKEELIFHVGFRQ 628 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gL--l~hE~k~svv~~~ikrh~~~--~~~lKSkdpLif~~G~RR 628 (745)
+-+.+|..|.|.|+++..+-+ . +=.||+.- ++.=.++ -.++.+-.|+.. +.||+.....++++|--|
T Consensus 269 ~~a~aGd~v~l~L~~i~~~~i---~-----rG~vl~~~~~~~~~~~f-~a~i~vl~~~~~~~~~~i~~g~~~~l~~~t~~ 339 (396)
T PRK12735 269 DEGQAGDNVGVLLRGTKREDV---E-----RGQVLAKPGSIKPHTKF-EAEVYVLSKEEGGRHTPFFNGYRPQFYFRTTD 339 (396)
T ss_pred CEECCCCEEEEEeCCCcHHHC---C-----cceEEEcCCCCCcceEE-EEEEEEEecccCCCCCcccCCCeeEEEeccce
Confidence 557899999999998765432 1 22233332 2211222 233333334322 368888999999999988
Q ss_pred eeeeccccccCCCCCcceeecccCCCceEEEEEE--eecCCCCccEEEEEecCCCCCCeEeEeeeeecc
Q 004549 629 FVARPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICFPPLPLIVLKSADGGVAPAVAAVGSLRSI 695 (745)
Q Consensus 629 Fq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~p~~pvl~f~~~~~~~~~~l~atG~vl~~ 695 (745)
..+.=. .. + + .+++.++..+++.+. .|++.-+.+=++||.. -+.+|.|.|+.+
T Consensus 340 ~~~~i~-~~-~--~-----~~~l~~g~~a~v~l~~~~p~~~~~~~rfilR~~-----g~tv~~G~V~~v 394 (396)
T PRK12735 340 VTGTIE-LP-E--G-----VEMVMPGDNVKMTVELIAPIAMEEGLRFAIREG-----GRTVGAGVVAKI 394 (396)
T ss_pred EEEEEE-cc-C--C-----CceeCCCCEEEEEEEECceEEEeECCEEEEEcC-----CcEEEEEEEEEe
Confidence 654421 11 1 1 246778888887655 6765443345556543 268899988754
No 309
>KOG3163 consensus Uncharacterized conserved protein related to ribosomal protein S8E [General function prediction only]
Probab=31.71 E-value=19 Score=36.85 Aligned_cols=77 Identities=21% Similarity=0.344 Sum_probs=49.0
Q ss_pred eeeeeeeeeccccccCCCCCcceeecccCCCc--eEEEEEEeecC--CCCccEEEEEecCCC---CCCeEeEeeeeeccC
Q 004549 624 VGFRQFVARPIFSSDNMNSDKHKMERFLHAGC--FSVASIYAPIC--FPPLPLIVLKSADGG---VAPAVAAVGSLRSID 696 (745)
Q Consensus 624 ~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~~--~~vAt~ygPi~--~p~~pvl~f~~~~~~---~~~~l~atG~vl~~d 696 (745)
-+|.|..|.+.|-.++-..-=-|||||.++-. +--|.+--|=. --+.|+|..+....+ .++-++.-|+|+++|
T Consensus 144 k~WKRmvTk~tFVg~~FTRkPpKyERfIRPm~lRfkkAhVthpEL~~Tf~LpIigvKKNP~sp~yT~LGvitkGTviEvn 223 (260)
T KOG3163|consen 144 KAWKRMVTKVTFVGDGFTRKPPKYERFIRPMGLRFKKAHVTHPELKVTFCLPIIGVKKNPSSPMYTSLGVITKGTVIEVN 223 (260)
T ss_pred hHHHhhhheeeeecCCcccCCchHhhhhchhhhhhhhccccChhhceEEEeeeeEeccCCCCcceeecceeecceEEEEe
Confidence 37999999999998442222478999997631 22222222200 012467778777665 456688889999998
Q ss_pred ccce
Q 004549 697 PDRI 700 (745)
Q Consensus 697 ~~ri 700 (745)
-+-.
T Consensus 224 VseL 227 (260)
T KOG3163|consen 224 VSEL 227 (260)
T ss_pred cccc
Confidence 6653
No 310
>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH. This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.
Probab=30.28 E-value=1.8e+02 Score=32.44 Aligned_cols=94 Identities=10% Similarity=0.080 Sum_probs=52.8
Q ss_pred CChHHHHhHH-hhcceEEEEeeCCCccccccccccC-hHHHHHHHHHHhcCCCceEEEeccCCcchh--hhHHHHHHHHh
Q 004549 133 GDLVGCMEMA-KVADLVAFVASASSFSEESMSYYID-SFGNQCLSVFRSLGLPSTAVLIRDLPTDLK--KRKDLKKMCIS 208 (745)
Q Consensus 133 ~dl~~mLD~a-KvADlVlllidas~g~~~~~~~~fd-~eg~e~L~~l~~qGlP~vigvl~~L~~~~K--k~~~~kK~lk~ 208 (745)
.++..++... +-||+||+|+|+.. |+ .+-.++.+.+. +. .++.|++..|.-.+ ....+++.++.
T Consensus 51 e~f~~~l~~~~~~~~~Il~VvD~~d---------~~~s~~~~l~~~~~--~~-piilV~NK~DLl~k~~~~~~~~~~l~~ 118 (360)
T TIGR03597 51 DDFLNLLNSLGDSNALIVYVVDIFD---------FEGSLIPELKRFVG--GN-PVLLVGNKIDLLPKSVNLSKIKEWMKK 118 (360)
T ss_pred HHHHHHHhhcccCCcEEEEEEECcC---------CCCCccHHHHHHhC--CC-CEEEEEEchhhCCCCCCHHHHHHHHHH
Confidence 4677777766 57899999999863 22 33444544442 33 47778887774112 23345555555
Q ss_pred hcccccCCCCeeEEeCC--HHHHHHHHHHHhh
Q 004549 209 SLTSEFPEDCKFYAADT--KDELHKFLWLFKE 238 (745)
Q Consensus 209 ~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~ 238 (745)
++...=..-.++|.+|. ...+..|.+.|..
T Consensus 119 ~~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~ 150 (360)
T TIGR03597 119 RAKELGLKPVDIILVSAKKGNGIDELLDKIKK 150 (360)
T ss_pred HHHHcCCCcCcEEEecCCCCCCHHHHHHHHHH
Confidence 55432111235777774 3335556666643
No 311
>PRK00285 ihfA integration host factor subunit alpha; Reviewed
Probab=30.16 E-value=25 Score=31.66 Aligned_cols=21 Identities=38% Similarity=0.575 Sum_probs=18.2
Q ss_pred CCCCCCeEEeCCCCceeecee
Q 004549 282 CLSVNQLVHISGAGDFQLGKI 302 (745)
Q Consensus 282 ~l~~n~lVHIpG~GDFqi~~I 302 (745)
.|..|..|||+|+|-|.+..-
T Consensus 37 ~L~~g~~V~l~gfG~F~~~~~ 57 (99)
T PRK00285 37 ALENGEQVKLSGFGNFQLRDK 57 (99)
T ss_pred HHHcCCeEEEcCCEEEEEEEE
Confidence 467788999999999999864
No 312
>cd04103 Centaurin_gamma Centaurin gamma. The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.
Probab=29.91 E-value=3.8e+02 Score=25.69 Aligned_cols=67 Identities=13% Similarity=0.045 Sum_probs=38.2
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCC-----CCC-cc--eEEEecCceeeEEEEeCCCCChHHHHhHHhhcceEEEEee
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEG-----TGA-LS--STVSSSKYRLRTSVLQAPHGDLVGCMEMAKVADLVAFVAS 153 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~-----~~~-g~--~tv~~~r~k~R~tfie~~~~dl~~mLD~aKvADlVlllid 153 (745)
|+|+|+++.+.. +| +..|.... .+. +. .++.+.....++++....... .. ...+-||.+++++|
T Consensus 3 i~vvG~~gvGKT-sl----i~~~~~~~f~~~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~~-~~--~~~~~~~~~ilv~d 74 (158)
T cd04103 3 LGIVGNLQSGKS-AL----VHRYLTGSYVQLESPEGGRFKKEVLVDGQSHLLLIRDEGGAP-DA--QFASWVDAVIFVFS 74 (158)
T ss_pred EEEECCCCCcHH-HH----HHHHHhCCCCCCCCCCccceEEEEEECCEEEEEEEEECCCCC-ch--hHHhcCCEEEEEEE
Confidence 789999987775 55 43332111 111 21 234444444567676654222 11 23567999999999
Q ss_pred CCC
Q 004549 154 ASS 156 (745)
Q Consensus 154 as~ 156 (745)
.+.
T Consensus 75 ~~~ 77 (158)
T cd04103 75 LEN 77 (158)
T ss_pred CCC
Confidence 884
No 313
>cd01875 RhoG RhoG subfamily. RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin
Probab=29.63 E-value=4.9e+02 Score=25.69 Aligned_cols=103 Identities=7% Similarity=-0.017 Sum_probs=54.5
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCC------CCcce---EEEecCceeeEEEEeCCCC-ChHHHHh-HHhhcceE
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGT------GALSS---TVSSSKYRLRTSVLQAPHG-DLVGCME-MAKVADLV 148 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~------~~g~~---tv~~~r~k~R~tfie~~~~-dl~~mLD-~aKvADlV 148 (745)
+=|+|+|.++.+.. +| +.+|..... +.|.. .+.++..+-++.++..+-. ....+-. ..+-||.+
T Consensus 4 ~ki~~vG~~~vGKT-sl----i~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ 78 (191)
T cd01875 4 IKCVVVGDGAVGKT-CL----LICYTTNAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVF 78 (191)
T ss_pred EEEEEECCCCCCHH-HH----HHHHHhCCCCcCCCCceEeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEE
Confidence 45889999888776 56 444432221 11211 1233444566777876522 2333332 23569999
Q ss_pred EEEeeCCCccccccccccChHHHHHHHHHHh--cCCCceEEEeccCCc
Q 004549 149 AFVASASSFSEESMSYYIDSFGNQCLSVFRS--LGLPSTAVLIRDLPT 194 (745)
Q Consensus 149 lllidas~g~~~~~~~~fd~eg~e~L~~l~~--qGlP~vigvl~~L~~ 194 (745)
|+++|.+.- ..|+.--...+..+.. .++| ++.|.+..|.
T Consensus 79 ilvydit~~------~Sf~~~~~~w~~~i~~~~~~~p-iilvgNK~DL 119 (191)
T cd01875 79 IICFSIASP------SSYENVRHKWHPEVCHHCPNVP-ILLVGTKKDL 119 (191)
T ss_pred EEEEECCCH------HHHHHHHHHHHHHHHhhCCCCC-EEEEEeChhh
Confidence 999998742 3354332223333332 3444 3456777664
No 314
>TIGR00437 feoB ferrous iron transporter FeoB. FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.
Probab=29.31 E-value=3.3e+02 Score=32.70 Aligned_cols=99 Identities=14% Similarity=0.135 Sum_probs=53.7
Q ss_pred eeEEEEeCCC-CChHHH------H-h--HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccC
Q 004549 123 LRTSVLQAPH-GDLVGC------M-E--MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDL 192 (745)
Q Consensus 123 ~R~tfie~~~-~dl~~m------L-D--~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L 192 (745)
..+.++..|- .++.+. . + ...-+|+|++++|++. ++.+- +++..+...|.| ++.|++..
T Consensus 41 ~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~---------ler~l-~l~~ql~~~~~P-iIIVlNK~ 109 (591)
T TIGR00437 41 EDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASN---------LERNL-YLTLQLLELGIP-MILALNLV 109 (591)
T ss_pred eEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCc---------chhhH-HHHHHHHhcCCC-EEEEEehh
Confidence 4678888862 123221 1 1 1235899999999984 44333 333344557877 56678888
Q ss_pred Ccchhhh-HHHHHHHHhhcccccCCCCeeEEeCC--HHHHHHHHHHHhh
Q 004549 193 PTDLKKR-KDLKKMCISSLTSEFPEDCKFYAADT--KDELHKFLWLFKE 238 (745)
Q Consensus 193 ~~~~Kk~-~~~kK~lk~~f~~e~~~~~Klf~l~~--~~e~~nL~R~I~~ 238 (745)
|...++. ....+.+.+.+ +..++..|. ...+..|...|..
T Consensus 110 Dl~~~~~i~~d~~~L~~~l------g~pvv~tSA~tg~Gi~eL~~~i~~ 152 (591)
T TIGR00437 110 DEAEKKGIRIDEEKLEERL------GVPVVPTSATEGRGIERLKDAIRK 152 (591)
T ss_pred HHHHhCCChhhHHHHHHHc------CCCEEEEECCCCCCHHHHHHHHHH
Confidence 8511211 11223344433 356777773 3345555555553
No 315
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=28.47 E-value=3.3e+02 Score=30.83 Aligned_cols=18 Identities=17% Similarity=0.165 Sum_probs=13.9
Q ss_pred CCCEEEEEecCCCccChh
Q 004549 77 SPPRVIVLFGLSASVNLN 94 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~ 94 (745)
....+|+++||++.+..-
T Consensus 135 ~~g~ii~lvGptGvGKTT 152 (374)
T PRK14722 135 ERGGVFALMGPTGVGKTT 152 (374)
T ss_pred cCCcEEEEECCCCCCHHH
Confidence 346799999999977653
No 316
>cd00591 HU_IHF Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-order nucleoprotein complex assembly. The dimer subunits associate to form a compact globular core from which two beta ribbon arms (one from each subunit) protrude. The beta arms track and bind the DNA minor groove. Despite sequence and structural similarity, IHF and HU can be distinguished by their different DNA substrate preferences.
Probab=28.35 E-value=30 Score=30.00 Aligned_cols=21 Identities=24% Similarity=0.479 Sum_probs=18.1
Q ss_pred CCCCCCeEEeCCCCceeecee
Q 004549 282 CLSVNQLVHISGAGDFQLGKI 302 (745)
Q Consensus 282 ~l~~n~lVHIpG~GDFqi~~I 302 (745)
.|..+..|||+|+|-|.+..-
T Consensus 34 ~L~~g~~V~l~~~G~F~~~~~ 54 (87)
T cd00591 34 ALAKGEKVELPGFGTFEVRER 54 (87)
T ss_pred HHhCCCeEEEeCCEEEEEEEE
Confidence 466788999999999999864
No 317
>TIGR00485 EF-Tu translation elongation factor TU. This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.
Probab=28.08 E-value=7.6e+02 Score=27.80 Aligned_cols=120 Identities=12% Similarity=0.103 Sum_probs=70.9
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEec--ccccceeeEEEEEEEecCCC--CCCCCCCceEEEEeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGL--LQHESKMSVLHFSVKKHDTY--DAPIKAKEELIFHVGFRQ 628 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gL--l~hE~k~svv~~~ikrh~~~--~~~lKSkdpLif~~G~RR 628 (745)
+.+.+|..|.|.|.++...-+ . +=-||+.- ++--..+ -+++.+-.|+.. ..||+...+.++++|--|
T Consensus 267 ~~a~aGd~v~l~l~~i~~~~i---~-----rG~vl~~~~~~~~~~~f-~a~i~vl~~~~g~~~~~i~~g~~~~l~~~t~~ 337 (394)
T TIGR00485 267 DEGRAGDNVGLLLRGIKREEI---E-----RGMVLAKPGSIKPHTKF-EAEVYVLKKEEGGRHTPFFSGYRPQFYFRTTD 337 (394)
T ss_pred EEECCCCEEEEEeCCccHHHC---C-----ccEEEecCCCCCcceEE-EEEEEEEecCCCCCCCccccCceEEEEEecce
Confidence 346789999999988754322 1 21233331 1111222 223333333221 368898899999999776
Q ss_pred eeeeccccccCCCCCcceeecccCCCceEEEEEE--eecCCCCccEEEEEecCCCCCCeEeEeeeeecc
Q 004549 629 FVARPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICFPPLPLIVLKSADGGVAPAVAAVGSLRSI 695 (745)
Q Consensus 629 Fq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~p~~pvl~f~~~~~~~~~~l~atG~vl~~ 695 (745)
..+.=.+.. + .+++.++..++|.+. -|++.-+..=+++|.. -+.+|-|.|+++
T Consensus 338 ~~~~i~~~~----~-----~~~l~~g~~a~v~~~~~~p~~~~~~~rfilR~~-----g~tv~~G~V~~v 392 (394)
T TIGR00485 338 VTGSITLPE----G-----VEMVMPGDNVKMTVELISPIALEQGMRFAIREG-----GRTVGAGVVSKI 392 (394)
T ss_pred EEEEEEecC----C-----cceeCCCCEEEEEEEECceEEEeECCEEEEecC-----CcEEEEEEEEEe
Confidence 443332111 1 256788999999887 7776555555566643 268888988764
No 318
>PRK10416 signal recognition particle-docking protein FtsY; Provisional
Probab=28.02 E-value=4e+02 Score=29.33 Aligned_cols=17 Identities=24% Similarity=0.393 Sum_probs=14.1
Q ss_pred CCCEEEEEecCCCccCh
Q 004549 77 SPPRVIVLFGLSASVNL 93 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~ 93 (745)
.+|.+|+++||++++..
T Consensus 112 ~~~~vi~lvGpnGsGKT 128 (318)
T PRK10416 112 KKPFVILVVGVNGVGKT 128 (318)
T ss_pred CCCeEEEEECCCCCcHH
Confidence 47899999999996654
No 319
>cd03708 GTPBP_III Domain III of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=27.72 E-value=2.3e+02 Score=24.32 Aligned_cols=68 Identities=15% Similarity=0.219 Sum_probs=44.3
Q ss_pred CCCCCCCceEEEEeeeeeeeeeccccccCCCCCcceeecccCCCceEEEEEE---eecCCCCccEEEEEecCCCCCCeEe
Q 004549 611 DAPIKAKEELIFHVGFRQFVARPIFSSDNMNSDKHKMERFLHAGCFSVASIY---APICFPPLPLIVLKSADGGVAPAVA 687 (745)
Q Consensus 611 ~~~lKSkdpLif~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y---gPi~~p~~pvl~f~~~~~~~~~~l~ 687 (745)
+.||++.-..++++|--+..+.= . .... +++.++..+.+.+- -|++.-+.+-++++ .+ +.+
T Consensus 16 ~~~i~~Gy~~~l~~~t~~~~~~i--~--~i~~------~~l~~g~~~~v~i~f~~~p~~~e~~grf~lr-----~g-~tv 79 (87)
T cd03708 16 PTTISPGYQATVHIGSIRQTARI--V--SIDK------DVLRTGDRALVRFRFLYHPEYLREGQRLIFR-----EG-RTK 79 (87)
T ss_pred CCcccCCCEeEEEEcCCEEEEEE--E--eccH------hhccCCCeEEEEEEECCCCcEEccCCeEEEE-----CC-CcE
Confidence 58999999999999887744321 1 1111 67888888888776 66642333444442 23 689
Q ss_pred Eeeeeec
Q 004549 688 AVGSLRS 694 (745)
Q Consensus 688 atG~vl~ 694 (745)
|.|.|.+
T Consensus 80 a~G~I~~ 86 (87)
T cd03708 80 GVGEVTK 86 (87)
T ss_pred EEEEEEE
Confidence 9999865
No 320
>smart00411 BHL bacterial (prokaryotic) histone like domain.
Probab=27.68 E-value=29 Score=30.41 Aligned_cols=21 Identities=24% Similarity=0.453 Sum_probs=17.8
Q ss_pred CCCCCCeEEeCCCCceeecee
Q 004549 282 CLSVNQLVHISGAGDFQLGKI 302 (745)
Q Consensus 282 ~l~~n~lVHIpG~GDFqi~~I 302 (745)
.|..+..|+|+|+|-|.+..-
T Consensus 35 ~L~~g~~V~i~g~G~F~~~~~ 55 (90)
T smart00411 35 ALKKGEKVELRGFGTFEVRER 55 (90)
T ss_pred HHhCCCeEEEeCcEEEEEEee
Confidence 466788999999999999864
No 321
>cd01513 Translation_factor_III Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Experimental data showed that: (1) intrinsic GTPase activity of EF-G is influenced by excision of its domain III; (2) that EF-G lacking domain III has a 1,000-fold decreased GTPase activity on the ribosome and, a slightly decreased affinity for GTP; and (3) EF-G lacking domain III does not stimulate translocation, despite the physical presence of domain IV which is also very important for translocation. These findings indicate an essential contribution of domain III to activation of GTP hydrolysis. Domains III and V of EF-G have the s
Probab=27.09 E-value=4.1e+02 Score=23.22 Aligned_cols=77 Identities=14% Similarity=0.283 Sum_probs=47.0
Q ss_pred CCCCCCCceEEEEeeeeeeee--eccccccCCCCCcceeecccCCCceEEEEEE--eecCCC------CccEEEEEecCC
Q 004549 611 DAPIKAKEELIFHVGFRQFVA--RPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICFP------PLPLIVLKSADG 680 (745)
Q Consensus 611 ~~~lKSkdpLif~~G~RRFq~--~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~p------~~pvl~f~~~~~ 680 (745)
+.||+...+.++++|--+..+ .-|-+.-|.+....+-.+.+.++..+++.+- .|++.- ..+-+.++..+
T Consensus 16 ~~pl~~g~~~~l~~~t~~~~~~i~~i~~~~d~~~~~~~~~~~l~~~~~a~v~l~~~~pi~~e~~~~~~~~grfilr~~~- 94 (102)
T cd01513 16 PEPLSPGYKPVLNVGTAHVPGRIAKLLSKVDGKTEEKKPPEFLKSGERGIVEVELQKPVALETFSENQEGGRFALRDGG- 94 (102)
T ss_pred CcccCCCCcEEEEeecCEEeEEEEeeeeecccCcccccCchhhcCCCEEEEEEEECCceEEEEhhhCCCcccEEEEeCC-
Confidence 469999999999999887553 2233332333222334567888988888875 565422 44444444331
Q ss_pred CCCCeEeEeeee
Q 004549 681 GVAPAVAAVGSL 692 (745)
Q Consensus 681 ~~~~~l~atG~v 692 (745)
+.+|.|.|
T Consensus 95 ----~tvg~G~V 102 (102)
T cd01513 95 ----RTVGAGLI 102 (102)
T ss_pred ----CEEEEEEC
Confidence 56777764
No 322
>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases. Ran is involved in the active transport of proteins through nuclear pores.
Probab=26.96 E-value=4.6e+02 Score=26.60 Aligned_cols=71 Identities=6% Similarity=0.002 Sum_probs=41.1
Q ss_pred EEecCceeeEEEEeCCC-CChHHHH-hHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHh--cCCCceEEEecc
Q 004549 116 VSSSKYRLRTSVLQAPH-GDLVGCM-EMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRS--LGLPSTAVLIRD 191 (745)
Q Consensus 116 v~~~r~k~R~tfie~~~-~dl~~mL-D~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~--qGlP~vigvl~~ 191 (745)
+...+.+.++.|+.++- ..+..|- ...+-||.+|+|+|.+.. ..|+.-. ..+.-|+. .++| ++.|.+.
T Consensus 37 ~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~------~S~~~i~-~w~~~i~~~~~~~p-iilvgNK 108 (200)
T smart00176 37 FHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR------VTYKNVP-NWHRDLVRVCENIP-IVLCGNK 108 (200)
T ss_pred EEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh------HHHHHHH-HHHHHHHHhCCCCC-EEEEEEC
Confidence 33444567888888752 2333433 356789999999999854 2344221 23332332 3444 5666777
Q ss_pred CCc
Q 004549 192 LPT 194 (745)
Q Consensus 192 L~~ 194 (745)
.|.
T Consensus 109 ~Dl 111 (200)
T smart00176 109 VDV 111 (200)
T ss_pred ccc
Confidence 775
No 323
>cd03707 EFTU_III Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts). EF-Ts is the guanine-nucleotide-exchange factor for EF-Tu. EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Crystallographic studies revealed structural similarities ("molecular mimicry") between tertiary structures of EF-G and the EF-Tu-aminoacyl-tRNA ternary complex. Domains III, IV, and V of EF-G mimic the tRNA structure in the EF-Tu ternary complex; domains III, IV and V can be related to the acceptor stem, anticodon helix
Probab=26.88 E-value=2.7e+02 Score=24.18 Aligned_cols=68 Identities=9% Similarity=0.086 Sum_probs=45.3
Q ss_pred CCCCCCCceEEEEeeeeeeeeeccccccCCCCCcceeecccCCCceEEEEEE--eecCCCCccEEEEEecCCCCCCeEeE
Q 004549 611 DAPIKAKEELIFHVGFRQFVARPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICFPPLPLIVLKSADGGVAPAVAA 688 (745)
Q Consensus 611 ~~~lKSkdpLif~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~p~~pvl~f~~~~~~~~~~l~a 688 (745)
+.||++..++.|++|-....+.=. .. + -.+++.+|..++|-+. -|+..-+.+-++++.. -+.+|
T Consensus 21 ~~~i~~g~~~~l~~gt~~~~~~i~-~l-~-------~~~~i~~g~~~~v~l~l~~pv~~~~~~rf~lR~~-----~~tig 86 (90)
T cd03707 21 HTPFFSGYRPQFYIRTTDVTGSIT-LP-E-------GTEMVMPGDNVKMTVELIHPIALEKGLRFAIREG-----GRTVG 86 (90)
T ss_pred CCcccCCceeEEEeccCeEEEEEE-cc-C-------cccccCCCCEEEEEEEECCcEEEecCCEEEEecC-----CcEEE
Confidence 379999999999999876442111 11 1 1356889999999988 8876444455555543 24678
Q ss_pred eeee
Q 004549 689 VGSL 692 (745)
Q Consensus 689 tG~v 692 (745)
.|.|
T Consensus 87 ~G~V 90 (90)
T cd03707 87 AGVI 90 (90)
T ss_pred EEEC
Confidence 8764
No 324
>PF00216 Bac_DNA_binding: Bacterial DNA-binding protein; InterPro: IPR000119 Bacteria synthesise a set of small, usually basic proteins of about 90 residues that bind DNA and are known as histone-like proteins [, ]. Examples include the HU protein in Escherichia coli is a dimer of closely related alpha and beta chains and in other bacteria can be a dimer of identical chains. HU-type proteins have been found in a variety of eubacteria, cyanobacteria and archaebacteria, and are also encoded in the chloroplast genome of some algae []. The integration host factor (IHF), a dimer of closely related chains which seem to function in genetic recombination as well as in translational and transcriptional control [] is found in enterobacteria and viral proteins include the African Swine fever virus protein A104R (or LMW5-AR) []. The exact function of these proteins is not yet clear but they are capable of wrapping DNA and stabilising it from denaturation under extreme environmental conditions. The structure is known for one of these proteins []. The protein exists as a dimer and two "beta-arms" function as the non-specific binding site for bacterial DNA. ; GO: 0003677 DNA binding; PDB: 3C4I_B 2O97_A 1MUL_A 1P78_A 1P51_C 1P71_B 2HT0_A 1OWG_A 2IIF_A 1OUZ_A ....
Probab=26.49 E-value=25 Score=30.68 Aligned_cols=20 Identities=25% Similarity=0.499 Sum_probs=16.4
Q ss_pred CCCCCCeEEeCCCCceeece
Q 004549 282 CLSVNQLVHISGAGDFQLGK 301 (745)
Q Consensus 282 ~l~~n~lVHIpG~GDFqi~~ 301 (745)
.|..|..|+|+|+|-|.+..
T Consensus 35 ~L~~g~~V~l~g~G~F~~~~ 54 (90)
T PF00216_consen 35 ALKEGESVKLPGFGTFSVKE 54 (90)
T ss_dssp HHHTT-EEEETTTEEEEEEE
T ss_pred HHhcCCeEEeeceeEEEEec
Confidence 35678889999999999986
No 325
>cd04133 Rop_like Rop subfamily. The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,
Probab=26.18 E-value=3.8e+02 Score=26.50 Aligned_cols=102 Identities=14% Similarity=0.039 Sum_probs=54.7
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCC-CC-----cc---eEEEecCceeeEEEEeCCC-CChHHHHh-HHhhcceEEE
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGT-GA-----LS---STVSSSKYRLRTSVLQAPH-GDLVGCME-MAKVADLVAF 150 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~-~~-----g~---~tv~~~r~k~R~tfie~~~-~dl~~mLD-~aKvADlVll 150 (745)
|+|+|.++.+.. +| +.+|..... .. |. ..+.....+-+++++..+. ....+|.. ..+=||.+||
T Consensus 4 ivv~G~~~vGKT-sl----i~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~il 78 (176)
T cd04133 4 CVTVGDGAVGKT-CM----LICYTSNKFPTDYIPTVFDNFSANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVL 78 (176)
T ss_pred EEEECCCCCcHH-HH----HHHHhcCCCCCCCCCcceeeeEEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEE
Confidence 788998887775 66 444432211 11 21 1223344456777776542 22333332 4678999999
Q ss_pred EeeCCCccccccccccChHHHHHHHHHHhcC-CCceEEEeccCCc
Q 004549 151 VASASSFSEESMSYYIDSFGNQCLSVFRSLG-LPSTAVLIRDLPT 194 (745)
Q Consensus 151 lidas~g~~~~~~~~fd~eg~e~L~~l~~qG-lP~vigvl~~L~~ 194 (745)
++|.+.- ..|+.--...+..++.+. =+.++.|.+..|.
T Consensus 79 vyd~~~~------~Sf~~~~~~w~~~i~~~~~~~piilvgnK~Dl 117 (176)
T cd04133 79 AFSLISR------ASYENVLKKWVPELRHYAPNVPIVLVGTKLDL 117 (176)
T ss_pred EEEcCCH------HHHHHHHHHHHHHHHHhCCCCCEEEEEeChhh
Confidence 9998742 335543233444454332 1334456666664
No 326
>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=26.12 E-value=3e+02 Score=31.35 Aligned_cols=77 Identities=16% Similarity=0.172 Sum_probs=52.4
Q ss_pred eeeEEEEeCCCCChHHHHh-HHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhH
Q 004549 122 RLRTSVLQAPHGDLVGCME-MAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRK 200 (745)
Q Consensus 122 k~R~tfie~~~~dl~~mLD-~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~ 200 (745)
|||++=. -|++++|. .|--||+++|++|+-- -.+..|..++|.+|+.|-= ++=.||+.-|+ ++. .
T Consensus 162 KQrisR~----ydF~~v~~WFaeR~D~IiLlfD~hK-------LDIsdEf~~vi~aLkG~Ed-kiRVVLNKADq-Vdt-q 227 (532)
T KOG1954|consen 162 KQRISRG----YDFTGVLEWFAERVDRIILLFDAHK-------LDISDEFKRVIDALKGHED-KIRVVLNKADQ-VDT-Q 227 (532)
T ss_pred hhccccc----CChHHHHHHHHHhccEEEEEechhh-------ccccHHHHHHHHHhhCCcc-eeEEEeccccc-cCH-H
Confidence 7887543 57777776 4667999999999874 2366899999999998874 34446888776 232 3
Q ss_pred HHHHHHHhhccc
Q 004549 201 DLKKMCISSLTS 212 (745)
Q Consensus 201 ~~kK~lk~~f~~ 212 (745)
+.-+..=..+|+
T Consensus 228 qLmRVyGALmWs 239 (532)
T KOG1954|consen 228 QLMRVYGALMWS 239 (532)
T ss_pred HHHHHHHHHHHh
Confidence 344444445554
No 327
>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases. These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....
Probab=25.81 E-value=1.9e+02 Score=28.10 Aligned_cols=62 Identities=13% Similarity=0.143 Sum_probs=44.5
Q ss_pred eEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccC-hHHHHHHHHHHhcCCC-ceEEE-eccCCc
Q 004549 124 RTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYID-SFGNQCLSVFRSLGLP-STAVL-IRDLPT 194 (745)
Q Consensus 124 R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd-~eg~e~L~~l~~qGlP-~vigv-l~~L~~ 194 (745)
-+.+|.|++.--..+.-+...||++|++++++. ++ .....++..|+.-|.+ ..+++ ++..+.
T Consensus 96 D~iiiD~~~~~~~~~~~~l~~ad~viv~~~~~~---------~~i~~~~~~~~~l~~~~~~~~~~~vv~N~v~~ 160 (195)
T PF01656_consen 96 DYIIIDTPPGLSDPVRNALAAADYVIVPIEPDP---------SSIEGAERLIELLKRLGKKLKIIGVVINRVDP 160 (195)
T ss_dssp SEEEEEECSSSSHHHHHHHHTSSEEEEEEESSH---------HHHHHHHHHHHHHHHHTHTEEEEEEEEEEETS
T ss_pred cceeecccccccHHHHHHHHhCceeeeecCCcH---------HHHHHHHHHHHHHHHhccccceEEEEEeeeCC
Confidence 567888875554556668899999999999883 22 3456778888888855 35554 888765
No 328
>COG0240 GpsA Glycerol-3-phosphate dehydrogenase [Energy production and conversion]
Probab=25.65 E-value=96 Score=34.46 Aligned_cols=71 Identities=13% Similarity=0.214 Sum_probs=46.0
Q ss_pred hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEE--eccCCcchhhhHHHHHHHHhhcccccCCCCee
Q 004549 143 KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVL--IRDLPTDLKKRKDLKKMCISSLTSEFPEDCKF 220 (745)
Q Consensus 143 KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigv--l~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Kl 220 (745)
+-||+||+.++... --+++.-|+.+--+.++.| .-.+.+ .+.+.+..+++.++| +.++
T Consensus 70 ~~ad~iv~avPs~~-------------~r~v~~~l~~~l~~~~~iv~~sKGie~------~t~~l~seii~e~l~-~~~~ 129 (329)
T COG0240 70 DGADIIVIAVPSQA-------------LREVLRQLKPLLLKDAIIVSATKGLEP------ETGRLLSEIIEEELP-DNPI 129 (329)
T ss_pred hcCCEEEEECChHH-------------HHHHHHHHhhhccCCCeEEEEeccccC------CCcchHHHHHHHHcC-CCeE
Confidence 33899999998763 4556666664444555555 224444 256677788888888 4559
Q ss_pred EEeCCHHHHHHHH
Q 004549 221 YAADTKDELHKFL 233 (745)
Q Consensus 221 f~l~~~~e~~nL~ 233 (745)
.+||+++=+..++
T Consensus 130 ~vLSGPs~A~EVa 142 (329)
T COG0240 130 AVLSGPSFAKEVA 142 (329)
T ss_pred EEEECccHHHHHh
Confidence 9999765444333
No 329
>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....
Probab=25.43 E-value=7.3e+02 Score=25.22 Aligned_cols=143 Identities=16% Similarity=0.183 Sum_probs=68.5
Q ss_pred EEEecCCCccChhhHHHHHHHhhcc-CCCCCcceE-------EEecCceeeEEEEeCCC-CC--------hHHHHhHHhh
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSS-EGTGALSST-------VSSSKYRLRTSVLQAPH-GD--------LVGCMEMAKV 144 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~-~~~~~g~~t-------v~~~r~k~R~tfie~~~-~d--------l~~mLD~aKv 144 (745)
|+++|.++++.. ++++.|+..-.- ......++| ..... +++++|..|- .| +..+.+++..
T Consensus 3 IlllG~tGsGKS-s~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~ 79 (212)
T PF04548_consen 3 ILLLGKTGSGKS-SLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLSL 79 (212)
T ss_dssp EEEECSTTSSHH-HHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHHH
T ss_pred EEEECCCCCCHH-HHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHHh
Confidence 678999988765 564443422110 111111111 12222 6888888863 11 1223443322
Q ss_pred ----cceEEEEeeCCCccccccccccChHHHHHHHHHH---hcC-CCceEEEeccCCc-chhhhHH-HH----HHHHhhc
Q 004549 145 ----ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFR---SLG-LPSTAVLIRDLPT-DLKKRKD-LK----KMCISSL 210 (745)
Q Consensus 145 ----ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~---~qG-lP~vigvl~~L~~-~~Kk~~~-~k----K~lk~~f 210 (745)
-+++|||++... |..+....|..|+ ... +-.+|.|+|+-+. ......+ ++ +.|+..+
T Consensus 80 ~~~g~ha~llVi~~~r---------~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li 150 (212)
T PF04548_consen 80 CSPGPHAFLLVIPLGR---------FTEEDREVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLKKESNEALQELI 150 (212)
T ss_dssp TTT-ESEEEEEEETTB----------SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHH
T ss_pred ccCCCeEEEEEEecCc---------chHHHHHHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHhccCchhHhHHh
Confidence 578999999872 5444444444443 333 3468888887663 0011111 11 2233322
Q ss_pred ccccCCCCeeEEeCCH--------HHHHHHHHHHhhc
Q 004549 211 TSEFPEDCKFYAADTK--------DELHKFLWLFKEQ 239 (745)
Q Consensus 211 ~~e~~~~~Klf~l~~~--------~e~~nL~R~I~~~ 239 (745)
.. . +.+.+.+++. ..+..|+..|-.|
T Consensus 151 ~~-c--~~R~~~f~n~~~~~~~~~~qv~~Ll~~ie~m 184 (212)
T PF04548_consen 151 EK-C--GGRYHVFNNKTKDKEKDESQVSELLEKIEEM 184 (212)
T ss_dssp HH-T--TTCEEECCTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred hh-c--CCEEEEEeccccchhhhHHHHHHHHHHHHHH
Confidence 21 1 4566666665 5566777766544
No 330
>TIGR00475 selB selenocysteine-specific elongation factor SelB. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.
Probab=25.30 E-value=6.3e+02 Score=30.31 Aligned_cols=111 Identities=13% Similarity=0.155 Sum_probs=67.3
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEecccccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeeeeee
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGLLQHESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQFVAR 632 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gLl~hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRFq~~ 632 (745)
+-+.+|..|.|-|+++..+-+. +=+++.+-... ...-.+.|.. ..||+...++.|++|-.+....
T Consensus 231 ~~a~aG~rval~L~~i~~~~i~--------rG~~~~~~~~~-~~~~~~~~~~------~~~l~~~~~~~~~~gt~~~~~~ 295 (581)
T TIGR00475 231 EIAYAGQRIALNLMDVEPESLK--------RGLLILTPEDP-KLRVVVKFIA------EVPLLELQPYHIAHGMSVTTGK 295 (581)
T ss_pred CEEECCCEEEEEeCCCCHHHcC--------CceEEcCCCCC-CceEEEEEEc------CCccCCCCeEEEEEeceEEEEE
Confidence 5578999999999998765442 11444443211 1222333433 4789999999999999887654
Q ss_pred ccccccCCCCCcceeecccCCCceEEEEEEeecCCC-CccEEEEEecCCCCCCeEeEeeeeeccCccce
Q 004549 633 PIFSSDNMNSDKHKMERFLHAGCFSVASIYAPICFP-PLPLIVLKSADGGVAPAVAAVGSLRSIDPDRI 700 (745)
Q Consensus 633 PifS~~~~~~~k~K~~ry~p~~~~~vAt~ygPi~~p-~~pvl~f~~~~~~~~~~l~atG~vl~~d~~ri 700 (745)
=. .. + .+ .+--.+--|++.- +..+++ +.. ..+.+|-|.|++. |.+.
T Consensus 296 i~-~l-~--~~------------~~~l~l~~P~~~~~gd~~i~-r~~----~~~tiggg~vl~~-~~~~ 342 (581)
T TIGR00475 296 IS-LL-D--KG------------IALLTLDAPLILAKGDKLVL-RDS----SGNFLAGARVLEP-PVRV 342 (581)
T ss_pred EE-Ec-c--Cc------------EEEEEECCceecCCCCEEEE-EeC----CCEEEeeeEEecC-Cccc
Confidence 22 11 1 10 2233345676533 445554 442 3578888999988 6443
No 331
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=25.26 E-value=2.1e+02 Score=29.00 Aligned_cols=55 Identities=11% Similarity=0.172 Sum_probs=33.9
Q ss_pred eEEEEeCCCCC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEe
Q 004549 124 RTSVLQAPHGD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLI 189 (745)
Q Consensus 124 R~tfie~~~~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl 189 (745)
.+.+|-||+.- .....-++..||.||+++.++.. --....+.++.|+ +. .++|++
T Consensus 150 D~IiiD~pp~~~~~~~~~l~~~aD~viiV~~~~~~--------~~~~~~~~~~~l~--~~-~~~G~v 205 (207)
T TIGR03018 150 RIIIIDTPPLLVFSEARALARLVGQIVLVVEEGRT--------TQEAVKEALSALE--SC-KVLGVV 205 (207)
T ss_pred CEEEEECCCCcchhHHHHHHHhCCEEEEEEECCCC--------CHHHHHHHHHHhc--CC-CeEEEE
Confidence 46677776422 23455567778888888887741 1245566777776 32 567764
No 332
>PLN02775 Probable dihydrodipicolinate reductase
Probab=24.74 E-value=1.3e+02 Score=32.76 Aligned_cols=44 Identities=11% Similarity=0.129 Sum_probs=34.8
Q ss_pred CChHHHHhHH--hhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEE
Q 004549 133 GDLVGCMEMA--KVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVL 188 (745)
Q Consensus 133 ~dl~~mLD~a--KvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigv 188 (745)
+|+..+|+.+ +.+|+|+ ||-|. -.-.++.+..+..+|+|-|||.
T Consensus 66 ~dl~~~l~~~~~~~~~~Vv--IDFT~----------P~a~~~~~~~~~~~g~~~VvGT 111 (286)
T PLN02775 66 SEREAVLSSVKAEYPNLIV--VDYTL----------PDAVNDNAELYCKNGLPFVMGT 111 (286)
T ss_pred ccHHHHHHHhhccCCCEEE--EECCC----------hHHHHHHHHHHHHCCCCEEEEC
Confidence 8999999777 4577655 45442 2568899999999999999996
No 333
>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional
Probab=24.51 E-value=6.3e+02 Score=30.50 Aligned_cols=130 Identities=15% Similarity=0.116 Sum_probs=67.6
Q ss_pred CCCCCCcEEEEEEecCchhHHHhhccccCCCcEEEEecccccceeeEEEEEEEecCCCCCCCCCCceEEEEeeeeeeee-
Q 004549 553 DSVPASLYVRLHIKEVPAGIAHRLCEMAERSPLIASGLLQHESKMSVLHFSVKKHDTYDAPIKAKEELIFHVGFRQFVA- 631 (745)
Q Consensus 553 ~g~~~G~YVri~i~~VP~~~~~~~~~~~~~~Plil~gLl~hE~k~svv~~~ikrh~~~~~~lKSkdpLif~~G~RRFq~- 631 (745)
+-+.+|..|.|.|++ +.+ +. +=.||+.- ...-...-.|.++-.--+..+++...+++|+||-.+-.+
T Consensus 296 ~~a~aG~~v~i~l~~-~~~----i~-----rG~vL~~~--~~~~~~~~~f~a~i~~l~~~~~~~g~~~~l~~gt~~~~a~ 363 (632)
T PRK05506 296 DEAFAGQAVTLTLAD-EID----IS-----RGDMLARA--DNRPEVADQFDATVVWMAEEPLLPGRPYLLKHGTRTVPAS 363 (632)
T ss_pred CEEcCCCeEEEEecC-ccc----cC-----CccEEecC--CCCCcceeEEEEEEEEecccccCCCCeEEEEeCCCEEEEE
Confidence 446789999999975 111 11 22233321 000011122222222122346778899999999988653
Q ss_pred -eccccccCCCCCcceeecccCCCceEEEEEE--eecCC------CCccEEEEEecCCCCCCeEeEeeeeeccCc
Q 004549 632 -RPIFSSDNMNSDKHKMERFLHAGCFSVASIY--APICF------PPLPLIVLKSADGGVAPAVAAVGSLRSIDP 697 (745)
Q Consensus 632 -~PifS~~~~~~~k~K~~ry~p~~~~~vAt~y--gPi~~------p~~pvl~f~~~~~~~~~~l~atG~vl~~d~ 697 (745)
..|.+.-+....+.+--+++..+..+++.+. .|+++ |..|=++++... +-..+|.|.|++..+
T Consensus 364 i~~i~~~~d~~t~~~~~p~~l~~g~~~~v~l~~~~pi~~e~~~~~~~lGRfilrdr~---~~~Tva~G~I~~~~~ 435 (632)
T PRK05506 364 VAAIKYRVDVNTLERLAAKTLELNEIGRCNLSTDAPIAFDPYARNRTTGSFILIDRL---TNATVGAGMIDFALR 435 (632)
T ss_pred EEEEEEEecCCCCccCCcceeCCCCEEEEEEEECCEEeeeeccccccCceEEEEecc---CCceEEEEEECcccc
Confidence 3444432332223345578888988887763 23321 122223332221 235689999887664
No 334
>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional
Probab=24.07 E-value=2.1e+02 Score=33.28 Aligned_cols=68 Identities=19% Similarity=0.210 Sum_probs=38.7
Q ss_pred EEEEEecCCCccChhhHHHHHHHhhccCCC------------C------C-------cc-eEEEecCceeeEEEEeC---
Q 004549 80 RVIVLFGLSASVNLNSVREDLLRQLSSEGT------------G------A-------LS-STVSSSKYRLRTSVLQA--- 130 (745)
Q Consensus 80 ~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~------------~------~-------g~-~tv~~~r~k~R~tfie~--- 130 (745)
+||+|+|.++++.+ .|+..||..++..+. . + |- .+++++. .|+.++.-
T Consensus 2 kVi~IvG~sgSGKT-TLiekLI~~L~~rG~rVavIKH~hH~fd~D~~GKDS~r~r~AGA~~V~v~s~--~r~al~~~~~~ 78 (452)
T PRK14495 2 RVYGIIGWKDAGKT-GLVERLVAAIAARGFSVSTVKHSHHDVDPDPPGSDSHRHRAAGAAEVVLAGP--RRLILTREHRG 78 (452)
T ss_pred cEEEEEecCCCCHH-HHHHHHHHHHHhCCCeEEEEeccCcccCCCCCCCCchhHHhCCCCEEEEEcC--CeEEEEEecCC
Confidence 48999998876654 444555777765331 1 0 33 3344443 46666532
Q ss_pred CCCChHHHHhHHhhcceEEE
Q 004549 131 PHGDLVGCMEMAKVADLVAF 150 (745)
Q Consensus 131 ~~~dl~~mLD~aKvADlVll 150 (745)
...+|..+|+...=+|+||+
T Consensus 79 ~~~~L~~ll~~l~~~DlVLV 98 (452)
T PRK14495 79 EPPRLAAILERMAPVDLVLV 98 (452)
T ss_pred CCcCHHHHHhhcccCCEEEE
Confidence 11478888765444687765
No 335
>COG5258 GTPBP1 GTPase [General function prediction only]
Probab=23.87 E-value=1.1e+03 Score=27.23 Aligned_cols=130 Identities=16% Similarity=0.305 Sum_probs=81.7
Q ss_pred cceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc--c--hhh-hHHHHHHHHhhcccccC----
Q 004549 145 ADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT--D--LKK-RKDLKKMCISSLTSEFP---- 215 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~--~--~Kk-~~~~kK~lk~~f~~e~~---- 215 (745)
-|++||++-|..| .---|.|=|-++-|-+||.+ .|+|..|+ + ++. ..+++..||. -..+|
T Consensus 227 ~dYglLvVaAddG--------~~~~tkEHLgi~~a~~lPvi-VvvTK~D~~~ddr~~~v~~ei~~~Lk~--v~Rip~~vk 295 (527)
T COG5258 227 VDYGLLVVAADDG--------VTKMTKEHLGIALAMELPVI-VVVTKIDMVPDDRFQGVVEEISALLKR--VGRIPLIVK 295 (527)
T ss_pred cceEEEEEEccCC--------cchhhhHhhhhhhhhcCCEE-EEEEecccCcHHHHHHHHHHHHHHHHH--hcccceeee
Confidence 3677777777644 66779999999999999965 45676664 1 122 2334444443 22222
Q ss_pred --C--------------CCeeEEeCC-HHH-HHHHHHHHhhccccCCccccCCCe-EEEEeeEeccCCCCCCCceEEEEE
Q 004549 216 --E--------------DCKFYAADT-KDE-LHKFLWLFKEQRLTVPHWRNQRPF-LMAQKVDVVADDCNSGKCTLLLHG 276 (745)
Q Consensus 216 --~--------------~~Klf~l~~-~~e-~~nL~R~I~~~k~r~l~WR~~rpY-mLadr~e~~~~~~~~~~~~l~v~G 276 (745)
+ -.-+|+.|+ .-+ .--|.++++...++. .|-+.-|+ |..|++.-++. .| .++.|
T Consensus 296 ~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~~Lp~rr-~~~d~g~flmYId~iYsVtG-----VG-tVvsG 368 (527)
T COG5258 296 DTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFFLLLPKRR-RWDDEGPFLMYIDKIYSVTG-----VG-TVVSG 368 (527)
T ss_pred ccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHHHhCCccc-ccCCCCCeEEEEEeeEEEee-----eE-EEEee
Confidence 0 123577664 223 345677777777777 89888855 56777764432 23 56777
Q ss_pred EEeCCCCCCCCeEEeC
Q 004549 277 YLRAHCLSVNQLVHIS 292 (745)
Q Consensus 277 yvRG~~l~~n~lVHIp 292 (745)
-|.-.-|..|..|-|-
T Consensus 369 sV~~G~l~~gd~vllG 384 (527)
T COG5258 369 SVKSGILHVGDTVLLG 384 (527)
T ss_pred eEEeeeeccCCEEEEc
Confidence 7766668888888774
No 336
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=23.71 E-value=2.6e+02 Score=30.43 Aligned_cols=59 Identities=17% Similarity=0.183 Sum_probs=35.7
Q ss_pred eEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEecc
Q 004549 124 RTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRD 191 (745)
Q Consensus 124 R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~ 191 (745)
.+.+|-||+.--...+-++..||.||+++.++. ..+ .....+|..|..++ |++..|+++
T Consensus 206 D~VIID~p~~~~~~~~~~L~~AD~vliV~~~~~-------~sl-~~a~r~l~~l~~~~-~~~~lVv~~ 264 (322)
T TIGR03815 206 DLVVVDLPRRLTPAAETALESADLVLVVVPADV-------RAV-AAAARVCPELGRRN-PDLRLVVRG 264 (322)
T ss_pred CEEEEeCCCCCCHHHHHHHHHCCEEEEEcCCcH-------HHH-HHHHHHHHHHhhhC-CCeEEEEeC
Confidence 455666664322334667788899999988763 122 34566777777766 454444543
No 337
>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain. Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein
Probab=23.40 E-value=4.4e+02 Score=27.28 Aligned_cols=20 Identities=25% Similarity=0.325 Sum_probs=16.1
Q ss_pred CCCCEEEEEecCCCccChhhH
Q 004549 76 ASPPRVIVLFGLSASVNLNSV 96 (745)
Q Consensus 76 ~~pP~iV~Vv~l~~~~~~~sl 96 (745)
+.|-.+|+|+|++.++.. .|
T Consensus 4 ~~~v~vvsv~G~~~sGKS-~l 23 (224)
T cd01851 4 GFPVAVVSVFGPQSSGKS-FL 23 (224)
T ss_pred CCCEEEEEEECCCCCCHH-HH
Confidence 467789999999998875 56
No 338
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=23.27 E-value=9.9e+02 Score=27.38 Aligned_cols=156 Identities=15% Similarity=0.044 Sum_probs=74.1
Q ss_pred CCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC---cceE-EEecCceeeEEEEeCCCCC---hHHHHhHHhh--cce
Q 004549 77 SPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA---LSST-VSSSKYRLRTSVLQAPHGD---LVGCMEMAKV--ADL 147 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~---g~~t-v~~~r~k~R~tfie~~~~d---l~~mLD~aKv--ADl 147 (745)
.+|.|+||+|+..+.....+ ...+...++.- +..+ ..+.+.+-...|-.+| .| ..+|+|+++- .--
T Consensus 102 ~~~~V~aVIG~~~S~~s~av----a~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~p-sd~~qa~ai~~ll~~~~W~~ 176 (458)
T cd06375 102 SPLAIAGVIGGSYSSVSIQV----ANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVP-PDFYQAKAMAEILRFFNWTY 176 (458)
T ss_pred CCCCeEEEEcCCCchHHHHH----HHHhhhccccceeeccCChhhcccccCCCeEEecC-CcHHHHHHHHHHHHHCCCeE
Confidence 45779999999887655444 22222222221 1111 1112211134455666 44 2346666543 233
Q ss_pred EEEEee-CCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCcchhhhHHHHHHHHhhcccccCCCCeeEEeC-C
Q 004549 148 VAFVAS-ASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPTDLKKRKDLKKMCISSLTSEFPEDCKFYAAD-T 225 (745)
Q Consensus 148 Vlllid-as~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~~~Kk~~~~kK~lk~~f~~e~~~~~Klf~l~-~ 225 (745)
|.++.+ ..+| ......|...++.+|+--+. ...++.. ....+....+++.... .+++++.+. .
T Consensus 177 Vaii~~~~~yG---------~~~~~~~~~~~~~~gi~i~~--~~~i~~~-~~~~d~~~~l~~l~~~---~~a~vVvl~~~ 241 (458)
T cd06375 177 VSTVASEGDYG---------ETGIEAFEQEARLRNICIAT--SEKVGRS-ADRKSYDSVIRKLLQK---PNARVVVLFTR 241 (458)
T ss_pred EEEEEeCchHH---------HHHHHHHHHHHHHCCeeEEE--EEEecCC-CCHHHHHHHHHHHhcc---CCCEEEEEecC
Confidence 545544 3322 22344556667777854221 1223210 1112333333222111 367865554 4
Q ss_pred HHHHHHHHHHHhhccccCCccccCCCeEEEEeeE
Q 004549 226 KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVD 259 (745)
Q Consensus 226 ~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e 259 (745)
..++..++|.+-.+... .+|+.++.+.
T Consensus 242 ~~~~~~ll~~a~~~g~~-------~~wigs~~~~ 268 (458)
T cd06375 242 SEDARELLAAAKRLNAS-------FTWVASDGWG 268 (458)
T ss_pred hHHHHHHHHHHHHcCCc-------EEEEEecccc
Confidence 67788888887766533 4556666543
No 339
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=22.48 E-value=7.1e+02 Score=28.84 Aligned_cols=18 Identities=33% Similarity=0.488 Sum_probs=14.8
Q ss_pred CCCEEEEEecCCCccChh
Q 004549 77 SPPRVIVLFGLSASVNLN 94 (745)
Q Consensus 77 ~pP~iV~Vv~l~~~~~~~ 94 (745)
.+|.+|+++|+++++.+.
T Consensus 93 ~~p~vI~lvG~~GsGKTT 110 (437)
T PRK00771 93 LKPQTIMLVGLQGSGKTT 110 (437)
T ss_pred CCCeEEEEECCCCCcHHH
Confidence 469999999999977653
No 340
>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]
Probab=22.02 E-value=1.2e+03 Score=26.53 Aligned_cols=159 Identities=16% Similarity=0.174 Sum_probs=103.7
Q ss_pred ceeeEEEEeCCC-CC-hHHHHhHHhhcceEEEEeeCCCccccccccccChHHHHHHHHHHhcCCCceEEEeccCCc-chh
Q 004549 121 YRLRTSVLQAPH-GD-LVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGNQCLSVFRSLGLPSTAVLIRDLPT-DLK 197 (745)
Q Consensus 121 ~k~R~tfie~~~-~d-l~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~e~L~~l~~qGlP~vigvl~~L~~-~~K 197 (745)
-+|...-+.||- .| +-+||--|---|-.+||+.|..| -=..|.|=|=..+.-|++.++..++..|. +--
T Consensus 115 a~RhYaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG--------~MPQTrEHlLLArQVGV~~ivvfiNKvD~V~d~ 186 (449)
T KOG0460|consen 115 AKRHYAHTDCPGHADYIKNMITGAAQMDGAILVVAATDG--------PMPQTREHLLLARQVGVKHIVVFINKVDLVDDP 186 (449)
T ss_pred cccccccCCCCchHHHHHHhhcCccccCceEEEEEcCCC--------CCcchHHHHHHHHHcCCceEEEEEecccccCCH
Confidence 368888899973 23 77899888888999999999976 33578888888888999999999998875 101
Q ss_pred hhHH-----HHHHHHhhcccccC-------CCCeeEEeCC------HHHHHHHHHHHhhccccCCccccCCCeEEEEeeE
Q 004549 198 KRKD-----LKKMCISSLTSEFP-------EDCKFYAADT------KDELHKFLWLFKEQRLTVPHWRNQRPFLMAQKVD 259 (745)
Q Consensus 198 k~~~-----~kK~lk~~f~~e~~-------~~~Klf~l~~------~~e~~nL~R~I~~~k~r~l~WR~~rpYmLadr~e 259 (745)
.-.+ .+..|.. | .|+ .|.-|..|.+ .+-|..|+-.+-+--|-|-+ ...-||||+=.--
T Consensus 187 e~leLVEmE~RElLse-~--gf~Gd~~PvI~GSAL~ALeg~~peig~~aI~kLldavDsyip~P~R-~~~~pFl~pie~v 262 (449)
T KOG0460|consen 187 EMLELVEMEIRELLSE-F--GFDGDNTPVIRGSALCALEGRQPEIGLEAIEKLLDAVDSYIPTPER-DLDKPFLLPIEDV 262 (449)
T ss_pred HHHHHHHHHHHHHHHH-c--CCCCCCCCeeecchhhhhcCCCccccHHHHHHHHHHHhccCCCccc-ccCCCceeehhhe
Confidence 1112 2332221 1 122 1444555654 44466677666655555543 2456777763322
Q ss_pred eccCCCCCCCceEEEEEEEeCCCCCCCCeEEeCCCCc
Q 004549 260 VVADDCNSGKCTLLLHGYLRAHCLSVNQLVHISGAGD 296 (745)
Q Consensus 260 ~~~~~~~~~~~~l~v~GyvRG~~l~~n~lVHIpG~GD 296 (745)
|.-+ .+-.+|+|-|--.-|+.|.-|-|-|++-
T Consensus 263 fsI~-----GRGTVvtGrlERG~lKkG~e~eivG~~~ 294 (449)
T KOG0460|consen 263 FSIP-----GRGTVVTGRLERGVLKKGDEVEIVGHNK 294 (449)
T ss_pred eeec-----CCceEEEEEEeecccccCCEEEEeccCc
Confidence 2211 2445677877555599999999999984
No 341
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=21.78 E-value=8.4e+02 Score=30.16 Aligned_cols=109 Identities=14% Similarity=0.141 Sum_probs=53.2
Q ss_pred CCEEEEEecCCCccChhhHHHHHHHhh--ccCCCCCcc---eEEEecCceeeEEEEeCCC-CCh-------HHHHhHH--
Q 004549 78 PPRVIVLFGLSASVNLNSVREDLLRQL--SSEGTGALS---STVSSSKYRLRTSVLQAPH-GDL-------VGCMEMA-- 142 (745)
Q Consensus 78 pP~iV~Vv~l~~~~~~~sl~~~~vk~~--~~~~~~~g~---~tv~~~r~k~R~tfie~~~-~dl-------~~mLD~a-- 142 (745)
-+.-|+|+|.++.+.. +++|.|+..- .......+. ..+......+++.||-.|- .+. ..++..+
T Consensus 117 fslrIvLVGKTGVGKS-SLINSILGekvf~vss~~~~TTr~~ei~~~idG~~L~VIDTPGL~dt~~dq~~neeILk~Ik~ 195 (763)
T TIGR00993 117 FSLNILVLGKSGVGKS-ATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQGVKIRVIDTPGLKSSASDQSKNEKILSSVKK 195 (763)
T ss_pred cceEEEEECCCCCCHH-HHHHHHhccccccccCCCCCceEEEEEEEEECCceEEEEECCCCCccccchHHHHHHHHHHHH
Confidence 3456899999886653 4433334321 111111111 1111110125678887762 110 1233322
Q ss_pred --hh--cceEEEEeeCCCccccccccccChHHHHHHHHH---HhcCC-CceEEEeccCCc
Q 004549 143 --KV--ADLVAFVASASSFSEESMSYYIDSFGNQCLSVF---RSLGL-PSTAVLIRDLPT 194 (745)
Q Consensus 143 --Kv--ADlVlllidas~g~~~~~~~~fd~eg~e~L~~l---~~qGl-P~vigvl~~L~~ 194 (745)
+- +|+||+|++.+. ...|++....|+.| ...++ ..+|.|+||-+.
T Consensus 196 ~Lsk~gpDVVLlV~RLd~-------~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~ 248 (763)
T TIGR00993 196 FIKKNPPDIVLYVDRLDM-------QTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAAS 248 (763)
T ss_pred HHhcCCCCEEEEEEeCCC-------ccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCcc
Confidence 21 689999987652 22444433444444 45554 577888898663
No 342
>PRK10664 transcriptional regulator HU subunit beta; Provisional
Probab=21.60 E-value=48 Score=29.61 Aligned_cols=20 Identities=25% Similarity=0.395 Sum_probs=17.2
Q ss_pred CCCCCCeEEeCCCCceeece
Q 004549 282 CLSVNQLVHISGAGDFQLGK 301 (745)
Q Consensus 282 ~l~~n~lVHIpG~GDFqi~~ 301 (745)
.|..|..|.|+|+|-|.+..
T Consensus 35 ~L~~~~~v~l~gfG~F~v~~ 54 (90)
T PRK10664 35 SLKEGDDVALVGFGTFAVKE 54 (90)
T ss_pred HHhCCCEEEECCcEEEEEEE
Confidence 46678899999999999974
No 343
>TIGR03453 partition_RepA plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.
Probab=21.60 E-value=3e+02 Score=30.90 Aligned_cols=78 Identities=13% Similarity=0.056 Sum_probs=44.6
Q ss_pred eEEEEeCCCCChHHHHhHHhhcceEEEEeeCCCccccccccccChHHH--------HHHHHHHhcCCC---ceEEE-ecc
Q 004549 124 RTSVLQAPHGDLVGCMEMAKVADLVAFVASASSFSEESMSYYIDSFGN--------QCLSVFRSLGLP---STAVL-IRD 191 (745)
Q Consensus 124 R~tfie~~~~dl~~mLD~aKvADlVlllidas~g~~~~~~~~fd~eg~--------e~L~~l~~qGlP---~vigv-l~~ 191 (745)
.+.+|-||+.-=...+-+.-+||.||+.+.++. +|..+. +++..++..|.+ ..++| ++.
T Consensus 236 D~IiiD~pp~~~~~~~~al~aad~viipv~p~~---------~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~~ 306 (387)
T TIGR03453 236 DVVVIDCPPQLGFLTLSALCAATGVLITVHPQM---------LDVMSMSQFLLMTGDLLGVVREAGGNLSYDFMRYLVTR 306 (387)
T ss_pred CEEEEeCCccHhHHHHHHHHHcCeeEEcCCCch---------hhHHHHHHHHHHHHHHHHHHHHhcCCCCCceeEEEEee
Confidence 457787874433346677889999999998863 554432 234445554432 34555 555
Q ss_pred CCcchhhhHHHHHHHHhhc
Q 004549 192 LPTDLKKRKDLKKMCISSL 210 (745)
Q Consensus 192 L~~~~Kk~~~~kK~lk~~f 210 (745)
.+......+++...++..|
T Consensus 307 ~~~~~~~~~~~~~~l~~~~ 325 (387)
T TIGR03453 307 YEPNDGPQAQMVAFLRSLF 325 (387)
T ss_pred ECCCCccHHHHHHHHHHHh
Confidence 5541122345555555544
No 344
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=21.55 E-value=4.6e+02 Score=27.71 Aligned_cols=33 Identities=21% Similarity=0.137 Sum_probs=23.2
Q ss_pred cccCCCCCCCCEEEEEecCCCccChhhHHHHHHH
Q 004549 69 KRASSGIASPPRVIVLFGLSASVNLNSVREDLLR 102 (745)
Q Consensus 69 ~R~~~~~~~pP~iV~Vv~l~~~~~~~sl~~~~vk 102 (745)
+|.++|.-++..++.|.|+|+++.. .++.+++.
T Consensus 26 ~~~~~GGip~gs~~lI~G~pGtGKT-~l~~qf~~ 58 (259)
T TIGR03878 26 VRKPLGGIPAYSVINITGVSDTGKS-LMVEQFAV 58 (259)
T ss_pred ccccCCCeECCcEEEEEcCCCCCHH-HHHHHHHH
Confidence 4556666788999999999998875 34333333
No 345
>smart00763 AAA_PrkA PrkA AAA domain. This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.
Probab=21.49 E-value=2e+02 Score=32.50 Aligned_cols=42 Identities=17% Similarity=0.108 Sum_probs=29.9
Q ss_pred CCCCCEEEEEecCCCccChhhHHHHHHHhhccCCCCC-cceEEE
Q 004549 75 IASPPRVIVLFGLSASVNLNSVREDLLRQLSSEGTGA-LSSTVS 117 (745)
Q Consensus 75 ~~~pP~iV~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~-g~~tv~ 117 (745)
...+.++++++||++++.. +|+..|.+.+..+..+. |++-..
T Consensus 74 ~~~~r~il~L~GPPGsGKS-tla~~La~~l~~ys~t~eG~~Y~~ 116 (361)
T smart00763 74 LEERKQILYLLGPVGGGKS-SLVECLKRGLEEYSKTPEGRRYTF 116 (361)
T ss_pred CCCCCcEEEEECCCCCCHH-HHHHHHHHHHhhhcccccCceEEE
Confidence 3567799999999998875 56666677776655444 765544
No 346
>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional
Probab=21.13 E-value=1.2e+03 Score=27.16 Aligned_cols=67 Identities=16% Similarity=0.256 Sum_probs=41.2
Q ss_pred CCCCCCCceEEEEeeeeeeeeeccccccCCCCCcceeecccCCCceEEEEEEeecCC-CCccEEEEEecCCCCCCeEeEe
Q 004549 611 DAPIKAKEELIFHVGFRQFVARPIFSSDNMNSDKHKMERFLHAGCFSVASIYAPICF-PPLPLIVLKSADGGVAPAVAAV 689 (745)
Q Consensus 611 ~~~lKSkdpLif~~G~RRFq~~PifS~~~~~~~k~K~~ry~p~~~~~vAt~ygPi~~-p~~pvl~f~~~~~~~~~~l~at 689 (745)
+.||+....+.+++|-.+-.+.=..-. . .. .+--.+.-|++. ++..+++-+..+ +.++++|.
T Consensus 384 ~~~l~~g~~~~l~~gt~~~~~~i~~i~-~-~~-------------~~~l~l~~P~~~~~gdr~ilr~~~~--~~~~tig~ 446 (460)
T PTZ00327 384 VAKLKKGESLMINIGSTTTGGRVVGIK-D-DG-------------IAKLELTTPVCTSVGEKIALSRRVD--KHWRLIGW 446 (460)
T ss_pred CcccCCCCEEEEEecccEEEEEEEEeC-C-Ce-------------EEEEEECccEeccCCCEEEEEeccC--CCcEEEEE
Confidence 479999999999999877654433211 1 11 111224467654 445555544422 45899999
Q ss_pred eeeec
Q 004549 690 GSLRS 694 (745)
Q Consensus 690 G~vl~ 694 (745)
|+|..
T Consensus 447 G~i~~ 451 (460)
T PTZ00327 447 GTIRK 451 (460)
T ss_pred EEEcC
Confidence 99874
No 347
>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....
Probab=21.09 E-value=5.2e+02 Score=26.27 Aligned_cols=18 Identities=28% Similarity=0.529 Sum_probs=15.4
Q ss_pred CEEEEEecCCCccChhhH
Q 004549 79 PRVIVLFGLSASVNLNSV 96 (745)
Q Consensus 79 P~iV~Vv~l~~~~~~~sl 96 (745)
|++|++|||++.+....+
T Consensus 1 p~vi~lvGptGvGKTTt~ 18 (196)
T PF00448_consen 1 PKVIALVGPTGVGKTTTI 18 (196)
T ss_dssp SEEEEEEESTTSSHHHHH
T ss_pred CEEEEEECCCCCchHhHH
Confidence 899999999998776555
No 348
>cd04102 RabL3 RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.
Probab=20.94 E-value=5.5e+02 Score=26.16 Aligned_cols=101 Identities=8% Similarity=0.021 Sum_probs=54.4
Q ss_pred EEEecCCCccChhhHHHHHHHhhccCCCCC------cc-e---EEEec-----CceeeEEEEeCCC-CChHHHHh-HHhh
Q 004549 82 IVLFGLSASVNLNSVREDLLRQLSSEGTGA------LS-S---TVSSS-----KYRLRTSVLQAPH-GDLVGCME-MAKV 144 (745)
Q Consensus 82 V~Vv~l~~~~~~~sl~~~~vk~~~~~~~~~------g~-~---tv~~~-----r~k~R~tfie~~~-~dl~~mLD-~aKv 144 (745)
|+++|.++.+.. +| +..|....... |. + ++... ...-.+.+....- ....++.. ..+-
T Consensus 3 IvlvGd~gVGKT-SL----i~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ 77 (202)
T cd04102 3 VLVVGDSGVGKS-SL----VHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQ 77 (202)
T ss_pred EEEECCCCCCHH-HH----HHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCc
Confidence 788999887776 67 55554332211 21 0 11111 1223455665431 23444433 3567
Q ss_pred cceEEEEeeCCCcccccccccc---ChHHHHHHHHHH------------------hcCCCceEEEeccCCc
Q 004549 145 ADLVAFVASASSFSEESMSYYI---DSFGNQCLSVFR------------------SLGLPSTAVLIRDLPT 194 (745)
Q Consensus 145 ADlVlllidas~g~~~~~~~~f---d~eg~e~L~~l~------------------~qGlP~vigvl~~L~~ 194 (745)
||.+|||+|.+.. ..| ..|-.++++... ...+| +|.|-+++|.
T Consensus 78 ad~iIlVyDvtn~------~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~P-iilVGnK~Dl 141 (202)
T cd04102 78 VNGIILVHDLTNR------KSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIP-LLVIGTKLDQ 141 (202)
T ss_pred CCEEEEEEECcCh------HHHHHHHHHHHHHHHhhccccccccccccccccccCCCCce-EEEEEECccc
Confidence 9999999998853 234 345556655321 12333 5667888886
No 349
>PF14908 DUF4496: Domain of unknown function (DUF4496)
Probab=20.24 E-value=72 Score=30.50 Aligned_cols=24 Identities=29% Similarity=0.481 Sum_probs=20.3
Q ss_pred CCCCCeEEeCCCCceeeceeeccC
Q 004549 283 LSVNQLVHISGAGDFQLGKIEILK 306 (745)
Q Consensus 283 l~~n~lVHIpG~GDFqi~~I~~~~ 306 (745)
|..+.-|||||+|-|.+......-
T Consensus 16 L~~~kgV~Ip~fGtFtf~~~~~~~ 39 (140)
T PF14908_consen 16 LSLGKGVSIPGFGTFTFSRQKVDS 39 (140)
T ss_pred HhcCCCEEeCCCcEEEEEEEeecc
Confidence 677899999999999999876544
No 350
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=20.14 E-value=3.7e+02 Score=27.48 Aligned_cols=33 Identities=24% Similarity=0.260 Sum_probs=25.5
Q ss_pred eEEEEeCCCCChHHHHhHHhhcceEEEEeeCCC
Q 004549 124 RTSVLQAPHGDLVGCMEMAKVADLVAFVASASS 156 (745)
Q Consensus 124 R~tfie~~~~dl~~mLD~aKvADlVlllidas~ 156 (745)
.+.+|-||+..-....-+...||.||+++.++.
T Consensus 116 D~viiD~pp~~~~~~~~~l~~ad~vii~~~~~~ 148 (246)
T TIGR03371 116 DWVLIDVPRGPSPITRQALAAADLVLVVVNADA 148 (246)
T ss_pred CEEEEECCCCchHHHHHHHHhCCeEEEEeCCCH
Confidence 577888885444456677899999999998873
Done!